Software
- 10 year CVD risk calculator — Creatinine clearance estimate by Cockcroft-Gault equation (170)
- Creatinine clearance estimate by Cockcroft-Gault equation (SI Units) — Java (170)
- JMP statistical discovery software — Primer3 software distribution (170)
- PrionDB : a molecular specific information system for prion proteins. — Zung self-rating depression scale (169)
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- This risk assessment tool uses information from the Framingham Heart Study to predict a person's chance of having a heart attack in the next 10 years. This tool is designed for adults aged 20 and older who do not have heart disease or diabetes. The calculation is based on age, gender, total and HDL cholesterol, smoker status, systolic blood pressure, and whether current medications are involved.
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- An extensive repository of antibodies available for purchase. It provides information and purchase information for antibodies.
- iPhone/iPod touch/iPadMultipurpose medical calculator. Includes functionality to analyze arterial blood gasses and to determine drip rate from desired dosing for an infusion (or vice-versa).
- AbMiner is a tool that allows users to search for appropriate, commercially available antibodies (>600) for research purposes, and to match each antibody to its respective genomic identifiers. The unique feature of this antibody collection is that all antibodies are screened by Western blot. The sample used for antibody screening was a pool of the NCI-60 cancer cell lines, comprised of 60 different cell lines from 9 different tissues of origin. Besides results, AbMiner also includes the dilutions used and pertinent vendor information for all antibodies. The target antigen for each antibody was translated to the encoding gene symbol using MatchMiner. Other identifiers include gene name, HUGO status, UniGene Cluster ID, RefSeq for protein and mRNA, and Entrez Gene Ids. These identifiers are updated periodically as new information becomes available. Users can search AbMIner by any of the identifiers and easily navigate between antibody, protein, mRNA, and gene.
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- STAT!RefGrogono, Alan W.
- 2007"Unraveling the human genome is one of the most important endeavors scientists have ever undertaken. Knowing the structure, functions, and relationships to disease will have a transforming effect on healthcare. This genetics education program will show what genes are and how they relate to disease and the development and use of drugs."--Back of container.
- Student Computing Version XI (Windows); Version X (Macintosh)M051 Version XI (Windows)Duck Room Version XI (Windows)Redwood Room Version XI (Windows)Stone Room Version XI (Windows)
- Student Computing Version 11 (Windows)M051 Version 11 (Windows)Duck Room Version 11 (Windows)Redwood Room Version 11 (Windows)Stone Room Version 11 (Windows)
- Redwood Room, on computers Scan 1 & Scan 2, only. Version CS6 (Windows)
- A database of affinity data for structurally resolved protein-ligand complexes from the Protein Data Bank (PDB).
- Pon, Steven.
- AHRQThe ePSS is an application designed to help primary care clinicians identify clinical preventive services that are appropriate for their patients. Based on the current, evidence-based recommendations of the U.S. Preventive Services Task Force (USPSTF)
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- The Allen Brain Atlas (ABA) is a genome-wide image database of gene expression in the mouse brain. RNA in situ hybridization data, detailed Reference Atlases and analysis tools combine to provide a searchable digital atlas of gene expression. Presents a comprehensive online platform for exploration of the brain at the cellular and molecular level.
- Alvarado, A.
- Pon, Steven.
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- ASAS
- 1977/78-2002/03, <2004/05>Status: Not Checked OutLane Catalog Record
- IBCP
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- "AntiJen is a database of kinetic, thermodynamic and cellular properties for immune system proteins (MHCs, T cell receptors, B cell epitopes). It stores quantitative binding data for peptides binding to MHC Ligand, TCR-MHC Complexes, T Cell Epitope, TAP, B Cell Epitope molecules and immunological Protein-Protein interactions. AntiJen also includes a Peptide Library, Copy Numbers and Diffusion Coefficient data. All entries are from published experimentally determined data. The database currently holds over 24,000 entries. No data in AntiJen is from prediction experiments."
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- Web version
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- no. 106-, 2003- Acad Search Prem, Full text delayed 12 monthsv. 119-, 2006- WileyAlso available: Print – v. 1-118, 1988-2005.
- Maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. Includes the complete genome sequence along with gene structure, gene product information, metabolism, gene expression, DNA and seed stocks, genome maps, genetic and physical markers, publications, and information about the Arabidopsis research community.
- Version 10.3.1Redwood Room Version 10.3.1Stone Room Version 10.3.1Product description Version 10.3.1ArcGIS is used for creating and using maps; compiling geographic data; analyzing mapped information; sharing and discovering geographic information; using maps and geographic information in a range of applications; and managing geographic information in a database. Contains integrated applications that are intended to be used in order to do comprehensive mapping and geographical analysis. ArcGIS Pro is used for creating and working with spatial data on your desktop. It provides tools to visualize, analyze, compile, and share your data, in both 2D and 3D environments.
- Users must sign up for a free account for access to siteBernard, G. R.; Le Gall, J. R.; Monchi, M.
- EMBL-EBIA public repository for microarray data which aims at storing well annotated data in accordance with MGED recommendations.
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- A DNA sequence viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence and of its six-frame translation. It reads EMBL-format sequences and feature tables, and can work on sequences ranging from a few kb to entire genomes of 5 Mb or more.
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- The Atlas of Gene Expression in Mouse Aging Project ( AGEMAP ) is a database that catalogs changes in gene expression as a function of the aging process in Mus musculus.
- Statistical analysis software for analyzing qualitative data, such as focus group discussions, patient interviews and survey results.
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- Users must register
- Cox, Chris; Kwint, Marius; Stuart, Phil; Wingate, Richard."In this fast-paced game, you must click on protein targets to grow your neuron, connecting new brain regions. Climb through the tissue, outcompeting rival neurons to form the longest connection you can"--Wellcome Collection Website.
- Ballard, J. L.
- Benedict, Francis Gano; Harris, J. Arthur; Pon, Steven.
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- Stanford users must download software to view fulltextInteractive digital atlas eHumanBassett, David L.; Brown, W. Paul; Chase, Robert A.; Herbranson, Eric; Mathers, Lawrence H.; Montgomery, Kevin; Vogel, Bruce B.; Whitmore, I.
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- 2005 ebrarySheldon, Robert; Moes, Geoff.
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- Users need to register for a free accountOne of the main repositories for the storage of curated descriptions of protein interactions, molecular complexes and pathways.
- Tsai, Jerry.
- Database of experimentally-determined binding affinities of protein-ligand complexes, including small molecule ligands.
- Metasearching sequence motif finding tool that enables easy comparison of outputs from AlignACE, BioProspector, CONSENSUS and MEME for transcription factor binding site prediction.
- (Formerly called Proteome)BIOBASE knowledge(R) library is a suite of databases updated weekly and focused on protein information in the published biological literature. The suite of databases focuses on mammalian species, model organisms, and human fungal pathogens in: HumanPSD - Proteome Survey DB for information on human, mouse, and rat proteins. GPCR-PD - G Protein-coupled Receptors DB for human, mouse & rat proteins, their ligands & downstream signaling molecules. YPD - Model organism S. cerevisiae. PombePD - Model organism S. pombe. WormPD - Model organism C. elegans. MycoPathPD - Human fungal pathogen DB.
- BioCyc is a collection of hundreds of Pathway/Genome Databases covering mostly prokaryotes, each of which describing the genome and metabolic pathways of a single organism. Most of these databases are computationally generated, but two are generated by an extensive curation process
- The Biology WorkBench is a web-based tool for biologists. The WorkBench allows biologists to search many popular protein and nucleic acid sequence databases. Database searching is integrated with access to a wide variety of analysis and modeling tools, all within a point and click interface that eliminates file format compatibility problems.
- BioMart is a query-oriented data management system developed jointly by the Ontario Institute for Cancer Research (OICR) and the European Bioinformatics Institute (EBI) that enables scientists to perform advanced querying of biological data sources through a single web interface. It offers access to major biomolecular sequence, pathway and annotation databases such as Ensembl, Uniprot, Reactome, HGNC, Wormbase and PRIDE.
