Mail Code: 94305-5020
Phone: (650) 723-2413
Web Site: http://biology.stanford.edu
Office: Student Services, Gilbert Building, Room 108
Mail Code: 94305-5020
Phone: (650) 723-1826 (graduate students); (650) 723-5060 (undergraduates)
Web Site: http://biology.stanford.edu
Courses offered by the Department of Biology are listed under the subject code BIO on the Stanford Bulletin's ExploreCourses web site.
The department provides:
- a major program leading to the B.S. degree
- a minor program
- a coterminal program leading to the M.S. degree
- a doctoral program leading to the Ph.D. degree, and
- courses designed for the non-major.
Mission of the Undergraduate Program in Biology
The mission of the undergraduate program in Biology is to provide students with in-depth knowledge in the discipline, from molecular biology to ecology. Students in the program learn to think and analyze information critically, to draw connections among the different areas of biology, and to communicate their ideas effectively to the scientific community. The major exposes students to the scientific process through a set of core courses and electives from a range of subdisciplines. The Biology major serves as preparation for professional careers, including medicine, dentistry, veterinary sciences, teaching, consulting, research, and field studies.
Learning Outcomes (Undergraduate)
The department expects undergraduate majors in the program to be able to demonstrate the following learning outcomes. These learning outcomes are used in evaluating students and the department's undergraduate program. Students are expected to demonstrate:
- the ability to use discipline-specific tools and content knowledge to analyze and interpret scientific data, to evaluate the significance of the data, and to articulate conclusions supportable by the data.
- the ability, independently and collaboratively, to formulate testable scientific hypotheses and to design approaches to obtain data to test the respective hypotheses.
- the ability to communicate content understanding and research outcomes effectively using various media.
Mission of the Graduate Program in Biology
For graduate-level students, the department offers resources and experience learning from and working with world-renowned faculty involved in research on ecology, neurobiology, population biology, plant and animal physiology, biochemistry, immunology, cell and developmental biology, genetics, and molecular biology.
The M.S. degree program offers general or specialized study to individuals seeking biologically oriented course work, and to undergraduate science majors wishing to increase or update their science background or obtain advanced research experience.
The training for a Ph.D. in Biology is focused on learning skills required to be a successful research scientist and teacher, including how to ask important questions and then devise and carry out experiments to answer these questions. Students work closely with an established adviser and meet regularly with a committee of faculty members to ensure that they understand the importance of diverse perspectives on experimental questions and approaches. Students learn how to evaluate critically pertinent original literature in order to stay abreast of scientific progress in their areas of interest. They also learn how to make professional presentations, write manuscripts for publication, and become effective teachers.
Learning Outcomes (Graduate)
The purpose of the master's program is to further develop knowledge and skills in Biology and to prepare students for a professional career or doctoral studies. This is achieved through completion of courses, in the primary field as well as related areas, and experience with independent work and specialization.
The Ph.D. is conferred upon candidates who have demonstrated substantial scholarship and the ability to conduct independent research and analysis in Biology. Through completion of advanced course work and rigorous skills training, the doctoral program prepares students to make original contributions to the knowledge of Biology and to interpret and present the results of such research.
Facilities
The offices, labs, and personnel of the Department of Biology are located in the Gilbert Biological Sciences, Herrin Laboratories, Herrin Hall, James H. Clark Center, Lorry I. Lokey Laboratory, and Jerry Yang and Akiko Yamazaki Environment and Energy (Y2E2) buildings. Along with the Carnegie Institution of Washington all are on the main campus. Jasper Ridge Biological Preserve (JRBP) is located near Stanford University's campus in the eastern foothills of the Santa Cruz Mountains. Hopkins Marine Station is on Monterey Bay in Pacific Grove.
Jasper Ridge Biological Preserve encompasses geologic, topographic, and biotic diversity within its 1,189 acres and provides a natural laboratory for researchers from around the world, educational experiences for students and docent-led visitors, and refuge for native plants and animals. See the JRBP web site.
Hopkins Marine Station, located 90 miles from the main University campus in Pacific Grove, was founded in 1892 as the first marine laboratory on the west coast of North America. For more information, including courses taught at Hopkins Marine Station with the subject code BIOHOPK, see the "Hopkins Marine Station" section of this bulletin.
The department's large collections of plants (Dudley Herbarium), fish, reptiles, and amphibians, as well as smaller collections of birds, mammals, and invertebrates, are housed at the California Academy of Sciences in San Francisco, where they, and extensive collections of the Academy, are available to those interested in the systematics of these groups. Entomological collections, restricted to those being used in particular research projects, are housed in the Herrin Laboratories. No general collections are maintained except for teaching purposes.
The Falconer Biology Library in Herrin Hall contains over 1,200 current subscriptions and an extensive collection of monographs and reference works. A specialized library is maintained at Hopkins Marine Station.
Biology Course Numbering System
The department uses the following course numbering system:
Number | Level |
---|---|
000-099 | Introductory and Core |
100-199 | Undergraduate |
200-299 | Advanced Undergraduate, Coterminal and PhD |
300+ | PhD |
Bachelor of Science in Biology
The undergraduate major in Biology can serve as a stepping-stone for a wide variety of career opportunities. For students planning to attend medical, dental, or veterinary school, or graduate school in biological and applied sciences, the biology major provides a strong foundation in the basic life sciences. This foundation of knowledge, plus laboratory experience, also prepares students well for research and technical positions in universities, government, and industry.
While a major in Biology provides an excellent background for these technical careers, it can also serve as a valuable and satisfying focus of a liberal arts education for those not planning careers in science-related fields. An understanding of basic biological principles is of increasing importance in today's world. A knowledgeable and concerned citizenry is the best guarantee that these issues will be resolved most effectively. Finally, an understanding of the processes of life can heighten our perception and appreciation of the world around us, in terms of its beauty, variety, and uniqueness.
Advising
Members of the Biology faculty are available for advising on such academic matters as choice of courses, research, suggested readings, and career plans. The student services office maintains a current list of faculty advisers, advising availability, and research interests.
The student services staff and BioBridge, the department's peer advising group, are prepared to answer questions on administrative matters, such as requirements for the major, approved out-of-department electives, transfer course evaluations, and petition procedures. This office also distributes the department's Bachelor of Science Handbook, which delineates policies and requirements, as well as other department forms and informational handouts.
Each undergraduate interested in the Biology major is required to select a department faculty adviser as part of the major declaration process.
Degree Requirements
Candidates for the general Biology B.S. degree must complete the following, which range from 86-119 total units. There is also an option to add honors to the general major. Honors requirements are explained in detail below.
Core Courses
(must be taken for a letter grade when available):
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
BIO 44X | Core Molecular Biology Laboratory | 5 |
BIO 44Y | Core Plant Biology & Eco Evo Laboratory 1 | 5 |
or BIOHOPK 44Y | Core Laboratory in Plant Biology, Ecology and Evolution |
1 | BIO 44Y Core Plant Biology & Eco Evo Laboratory not required if completing honors program. Failure to complete honors program results in student being required to complete BIO 44Y Core Plant Biology & Eco Evo Laboratory. |
Required Foundational Breadth Courses
(two courses may be taken credit/no credit):
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory 1 | 3-4 |
or CHEM 2L & CHEM 3L | Organic Chemistry Lab I and Organic Chemistry Lab II | |
CHEM 131 | Organic Polyfunctional Compounds | 3-4 |
or CHEM 3 | Organic Polyfunctional Compounds | |
CHEM 135 | Physical Biochemistry | 3 |
or CHEM 171 | Physical Chemistry I | |
Physics | ||
Select one of the following Series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Mathematics | ||
Select one of the following Series: | 5-10 | |
3-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Calculus | ||
2-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Advanced Calculus and Linear Algebra | ||
Linear Algebra and Differential Calculus of Several Variables (or beyond) 2 | ||
Additional Foundational Breadth Course | ||
Select one of the following: | 3-5 | |
Experimental Design and Probability 3 | ||
Biostatistics 3 | ||
Programming Methodology | ||
or CS 106X | Programming Abstractions (Accelerated) | |
Linear Algebra and Differential Calculus of Several Variables 2 | ||
Introduction to Statistical Methods: Precalculus | ||
Total Units | 40-58 |
1 | May be substituted with upper-division, above 100-level quantitative or computational course from this list: BIO 182, 183, 220; BIOC 218; BIOMEDIN 212, 214, 217, 231, 262, 374; CS courses above 106A (may not fulfill both the CHEM 130 and additional foundational breadth requirement); GENE 212, 214, 244; MATH courses above 102; STATS 116. |
2 | May be counted either toward the math requirement or foundational breadth, but not both. |
3 | If taken to fulfill the foundational breadth requirement, these courses do not count toward the 24 elective unit requirement. |
Electives
24 units required, distributed as follows:
- Biology (BIO) or Hopkins Marine Station (BIOHOPK) courses numbered 100 or above.
- Approved out-of-department electives (list also available in the student services office).
- No more than 6 units from any combination of these courses may be applied toward the total number of elective units:
Units BIO 196A Biology Senior Reflection 3 BIO 196B Biology Senior Reflection 3 BIO 196C Biology Senior Reflection 3 BIO 197WA Senior Writing Project: The Personal Essay in Biology 3 BIO 198 Directed Reading in Biology 1-15 BIO 198X Out-of-Department Directed Reading 1-15 BIO 199 Advanced Research Laboratory in Experimental Biology 1-15 BIO 199W Senior Honors Thesis: How to Effectively Write About Scientific Research 3 BIO 199X Out-of-Department Advanced Research Laboratory in Experimental Biology 1-15 BIO 290 Teaching of Biology 1-5 BIO 291 Development and Teaching of Core Experimental Laboratories 1-2 BIOHOPK 198H Directed Instruction or Reading 1-15 BIOHOPK 199H Undergraduate Research 1-15 BIOHOPK 290H Teaching of Biological Science 1-15
- One course from at least three of the four central menu areas listed below. The purpose of the central menu is to expose students to a wide range of topics studied within the field of biology and is intended to give students a breadth of knowledge. Please note—this requirement is only for the general major. Students pursuing a specialized field of study should consult the specific degree requirements listed in the "Fields of Study" section below.
- No more than 6 units applied toward the elective unit requirement may be taken CR/NC.
Central Menu Areas
The four Central Menu Areas are:
- Area 1 (Molecular)
- Area 2 (Cell/Developmental)
- Area 3 (Organismal)
- Area 4 (Ecology and Evolution)
Units | ||
---|---|---|
1. Molecular (Area 1) | ||
Advanced Molecular Biology | ||
Chromatin Regulation of the Genome | ||
Fundamentals of Molecular Evolution 3 | ||
Genetic Analysis of Biological Processes 1 | ||
Cell and Developmental Biology I | ||
Cell and Developmental Biology II | ||
Chemical Biology | ||
Biochemistry I | ||
Biochemistry II | ||
Molecular and Cellular Immunology 1 | ||
Developmental Biology and Evolution | ||
Developmental Biology in the Ocean: Diverse Embryonic & Larval Strategies of marine invertebrates | ||
Cancer Biology 1 | ||
Environmental Microbiology I 5 | ||
2. Cell/Developmental (Area 2) | ||
Genetic Analysis of Biological Processes 1 | ||
Cell and Developmental Biology I | ||
Cell and Developmental Biology II | ||
Cellular Dynamics II: Building a Cell | ||
Plant Genetics | ||
Molecular and Cellular Neurobiology 2 | ||
Developmental Neurobiology 2 | ||
Chemical Biology | ||
Molecular and Cellular Immunology 1 | ||
Developmental Biology and Evolution | ||
Developmental Biology in the Ocean: Diverse Embryonic & Larval Strategies of marine invertebrates | ||
Nerve, Muscle, and Synapse | ||
Sensory Ecology | ||
Cancer Biology 1 | ||
Environmental Microbiology I 5 | ||
3. Organismal (Area 3) | ||
Human Physiology | ||
Cellular Neuroscience: Cell Signaling and Behavior | ||
Molecular and Cellular Neurobiology 2 | ||
Developmental Neurobiology 2 | ||
Neural Systems and Behavior | ||
Ecological Mechanics | ||
Animal Diversity: An Introduction to Evolution of Animal Form and Function from Larvae to Adults | ||
Invertebrate Zoology | ||
Comparative Animal Physiology | ||
Nerve, Muscle, and Synapse | ||
Disease Ecology: from parasites evolution to the socio-economic impacts of pathogens on nations | ||
Physiological Ecology of Marine Megafauna | ||
Sensory Ecology | ||
Topics in Microbiology | ||
4. Ecology and Evolution (Area 4) | ||
Ecology | ||
Fundamentals of Molecular Evolution 3 | ||
Biogeography | ||
Evolutionary Paleobiology | ||
Evolution | ||
Conservation Biology: A Latin American Perspective | ||
Ecology and evolution of animal behavior | ||
Modeling Cultural Evolution | ||
Ecological Mechanics | ||
Oceanic Biology | ||
Disease Ecology: from parasites evolution to the socio-economic impacts of pathogens on nations | ||
Marine Ecology: From Organisms to Ecosystems | ||
Marine Conservation Biology | ||
Dynamics and Management of Marine Populations | ||
Physiological Ecology of Marine Megafauna | ||
Ecology and Conservation of Kelp Forest Communities | ||
Environmental Microbiology I 5 |
- May be used to satisfy either area I or area II requirement.
- May be used to satisfy either area II or area III requirement.
- May be used to satisfy either area I or area IV requirement.
- May be used to satisfy either area III or area IV requirement.
- May be used to satisfy area I, area II, or area IV requirement.
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Typical Schedule for a Four-Year Program
First Year | Units | ||
---|---|---|---|
Autumn | Winter | Spring | |
Chemical Principles Accelerated (CHEM 31X)1 | 5 | ||
Calculus (MATH 19) | 3 | ||
Freshman requirements, seminars, or GERs/WAYS | 8 | ||
Structure and Reactivity (CHEM 33) | 5 | ||
Calculus (MATH 20) | 3 | ||
Freshman requirements, seminars, or GERs/WAYS | 8 | ||
Synthetic and Physical Organic Chemistry (CHEM 35) | 5 | ||
Calculus (MATH 21) | 4 | ||
Freshman requirements, seminars, or GERs/WAYS | 6 | ||
Year Total: | 16 | 16 | 15 |
Second Year | Units | ||
Autumn | Winter | Spring | |
Genetics, Biochemistry, and Molecular Biology (BIO 41) | 5 | ||
Organic and Bio-organic Chemistry Laboratory (CHEM 130) | 3 | ||
GERs/WAYS | 6 | ||
Cell Biology and Animal Physiology (BIO 42) | 5 | ||
Core Molecular Biology Laboratory (BIO 44X) | 5 | ||
Organic Polyfunctional Compounds (CHEM 131) | 3 | ||
GERs/WAYS | 5 | ||
Plant Biology, Evolution, and Ecology (BIO 43) or Plant Biology, Evolution, and Ecology (BIOHOPK 43) | 5 | ||
Core Plant Biology & Eco Evo Laboratory (BIO 44Y) or Core Laboratory in Plant Biology, Ecology and Evolution (BIOHOPK 44Y) | 5 | ||
GERs/WAYS | 8 | ||
Year Total: | 14 | 18 | 18 |
Third Year | Units | ||
Autumn | Winter | Spring | |
Mechanics, Fluids, and Heat (PHYSICS 21) | 4 | ||
Mechanics, Fluids, and Heat Laboratory (PHYSICS 22) | 1 | ||
GERs/WAYS or Electives | 10 | ||
Electricity, Magnetism, and Optics (PHYSICS 23) | 4 | ||
Electricity, Magnetism, and Optics Laboratory (PHYSICS 24) | 1 | ||
GERs/WAYS or Electives | 10 | ||
Physical Biochemistry (CHEM 135)2 | 3 | ||
GERs/WAYS or Electives | 12 | ||
Year Total: | 15 | 15 | 15 |
Fourth Year | Units | ||
Autumn | Winter | Spring | |
General Education/WAYS requirements and/or electives | 13 | ||
General Education/WAYS requirements and/or electives | 13 | ||
General Education/WAYS requirements and/or electives | 13 | ||
Year Total: | 13 | 13 | 13 |
Total Units in Sequence: | 181 |
1 | This schedule varies slightly if the student takes CHEM 31A Chemical Principles I, CHEM 31B Chemical Principles II |
2 | Or take CHEM 171 Physical Chemistry in autumn |
Fields of Study (Subplans)
In addition to the undergraduate major program described above, the department offers the following six fields of study (also known as subplans) for students wishing to concentrate their studies in particular areas of biology:
- Biochemistry and Biophysics
- Ecology and Evolution
- Marine Biology
- Microbes and Immunity
- Molecular, Cellular, and Developmental Biology
- Neurobiology
These fields of study are declared on Axess at the time of the major declaration; they appear on both the transcript and on the diploma. Candidates for the B.S. degree in Biology with a field of study are required to complete the departmental honors program as well as the set of requirements outlined below.
Biochemistry and Biophysics
Candidates for the Biochemistry and Biophysics field of study must complete the following, which range from 98-119 total units:
Core Courses (must be taken for a letter grade when available):
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
BIO 44X | Core Molecular Biology Laboratory | 5 |
Required Foundational Breadth Courses
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory | 3-4 |
or CHEM 2L & CHEM 3L | Organic Chemistry Lab I and Organic Chemistry Lab II | |
CHEM 135 | Physical Biochemistry | 3 |
or CHEM 171 | Physical Chemistry I | |
Physics | ||
PHYSICS 41 | Mechanics | 4 |
PHYSICS 43 | Electricity and Magnetism | 4 |
PHYSICS 45 | Light and Heat | 4 |
Mathematics | ||
MATH 51 | Linear Algebra and Differential Calculus of Several Variables | 5 |
MATH 52 | Integral Calculus of Several Variables | 5 |
Additional Foundational Breadth Course | ||
STATS 60 | Introduction to Statistical Methods: Precalculus | 5 |
or BIO 141 | Biostatistics | |
Total Units | 46-54 |
Required Biology Courses
Must be taken for a letter grade.
Units | ||
---|---|---|
BIO 104 | Advanced Molecular Biology | 5 |
BIO 118 | Genetic Analysis of Biological Processes | 4 |
BIO 188 | Biochemistry I | 3 |
Select one of the following: | 4 | |
Cell and Developmental Biology I | ||
Cell and Developmental Biology II | ||
Cellular Dynamics I: Cell Motility and Adhesion | ||
Cellular Dynamics II: Building a Cell |
Approved Biochemistry and Biophysics Courses
Must be taken for a letter grade.
Units | ||
---|---|---|
Select three of the following: | 9-13 | |
Biology by the Numbers | ||
Theoretical Neuroscience | ||
Cellular Biophysics | ||
Advanced Imaging Lab in Biophysics | ||
Imaging: Biological Light Microscopy | ||
Molecular and Cellular Neurobiology | ||
Biochemistry II | ||
Advanced Cell Biology | ||
Neuronal Biophysics | ||
Systems Biology | ||
Systems Physiology and Design | ||
Introduction to Imaging and Image-based Human Anatomy | ||
Modeling Biomedical Systems: Ontology, Terminology, Problem Solving | ||
Representations and Algorithms for Computational Molecular Biology | ||
Computational Structural Biology | ||
Biological Macromolecules | ||
Biological Chemistry Laboratory | ||
Biophysical Chemistry | ||
Modern Optics | ||
How Cells Work: Energetics, Compartments, and Coupling in Cell Biology | ||
Intermediate Physics Laboratory I: Analog Electronics |
Electives
7 units required. Electives must be 100-level or above and chosen from the offerings in the Department of Biology, Hopkins Marine Station, or from the list of approved out-of-department electives. Up to 6 units of teaching and research are allowed. Only one course can be taken credit/no credit.
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Computational Biology
Candidates for the Computational Biology field of study must complete the following, which range from 87-111 total units:
Core Courses (must be taken for a letter grade when available):
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
Select one of the following: | 5 | |
Core Molecular Biology Laboratory | ||
Core Plant Biology & Eco Evo Laboratory | ||
Core Laboratory in Plant Biology, Ecology and Evolution |
Required Foundational Breadth Courses, Group 1
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
Physics | ||
Select one of the following series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Total Units | 23-32 |
Required Foundational Breadth Courses, Group 2
All courses must be taken for a letter-grade only.
Units | ||
---|---|---|
MATH 51 | Linear Algebra and Differential Calculus of Several Variables | 5 |
CS 106A | Programming Methodology | 3-5 |
BIO 141 | Biostatistics | 3-5 |
Total Units | 11-15 |
Required Computational Biology Courses
Must be taken for a letter grade.
Units | ||
---|---|---|
Select four of the following: | 12-14 | |
Introduction to Biophysics | ||
Modeling Cultural Evolution | ||
Theoretical Population Genetics | ||
Ecological Statistics | ||
Statistical and Machine Learning Methods for Genomics | ||
Systems Biology | ||
Computational Modeling of Microbial Communities | ||
Computational Structural Biology | ||
Statistical Methods in Computational Genetics |
Electives
3 courses of 3 or more units each. Electives must be 100-level or above and chosen from the offerings in the Department of Biology, Hopkins Marine Station, Department of Computer Sciences, or from the list of approved out-of-department electives. Only one course can be taken credit/no credit. Research and teaching units may not count towards this requirement.
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Ecology and Evolution
Candidates for the Ecology and Evolution field of study must complete the following, which range from 103-122 total units:
Core Courses
Must be taken for a letter grade when available.
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
BIO 101 | Ecology 1 | 4 |
or BIOHOPK 172H | Marine Ecology: From Organisms to Ecosystems | |
Select one of the following: | 5 | |
Core Molecular Biology Laboratory | ||
Core Plant Biology & Eco Evo Laboratory | ||
Core Laboratory in Plant Biology, Ecology and Evolution |
1 | This course cannot also be used to count toward the elective requirement. |
Required Foundational Breadth Courses
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
Physics | ||
Select one of the following Series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Mathematics | ||
Select one of the following Series: | 5-10 | |
3-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Calculus | ||
2-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Advanced Calculus and Linear Algebra | ||
Linear Algebra and Differential Calculus of Several Variables | ||
Total Units | 28-42 |
Required Evolutionary Biology Course
Must be taken for a letter grade.
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Fundamentals of Molecular Evolution | ||
Evolutionary Paleobiology | ||
Evolution | ||
Molecular Ecology |
Required Quantitative Methods Course
Must be taken for a letter grade.
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Biostatistics | ||
Experimental Design and Probability | ||
Programming Methodology | ||
or CS 106X | Programming Abstractions (Accelerated) | |
Introduction to Statistical Methods: Precalculus (or beyond) |
Electives (30 units required)
Only one course can be taken credit/no credit. Electives must be from this approved list:
Units | ||
---|---|---|
BIO 101 | Ecology 4 | 4 |
BIO 105A | Ecology and Natural History of Jasper Ridge Biological Preserve | 4 |
BIO 105B | Ecology and Natural History of Jasper Ridge Biological Preserve | 4 |
BIO 116 | Ecology of the Hawaiian Islands | 4 |
BIO 117 | Biology and Global Change | 4 |
BIO 118 | Genetic Analysis of Biological Processes | 4 |
BIO 121 | Biogeography | 3 |
BIO 131 | Complex Systems Lab | 1 |
BIO 144 | Conservation Biology: A Latin American Perspective | 3 |
BIO 145 | Ecology and evolution of animal behavior | 3 |
BIO 146 | Population Studies | 1 |
BIO 182 | Modeling Cultural Evolution | 3 |
BIO 183 | Theoretical Population Genetics | 3 |
BIO 227 | Foundations of Community Ecology | 2 |
BIO 234 | Conservation Biology: A Latin American Perspective | 3 |
BIO 274S | Hopkins Microbiology Course | 3-12 |
BIOHOPK 161H | Invertebrate Zoology | 5 |
BIOHOPK 162H | Comparative Animal Physiology | 5 |
BIOHOPK 163H | Oceanic Biology | 4 |
BIOHOPK 166H | Molecular Ecology | 5 |
BIOHOPK 172H | Marine Ecology: From Organisms to Ecosystems 4 | 5 |
BIOHOPK 173H | Marine Conservation Biology 1 | 4 |
BIOHOPK 174H | Experimental Design and Probability 5 | 3 |
BIOHOPK 182H | Stanford at Sea 3 | 16 |
BIOHOPK 184H | Holistic Biology 3 | 16 |
BIOHOPK 185H | Ecology and Conservation of Kelp Forest Communities 3 | 5 |
BIOHOPK 187H | Sensory Ecology | 4 |
BIOHOPK 264H | POPULATION GENOMICS | 1-2 |
BIOHOPK 268H | Disease Ecology: from parasites evolution to the socio-economic impacts of pathogens on nations | 3 |
BIOHOPK 275H | Synthesis in Ecology | 2 |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory | 3 |
CHEM 131 | Organic Polyfunctional Compounds | 3 |
EARTHSYS 128 | Evolutionary History of Terrestrial Ecosystems | 4 |
EARTHSYS 144/ESS 164 | Fundamentals of Geographic Information Science (GIS) | 4 |
EARTHSYS 158 | Geomicrobiology | 3 |
OSPAUSTL 10 | Coral Reef Ecosystems 2 | 3 |
OSPAUSTL 25 | Freshwater Systems 2 | 3 |
OSPAUSTL 30 | Coastal Forest Ecosystems 2 | 3 |
1 | Only 1 unit can count. |
2 | Only 2 units can count. |
3 | Only 6 units can count. |
4 | Cannot also count toward core course requirement. |
5 | Cannot also count toward quantitative methods requirement. |
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Marine Biology
Candidates for the Marine Biology field of study must complete the following, which range from 94-125 total units:
Core Courses
Must be taken for a letter grade when available.
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
Select one of the following: | 5 | |
Core Molecular Biology Laboratory | ||
Core Plant Biology & Eco Evo Laboratory | ||
Core Laboratory in Plant Biology, Ecology and Evolution |
Required Foundational Breadth Courses
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory 1 | 3-4 |
or CHEM 2L & CHEM 3L | Organic Chemistry Lab I and Organic Chemistry Lab II | |
CHEM 131 | Organic Polyfunctional Compounds | 3-4 |
or CHEM 3 | Organic Polyfunctional Compounds | |
Physics | ||
Select one of the following Series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Mathematics | ||
Select one of the following Series: | 5-10 | |
3-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Calculus | ||
2-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Advanced Calculus and Linear Algebra | ||
Linear Algebra and Differential Calculus of Several Variables | ||
Additional Foundational Breadth Course | 3-5 | |
Select one of the following: | ||
Introduction to Statistical Methods: Precalculus | ||
Biostatistics | ||
Experimental Design and Probability | ||
Total Units | 37-55 |
1 | May be substituted with upper-division, above 100-level quantitative or computational course from this list: BIO 182, 183, 220; BIOC 218; BIOMEDIN 212, 214, 217, 231, 262, 374; CS courses above 106A (may not fulfill both the CHEM 130 and additional foundational breadth requirement); GENE 212, 214, 244; MATH courses above 102; STATS 116. |
Required Biology Courses
Must be taken for a letter grade.
Units | ||
---|---|---|
BIO 101 | Ecology 1 | 4 |
or BIOHOPK 172H | Marine Ecology: From Organisms to Ecosystems | |
BIO 118 | Genetic Analysis of Biological Processes | 4 |
BIO 143 | Evolution | 3 |
1 | If BIOHOPK 172H is taken to fulfill this requirement, it cannot also count below. |
Approved courses
Must be taken for a letter grade.
Units | ||
---|---|---|
Select four of the following: | 15-52 | |
Ecology of the Hawaiian Islands | ||
Ecological Mechanics | ||
Developmental Biology and Evolution | ||
Developmental Biology in the Ocean: Diverse Embryonic & Larval Strategies of marine invertebrates | ||
Invertebrate Zoology | ||
Comparative Animal Physiology | ||
Oceanic Biology | ||
Nerve, Muscle, and Synapse | ||
Marine Ecology: From Organisms to Ecosystems 1 | ||
Marine Conservation Biology ((must be take for 3 units)) | ||
Dynamics and Management of Marine Populations | ||
Physiological Ecology of Marine Megafauna | ||
Stanford at Sea | ||
Ecology and Conservation of Kelp Forest Communities | ||
Sensory Ecology | ||
Coral Reef Ecosystems 2 | ||
Freshwater Systems 2 | ||
Coastal Forest Ecosystems 2 |
1 | May not also fulfill the required Biology course above. |
2 | These three courses as a whole count as one of the four required courses in this section. |
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal - one Hopkins Marine Station faculty member must be a reader on the thesis
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis; one Hopkins Marine Station faculty member must be a reader on the thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Microbes and Immunity
Candidates for the Microbes and Immunity field of study must complete the following, which range from 90-122 total units:
Core Courses
Must be taken for a letter grade when available.
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
Select one of the following: | 5 | |
Core Molecular Biology Laboratory | ||
Core Plant Biology & Eco Evo Laboratory | ||
Core Laboratory in Plant Biology, Ecology and Evolution |
Required Foundational Breadth Courses
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory 1 | 3-4 |
or CHEM 2L & CHEM 3L | Organic Chemistry Lab I and Organic Chemistry Lab II | |
CHEM 131 | Organic Polyfunctional Compounds | 3-4 |
or CHEM 3 | Organic Polyfunctional Compounds | |
Physics | ||
Select one of the following Series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Mathematics | ||
Select one of the following Series: | 5-10 | |
3-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Calculus | ||
2-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Advanced Calculus and Linear Algebra | ||
Linear Algebra and Differential Calculus of Several Variables | ||
Additional Foundational Breadth Course | ||
BIO 141 | Biostatistics 2 | 4-5 |
or BIOHOPK 174H | Experimental Design and Probability | |
Total Units | 38-55 |
1 | May be substituted with upper-division, above 100-level quantitative or computational course from this list: BIO 182, 183, 220; BIOC 218; BIOMEDIN 212, 214, 217, 231, 262, 374; CS courses above 106A (may not fulfill both the CHEM 130 and additional foundational breadth requirement); GENE 212, 214, 244; MATH courses above 102; STATS 116. |
2 | This course cannot also be used to count toward the elective requirement. |
Required Courses in Microbiology, Immunology, Molecular Evolution
Must be taken for a letter grade.
Units | ||
---|---|---|
Select four of the following: | 12-24 | |
Plant Microbe Interaction | ||
Molecular and Cellular Immunology | ||
Advanced Imaging Lab in Biophysics | ||
Hopkins Microbiology Course | ||
Aquatic Chemistry and Biology | ||
Environmental Microbiology I | ||
Microbial Bioenergy Systems | ||
Pathogens and Disinfection | ||
Geomicrobiology | ||
Viral Lifestyles | ||
Humans and Viruses I | ||
Advanced Immunology I | ||
Advanced Immunology II | ||
Translational Immunology | ||
HIV: The Virus, the Disease, the Research | ||
Tumor Immunology | ||
Innate Immunology | ||
Bacteria in Health and Disease | ||
Advanced Pathogenesis of Bacteria, Viruses, and Eukaryotic Parasites: Part I | ||
Advanced Pathogenesis of Bacteria, Viruses, and Eukaryotic Parasites | ||
Advanced Immunology I |
Required Course in Reading Scientific Literature
Must be taken for a letter grade.
Units | ||
---|---|---|
Select one of the following or students may petition for other courses in reading scientific literature: | 3 | |
Microbiology Literature | ||
Topics in Microbiology |
Electives
12 units required. Electives must be 100-level or above and selected from the offerings in the Department of Biology, Hopkins Marine Station, or from the list of approved out-of-department electives. Up to 6 units of teaching and research are allowed. Only one course can be taken credit/no credit.
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Molecular, Cellular, and Developmental Biology
Candidates for the Molecular and Cell Biology field of study must complete the following, which range from 98-123 total units:
Core Courses
Must be taken for a letter grade when available.
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
Select one of the following: | 5 | |
Core Molecular Biology Laboratory | ||
Core Plant Biology & Eco Evo Laboratory | ||
Core Laboratory in Plant Biology, Ecology and Evolution |
Required Foundational Breadth Courses
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory 1 | 3-4 |
or CHEM 2L & CHEM 3L | Organic Chemistry Lab I and Organic Chemistry Lab II | |
CHEM 131 | Organic Polyfunctional Compounds | 3-4 |
or CHEM 3 | Organic Polyfunctional Compounds | |
CHEM 135 | Physical Biochemistry | 3 |
or CHEM 171 | Physical Chemistry I | |
Physics | ||
Select one of the following Series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Mathematics | ||
Select one of the following Series: | 5-10 | |
3-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Calculus | ||
2-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Advanced Calculus and Linear Algebra | ||
Linear Algebra and Differential Calculus of Several Variables | ||
Additional Foundational Breadth Course | ||
BIO 141 | Biostatistics 2 | 4-5 |
or STATS 60 | Introduction to Statistical Methods: Precalculus | |
Total Units | 41-58 |
1 | May be substituted with upper-division, above 100-level quantitative or computational course from this list: BIO 182, 183, 220; BIOC 218; BIOMEDIN 212, 214, 217, 231, 262, 374; CS courses above 106A (may not fulfill both the CHEM 130 and additional foundational breadth requirement); GENE 212, 214, 244; MATH courses above 102; STATS 116. |
2 | This course cannot also be used to count toward the elective requirement. |
Required Biology Courses
Must be taken for a letter grade.
Units | ||
---|---|---|
BIO 104 | Advanced Molecular Biology | 5 |
BIO 118 | Genetic Analysis of Biological Processes | 4 |
Choose two of the following courses: 1 | ||
Cell and Developmental Biology I | ||
Cell and Developmental Biology II | ||
Cellular Dynamics II: Building a Cell |
1 | Prior to academic year 2015-16, students can also choose from BIO 129A, 160A, or 160B to fulfill this requirement. |
Electives
15 units required. Electives must be 100-level or above and selected from the offerings in the Department of Biology, Hopkins Marine Station, or from the list of approved out-of-department electives. Up to 6 units of teaching and research are allowed. Only one course can be taken credit/no credit.
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Neurobiology
Candidates for the Neurobiology field of study must complete the following, which range from 94-122 total units:
Core Courses
Must be taken for a letter grade when available.
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology | |
Select one of the following: | 5 | |
Core Molecular Biology Laboratory | ||
Core Plant Biology & Eco Evo Laboratory | ||
Core Laboratory in Plant Biology, Ecology and Evolution |
Required Foundational Breadth Courses
Two courses may be taken credit/no credit.
Units | ||
---|---|---|
Chemistry | ||
The following CHEM courses are required: | ||
CHEM 31A & CHEM 31B | Chemical Principles I and Chemical Principles II | 5-10 |
or CHEM 31X | Chemical Principles Accelerated | |
CHEM 33 | Structure and Reactivity | 4-5 |
or CHEM 1 | Structure and Reactivity | |
CHEM 35 | Synthetic and Physical Organic Chemistry | 4-5 |
or CHEM 2 | Organic Monofunctional Compounds | |
CHEM 130 | Organic and Bio-organic Chemistry Laboratory 1 | 3-4 |
or CHEM 2L & CHEM 3L | Organic Chemistry Lab I and Organic Chemistry Lab II | |
CHEM 131 | Organic Polyfunctional Compounds | 3-4 |
or CHEM 3 | Organic Polyfunctional Compounds | |
Physics | ||
Select one of the following Series: | 10-12 | |
PHYSICS 20 Series | ||
Mechanics, Fluids, and Heat | ||
Mechanics, Fluids, and Heat Laboratory | ||
Electricity, Magnetism, and Optics | ||
Electricity, Magnetism, and Optics Laboratory | ||
PHYSICS 40 Series | ||
Mechanics | ||
Electricity and Magnetism | ||
Light and Heat | ||
Mathematics | ||
Select one of the following Series: | 5-10 | |
3-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Calculus | ||
2-Quarter Calculus Series | ||
Calculus | ||
Calculus | ||
Advanced Calculus and Linear Algebra | ||
Linear Algebra and Differential Calculus of Several Variables | ||
Additional Foundational Breadth Course | ||
BIO 141 | Biostatistics 2 | 4-5 |
or STATS 60 | Introduction to Statistical Methods: Precalculus | |
Total Units | 38-55 |
1 | May be substituted with upper-division, above 100-level quantitative or computational course from this list: BIO 182, 183, 220; BIOC 218; BIOMEDIN 212, 214, 217, 231, 262, 374; CS courses above 106A (may not fulfill both the CHEM 130 and additional foundational breadth requirement); GENE 212, 214, 244; MATH courses above 102; STATS 116. |
2 | This course cannot also be used to count toward the elective requirement. |
Required Biology Courses
Must be taken for a letter grade.
Units | ||
---|---|---|
BIO 118 | Genetic Analysis of Biological Processes | 4 |
or BIO 104 | Advanced Molecular Biology | |
BIO 158 | Developmental Neurobiology | 4 |
Select one of the following: 1 | 4 | |
Cell and Developmental Biology I | ||
Cell and Developmental Biology II | ||
Cellular Dynamics II: Building a Cell | ||
Select one from the following list of neural systems courses: | 4-8 | |
The Neurobiology of Sleep | ||
Human Behavioral Biology | ||
Neural Systems and Behavior | ||
The Nervous System 2 | ||
Select one of the following cell biology courses: | 4-8 | |
Molecular and Cellular Neurobiology | ||
The Nervous System 2 |
1 | Prior to academic year 2015-16, students can also choose from BIO 129A, 160A, or 160B to fulfill this requirement. |
2 | If taken for 8 units, can be used to fulfill the cell biology and neural systems course requirements. |
Electives
12 units required. Electives must be at the 100-level or above and selected from the offerings in the Department of Biology, Hopkins Marine Station, or from the list of approved out-of-department electives. Up to 6 units of teaching and/or research are allowed. Only one course can be taken credit/no credit.
Writing in the Major
Units | ||
---|---|---|
Select one of the following: | 3-5 | |
Core Plant Biology & Eco Evo Laboratory 1 | ||
Human Physiology Laboratory 2 | ||
Plant Genetics 2 | ||
Explorations in Stem Cell Biology 1, 2 | ||
Biology Senior Reflection 2 | ||
Senior Writing Project: The Personal Essay in Biology 2 | ||
Senior Honors Thesis: How to Effectively Write About Scientific Research 2 | ||
Core Laboratory in Plant Biology, Ecology and Evolution | ||
Marine Ecology: From Organisms to Ecosystems 2, 3 |
1 | If taken academic year 2014-15 or later. |
2 | This course can also be used to count toward the elective requirement. |
3 | If taken academic year 2015-16 or later. |
Honors Requirements
- Approved Honors Proposal
- 10 units of research from the same lab; only research units from BIO or BIOHOPK are permitted as follows:
Units Advanced Research Laboratory in Experimental Biology Out-of-Department Advanced Research Laboratory in Experimental Biology Undergraduate Research - Poster/oral presentation at annual honors symposium
- Approved Honors Thesis
- 3.0 GPA in all courses taken for the major with the exception of research and/or teaching units
Honors
To graduate with departmental honors, a student must conduct an independent research project typically over the course of at least one year; projects are started no later than Autumn or Winter quarter of the junior year. Research must be done in a Biology Department lab or a lab in another department for which the student has obtained prior approval. Administrative steps include:
- Submit an approved honors proposal to the department's student services office two quarters prior to graduation. For instance, students graduating Spring Quarter must submit petitions no later than mid-Autumn Quarter.
- Complete at least 10 units of an approved research project in from the same lab. Only research units from BIO or BIOHOPK are permitted:
Units BIO 199 Advanced Research Laboratory in Experimental Biology 1-15 BIO 199X Out-of-Department Advanced Research Laboratory in Experimental Biology 1-15 BIOHOPK 199H Undergraduate Research 1-15 - Obtain at least a 3.0 (B) grade point average (GPA) in all Biology major requirements taken at Stanford (foundational breadth, core, and elective courses). Grades earned from teaching and research are not computed into this GPA:
Units BIO 199 Advanced Research Laboratory in Experimental Biology 1-15 BIO 199X Out-of-Department Advanced Research Laboratory in Experimental Biology 1-15 BIO 290 Teaching of Biology 1-5 or BIOHOPK 290H Teaching of Biological Science BIO 291 Development and Teaching of Core Experimental Laboratories 1-2 BIOHOPK 199H Undergraduate Research 1-15 - If graduating in June, participate in the annual Achauer Undergraduate Biology Honors Symposium by presenting a poster or giving an oral presentation. The symposium is typically at the end of May. If graduating Autumn, Winter, or Summer Quarter, produce a poster to be displayed at the symposium. Students graduating in quarters other than spring, are required to submit a poster in the quarter in which they graduate.
- Complete and, by the published deadline within the quarter graduation is expected, submit online an honors thesis approved by at least two readers (one of whom must be from the faculty of the Department of Biology and both must be Academic Council members). The title page of the honors thesis will include student name, thesis title, name and department of research sponsor, and name and department of second reader. Students must submit this page with original ink signatures to the student services office by the published deadline for the quarter in which graduation is expected.
Further information on the honors program is available in the student services office in Gilbert 108, as well as on the Honors Program and Undergraduate Research in Biology website.
Hopkins Marine Station
For additional information, see the "Biology, Hopkins Marine Station" section of this bulletin or the Hopkins Marine Station web site.
Courses offered by the Department of Biology are listed under the subject code BIOHOPK on the Stanford Bulletin's ExploreCourses web site.
Summer Program at Hopkins Marine Station
The summer program is open to advanced undergraduate, graduate students, and postdoctoral students, and to teachers whose biological backgrounds, teaching, or research activities can benefit from a summer's study of marine life. Applications, deadlines, and further information are available at http://hopkins.stanford.edu.
Courses
Courses at Hopkins Marine Station can satisfy many requirements, from the Natural Sciences GER to major and minor requirements in departments housed in the Schools of Engineering, Humanities and Sciences, and Earth Sciences. Students are encouraged to check with their department's student services office to see which courses at Hopkins may be used to fulfill major or minor requirements.
Students may go to Hopkins as early as Spring Quarter in the sophomore year, and can also go in the junior and/or senior year to take elective courses. The following Hopkins Marine Station courses may be used toward the Biology degree requirements:
Core
Units | ||
---|---|---|
BIOHOPK 43 | Plant Biology, Evolution, and Ecology | 5 |
BIOHOPK 44Y | Core Laboratory in Plant Biology, Ecology and Evolution | 5 |
Electives
Units | ||
---|---|---|
BIOHOPK 150H | Ecological Mechanics | 3 |
BIOHOPK 154H | Animal Diversity: An Introduction to Evolution of Animal Form and Function from Larvae to Adults | 7 |
BIOHOPK 155H | Developmental Biology and Evolution | 4 |
BIOHOPK 160H | Developmental Biology in the Ocean: Diverse Embryonic & Larval Strategies of marine invertebrates | 5-8 |
BIOHOPK 161H | Invertebrate Zoology | 5 |
BIOHOPK 162H | Comparative Animal Physiology | 5 |
BIOHOPK 163H | Oceanic Biology | 4 |
BIOHOPK 165H | The Extreme Life of the Sea | 3 |
BIOHOPK 166H | Molecular Ecology | 5 |
BIOHOPK 167H | Nerve, Muscle, and Synapse | 5 |
BIOHOPK 168H | Disease Ecology: from parasites evolution to the socio-economic impacts of pathogens on nations | 3 |
BIOHOPK 172H | Marine Ecology: From Organisms to Ecosystems | 5 |
BIOHOPK 173H | Marine Conservation Biology | 4 |
BIOHOPK 174H | Experimental Design and Probability | 3 |
BIOHOPK 177H | Dynamics and Management of Marine Populations | 4 |
BIOHOPK 179H | Physiological Ecology of Marine Megafauna | 3 |
BIOHOPK 182H | Stanford at Sea (only 6 units may count towards the major) | 16 |
BIOHOPK 184H | Holistic Biology (only 6 units may count towards the major) | 16 |
BIOHOPK 185H | Ecology and Conservation of Kelp Forest Communities | 5 |
BIOHOPK 187H | Sensory Ecology | 4 |
BIOHOPK 189H | Sustainability and Marine Ecosystems | 3 |
BIOHOPK 264H | POPULATION GENOMICS | 1-2 |
BIOHOPK 274 | Hopkins Microbiology Course | 9-12 |
BIOHOPK 275H | Synthesis in Ecology | 2 |
Research and/or Teaching (maximum 6 units combined)
Units | ||
---|---|---|
BIOHOPK 198H | Directed Instruction or Reading | 1-15 |
BIOHOPK 199H | Undergraduate Research | 1-15 |
BIOHOPK 290H | Teaching of Biological Science | 1-15 |
BIOHOPK 300H | Research | 1-15 |
See Biology degree requirements above for further information. Many of the Hopkins Marine Station courses may be used to fulfill department major requirements.
Minor in Biology
Students interested in the minor in Biology must declare the minor and submit their course plan online via Axess no later than two quarters prior to the student's intended quarter of degree conferral. The Biology minor requires a minimum of six courses meeting the following criteria:
- All courses must be taken for a letter grade.
- All courses must be worth or approved for 3 or more units.
- All courses, other than the BIO 41, 42, 43, BIOHOPK 43, OSPAUSTL 10, 20, or 30 must be at or above the 100-level. Stanford Introductory Seminars may not be used to fulfill the minor requirements.
- Courses used to fulfill the minor may not be used to fulfill any other department degree requirements (minor or major).
- Courses must be chosen from the offerings of the Department of Biology or the Hopkins Marine Station, or from the list of approved out-of-department electives.
- At least one course from the Biology Core must be taken:
- The Biology Core Laboratory courses do not count towards the minor:
- Elective credit for research is limited to a maximum of 3 units.
Units | ||
---|---|---|
BIO 41 | Genetics, Biochemistry, and Molecular Biology | 5 |
BIO 42 | Cell Biology and Animal Physiology | 5 |
BIO 43 | Plant Biology, Evolution, and Ecology | 5 |
or BIOHOPK 43 | Plant Biology, Evolution, and Ecology |
Units | ||
---|---|---|
BIO 44X | Core Molecular Biology Laboratory | 5 |
BIO/BIOHOPK 44Y | Core Plant Biology & Eco Evo Laboratory | 5 |
Units | ||
---|---|---|
BIO 199 | Advanced Research Laboratory in Experimental Biology | 1-15 |
BIOHOPK 199H | Undergraduate Research | 1-15 |
Not allowable is: | ||
Out-of-Department Advanced Research Laboratory in Experimental Biology |
Master of Science in Biology
For information on the University's basic requirements for the M.S. degree, see the "Graduate Degrees" section of this bulletin. Students considering this degree option should meet with staff in the student services office prior to applying.
The M.S. degree program offers general or specialized study to individuals seeking biologically oriented course work and to undergraduate science majors wishing to increase or update their science background or obtain advanced research experience. Students who have majored in related fields are eligible to apply, but course work equivalent to the preparation of a Stanford B.S. in Biology may be required in addition to the general requirements. This includes course work in biology, chemistry, physics and mathematics. The M.S. program does not have an M.S. with thesis option.
Admissions
The department only accepts M.S. program applications from matriculated Stanford students:
- undergraduates wishing to pursue a coterminal M.S. degree.
- graduate students from other Stanford programs wishing to pursue an M.S. degree.
- current Biology Ph.D. students wishing to discontinue the Ph.D. program with an M.S. degree.
Undergraduates must apply in mid-January to start the program in Spring, Autumn, or the following Winter quarter. Graduate students may apply by the third week of any academic quarter.
Required application materials
- Application for Admission, Preliminary Program Proposal, and Course Transfer Form
- A statement of purpose which explains why the student wishes to enter the program and what the student plans to accomplish while in the program. The statement should also supply information about the student's science capabilities if his or her undergraduate academic record does not accurately reflect them.
- Unofficial Stanford transcript.
- Two letters of recommendation, preferably from Biology faculty members in this department. If two such letters are not available, letters from faculty familiar with the student's ability to succeed in a graduate science curriculum are acceptable.
- Application fee: an application fee is charged to all students regardless of outcome; application fee is applied directly to students' accounts.
University Coterminal Requirements
Coterminal master’s degree candidates are expected to complete all master’s degree requirements as described in this bulletin. University requirements for the coterminal master’s degree are described in the “Coterminal Master’s Program” section. University requirements for the master’s degree are described in the "Graduate Degrees" section of this bulletin.
After accepting admission to this coterminal master’s degree program, students may request transfer of courses from the undergraduate to the graduate career to satisfy requirements for the master’s degree. Transfer of courses to the graduate career requires review and approval of both the undergraduate and graduate programs on a case by case basis.
In this master’s program, courses taken three quarters prior to the first graduate quarter, or later, are eligible for consideration for transfer to the graduate career. No courses taken prior to the first quarter of the sophomore year may be used to meet master’s degree requirements.
Course transfers are not possible after the bachelor’s degree has been conferred.
The University requires that the graduate adviser be assigned in the student’s first graduate quarter even though the undergraduate career may still be open. The University also requires that the Master’s Degree Program Proposal be completed by the student and approved by the department by the end of the student’s first graduate quarter.
General Requirements
The M.S. program consists of Department of Biology and/or Hopkins Marine Station course work, approved out-of-department electives, and foundational breadth courses totaling at least 45 units at or above the 100-level, distributed as follows:
- A minimum of 23 of the 45 units must be courses designated primarily for graduate students (generally 200-level or higher, but not always).
- A minimum of 36 units must be chosen from the offerings in the Department of Biology (BIO), Hopkins Marine Station (BIOHOPK), the list of approved out-of-department electives, research, teaching and/or foundational breadth courses.
Units BIO 198 Directed Reading in Biology 1-15 BIO 198X Out-of-Department Directed Reading 1-15 BIO 290 Teaching of Biology 1-5 BIO 291 Development and Teaching of Core Experimental Laboratories 1-2 BIO 300 Graduate Research 1-10 BIO 300X Out-of-Department Graduate Research 1-10 BIOHOPK 198H Directed Instruction or Reading 1-15 BIOHOPK 290H Teaching of Biological Science 1-15 BIOHOPK 300H Research 1-15 - a maximum of 18 units may be a combination of Biology research, directed reading and/or teaching:
- a maximum of 9 units may be foundational breadth courses in chemistry, mathematics, statistics, computer science, and/or physics beyond the level required for the undergraduate degree in Biology and at least at the 100-level.
- No more than 9 units may be other Stanford course work relevant to a student's professional development. Students are required to petition for courses that fall into this category using the General Petition form.
Each candidate designs a coherent program of study in consultation with her or his department adviser. Although there are no specific courses required, program proposals must adhere to department parameters.
In addition to the unit requirements outlined above, students must adhere to the following:
- A program proposal, signed by the student's adviser and approved by the chair of the M.S. committee, must be filed by the third week of the first quarter of enrollment. A revised program proposal is required to be filed whenever there are changes to a student's previously approved program proposal.
- Students may take only 6 units CR/NC.
- Students must maintain a GPA of 3.0 or higher.
- Students must receive a grade of 'B-' or better in all courses taken for the degree.
Students not meeting these minimum requirements are subject to departmental academic review and/or dismissal.
The department's Master of Science Handbook has additional information about the program, University policy and the department.
Doctor of Philosophy in Biology
For information on the University's basic requirements for the Ph.D. degree, see the "Graduate Degrees" section of this bulletin. The training for a Ph.D. in Biology is focused on learning skills required for being a successful research scientist and teacher, including how to ask important questions and then devise and carry out experiments to answer these questions. Students work closely with an established adviser and meet regularly with a committee of faculty members to ensure that they understand the importance of diverse perspectives on experimental questions and approaches. Students learn how to evaluate critically pertinent original literature in order to stay abreast of scientific progress in their areas of interest. They also learn how to make professional presentations, write manuscripts for publication, and become effective teachers.
Admissions
Students seeking entrance to graduate study in Biology ordinarily should have the equivalent of an undergraduate major in Biology at Stanford. However, students from other disciplines, particularly the physical sciences, are also encouraged to apply. Such students are advised at the time of initial registration on how they should complete background training during the first year of graduate study. In addition to the usual basic undergraduate courses in biology, it is recommended that preparation for graduate work include courses in chemistry through organic chemistry, general physics, and mathematics through calculus.
Application, Admission, and Financial Aid
Prospective graduate students must apply via Stanford's online graduate application.
The department's program is divided into three separate areas of concentration:
- ecology/evolution/population studies
- integrative/organismal
- molecular/cellular/developmental/genetic/plant
Included in these concentrations is the option to conduct research at Hopkins Marine Station. These concentrations are recorded in the department as part of the admissions process and for tracking degree progress for admitted students; they do not appear on official university records.
Applicants are required to take the Graduate Record Examination (GRE) general test. The GRE subject test is not required. Applicants should plan on taking the GRE at least one month prior to the application deadline to ensure that official scores are available when applications are evaluated.
Admission to the Ph.D. program is competitive and in recent years it has been possible to offer admission to approximately 9-10 percent of the applicants.
Applicants who are eligible should apply for nationally competitive predoctoral fellowships, especially those offered by the National Science Foundation.
Admitted students are typically offered financial support in the form of Stanford Graduate Fellowships, research assistantships, NIH traineeships or biology fellowships.
General Requirements
All students must be enrolled in exactly 10 units during autumn, winter, spring and summer quarters until reaching Terminal Graduate Registration (TGR) status and are required to pass all courses in which they are enrolled. Students must earn a grade of 'B-' or better in all courses applicable to the degree that are taken for a letter grade.Satisfactory completion of each year’s general and track specific requirements listed below is required for satisfactory progress towards the degree. Students not making satisfactory degree progress are subject to departmental academic review and/or dismissal.
-
First year advising
Each entering student meets with the first-year advising committee within the first two weeks of Autumn Quarter, Winter Quarter and May 15 of Spring Quarter. The committee reviews the student's previous academic work and current goals and advises the student on a program of Stanford courses, some of which may be required and others recommended. Completion of the core curriculum listed below under "Track Specific Requirements" is required of all students. -
Ethics
Students must take a course on the ethical conduct of research. This course should be taken in the first year of the program.Units BIO 312 Ethical Issues in Ecology and Evolutionary Biology 1 MED 255 The Responsible Conduct of Research 1 -
Teaching
- Teaching experience and training are part of the graduate curriculum. Each student assists in teaching one course in
- the department's core lecture or lab series
Units BIO 41 Genetics, Biochemistry, and Molecular Biology 5 BIO 42 Cell Biology and Animal Physiology 5 BIO 43 Plant Biology, Evolution, and Ecology 5 BIO 44X Core Molecular Biology Laboratory 5 BIO 44Y Core Plant Biology & Eco Evo Laboratory 5 - and a second course that can be either a core course or other Biology or Hopkins Marine Station course
- the department's core lecture or lab series
-
Seminars
Graduate seminars devoted to current literature and research in particular fields of biology are an important means of attaining professional perspective and competence. Seminars are presented under individual course listings or are announced by the various research groups. Topics of current biological interest are presented by speakers from Stanford and other institutions. During the first year of study, graduate students are required to attend seminars and make one formal seminar presentation which must be evaluated by a minimum of two Biology faculty members. -
Fellowship application
All eligible first and second year students must apply for a National Science Foundation (NSF) Graduate Research Fellowship. -
Adviser/lab selection
By May 1, each first-year student is required to have selected a lab in which to perform dissertation research and to have been accepted by the faculty member in charge. -
Qualifying exam and admission to candidacy
During the second year, students are required to write a dissertation proposal which is evaluated by a committee of faculty (the dissertation proposal committee) in an oral presentation. Track-specific deadlines are listed below. All students must be admitted to candidacy by the end of their second year. This is contingent upon satisfactory completion of course work, all first and second year requirements, the dissertation proposal and the University's requirements for candidacy outlined in the Candidacy section of this bulletin. If a student does not meet the requirements for admission to candidacy by the end of the second year, the student is subject to dismissal from the Ph.D. program. -
Committee meetings
Students must meet regularly with their advising committees. For more details, see the Biology PhD Handbook. -
Individual Development Plan meetings
Students must meet once a year with their adviser. For more details, see the Biology PhD Handbook.
-
Publishable manuscript
Each student must complete one publishable manuscript (paper) for which s/he is the major contributor. -
Residency requirement
A minimum of 135 units of graduate registration is required of each candidate at the time of graduation. -
Doctoral dissertation
A substantial draft of the dissertation must be submitted to the student's oral examination committee at least one month before the oral exam is scheduled to take place. The dissertation must be presented to an oral examination committee comprised of at least five faculty members. In addition, the final written dissertation must be approved by the student's reading committee (a minimum of three approved faculty), and submitted to the Registrar's Office. Upon completion of this final requirement, a student is eligible for conferral of the degree.
Track Specific Requirements
In addition to the general requirements listed above, students must also complete requirements within their concentration. Written petitions for exemptions to core curriculum and lab rotation requirements are considered by the advising committee and the chair of the graduate studies committee. Approval is contingent upon special circumstances and is not routinely granted.
Molecular, Cellular, Developmental, Genetic, and Plant
- Courses: Students are required to take the following courses prior to Spring Quarter of the 4th year, except for the required first year courses as noted:
Units BIOS 200 Foundations in Experimental Biology (must be taken Autumn quarter of the first year) 6 BIO 301 Frontiers in Biology (satisfies first-year seminar requirement; must be taken Autumn and Winter quarters of first year) 1-3 One additional course in each of the four scientific areas decided upon by the student and the advising committee 1 1. Cell Biology2. Biology of Molecules3. Genetics/Genomics4. Quantitative Methods - Lab Rotations: First-year students are required to complete rotations in at least two different laboratories for a total of 20 weeks during autumn and winter quarters. At least one rotation must be in a lab in the Department of Biology.
- Two-part qualifying exam: Each student must pass the exam in their second year.
- Dissertation proposal: During Autumn Quarter of the second year, the student must prepare a written dissertation proposal that outlines the student's projected dissertation research, including an expert assessment of the current literature; deadline is November 1.
- Oral examination: Held after submission of the written proposal to the dissertation proposal committee. It is an evaluation of the student’s ability to summarize the field of study, generate a working hypothesis, develop a degree plan that could be completed in 3-4 years, understand the logic of experimental design, develop a decision tree based on (all) possible results of experiments and draw conclusions and adapt hypotheses depending on results. Deadline is November 15.
1 | Up to two of these courses may be "mini courses" in the Biosciences (BIOS). |
Integrative/Organismal
-
Courses: Students are required to take BIO 301 Frontiers in Biology in their first year. Students specializing in integrative/organismal biology may be required to take additional courses as advised by committee.
- First-year paper: Students must submit a paper that is evaluated by a minimum of two Academic Council faculty members by May 15. This paper should be a step toward the development of a dissertation proposal and may consist of an analysis of new data or a literature review and synthesis.
-
Two-part qualifying exam: Each student must pass the exam in their second year.
- Dissertation proposal: During Spring Quarter of the second year, the student must prepare a written dissertation proposal that outlines the student's projected dissertation research, including an expert assessment of the current literature; deadline is May 15.
- Oral examination: Held after submission of the written proposal to the dissertation proposal committee. It is an evaluation of the student’s ability to summarize the field of study, generate a working hypothesis, develop a degree plan that could be completed in 3-4 years, understand the logic of experimental design, develop a decision tree based on (all) possible results of experiments and draw conclusions and adapt hypotheses depending on results. Deadline is June 15.
Ecology, Evolution, and Population Studies
-
Courses: Students are required to take the following courses in their first year:
Units BIO 302 Current Topics and Concepts in Population Biology, Ecology, and Evolution 1 BIO 303 Current Topics and Concepts in Population Biology, Ecology, and Evolution 1 BIO 304 Current Topics and Concepts in Population Biology, Ecology, and Evolution 1 Students specializing in ecology and evolution may be required to take additional courses as advised by committee. - First-year paper: The paper should be read, commented upon and agreed to as satisfactory by two EcoEvo faculty by May 15. This can be satisfied in a number of ways which all involve new writing, undertaken since entering the Stanford program. These may include:
- A new draft research manuscript (a previously published paper is not acceptable).
- Some other piece of new writing, such as a review paper from a course, or an initial literature review of a potential thesis topic. In this case the paper should ordinarily be not less than 10 double-spaced pages in usual sized font, and not more than 10 single spaced pages, plus references. It should be written in the style of a standard scientific paper.
-
Two-part qualifying exam: Each student must pass the exam in their second year.
- Dissertation proposal: During Spring Quarter of the second year, the student must prepare a written dissertation proposal that outlines the student's projected dissertation research, including an expert assessment of the current literature; deadline is May 15.
- Oral examination: Held after submission of the written proposal to the dissertation proposal committee. The student should prepare a presentation of the goals of the thesis, typically including preliminary data, models, etc. as appropriate which are relevant to at least the first goal, and should be prepared thereafter to discuss questions raised by the committee in professional scientific depth. Deadline is June 15.
Emeriti Professors: Bruce S. Baker, Winslow R. Briggs, Allan M. Campbell, David Epel, Donald Kennedy, Harold A. Mooney, Peter Ray, Joan Roughgarden, Robert Schimke, George N. Somero, Ward B. Watt, Norman K. Wessells, Dow O. Woodward, Charles Yanofsky
Emeritus Professor (Research): R. Paul Levine
Emeritus Professor (Teaching): Carol L. Boggs
Chair: Tim P. Stearns
Professors: Barbara A. Block, Steven M. Block, Larry B. Crowder, Martha S. Cyert, Gretchen C. Daily, Giulio De Leo, Mark W. Denny, Rodolfo Dirzo, Paul R. Ehrlich, Marcus W. Feldman (on leave autumn & spring), Russell D. Fernald, Christopher B. Field, Wolf Frommer, Judith Frydman, William F. Gilly, Deborah M. Gordon, Elizabeth A. Hadly, Philip C. Hanawalt, H. Craig Heller, Patricia P. Jones, Richard G. Klein, Ron R. Kopito, Sharon R. Long (on leave autumn), Liqun Luo, Susan K. McConnell, Fiorenza Micheli, W. James Nelson, Stephen R. Palumbi, Dmitri Petrov, Jonathan Pritchard, Noah A. Rosenberg, Robert M. Sapolsky, Carla J. Shatz, Kang Shen, Michael A. Simon, Robert D. Simoni (on leave), Tim P. Stearns, Stuart H. Thompson, Shripad Tuljapurkar, Peter Vitousek, Virginia Walbot
Associate Professors: Dominique Bergmann, Or Gozani, Christopher Lowe, Mary Beth Mudgett, Mark J. Schnitzer (on leave spring)
Assistant Professors: Xiaoke Chen, Scott J. Dixon, Jessica L. Feldman, Hunter B. Fraser (on leave winter), Tadashi Fukami (on leave spring), Jeremy A. Goldbogen, Erin Mordecai, Ashby Morrison, Kabir Peay, M. Kristy Red-Horse, Jan M. Skotheim (on leave winter-spring)
Courtesy Professors: Joseph Berry, Carlos D. Bustamante, Daniel Fisher, Arthur R. Grossman, Joseph S. Lipsick, Terry Root, Matthew P. Scott, Alfred Spormann, Irving Weissman, Wing Wong
Courtesy Associate Professors: Kathryn Barton, David Ehrhardt, Sue Rhee, Zhiyong Wang
Courtesy Assistant Professors: José R. Dinneny, Martin Jonikas, Jonathan Payne, Paula V. Welander
Lecturers: Daria Hekmat-Scafe, Jamie Imam, Waheeda Khalfan, Shyamala D. Malladi, Patricia Seawell, Andrew Todhunter, James Watanabe
Consulting Professors: Cathy Laurie, Marc Tessier-Lavigne
Librarian: Michael Newman
Overseas Studies Courses in Biology
The Bing Overseas Studies Program manages Stanford study abroad programs for Stanford undergraduates. Students should consult their department or program's student services office for applicability of Overseas Studies courses to a major or minor program.
The Bing Overseas Studies course search site displays courses, locations, and quarters relevant to specific majors.
For course descriptions and additional offerings, see the listings in the Stanford Bulletin's ExploreCourses or Bing Overseas Studies.
Units | ||
---|---|---|
OSPAUSTL 10 | Coral Reef Ecosystems | 3 |
OSPAUSTL 25 | Freshwater Systems | 3 |
OSPAUSTL 30 | Coastal Forest Ecosystems | 3 |
OSPPARIS 83 | The Cancer Problem: Causes, Treatment, and Prevention | 4-5 |
OSPPARIS 88 | Principles of Biochemistry | 3 |
OSPSANTG 85 | Marine Ecology of Chile and the South Pacific | 5 |
Courses
BIO 1. Human Evolution and Environment. 3 Units.
Human genetic and cultural evolution and how people interact with their environments, from the ancestors of Australopithecus to current events. Issues include race, gender, and intelligence; pesticide and antibiotic resistance; abortion and contraception; ecosystem services; environmental economics and ethics; the evolution of religion; climate change; population growth and overconsumption; origins and spread of ideas and technologies; and the distribution of political and economic power.
BIO 2N. Ecology and Evolution of Infectious Disease in a Changing World. 3 Units.
This seminar will explore the ways in which anthropogenic change, climate change, habitat destruction, land use change, and species invasions effects the ecology and evolution of infectious diseases. Topics will include infectious diseases of humans, wildlife, livestock, and crops, effects of disease on threatened species, disease spillover, emerging diseases, and the role of disease in natural systems. Course will be taught through a combination of popular and scientific readings, discussion, and lecture. .
BIO 3. Frontiers in Marine Biology. 1 Unit.
An introduction to contemporary research in marine biology, including ecology, conservation biology, environmental toxicology, behavior, biomechanics, evolution, neurobiology, and molecular biology. Emphasis is on new discoveries and the technologies used to make them. Weekly lectures by faculty from the Hopkins Marine Station.
BIO 3N. Views of a Changing Sea: Literature & Science. 3 Units.
The state of a changing world ocean, particularly in the eastern Pacific, will be examined through historical and contemporary fiction, non-fiction and scientific publications. Issues will include harvest and mariculture fisheries, land-sea interactions and oceanic climate change in both surface and deep waters.
BIO 4N. Peopleomics: The science and ethics of personalized genomic medicine. 3 Units.
Exploration of the new field of personalized genomic medicine. Personalized medicine is based on the idea that each person's unique genome sequence can be used to predict risk of acquiring specific diseases, and to make more informed medical choices. The science behind these approaches; where they are heading in the future; and the ethical implications such technology presents. Lectures augmented with hands-on experience in exploring and analyzing a real person's genome.
BIO 7N. Introduction to Conservation Photography. 3 Units.
Introduction to the field of conservation photography and the strategic use of visual communication in addressing issues concerning the environment and conservation. Students will be introduced to basic digital photography, digital image processing, and the theory and application of photographic techniques. Case studies of conservation issues will be examined through photographs and multimedia platforms including images, video, and audio. Lectures, tutorials, demonstrations, and optional field trips will culminate in the production of individual and group projects.
BIO 7S. Introduction to Biology. 3 Units.
The major fields of biology: biochemistry, the cell, evolution, and diversity. Foundation for higher-level biology courses.
BIO 7SL. Introduction to Biology Lab. 2 Units.
Optional lab to be taken concurrently with BIO 7S.
BIO 9S. Introduction to Biological Research Methods. 3 Units.
Theory and practice of experimental biology. Introduction to how to plan an experiment, conduct, and analyze data. Introduction to scientific writing and reading scientific journal articles. Prerequisite: high school biology.
BIO 10AX. Conservation Photography. 2 Units.
Account of the genre of conservation photography and strategic use of visual communication in the environmental arena. Introduction to use of digital SLR cameras and digital image processing. Case studies of conservation issues accompanied by multimedia platforms including images, video, and audio. Theory and application of photographic techniques. Lectures, tutorials, demonstrations, and field trips. Individual and group projects.
BIO 10SC. Natural History, Marine Biology, and Research. 2 Units.
Monterey Bay is home to the nation's largest marine sanctuary and also home to Stanford¿s Hopkins Marine Station. This course, based at Hopkins, explores the spectacular biology of Monterey Bay and the artistic and political history of the region. The course focuses on issues of conservation, sanctuary, and stewardship of the oceans and coastal lands. We will meet with conservationists, filmmakers, artists, authors, environmentalists, politicians, land-use planners, and lawyers, as well as scientists and educators, to learn what is being done to appreciate, protect, and study the coastline and near-shore waters at local and national levels. We will take a look at the discipline of marine biology to discover the range of topics and methods of research it embraces and to help define some of the larger issues in biology that loom in our future. The course emphasizes interactions and discussions between individuals, groups, and our guests; it is a total immersion experience. We will be together all of the time, either at our base at the Belden House in Pacific Grove or hiking and camping in Big Sur.nnStudents are expected to have read the several books provided as introductory material before the course begins, and each is also expected to become our local expert in an area such as plant identification, bird identification, poetry, weather prediction, photography, history, ethnography, etc. The course requires an individual research project of your choice on a topic related to the general theme. Final reports will be presented at the last meeting of the group and may involve any medium, including written, oral, and performance media.nnNote: This course will be held at the Hopkins Marine Station in the Monterey region, and housing will be provided nearby. Transportation from campus to the housing site will be provided once students arrive on campus on August 30. Transportation to campus from the Belden House in Pacific Grove will be provided on September 19. Sophomore College Course: Application required, due noon, April 7, 2015. Apply at http://soco.stanford.edu.
BIO 11N. Biotechnology in Everyday Life. 3 Units.
Preference to freshmen. The science that makes transgenic plants and animals possible. Current and future applications of biotechnology and the ethical issues raised.
BIO 12N. Sensory Ecology of Marine Animals. 3 Units.
Animals living in the oceans experience a highly varied range of environmental stimuli. An aquatic lifestyle requires an equally rich range of sensory adaptations, including some that are totally foreign to us. In this course we will examine sensory system in marine animals from both an environmental and behavioral perspective and from the point of view of neuroscience and information systems engineering.
BIO 13N. Environmental Problems and Solutions. 3 Units.
Preference to freshmen. Students do independent investigations of current environmental problems, analyzing differing views of them and discussing possible solutions. Each student gives seminar presentations and leads seminar discussions. Short, documented position papers are written for policy makers.
BIO 14. Bio-logging and Bio-telemetry. 3 Units.
Bio-logging is a rapidly growing discipline that includes diverse fields such as consumer electronics, medicine, and marine biology. The use of animal-attached digital tags is a powerful approach to study the movement and ecology of individuals over a wide range of temporal and spatial scales. This course is an introduction to bio-logging methods and analysis. Using whales as a model system, students will learn how use multi-sensor tags to study behavioral biomechanics.
BIO 15N. Environmental Literacy. 3 Units.
Preference to freshmen. Lack of public understanding of the details of most environmental problems is cited as a cause of environmental deterioration. Good citizenship requires literacy about the elements of the scientific and decision making processes that accompany most environmental issues. Whether we are aware of them or not, environmental problems significantly decrease the quality of our lives, those of future generations and of other species. For example, when the average global temperature increases to 2oC (3.6oF) above natural, as many as 400,000 species could go extinct, and definitely some of those species, such as pollinators, currently enhance our quality of life greatly. Your grandchildren may need to learn to survive in a qualitatively different world than the one we know today.nIn this class we will explore many of the major problems our world is facing today including: over population, over consumption, sustainability impediments, toxins and pollution, and climate change. In addition, we will explore policies or lack thereof, communication missteps and breakdowns, and the role of the media to educate yet they often cause confusion.nEach week we will read articles¿mainly from the scientific literature, but also some from the policy world¿and discuss them in class.
BIO 16. Conservation Storytelling: Pre-course for BOSP South Africa. 1 Unit.
Limited to students admitted to the BOSP South Africa overseas seminar. Through 4 workshop meetings, students will develop and pitch story ideas, form teams in which a writer and a photographer agree to collaborate on a story, and conduct background research prior to departing for South Africa.
BIO 18Q. Plant Evolutionary Ecology. 3 Units.
Plant EcoEvo analyzes the conceptual basis of ecology and evolution from the plants' perspective. After a broad overview of the biomes of the world, it explores population ecology, community ecology and biotic interactions. This is followed by an analysis of biodiversity from the botanical perspective and closes with a discussion of anthropogenic impact on plants. The course is based on lectures and practical activities (discussion of selected papers; analysis of data; laboratory activities, 2 field trips). Emphasis: Latin American ecosystems.
BIO 19N. Organ Development and Disease. 3 Units.
The development of tissues and organs is a fascinating process that we can directly observe in model organisms such as the zebrafish or chick. Particularly amazing is watching organs that move in front of our very eyes such as the beating heart or circulating blood. Unfortunately, the development of these complex systems often goes awry resulting in diseases that plague our society. This class will introduce some concepts of organogenesis, how disruptions can cause disease, and how we find underlying genetic mutations. It will include lectures and discussions, direct observations of developing organs in experimental animals, and an inspiring field trip. Students will be expected to participate in discussions and complete a short presentation.
BIO 20. Introduction to Brain and Behavior. 3 Units.
Evolutionary principles to understand how the brain regulates behavior physiologically, and is also influenced by behavioral interactions. Topics include neuron structure and function, transmission of neural information, anatomy and physiology of sensory and motor systems, regulation of body states, the biological basis of learning and memory, and behavioral abnormalities.
Same as: HUMBIO 21
BIO 21. The Science of the Extreme Life of the Sea. 3 Units.
Based on the book Extreme Life of the Sea, this course will explore the new science about how marine species thrive in some of the world's most difficult environments. Species that live in the hottest, coldest, deepest and shallowest habitats will be described along with the genetic, biochemical, physiological and behavioral adaptations that allow them to persist. We will also examine the fastest, the oldest, the most archaic, the smallest, biggest and the most numerous species. Emphasis will be on the scientific discoveries about these species that give insight into their lives.
BIO 22Q. Infection, Immunity, and Global Health. 3 Units.
Why do infectious diseases continue to challenge us despite advances in medicine? This course will explore the causes and prevention of infectious diseases, focusing on the interplay between pathogens, the immune system, the environment, and societal factors that affect disease occurrence and outcomes. Topics will include: basic elements of microbiology, immunology, and epidemiology; case studies of old diseases (e.g., smallpox, tuberculosis, malaria) and recently-emergent diseases (e.g., Ebola, AIDS, antibiotic-resistant bacteria, Lyme disease, and pandemic influenza) that illustrate the biological, environmental, cultural, political, and economic factors that affect disease emergence, spread, and control; the limitations of modern medical approaches such as antibiotics and vaccines; and strategies for reducing global infectious disease threats. The seminar will feature class discussion, student projects, and faculty and student presentations. Prerequisite: biology background, preferably introductory college courses (e.g., 41, 42, or HUMBIO 2A, 3A).
BIO 25Q. The Molecular Basis of Genetic Disease. 3 Units.
Preference to sophomores. Focus is on two genetic diseases resulting from the production of protein molecules that are unable to fold into their native conformations, called conformational diseases: cystic fibrosis and amyotrophic lateral sclerosis or Lou Gehrig's disease. Hypotheses and controversies surrounding the molecular basis of these disorders, and implications for novel therapeutics. Readings from research literature.
BIO 26N. Maintenance of the Genome. 3 Units.
Preference to freshmen. The precious blueprint for life is entrusted to the genomic DNA molecules in all living cells. Multiple strategies have evolved to prevent the deleterious consequences from endogenous DNA alterations and damage from radiation or genotoxic chemicals in the environment. In this seminar you will learn about the remarkable systems that scan cellular DNA for alterations and make repairs to ensure genomic stability. Deficiencies in DNA repair have been implicated in many hereditary diseases involving developmental defects, premature aging, and/or predisposition to cancer. An understanding of DNA repair mechanisms is important for advances in the fields of cancer biology, neurobiology, and gerontology. Background readings, introductory lectures, student presentations, short term paper.
BIO 28Q. Hacking the Genetic Code. 3 Units.
How do scientists use the tools of molecular biology to engineer microorganisms, plants, and animals to advance knowledge and improve human health? In this Sophomore Seminar, we will explore the molecular details of genome manipulation tools; the biological, medical, and environmental applications of these tools; and the ethical implications of genetic engineering. Throughout the quarter, you will have an opportunity to analyze journal articles, talk with genome engineering experts, design experiments, engage in debates, and develop an original research proposal.
BIO 29N. PARTY WITH TREES. 3 Units.
Ever marveled at the imposing trees around campus? This course will explore trees on campus using Bracewell's marvelous "Trees of Stanford" as a rough guide. We will develop tools and explore ideas that will allow the wider community to cherish and appreciate the oft-neglected trees on campus. The course will include guest lectures that focus on the theme of trees: from literature to the physics and biology of trees, to the environmental impact of global forest loss.
BIO 30. Ecology for Everyone. 4 Units.
Everything is connected, but how? Ecology is the science of interactions and the changes they generate. This project-based course links individual behavior, population growth, species interactions, and ecosystem function. Introduction to measurement, observation, experimental design and hypothesis testing in field projects, mostly done in groups. The goal is to learn to think analytically about everyday ecological processes involving bacteria, fungi, plants, animals and humans. The course uses basic statistics to analyze data; there are no math prerequisites except arithmetic. Open to everyone, including those who may be headed for more advanced courses in ecology and environmental science.
Same as: EARTHSYS 30
BIO 30N. Extinctions in Near Time: Biodiversity loss since the Pleistocene. 3 Units.
The transition 11,700 years ago from the Pleistocene glacial period into the Holocene interglacial witnessed the expansion of humans around the world, climatic warming and the demise of many large vertebrate species. Since that time extinctions have continued on land and in the sea, culminating with the biodiversity crisis we are experiencing today. We will explore these prehistoric extinctions: "Who? When? Where? and Why?" in order to learn more about our planet's future.
BIO 33N. Conservation Science and Practice. 3 Units.
Preference to freshmen. This course will explore the potential for harmonizing people and nature, for achieving improved outcomes in the well-being of both as a result of conservation investments and interventions. We will consider biophysical, economic, social, and psychological perspectives, examining an array of conservation goals, from protecting endangered species to securing ecosystem services (such as flood control and climate stability) to alleviating poverty and improving mental well-being. We will also study the design and implementation of real conservation and human development efforts worldwide, among the many farmers, ranchers, fishing people, and others managing Earth's lands and waters. Highlights include a field trip to Jasper Ridge Biological Preserve, Stanford¿s very own nature reserve, and guest visits of some impressive conservation leaders internationally.
BIO 34N. Hunger. 3 Units.
The biology of hunger and satiety, disease states that disrupt normal responses to hunger and satiety, starvation responses and adaptations to starvation in a variety of organisms, food production and distribution mechanisms, historic famines and their causes, the challenges of providing adequate food and energy for the Earth's growing population, local and global efforts to alleviate hunger, and hunger in fiction.
BIO 35N. Water: From Cadillac Deserts to Plant Physiology. 3 Units.
Water is an essential ingredient for life. While the Mediterranean climate of California draws immigrants and tourists to our mild dry climate, infrequent rain and prized water rights have led to a tumultuous history behind how water is currently distributed. In this freshman seminar we will discuss water in California from multiple perspectives that span weather, history, art and plant physiology. The implications of climate change on agriculture and the Californian economy and lifestyle will also be discussed.
BIO 36N. Which differences make a difference? Practical challenges at the intersection of race and genetics. 3 Units.
Preference to freshmen. Seminar discussion of issues at the intersection of racial inequality and biological questions about human similarity and difference. Combines insights from population genetics and the sociology of race and inequality. Students will meet local experts, read original research, and employ the tools of both fields, including principles of survey design and statistical methods of evolutionary genetics. Focus is on real-world problems and their possible solutions.
Same as: SOC 20N
BIO 41. Genetics, Biochemistry, and Molecular Biology. 5 Units.
Emphasis is on macromolecules (proteins, lipids, carbohydrates, and nucleic acids) and how their structure relates to function and higher order assembly; molecular biology, genome structure and dynamics, gene expression from transcription to translation. Prerequisites: CHEM 31X (or 31A,B), 33. Recommended: CHEM 35; MATH 19, 20, 21 or 41, 42.
BIO 41A. Bio Solve-It. 1 Unit.
Students enrolled in Bio41 lecture and regular discussion sections attend two additional 80 min sections per week. The objective of the course is to help students to solidify basic concepts, identify areas to work on, and apply core concepts learned that week in Bio41 lecture and section. Space is limited, by application only. Co-Requisite: BIO 41.
BIO 41S. Biochemistry, Genetics, and Molecular Biology. 5 Units.
Emphasis is on macromolecules (proteins, lipids, carbohydrates, and nucleic acids) and how their structure relates to function and higher order assembly; molecular biology, genome structure and dynamics, gene expression from transcription to translation. Prerequisites: CHEM 31X (or 31A,B), 33; MATH 19, 20, 21 or 41, 42. Recommended: CHEM 35.
BIO 42. Cell Biology and Animal Physiology. 5 Units.
Cell structure and function; principles of animal physiology (immunology, renal, cardiovascular, sensory, motor physiology, and endocrinology); neurobiology from cellular basis to neural regulation of physiology. Prerequisites: CHEM 31X (or 31A,B), 33. Recommended: BIO 41; CHEM 35; MATH 19, 20, 21 or 41, 42.
BIO 42A. Bio Solve-It. 1 Unit.
Students enrolled in Bio42 lecture and regular discussion sections attend two additional 80 min sections per week. The objective of the course is to help students to solidify basic concepts, identify areas to work on, and apply core concepts learned that week in Bio42 lecture and section. Space is limited, by application only. Co-Requisite: BIO 42.
BIO 43. Plant Biology, Evolution, and Ecology. 5 Units.
Principles of evolution: macro- and microevolution and population genetics. Ecology: the principles underlying the exchanges of mass and energy between organisms and their environments; population, community, and ecosystem ecology; populations, evolution, and global change. Equivalent to BIOHOPK 43. Prerequisites: CHEM 31X (or 31A,B), 33. Recommended: BIO 41, 42; CHEM 35; MATH 19, 20, 21 or 41, 42.
BIO 43A. Bio Solve-It. 1 Unit.
Students enrolled in Bio43 lecture and regular discussion sections attend two additional 80 min sections per week. The objective of the course is to help students to solidify basic concepts, identify areas to work on, and apply core concepts learned that week in Bio43 lecture and section. Space is limited, by application only. Co-Requisite: BIO 43.
BIO 44X. Core Molecular Biology Laboratory. 5 Units.
Investigate yeast strains that are engineered to express the human protein, p53, and use modern molecular methods to identify the functional consequences of p53 mutations isolated from tumor cells. Learn about the protein's role as a tumor suppressor through lectures and by reading and discussing journal articles. Use molecular visualization programs to examine the structure of wild type and mutant p53 proteins. Formulate a testable hypothesis and assay the ability of mutant p53 to direct expression of several reporter genes. During guided reflection, formulate further analyses to determine whether mutant p53 is present in the cell, can bind to DNA, and/or can enter the nucleus. Conduct lab experiments, present findings through a team oral presentation, as well as a scientific poster. Prerequisites: CHEM 31X, or 31A,B, and 33; concurrent or past enrollment in Biology or Human Biology core. 44X,Y should be taken sequentially in the same year, preferably as sophomores, to prepare for internships. Preference given to juniors and seniors in fall quarter, preference given to sophomores in winter quarter. Prerequisite: BIO 41. Lab fee. Information about this class is available at http://bio44.stanford.edu.
BIO 44Y. Core Plant Biology & Eco Evo Laboratory. 5 Units.
The goal of this course is to develop an understanding of how to conduct biological research, using a topic in Ecology, Evolutionary Biology, and Plant Biology as a practical example. This includes the complete scientific process: assessing background literature, generating testable hypotheses, learning techniques for field- and lab-based data collection, analyzing data using appropriate statistical methods, and finally writing and sharing results. To build these skills, this course will focus on communities of microorganisms living in floral nectar at Stanford's nearby Jasper Ridge Biological Preserve. Students, working in teams, will develop novel research hypotheses and execute the necessary experiments and measurements to test these hypotheses. The capstone of the course will be an oral defense of students' findings, as well as a research paper in the style of a peer-reviewed journal article. Labs will be completed both on campus and at Jasper Ridge. Lab fee. Information about this class is available at http://bio44.stanford.edu. Satisfies WIM in Biology.
BIO 54SI. Aberrant Immune Responses: Allergy, Asthma, and Autoimmunity. 1 Unit.
This is a discussion-based course for advanced undergraduate and graduate students. Its purpose is to introduce students to a basic understanding of diseases involving overactive immune responses and immune responses directed against the host. Lectures may include a history of the disease, etiology, epidemiology, current and future treatments, and relevant research. This class will emphasize key scientific discoveries in molecular and cellular biology that have benefited our understanding and treatment of these diseases.
BIO 101. Ecology. 4 Units.
The principles of ecology. Topics: interactions of organisms with their environment, dynamics of populations, species interactions, structure and dynamics of ecological communities, biodiversity. Half-day field trip required. Satisfies Central Menu Area 4. Prerequisite: 43, or consent of instructor. Recommended: statistics.
BIO 104. Advanced Molecular Biology. 5 Units.
Molecular mechanisms that govern the replication, recombination, and expression of eukaryotic genomes. Topics: DNA replication, DNA recombination, gene transcription, RNA splicing, regulation of gene expression, protein synthesis, and protein folding. Satisfies Central Menu Area 1. Prerequisite: Biology core.
Same as: BIO 200
BIO 105A. Ecology and Natural History of Jasper Ridge Biological Preserve. 4 Units.
Formerly 96A - Jasper Ridge Docent Training. First of two-quarter sequence training program to join the Jasper Ridge education/docent program. The scientific basis of ecological research in the context of a field station, hands-on field research, field ecology and the natural history of plants and animals, species interactions, archaeology, geology, hydrology, land management, multidisciplinary environmental education; and research projects, as well as management challenges of the preserve presented by faculty, local experts, and staff. Participants lead research-focused educational tours, assist with classes and research, and attend continuing education classes available to members of the JRBP community after the course.
Same as: EARTHSYS 105A
BIO 105B. Ecology and Natural History of Jasper Ridge Biological Preserve. 4 Units.
Formerly 96B - Jasper Ridge Docent Training. First of two-quarter sequence training program to join the Jasper Ridge education/docent program. The scientific basis of ecological research in the context of a field station, hands-on field research, field ecology and the natural history of plants and animals, species interactions, archaeology, geology, hydrology, land management, multidisciplinary environmental education; and research projects, as well as management challenges of the preserve presented by faculty, local experts, and staff. Participants lead research-focused educational tours, assist with classes and research, and attend continuing education classes available to members of the JRBP community after the course.
Same as: EARTHSYS 105B
BIO 107. Human Physiology Laboratory. 4 Units.
This laboratory course is active and inquiry based. Aspects of exercise and temperature are explored; however, the specific questions the class tackles differ each quarter. Samples of past questions: Does lactic acid accumulation correlate with exercise fatigue at different exercise and body temperatures? Does palm cooling during exercise mitigate the effect of body temperature on fatigue with or without evaporative cooling? Students participate both as experimenters and as subjects of the experiments in two-person teams. Participants must be in good physical condition, though not necessarily ¿athletes,¿ and must be willing to participate in strenuous exercise routines under adverse environmental conditions. Varsity athletes concurrently participating in a spring sport must consult the instructor before applying. Discussion sessions include student presentations of journal articles, data analyses, and feedback on individual WIM research proposals. By application only, see ¿sites.stanford.edu/bio107¿ for the application form. Prerequisite: BIO 42 or HUMBIO 4A. Satisfies WIM for Biology.
Same as: HUMBIO 136
BIO 108. Essential Statistics for Human Biology. 4 Units.
Introduction to statistical concepts and methods that are essential to the study of questions in biology, environment, health, epidemiology and related areas. The course will teach and use the computer language R. Topics include distributions, probabilities, likelihood, linear models; illustrations will be based on recent research.
Same as: HUMBIO 85A
BIO 109A. The Human Genome and Disease. 3 Units.
The variability of the human genome and the role of genomic information in research, drug discovery, and human health. Concepts and interpretations of genomic markers in medical research and real life applications. Human genomes in diverse populations. Original contributions from thought leaders in academia and industry and interaction between students and guest lecturers. Students with a major, minor or coterm in Biology: 109A/209A or 109B/209B may count toward degree program but not both.
Same as: BIOC 109A, BIOC 209A, HUMBIO 158
BIO 109B. The Human Genome and Disease: Genetic Diversity and Personalized Medicine. 3 Units.
Continuation of 109A/209A. Genetic drift: the path of human predecessors out of Africa to Europe and then either through Asia to Australia or through northern Russia to Alaska down to the W. Coast of the Americas. Support for this idea through the histocompatibility genes and genetic sequences that predispose people to diseases. Guest lectures from academia and pharmaceutical companies. Prerequisite: Biology or Human Biology core. Students with a major, minor or coterm in Biology: 109A/209A or 109B/209B may count toward degree program but not both.
Same as: BIOC 109B
BIO 110. Chromatin Regulation of the Genome. 3 Units.
Maintenance of the genome is a prerequisite for life. In eukaryotes, all DNA-templated processes are tightly connected to chromatin structure and function. This course will explore epigenetic and chromatin regulation of cellular processes related to aging, cancer, stem cell pluripotency, metabolic homeostasis, and development. Course material integrates current literature with a foundational review of histone modifications and nucleosome composition in epigenetic inheritance, transcription, replication, cell division and DNA damage responses.
Same as: BIO 210
BIO 112. Human Physiology. 4 Units.
Human physiology will be examined by organ systems: cardiovascular, respiratory, renal, gastrointestinal and endocrine. Molecular and cell biology and signaling principles that underlie organ development, pathophysiology and opportunities for regenerative medicine are discussed, as well as integrative control mechanisms and fetal development. Prerequisite: Biology or Human Biology core.
Same as: HUMBIO 133
BIO 113. Fundamentals of Molecular Evolution. 4 Units.
The inference of key molecular evolutionary processes from DNA and protein sequences. Topics include random genetic drift, coalescent models, effects and tests of natural selection, combined effects of linkage and natural selection, codon bias and genome evolution. Satisfies Central Menu Areas 1 or 4. Prerequisites: Biology core or graduate standing in any department, and consent of instructor.
Same as: BIO 244
BIO 115. The hidden kingdom - evolution, ecology and diversity of fungi. 4 Units.
Fungi are critical, yet often hidden, components of the biosphere. They regulate decomposition, are primary partners in plant symbiosis and strongly impact agriculture and economics. Students will explore the fascinating world of fungal biology, ecology and evolution via lecture, lab, field exercises and Saturday field trips that will provide traditional and molecular experiences in the collection, analysis and industrial use of diverse fungi. Students will chose an environmental niche, collect and identify resident fungi, and hypothesize about their community relationship. Prerequisite: BIO 43 recommended.
BIO 116. Ecology of the Hawaiian Islands. 4 Units.
Terrestrial and marine ecology and conservation biology of the Hawaiian Archipelago. Taught in the field in Hawaii as part of quarter-long sequence of courses including Earth Sciences and Anthropology. Topics include ecological succession, plant-soil interactions, conservation biology, biological invasions and ecosystem consequences, and coral reef ecology. Restricted to students accepted into the Earth Systems of Hawaii Program.
Same as: EARTHSYS 116
BIO 117. Biology and Global Change. 4 Units.
The biological causes and consequences of anthropogenic and natural changes in the atmosphere, oceans, and terrestrial and freshwater ecosystems. Topics: glacial cycles and marine circulation, greenhouse gases and climate change, tropical deforestation and species extinctions, and human population growth and resource use. Prerequisite: Biology or Human Biology core or graduate standing.
Same as: EARTHSYS 111, ESS 111
BIO 118. Genetic Analysis of Biological Processes. 4 Units.
Focus is on using mutations and genetic analysis to study biological and medical questions. The first portion of the course covers how the identification and analysis of mutations can be used in model systems to investigate biological processes such as development and metabolism. In the second portion of the course, we focus on the use of existing genetic variation in humans and other species to identify disease-associated genes as well as to investigate variation in morphological traits such as body size and shape.
BIO 120. Bacteria in Health and Disease. 3 Units.
Enrollment limited to junior and senior undergraduates, graduate students and medical students. Introduces students to the bacteria that live in and on humans and, in some cases, can cause disease and sometimes death. Topics include the biology of the interaction of the simple microbe with complex human biology and the factors that determine whether or not we coexist relatively peacefully, suffer from overt disease, or succumb to the bacterial onslaught.
Same as: MI 120
BIO 121. Biogeography. 3 Units.
Global distributions of organisms through the Phanerozoic, with emphasis on historical causes. Topics: plate tectonics, island biogeography, climatic change, dispersal, vicariance, ecology of invasions, extinction, gradients, diversity. Satisfies Central Menu Area 4.
BIO 123A. Cell and Developmental Biology I. 4 Units.
This is the first of a two course series that explores organizing principles of development at the cellular and tissue level. Students will learn the mechanisms by which cells polarize, interact with each other and their environment, divide, and generate force and movement and how these processes are utilized during the development of multicellular organisms. The course will also cover how cells communicate to pattern cell specification and morphogenesis during tissue and organ formation and during stem cell regulated homeostasis.
BIO 123B. Cell and Developmental Biology II. 4 Units.
This is the second of a two course series that explores organizing principles of development at the molecular, cellular and tissue level. Students will learn the biochemical and cellular mechanisms by which cells shape and interpret development signals in order to accomplish important developmental tasks such as directed cell movement, regulated growth of organs and tissues, and the establishment of cell-type specific gene expression. Emphasis will be placed on experimental logic and methods with discussions of primary research papers. Prerequisite: Enrollment in BIO 123B requires completion of BIO 123A.
BIO 126. Introduction to Biophysics. 3-4 Units.
Core course appropriate for advanced undergraduate students and graduate students with prior knowledge of calculus and a college physics course. Introduction to how physical principles offer insights into modern biology, with regard to the structural, dynamical, and functional organization of biological systems. Topics include the roles of free energy, diffusion, electromotive forces, non-equilibrium dynamics, and information in fundamental biological processes.
Same as: APPPHYS 205, BIO 226
BIO 127. From Generation to Generation: Scientific and Cultural Approaches to Jewish Genetics. 1 Unit.
This series of guest lectures aims to explore the connections between genetics and Jewish Studies. How do different Jewish populations relate to each other? To what extent are Jewish populations of the present descended from those of the past? What are the causes of diseases that occur disproportionately in Jewish populations? These and other questions will be addressed in a program that crosses the boundaries between science and Jewish Studies, culture and biology.
BIO 128. Geographic Impacts of Global Change: Mapping the Stories. 4 Units.
Forces of global change (eg., climate disruption, biodiversity loss, disease) impart wide-ranging political, socioeconomic, and ecological impacts, creating an urgent need for science communication. Students will collect data for a region of the US using sources ranging from academic journals to popular media and create an interactive Story Map (http://stanford.maps.arcgis.com/apps/StorytellingTextLegend/index.html?appid=dafe2393fd2e4acc8b0a4e6e71d0b6d5) that merges the scientific and human dimensions of global change. Students will interview stakeholders as part of a community-engaged learning experience and present the Map to national policy-makers. Our 2014 Map is being used by the CA Office of Planning & Research.
Same as: EARTHSYS 129
BIO 129A. Cellular Dynamics I: Cell Motility and Adhesion. 4 Units.
Cell motility emphasizing role of actin assembly and dynamics coupling actin organization to cell movement. Interaction of cells with extracellular matrix, and remodelling of extracellular matrix in development and disease. Directed cell migration by chemotaxis (neuronal path-finding, immune cells). Cell-cell adhesion, formation of intercellular junctions and mechanisms regulating cell-cell interactions in development and diseases. Emphasis is on experimental logic, methods, problem solving, and interpretation of results. Students present research papers. Satisfies Central Menu Area 2. Prerequisite: Biology core.
BIO 129B. Cellular Dynamics II: Building a Cell. 4 Units.
Principles of cell organization; how common biochemical pathways are modified to generate diversity in cell structure and function. Roles of actin and microtubule cytoskeletons in cellular architecture. Mechanisms of protein sorting and trafficking, and protein modules and switches in regulating cell polarity. Yeast to polarized epithelial cells and neurons. Emphasis is on experimental logic, methods, problem solving, and interpretation of results. Students present research papers. Satisfies Central Menu Area 2. Prerequisite: Biology core. Recommended: 129A.
BIO 131. Complex Systems Lab. 1 Unit.
Applications of complex systems will be explored in thisnseminar through lectures, discussions, and a class project. Lecture topicsninclude a discussion of chaos in weather modeling and aircraft turbulence,napplication of network science to understand Ebola and the ALS ice bucketnchallenge, and self-organized processes such as crowd dynamics andnWikipedia. The first half of the course will emphasize complex systemsnapplications. Students will apply complex systems analysis techniques tontheir personal research, a current event, or repeat a classic complexnsystems experiment. Projects can include topics such as calculating thenfractal dimension of a forest, simulating crowd dynamics, studying thendegree distribution of social networks, or making a Van der Pol oscillator.nGraduate student led seminar. Can be repeated for credit.
BIO 132. Advanced Imaging Lab in Biophysics. 4 Units.
Laboratory and lectures. Advanced microscopy and imaging, emphasizing hands-on experience with state-of-the-art techniques. Students construct and operate working apparatus. Topics include microscope optics, Koehler illumination, contrast-generating mechanisms (bright/dark field, fluorescence, phase contrast, differential interference contrast), and resolution limits. Laboratory topics vary by year, but include single-molecule fluorescence, fluorescence resonance energy transfer, confocal microscopy, two-photon microscopy, microendoscopy, and optical trapping. Limited enrollment. Recommended: basic physics, Biology core or equivalent, and consent of instructor.
Same as: APPPHYS 232, BIO 232, BIOPHYS 232, GENE 232
BIO 136. Evolutionary Paleobiology. 4 Units.
A paleontological approach to evolutionary theory. Topics: history of life, speciation, heterochrony, evolutionary constraint, coevolution, macroevolution, the Cambrian Explosion, mass extinctions, taphonomy, life on land, life in the sea, life in the air. Satisfies Central Menu Area 4. Prerequisite: Biology Core.
BIO 137. Plant Genetics. 3-4 Units.
Gene analysis, mutagenesis, transposable elements; developmental genetics of flowering and embryo development; biochemical genetics of plant metabolism; scientific and societal lessons from transgenic plants. Satisfies Central Menu Area 2. Prerequisite: Biology core or consent of instructor. Satisfies WIM in Biology.
BIO 138. Ecosystem Services: Frontiers in the Science of Valuing Nature. 3 Units.
This advanced course explores the science of valuing nature, beginning with its historical origins, and then its recent development in natural (especially ecological), economic, psychological, and other social sciences. We will use the ecosystem services framework (characterizing benefits from ecosystems to people) to define the state of knowledge, core methods of analysis, and research frontiers, such as at the interface with biodiversity, resilience, human health, and human development. Intended for diverse students, with a focus on research and real-world cases. To apply, please email the instructor (gdaily@stanford.edu) with a brief description of your background and research interests.
Same as: BIO 238
BIO 141. Biostatistics. 3-5 Units.
Introductory statistical methods for biological data: describing data (numerical and graphical summaries); introduction to probability; and statistical inference (hypothesis tests and confidence intervals). Intermediate statistical methods: comparing groups (analysis of variance); analyzing associations (linear and logistic regression); and methods for categorical data (contingency tables and odds ratio). Course content integrated with statistical computing in R.
Same as: STATS 141
BIO 143. Evolution. 3 Units.
Principles of evolution. Adaptation and natural selection. Darwin and the history of evolutionary thought. Population genetics, including genetic variation and mutation, and effects of migration, drift, linkage, and recombination. Evolutionary phenomena: developmental evolution, life history evolution, molecular evolution, sexual selection, social evolution, and speciation. Pattern and process in biological diversity. Case studies, including human evolution. Satisfies central menu area 4, ecology & evolution.
BIO 144. Conservation Biology: A Latin American Perspective. 3 Units.
Principles and application of the science of preserving biological diversity. Conceptually, this course is designed to explore 4 major components relevant to the conservation of biodiversity, as exemplified by the Latin American region. The conceptual frameworks and principles, however, should be generally applicable, and provide insights for all regions of the world, including those of lesser biodiversity. Satisfies Central Menu Area 4 for Bio majors. Prerequisite: BIO 101, or BIO 43 or HUMBIO 2A with consent of instructor. Graduate level students will be expected to conduct a literature research exercise leading to a written paper, addressing a topic of their choosing, derived from any of the themes discussed in class.
Same as: BIO 234, HUMBIO 112
BIO 145. Ecology and evolution of animal behavior. 3 Units.
Ecological and evolutionary perspectives on animal behavior, with an emphasis on social and collective behavior. This is a project-based course in a lecture/seminar format. Seminars will be based on discussion of journal articles. Independent research projects on the behavior of animals on campus. Prerequisites: Biology or Human Biology core, Biology/ES 30. Recommended: statistics.
Same as: BIO 245
BIO 146. Population Studies. 1 Unit.
Series of talks by distinguished speakers introducing approaches to population and resource studies.
BIO 149. The Neurobiology of Sleep. 4 Units.
Preference to seniors and graduate students. The neurochemistry and neurophysiology of changes in brain activity and conscious awareness associated with changes in the sleep/wake state. Behavioral and neurobiological phenomena including sleep regulation, sleep homeostasis, circadian rhythms, sleep disorders, sleep function, and the molecular biology of sleep. Enrollment limited to 16.
Same as: BIO 249, HUMBIO 161
BIO 150. Human Behavioral Biology. 5 Units.
Multidisciplinary. How to approach complex normal and abnormal behaviors through biology. How to integrate disciplines including sociobiology, ethology, neuroscience, and endocrinology to examine behaviors such as aggression, sexual behavior, language use, and mental illness.
Same as: HUMBIO 160
BIO 151. Mechanisms of Neuron Death. 3 Units.
For Biology majors with background in neuroscience. Cell and molecular biology of neuron death during neurological disease. Topics: the amyloid diseases (Alzheimer's), prion diseases (kuru and Creutzfeldt-Jakob), oxygen radical diseases (Parkinson's and ALS), triplet repeat diseases (Huntington's), and AIDS-related dementia. Student presentations. Enrollment limited to 15; application required.
BIO 152. Imaging: Biological Light Microscopy. 3 Units.
Survey of instruments which use light and other radiation for analysis of cells in biological and medical research. Topics: basic light microscopy through confocal fluorescence and video/digital image processing. Lectures on physical principles; involves partial assembly and extensive use of lab instruments. Lab. Prerequisites: some college physics, Biology core.
Same as: MCP 222
BIO 153. Cellular Neuroscience: Cell Signaling and Behavior. 4 Units.
Neural interactions underlying behavior. Prerequisites: PSYCH 1 or basic biology.
Same as: PSYCH 120
BIO 154. Molecular and Cellular Neurobiology. 4 Units.
For advanced undergraduate students. Cellular and molecular mechanisms in the organization and functions of the nervous system. Topics: wiring of the neuronal circuit, synapse structure and synaptic transmission, signal transduction in the nervous system, sensory systems, molecular basis of behavior including learning and memory, molecular pathogenesis of neurological diseases. Satisfies Central Menu Areas 2 or 3 for Bio majors. Prerequisite for undergraduates: Biology core or equivalent, or consent of instructors.
BIO 156. Epigenetics. 2 Units.
Epigenetics is the process by which phenotypes not determined by the DNA sequence are stably inherited in successive cell divisions. Course will cover the molecular mechanisms governing epigenetics, ranging from the discovery of epigenetic phenomena to present-day studies on the role of chromatin, DNA methylation, and RNA in regulating epigenetics processes. Topics include: position effect gene expression, genome regulation, gene silencing & heterochromatin, histone code, DNA methylation & imprinting, epigenetics & disease, and epigenetic-based therapeutics. Prerequisite: BIO41 and BIO42 or consent of instructor, advanced biology course such as Bio104.
Same as: BIO 256
BIO 157. Biochemistry and Molecular Biology of Plants. 3-4 Units.
Biochemical and molecular basis of plant growth and adaptation. Topics include: hormone signal transduction; photoreceptor chemistry and signaling; metabolite sensing and transport; dynamics of photosynthesis; plant innate immunity and symbiosis. Lectures and readings will emphasize research methods. Prerequisite: Biology core or equivalent, or consent of instructor.
Same as: BIO 257
BIO 158. Developmental Neurobiology. 4 Units.
For advanced undergraduates and coterminal students. The principles of nervous system development from the molecular control of patterning, cell-cell interactions, and trophic factors to the level of neural systems and the role of experience in influencing brain structure and function. Topics: neural induction and patterning cell lineage, neurogenesis, neuronal migration, axonal pathfinding, synapse elimination, the role of activity, critical periods, and the development of behavior. Satisfies Central Menu Areas 2 or 3. Prerequisite: BIO 42 or equivalent.
Same as: BIO 258
BIO 163. Neural Systems and Behavior. 4 Units.
The field of neuroethology and its vertebrate and invertebrate model systems. Research-oriented. Readings include reviews and original papers. How animal brains compare; how neural circuits are adapted to species-typical behavior; and how the sensory worlds of different species represent the world. Lectures and required discussions. Satisfies Central Menu Area 3 for Bio majors. Prerequisites: BIO 42, HUMBIO 4A.
Same as: BIO 263, HUMBIO 163
BIO 165. Molecular and Cellular Mechanisms of Neurological Disease. 1 Unit.
Current topics in research and investigative therapies of neurological disorders, including epilepsy, OCD, Alzheimer's disease, stroke and multiple sclerosis. Analysis and discussion of primary research papers as well as sources directed at general public. Emphasis on critical thinking, experimental design, therapeutic approaches. Guest lecturers include Dr. Lawrence Steinman and Dr. Gary Steinberg.".
BIO 168. Explorations in Stem Cell Biology. 3 Units.
A discussion-based course for advanced undergraduates. The purpose of this course is to introduce students to key topics in stem cell biology and foster the development of strong scientific writing skills. We will review and discuss some landmark and current primary literature in the stem cell field. Topics will include embryonic and adult stem cells, cellular reprogramming and stem cells in disease and regenerative medicine. Students will present a current research paper in their preferred stem cell topic area and compose a novel research proposal. Prerequisites: Biology or Human Biology core. Satisfies WIM in Biology.
BIO 173. Chemical Biology. 3 Units.
Chemical biology is an integrative discipline that seeks to apply chemical tools and approaches to understand biology. This course will introduce students to various methods and approaches used in this field, with an emphasis on the use of natural products and synthetic small molecules as probes of biological function. Specific examples will be used to illustrate the ramifications of chemical biology with molecular, cell and developmental biology. The interaction between disease and drug discovery will be considered in detail. Prerequisites: Completion of BioCore (BIO 41, 42, 43). Enrollment by application only.
BIO 174. Human Skeletal Anatomy. 5 Units.
Study of the human skeleton (a. k. a. human osteology), as it bears on other disciplines, including medicine, forensics, archaeology, and paleoanthropology (human evolution). Basic bone biology, anatomy, and development, emphasizing hands-on examination and identification of human skeletal parts, their implications for determining an individual¿s age, sex, geographic origin, and health status, and for the evolutionary history of our species. Three hours of lecture and at least three hours of supervised and independent study in the lab each week.
Same as: ANTHRO 175, ANTHRO 275, BIO 274, HUMBIO 180
BIO 177. Plant Microbe Interaction. 3 Units.
Molecular basis of plant symbiosis and pathogenesis. Topics include mechanisms of recognition and signaling between microbes and plant hosts, with examples such as the role of small molecules, secreted peptides, and signal transduction pathways in symbiotic or pathogenic interactions. Readings include landmark papers together with readings in the contemporary literature. Prerequisites: Biology core and two or more upper division courses in genetics, molecular biology, or biochemistry. Recommended: plant genetics or plant biochemistry.
Same as: BIO 277
BIO 178. Microbiology Literature. 3 Units.
For advanced undergraduates and first-year graduate students. Critical reading of the research literature in prokaryotic genetics and molecular biology, with particular applications to the study of major human pathogens. Classic and foundational papers in pathogenesis, genetics, and molecular biology; recent literature on bacterial pathogens such as Salmonella, Vibrio, and/or Yersinia. Diverse experimental approaches: biochemistry, genomics, pathogenesis, and cell biology. Prerequisites: Biology Core and two upper-division courses in genetics, molecular biology, or biochemistry.
Same as: BIO 278
BIO 180. Microbial Physiology. 3 Units.
Introduction to the physiology of microbes including cellular structure, transcription and translation, growth and metabolism, mechanisms for stress resistance and the formation of microbial communities. These topics will be covered in relation to the evolution of early life on Earth, ancient ecosystems, and the interpretation of the rock record. Recommended: introductory biology and chemistry.
Same as: EARTHSYS 255, ESS 255, GS 233A
BIO 181. Human Genetic Variation. 3 Units.
The geographic distribution of human genetic variation; the genetic perspective on ancient and recent human migrations; quantitative methods for inference of human evolutionary history from patterns of genetic variation. Connections of human genetic variation to current topics such as ancestry testing, DNA forensics, and identification of disease genes. Prerequisites; Bio or HumBio core, calculus.
BIO 182. Modeling Cultural Evolution. 3 Units.
Seminar. Quantitative models for the evolution of socially transmitted traits. Rates of change of learned traits in populations and patterns of cultural diversity as a function of innovation and cultural transmission. Learning in constant and changing environments. Possible avenues for gene-culture coevolution.
Same as: BIO 282
BIO 183. Theoretical Population Genetics. 3 Units.
Models in population genetics and evolution. Selection, random drift, gene linkage, migration, and inbreeding, and their influence on the evolution of gene frequencies and chromosome structure. Models are related to DNA sequence evolution. Prerequisites: calculus and linear algebra, or consent of instructor.
Same as: BIO 283
BIO 186. Natural History of the Vertebrates. 4 Units.
Broad survey of the diversity of vertebrate life. Discussion of the major branches of the vertebrate evolutionary tree, with emphasis on evolutionary relationships and key adaptations as revealed by the fossil record and modern phylogenetics. Modern orders introduced through an emphasis on natural history, physiology, behavioral ecology, community ecology, and conservation. Lab sessions focused on comparative skeletal morphology through hands-on work with skeletal specimens. Discussion of field methods and experience with our local vertebrate communities through field trips to several of California¿s distinct biomes. Prerequisite: Biology core.
Same as: BIO 286
BIO 188. Biochemistry I. 3 Units.
Structure and function of major classes of biomolecules, including proteins, carbohydrates and lipids. Mechanistic analysis of properties of proteins including catalysis, signal transduction and membrane transport. Students will also learn to critically analyze data from the primary biochemical literature. Satisfies Central Menu Area 1 for Bio majors. (CHEMENG offerings formerly listed as 188/288.) Prerequisites: CHEM 33, 35, 131, and 135 or 171.
Same as: CHEM 181, CHEMENG 181, CHEMENG 281
BIO 189. Biochemistry II. 3 Units.
Focus on metabolic biochemistry: the study of chemical reactions that provide the cell with the energy and raw materials necessary for life. Topics include glycolysis, gluconeogenesis, the citric acid cycle, oxidative phosphorylation, photosynthesis, the pentose phosphate pathway, and the metabolism of glycogen, fatty acids, amino acids, and nucleotides as well as the macromolecular machines that synthesize RNA, DNA, and proteins. Medical relevance is emphasized throughout. Satisfies Central Menu Area 1 for Bio majors. Prerequisite: BIO 188/288 or CHEM 181 or CHEMENG 181/281 (formerly 188/288).
Same as: CHEM 183, CHEMENG 183, CHEMENG 283
BIO 196A. Biology Senior Reflection. 3 Units.
Capstone course series for seniors. Creative, self-reflective and scientifically relevant projects conceived, produced and exhibited over the course of three quarters. Explore scientific content of personal interest through creative forms including but not limited to writing, music, fine arts, performing arts, photography, film or new media. A written essay on the creative process and scientific significance of the selected topic will accompany the creative work. Completed projects may be included in a creative portfolio. Required enrollment in 196A,B,C. Satisfies WIM in Biology.
BIO 196B. Biology Senior Reflection. 3 Units.
Capstone course series for seniors. Creative, self-reflective and scientifically relevant projects conceived, produced and exhibited over the course of three quarters. Explore scientific content of personal interest through creative forms including but not limited to writing, music, fine arts, performing arts, photography, film or new media. A written essay on the creative process and scientific significance of the selected topic will accompany the creative work. Completed projects may be included in a creative portfolio. Required enrollment in 196A,B,C.
BIO 196C. Biology Senior Reflection. 3 Units.
Capstone course series for seniors. Creative, self-reflective and scientifically relevant projects conceived, produced and exhibited over the course of three quarters. Explore scientific content of personal interest through creative forms including but not limited to writing, music, fine arts, performing arts, photography, film or new media. A written essay on the creative process and scientific significance of the selected topic will accompany the creative work. Completed projects may be included in a creative portfolio. Required enrollment in 196A,B,C.
BIO 197WA. Senior Writing Project: The Personal Essay in Biology. 3 Units.
Seminar focused on writing. Compose, workshop and revise scientifically relevant and personal essays in biology directed at a mainstream audience, interweaving research, interview, memoir, and other elements of nonfiction craft. Satisfies WIM in Biology.
BIO 198. Directed Reading in Biology. 1-15 Unit.
Individually arranged under the supervision of members of the faculty.
BIO 198X. Out-of-Department Directed Reading. 1-15 Unit.
Individually arranged under the supervision of members of the faculty. Credit for work arranged with out-of-department faculty is restricted to Biology majors and requires department approval. See http://biohonors.stanford.edu for information and petitions. May be repeated for credit.
BIO 199. Advanced Research Laboratory in Experimental Biology. 1-15 Unit.
Individual research taken by arrangement with in-department instructors. See http://biohonors.stanford.edu for information on research sponsors, units, and credit for summer research. May be repeated for credit.
BIO 199W. Senior Honors Thesis: How to Effectively Write About Scientific Research. 3 Units.
Workshop. For seniors pursuing an honors thesis in a biology-focused major or program. Focus on improving scientific writing and synthesizing in the context of students' individual research projects. Complete literature review which will form the basis for the thesis introduction. Develop methods section of the thesis. Small seminar-style discussion sections with research-based discussions, student led PowerPoint presentations, and writing workshops. Co-requisite: Concurrent enrollment in 199 or 199X or equivalent. Satisfies WIM in Biology.
BIO 199X. Out-of-Department Advanced Research Laboratory in Experimental Biology. 1-15 Unit.
Individual research by arrangement with out-of-department instructors. Credit for 199X is restricted to declared Biology majors and requires department approval. See http://biohonors.stanford.edu for information on research sponsors, units, petitions, deadlines, credit for summer research, and out-of-Stanford research. May be repeated for credit.
BIO 200. Advanced Molecular Biology. 5 Units.
Molecular mechanisms that govern the replication, recombination, and expression of eukaryotic genomes. Topics: DNA replication, DNA recombination, gene transcription, RNA splicing, regulation of gene expression, protein synthesis, and protein folding. Satisfies Central Menu Area 1. Prerequisite: Biology core.
Same as: BIO 104
BIO 202. Ecological Statistics. 3 Units.
Intended for graduate students (and advanced undergraduates in special circumstances with consent of instructors) in biology and related environmental sciences, this course is an introduction to statistical methods for ecological data analysis, using the programming language R. The course will have lectures, discussions, and independent research projects using the students¿ own data or simulated or publicly available data.
BIO 204. Neuroplasticity: From Synapses to Behavior. 3 Units.
This course will focus on neuroplasticity from a broad perspective, from molecular cellular mechanism to its involvement in behavior and diseases. Emphasis will be on: a) molecular and cellular mechanisms underlying various forms of neuroplasticity; b) the neuroplasticity during brain development; c) the neuroplasticity in adult brain with respect to learning and memory; and d) maladaptive neuroplasticity in neurodegenerative disease and drug addiction. This course is designed for Ph.D. students from both the Biology and Neuroscience programs. Open to advanced undergraduates by consent of instructor.
BIO 208. Spanish in Science/Science in Spanish. 2 Units.
For graduate and undergraduate students interested in the natural sciences and the Spanish language. Students will acquire the ability to communicate in Spanish using scientific language and will enhance their ability to read scientific literature written in Spanish. Emphasis on the development of science in Spanish-speaking countries or regions. Course is conducted in Spanish and intended for students pursuing degrees in the sciences, particularly disciplines such as ecology, environmental science, sustainability, resource management, anthropology, and archeology.
Same as: EARTHSYS 207, LATINAM 207
BIO 210. Chromatin Regulation of the Genome. 3 Units.
Maintenance of the genome is a prerequisite for life. In eukaryotes, all DNA-templated processes are tightly connected to chromatin structure and function. This course will explore epigenetic and chromatin regulation of cellular processes related to aging, cancer, stem cell pluripotency, metabolic homeostasis, and development. Course material integrates current literature with a foundational review of histone modifications and nucleosome composition in epigenetic inheritance, transcription, replication, cell division and DNA damage responses.
Same as: BIO 110
BIO 214. Advanced Cell Biology. 4 Units.
For Ph.D. students. Current research on cell structure, function, and dynamics. Topics include complex cell phenomena such as cell division, apoptosis, compartmentalization, transport and trafficking, motility and adhesion, and differentiation. Weekly reading of current papers from the primary literature. Preparation of an original research proposal. Prerequisite for advanced undergraduates: BIO 129A,B, and consent of instructor.
Same as: BIOC 224, MCP 221
BIO 216. Terrestrial Biogeochemistry. 3 Units.
Nutrient cycling and the regulation of primary and secondary production in terrestrial, freshwater, and marine ecosystems; land-water and biosphere-atmosphere interactions; global element cycles and their regulation; human effects on biogeochemical cycles. Prerequisite: graduate standing in science or engineering; consent of instructor for undergraduates or coterminal students.
Same as: ESS 216
BIO 217. Neuronal Biophysics. 4 Units.
Biophysical descriptions and mechanisms of passive and excitable membranes, ion channels and pumps, action potential propagation, and synaptic transmission. Introduction to dynamics of single neurons and neuronal networks. Emphasis is on the experimental basis for modern research applications. Interdisciplinary aspects of biology and physics. Literature, problem sets, and student presentations. Prerequisites: undergraduate physics, calculus, and biology.
BIO 222. Exploring Neural Circuits. 3 Units.
Seminar. The logic of how neural circuits control behavior; how neural circuits are assembled during development and modified by experience. Emphasis is on primary literature. Topics include: neurons as information processing units; simple and complex circuits underlying sensory information processing and motor control; and development and plasticity of neural circuits. Advanced undergraduates and graduate students with background in physical science, engineering, and biology may apply to enroll. Recommended: background in neuroscience.
BIO 226. Introduction to Biophysics. 3-4 Units.
Core course appropriate for advanced undergraduate students and graduate students with prior knowledge of calculus and a college physics course. Introduction to how physical principles offer insights into modern biology, with regard to the structural, dynamical, and functional organization of biological systems. Topics include the roles of free energy, diffusion, electromotive forces, non-equilibrium dynamics, and information in fundamental biological processes.
Same as: APPPHYS 205, BIO 126
BIO 227. Foundations of Community Ecology. 2 Units.
Discussion of classic papers in community ecology (Forbes, Clements, Gleason, Grinnell, Lindeman, Preston, Elton, Hutchinson, May, MacArthur, Odum, Connell, Paine, Tilman, etc.) and contemporary papers on related topics, to develop historical perspectives to understand current issues and identify future directions. Prerequisite for undergraduates: consent of instructor.
BIO 230. Molecular and Cellular Immunology. 4 Units.
Components of the immune system and their functions in immune responses in health and disease: development of the immune system; innate and adaptive immunity; structure and function of antibodies; molecular biology and biochemistry of antigen receptors and signaling pathways; cellular basis of immune responses and their regulation; genetic control of immune responses and disease susceptibility. Lectures and discussion in class and in sections. Satisfies Central Menu Areas 1 or 2. For upper class undergraduates and graduate students who have not previously taken an introductory immunology course. Prerequisite for undergraduates: Biology or Human Biology core, or consent of instructor.
BIO 230A. Molecular and Cellular Immunology Literature Review. 1 Unit.
Special discussion section for graduate students. Supplement to 230. Corequisite: 230.
BIO 232. Advanced Imaging Lab in Biophysics. 4 Units.
Laboratory and lectures. Advanced microscopy and imaging, emphasizing hands-on experience with state-of-the-art techniques. Students construct and operate working apparatus. Topics include microscope optics, Koehler illumination, contrast-generating mechanisms (bright/dark field, fluorescence, phase contrast, differential interference contrast), and resolution limits. Laboratory topics vary by year, but include single-molecule fluorescence, fluorescence resonance energy transfer, confocal microscopy, two-photon microscopy, microendoscopy, and optical trapping. Limited enrollment. Recommended: basic physics, Biology core or equivalent, and consent of instructor.
Same as: APPPHYS 232, BIO 132, BIOPHYS 232, GENE 232
BIO 234. Conservation Biology: A Latin American Perspective. 3 Units.
Principles and application of the science of preserving biological diversity. Conceptually, this course is designed to explore 4 major components relevant to the conservation of biodiversity, as exemplified by the Latin American region. The conceptual frameworks and principles, however, should be generally applicable, and provide insights for all regions of the world, including those of lesser biodiversity. Satisfies Central Menu Area 4 for Bio majors. Prerequisite: BIO 101, or BIO 43 or HUMBIO 2A with consent of instructor. Graduate level students will be expected to conduct a literature research exercise leading to a written paper, addressing a topic of their choosing, derived from any of the themes discussed in class.
Same as: BIO 144, HUMBIO 112
BIO 238. Ecosystem Services: Frontiers in the Science of Valuing Nature. 3 Units.
This advanced course explores the science of valuing nature, beginning with its historical origins, and then its recent development in natural (especially ecological), economic, psychological, and other social sciences. We will use the ecosystem services framework (characterizing benefits from ecosystems to people) to define the state of knowledge, core methods of analysis, and research frontiers, such as at the interface with biodiversity, resilience, human health, and human development. Intended for diverse students, with a focus on research and real-world cases. To apply, please email the instructor (gdaily@stanford.edu) with a brief description of your background and research interests.
Same as: BIO 138
BIO 244. Fundamentals of Molecular Evolution. 4 Units.
The inference of key molecular evolutionary processes from DNA and protein sequences. Topics include random genetic drift, coalescent models, effects and tests of natural selection, combined effects of linkage and natural selection, codon bias and genome evolution. Satisfies Central Menu Areas 1 or 4. Prerequisites: Biology core or graduate standing in any department, and consent of instructor.
Same as: BIO 113
BIO 245. Ecology and evolution of animal behavior. 3 Units.
Ecological and evolutionary perspectives on animal behavior, with an emphasis on social and collective behavior. This is a project-based course in a lecture/seminar format. Seminars will be based on discussion of journal articles. Independent research projects on the behavior of animals on campus. Prerequisites: Biology or Human Biology core, Biology/ES 30. Recommended: statistics.
Same as: BIO 145
BIO 249. The Neurobiology of Sleep. 4 Units.
Preference to seniors and graduate students. The neurochemistry and neurophysiology of changes in brain activity and conscious awareness associated with changes in the sleep/wake state. Behavioral and neurobiological phenomena including sleep regulation, sleep homeostasis, circadian rhythms, sleep disorders, sleep function, and the molecular biology of sleep. Enrollment limited to 16.
Same as: BIO 149, HUMBIO 161
BIO 254. Molecular and Cellular Neurobiology. 3-5 Units.
For graduate students. Includes lectures for BIO 154. Cellular and molecular mechanisms in the organization and functions of the nervous system. Topics: wiring of the neuronal circuit, synapse structure and synaptic transmission, signal transduction in the nervous system, sensory systems, molecular basis of behavior including learning and memory, molecular pathogenesis of neurological diseases.
Same as: NBIO 254
BIO 256. Epigenetics. 2 Units.
Epigenetics is the process by which phenotypes not determined by the DNA sequence are stably inherited in successive cell divisions. Course will cover the molecular mechanisms governing epigenetics, ranging from the discovery of epigenetic phenomena to present-day studies on the role of chromatin, DNA methylation, and RNA in regulating epigenetics processes. Topics include: position effect gene expression, genome regulation, gene silencing & heterochromatin, histone code, DNA methylation & imprinting, epigenetics & disease, and epigenetic-based therapeutics. Prerequisite: BIO41 and BIO42 or consent of instructor, advanced biology course such as Bio104.
Same as: BIO 156
BIO 257. Biochemistry and Molecular Biology of Plants. 3-4 Units.
Biochemical and molecular basis of plant growth and adaptation. Topics include: hormone signal transduction; photoreceptor chemistry and signaling; metabolite sensing and transport; dynamics of photosynthesis; plant innate immunity and symbiosis. Lectures and readings will emphasize research methods. Prerequisite: Biology core or equivalent, or consent of instructor.
Same as: BIO 157
BIO 258. Developmental Neurobiology. 4 Units.
For advanced undergraduates and coterminal students. The principles of nervous system development from the molecular control of patterning, cell-cell interactions, and trophic factors to the level of neural systems and the role of experience in influencing brain structure and function. Topics: neural induction and patterning cell lineage, neurogenesis, neuronal migration, axonal pathfinding, synapse elimination, the role of activity, critical periods, and the development of behavior. Satisfies Central Menu Areas 2 or 3. Prerequisite: BIO 42 or equivalent.
Same as: BIO 158
BIO 263. Neural Systems and Behavior. 4 Units.
The field of neuroethology and its vertebrate and invertebrate model systems. Research-oriented. Readings include reviews and original papers. How animal brains compare; how neural circuits are adapted to species-typical behavior; and how the sensory worlds of different species represent the world. Lectures and required discussions. Satisfies Central Menu Area 3 for Bio majors. Prerequisites: BIO 42, HUMBIO 4A.
Same as: BIO 163, HUMBIO 163
BIO 267. Molecular Mechanisms of Neurodegenerative Disease. 4 Units.
The epidemic of neurodegenerative disorders such as Alzheimer's and Parkinson's disease occasioned by an aging human population. Genetic, molecular, and cellular mechanisms. Clinical aspects through case presentations.
Same as: GENE 267, NENS 267
BIO 268. Statistical and Machine Learning Methods for Genomics. 3 Units.
Introduction to statistical and computational methods for genomics. Sample topics include: expectation maximization, hidden Markov model, Markov chain Monte Carlo, ensemble learning, probabilistic graphical models, kernel methods and other modern machine learning paradigms. Rationales and techniques illustrated with existing implementations used in population genetics, disease association, and functional regulatory genomics studies. Instruction includes lectures and discussion of readings from primary literature. Homework and projects require implementing some of the algorithms and using existing toolkits for analysis of genomic datasets.
Same as: BIOMEDIN 245, CS 373, GENE 245, STATS 345
BIO 274. Human Skeletal Anatomy. 5 Units.
Study of the human skeleton (a. k. a. human osteology), as it bears on other disciplines, including medicine, forensics, archaeology, and paleoanthropology (human evolution). Basic bone biology, anatomy, and development, emphasizing hands-on examination and identification of human skeletal parts, their implications for determining an individual¿s age, sex, geographic origin, and health status, and for the evolutionary history of our species. Three hours of lecture and at least three hours of supervised and independent study in the lab each week.
Same as: ANTHRO 175, ANTHRO 275, BIO 174, HUMBIO 180
BIO 274S. Hopkins Microbiology Course. 3-12 Units.
(Formerly GES 274S.) Four-week, intensive. The interplay between molecular, physiological, ecological, evolutionary, and geochemical processes that constitute, cause, and maintain microbial diversity. How to isolate key microorganisms driving marine biological and geochemical diversity, interpret culture-independent molecular characterization of microbial species, and predict causes and consequences. Laboratory component: what constitutes physiological and metabolic microbial diversity; how evolutionary and ecological processes diversify individual cells into physiologically heterogeneous populations; and the principles of interactions between individuals, their population, and other biological entities in a dynamically changing microbial ecosystem. Prerequisites: CEE 274A and CEE 274B, or equivalents.
Same as: BIOHOPK 274, CEE 274S, ESS 253S
BIO 277. Plant Microbe Interaction. 3 Units.
Molecular basis of plant symbiosis and pathogenesis. Topics include mechanisms of recognition and signaling between microbes and plant hosts, with examples such as the role of small molecules, secreted peptides, and signal transduction pathways in symbiotic or pathogenic interactions. Readings include landmark papers together with readings in the contemporary literature. Prerequisites: Biology core and two or more upper division courses in genetics, molecular biology, or biochemistry. Recommended: plant genetics or plant biochemistry.
Same as: BIO 177
BIO 278. Microbiology Literature. 3 Units.
For advanced undergraduates and first-year graduate students. Critical reading of the research literature in prokaryotic genetics and molecular biology, with particular applications to the study of major human pathogens. Classic and foundational papers in pathogenesis, genetics, and molecular biology; recent literature on bacterial pathogens such as Salmonella, Vibrio, and/or Yersinia. Diverse experimental approaches: biochemistry, genomics, pathogenesis, and cell biology. Prerequisites: Biology Core and two upper-division courses in genetics, molecular biology, or biochemistry.
Same as: BIO 178
BIO 282. Modeling Cultural Evolution. 3 Units.
Seminar. Quantitative models for the evolution of socially transmitted traits. Rates of change of learned traits in populations and patterns of cultural diversity as a function of innovation and cultural transmission. Learning in constant and changing environments. Possible avenues for gene-culture coevolution.
Same as: BIO 182
BIO 283. Theoretical Population Genetics. 3 Units.
Models in population genetics and evolution. Selection, random drift, gene linkage, migration, and inbreeding, and their influence on the evolution of gene frequencies and chromosome structure. Models are related to DNA sequence evolution. Prerequisites: calculus and linear algebra, or consent of instructor.
Same as: BIO 183
BIO 286. Natural History of the Vertebrates. 4 Units.
Broad survey of the diversity of vertebrate life. Discussion of the major branches of the vertebrate evolutionary tree, with emphasis on evolutionary relationships and key adaptations as revealed by the fossil record and modern phylogenetics. Modern orders introduced through an emphasis on natural history, physiology, behavioral ecology, community ecology, and conservation. Lab sessions focused on comparative skeletal morphology through hands-on work with skeletal specimens. Discussion of field methods and experience with our local vertebrate communities through field trips to several of California¿s distinct biomes. Prerequisite: Biology core.
Same as: BIO 186
BIO 287. Advanced topics in human population genetics. 3 Units.
Focused examination of specific topics in human population genetics, with emphasis on primary literature. Course themes may include: mathematical properties of statistics used in human population genetics, population genetics and biological race, and statistical inference of human migrations.
BIO 290. Teaching of Biology. 1-5 Unit.
Open to upper-division undergraduates and graduate students. Practical experience in teaching lab biology or serving as an assistant in a lecture course. May be repeated for credit. Prerequisite: consent of instructor.
BIO 291. Development and Teaching of Core Experimental Laboratories. 1-2 Unit.
Preparation for teaching the core experimental courses (44X and 44Y). Emphasis is on lab, speaking, and writing skills. Focus is on updating the lab to meet the changing technical needs of the students. Taken prior to teaching either of the above courses. May be repeated for credit. Prerequisite: selection by instructor.
BIO 292. Curricular Practical Training. 1-3 Unit.
CPT course required for international students completing degree requirements.
BIO 294. Cellular Biophysics. 3 Units.
Physical biology of dynamical and mechanical processes in cells. Emphasis is on qualitative understanding of biological functions through quantitative analysis and simple mathematical models. Sensory transduction, signaling, adaptation, switches, molecular motors, actin and microtubules, motility, and circadian clocks. Prerequisites: differential equations and introductory statistical mechanics.
Same as: APPPHYS 294, BIOPHYS 294
BIO 299. Biology PhD Lab Rotation. 1-10 Unit.
Limited to first year Biology PhD students. Lab rotations with Biosciences faculty.
BIO 300. Graduate Research. 1-10 Unit.
For graduate students only. Individual research by arrangement with in-department instructors.
BIO 300X. Out-of-Department Graduate Research. 1-10 Unit.
Individual research by arrangement with out-of-department instructors. Master's students: credit for work arranged with out-of-department instructors is restricted to Biology students and requires approved department petition. See http://biohonors.stanford.edu for more information. May be repeated for credit.
BIO 301. Frontiers in Biology. 1-3 Unit.
Limited to and required of first-year Ph.D. students in molecular, cellular, and developmental biology. Current research in molecular, cellular, and developmental biology emphasizing primary research literature. Held in conjunction with the department's Monday seminar series. Students and faculty meet weekly before the seminar for a student presentation and discussion of upcoming papers.
BIO 302. Current Topics and Concepts in Population Biology, Ecology, and Evolution. 1 Unit.
Required of first-year PhD students in population biology, and ecology and evolution. Major conceptual issues and developing topics. This course isnnopen only to Biology PhD students and is not open to auditors.".
BIO 303. Current Topics and Concepts in Population Biology, Ecology, and Evolution. 1 Unit.
Required of first-year PhD students in population biology, and ecology and evolution. Major conceptual issues and developing topics. This course isnnopen only to Biology PhD students and is not open to auditors.".
BIO 304. Current Topics and Concepts in Population Biology, Ecology, and Evolution. 1 Unit.
Required of first-year PhD students in population biology, and ecology and evolution. Major conceptual issues and developing topics. This course isnnopen only to Biology PhD students and is not open to auditors.
BIO 306. Current Topics in Integrative Organismal Biology. 1 Unit.
Limited to and required of graduate students doing research in this field. At Hopkins Marine Station.
BIO 312. Ethical Issues in Ecology and Evolutionary Biology. 1 Unit.
Focus is on ethical issues addressed in Donald Kennedy's Academic Duty and others of importance to academics and scientists in the fields of ecology, behavior, and evolutionary biology. Discussions led by faculty and outside guests. Satisfies ethics course requirement for ecology and evolutionary biology. Prerequisite: PhD student in the ecology and evolutionary biology or marine program, or consent of instructor.
BIO 321. Ecological Genetics. 1-3 Unit.
Systematic exploration of (1) the types of questions that can be addressed by ecological genetics techniques (i.e., community genomics, genetic variation between species in the same ecosystem, resource use, landscape genetics, etc.); (2) laboratory techniques available; and (3) analyses and modeling best suited for ecological genetics questions. Analysis of specific research problems and efforts (now underway or planned for the near future) among seminar participants, and discussion of these efforts with group review of the relative merits of alternative approaches.
BIO 325. The Evolution of Body Size. 2 Units.
Preference to graduate students and upper-division undergraduates in GS and Biology. The influence of organism size on evolutionary and ecological patterns and processes. Focus is on integration of theoretical principles, observations of living organisms, and data from the fossil record. What are the physiological and ecological correlates of body size? Is there an optimum size? Do organisms tend to evolve to larger size? Does productivity control the size distribution of consumers? Does size affect the likelihood of extinction or speciation? How does size scale from the genome to the phenotype? How is metabolic rate involved in evolution of body size? What is the influence of geographic area on maximum body size?.
Same as: GS 325
BIO 326. Foundations in Biogeography. 2 Units.
Seminar. Focus on classic papers covering the global distribution and abundance of organisms through time. Topics include: phylogenetics, phylogeography, plate tectonics, island biogeography, climatic change, dispersal, vicariance, ecology of invasions, extinction, gradients, diversity, conservation and a history of the field.
BIO 340. The History of Evolution. 4-5 Units.
This course examines the history of evolutionary biology from its emergence around the middle of the eighteenth century. We will consider the continual engagement of evolutionary theories of life with a larger, transforming context: philosophical, political, social, economic, institutional, aesthetic, artistic, literary. Our goal will be to achieve a historical rich and nuanced understanding of how evolutionary thinking about life has developed to its current form.
Same as: HISTORY 240, HISTORY 340
BIO 342. Plant Biology Seminar. 1-3 Unit.
Topics announced at the beginning of each quarter. Current literature. May be repeated for credit. See http://carnegiedpb.stanford.edu/seminars/seminars.php.
BIO 346. Advanced Seminar on Prokaryotic Molecular Biology. 1 Unit.
Enrollment limited to PhD students associated with departmental research groups in genetics or molecular biology.
BIO 355. Ecology and Conservation of the Brazilian Cerrado: a neglected Latin American Ecosystem. 2 Units.
This course addresses the origin, evolution and ecology of the second major biome of South America, the Brazilian Cerrado. Strong environmental filters have shaped the most diverse savanna in the world. The Cerrado is under strong pressure due to the expansion of agriculture, cattle ranching, and now afforestation programs. Land use change is the major driver of its destruction and fragmentation, which leads to the erosion of biodiversity and ecosystem services, and loss of cultural heritage. Prerequisite: BioCore or equivalent.
BIO 356. Ecology & Conservation beyond Amazon and the Andes: The Rupestrian Grasslands of Tropical Mountains. 2 Units.
The course addresses the biodiversity, ecosystem services and impacts of land use change in the sole mountain chain found in Brazil, the Espinhaço Mountains. Although representing only 3% of the Brazilian savanna, these mountains support 50% of its biodiversity. The biodiversity, and particularly the concentration of endemic organisms these mountains hold, and the degree of threat by human activities, make this system a real global biodiversity hotspot. Course will address its ecology and conservation and major threats such as mining, biological invasions, and other anthropogenic drivers of change. Prerequisites: Biocore or equivalent.
BIO 375. Field Ecology & Conservation. 4 Units.
This course is based on question-driven research in the field, addressing both conceptual frameworks and methodological aspects of evolutionary ecology and conservation biology. It consists of faculty-led research projects and student independent projects. The field part takes place in a tropical rain forest research station in Mexico September 5-15, 2014. The field component is followed by sessions on campus, where the research data are analyzed, discussed and prepared as scientific papers. The training includes presentations of the papers in a mini-symposium organized as a professional meeting.
BIO 383. Seminar in Population Genetics. 1-3 Unit.
Literature review, research, and current problems in the theory and practice of population genetics and molecular evolution. May be repeated for credit. Prerequisite: consent of instructor.
BIO 384. Theoretical Ecology. 1-3 Unit.
Recent and classical research papers in ecology, and presentation of work in progress by participants. Prerequisite: consent of instructor.
BIO 387. Hacking Consciousness: Consciousness, Cognition, and the Brain. 1 Unit.
Listen to renowned physicists, nutritionists, neuroscientists, etc. as they investigate the nature of consciousness as a field of all possibilities. We'll explore consciousness as the source not only of the human mind and its ability to experience, know, innovate... but also as the source of all structures and functions in creation, from fine particles to DNA to galaxies, in parallel with the scientific notion of a unified field, or superstring at the basis of the infinite diversity of time and space.
BIO 390. Topics in Biology. 1 Unit.
Seminar. Topics in biology ranging from neurobiology to ecology.
BIO 459. Frontiers in Interdisciplinary Biosciences. 1 Unit.
Students register through their affiliated department; otherwise register for CHEMENG 459. For specialists and non-specialists. Sponsored by the Stanford BioX Program. Three seminars per quarter address scientific and technical themes related to interdisciplinary approaches in bioengineering, medicine, and the chemical, physical, and biological sciences. Leading investigators from Stanford and the world present breakthroughs and endeavors that cut across core disciplines. Pre-seminars introduce basic concepts and background for non-experts. Registered students attend all pre-seminars; others welcome. See http://biox.stanford.edu/courses/459.html. Recommended: basic mathematics, biology, chemistry, and physics.
Same as: BIOC 459, BIOE 459, CHEM 459, CHEMENG 459, PSYCH 459
BIO 802. TGR Dissertation. 0 Units.
.