- Users need to register for a free accountOne of the main repositories for the storage of curated descriptions of protein interactions, molecular complexes and pathways.
- BioPerl is a vast collection of Perl packages for performing typical analytical and management tasks for biological data
- Brutlag, Douglas L.; Liu, Jun S.; Liu, X. S.A powerful tool for identifying DNA and protein motifs.
- 1926- Thomson
- 1926- Thomson
- SUNet ID login requiredBalise, Raymond R.
- A web-accessible annotated database of over 1200 online resources of interest to molecular biologists and neurobiologists.
- BioWarehouse is a relational database system for the integration of multiple bioinformatics databases. It provides a central data repository in a common representational framework within a single DB management system.
- NLMNucleotide or protein sequence similarity using the BLAST algorithm. BLAST compares a nucleotide sequence against the GenBank nucleotide sequence database.
- BOV enables users to interactively visualize BLAST high-scoring segment pairs to understand matching patterns between a query and a subject sequence.
- Web versionDownload iPhone App iPhone App
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- Barnas, Gary; Hu, Charles; Kneusel, Ron.
- Barnas, Gary; Hu, Charles; Kneusel, Ron.
- STAT!RefDu Bois, Delafield; Du Bois, Eugene F.
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- A repository of expression data for tissues and cell types of Homo sapiens and Mus musculus. BioMap attempts to reflect accurately the abundance of transcripts in the original source.
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- Univ CologneLogin Univ CologneSchomburg, D.BRENDA is the main collection of enzyme functional data available to the scientific community. It is the comprehensive enzyme database of data from primary literature sources, and includes links to literature citations, two-dimensional images, and other databases.
- Barnas, Gary; Hu, Charles; Kneusel, Ron.
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- Stanf UnivStores and organizes highly curated data for the yeast Candida albicans.
- Baer, Robert W.Step 1. Physical Exam - Step 2. Co-existing Conditions - Step 3. Lab and Radiology Findings.
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- Users must sign up for a free account for access to siteGoldman, L.
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- The Catalogue of somatic mutations In cancer (COSMIC) is a specialized database that stores data about somatic mutations related to human cancers.
- Integrated software environment for pharmacophore modeling and three-dimensional modeling, with applications for rational drug design.
- The Class Architecture Topology and Homologous superfamily protein structure classification (CATH) is one of the main databases providing hierarchical classification of protein domain structures. It clusters proteins at four major levels: Class(C), Architecture(A), Topology(T) and Homologous superfamily (H).
- A system for studying the the classification of protein sequences and investigate their evolutionary relationships based on protein domains; includes a suite of analysis methods to visualize the structure of domains and align new domains against exist sequences.
- Package of molecular modeling and simulations programs, with applications in rational drug design and structure-based drug design.
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- Database SciFinder Web, Users must registerRequired Registration Portal SciFinder WebAlso available: Print – v. 1, pt. 1-3 , 1907.
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- An integrated tool for tiling array, ChIP-seq, genome and cis-regulatory element analysis.
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- CMGM/PMGM registration requiredThe Oligo program is likely the best tool for creating oligonucleotides ("oligos"), i.e., determining the sequence of oligos so that they can be synthesized and used in e.g., polymerase chain reaction (PCR).
- Windows & Macintosh
- The Collaborative Drug Discovery (CDD) database is a system that enables scientists to archive, mine, and collaborate around pre-clinical chemical and biological drug discovery data using a web-based interface.
- A popular DNA motif finder applicable to finding candidates for regulatory factor binding sites by searching for statistically overrepresented motifs. It enumerates all motifs in the search space and is guaranteed to produce those motifs with greatest z-scores
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- Users must sign up for a free account for access to siteCharlson, M. E.
- Altman, Russ B.; Batzoglou, Serafim; Liu, X. S.; Liu, Yueyi Irene; Wei, Liping.Gibbs sampling search tool biased to search in promoter regions that are conserved across species to identify motifs for transcription factors.
- The Comprehensive microbial resource (CMR) is a repository of data covering all microbial genomes whose genome has been sequenced to completion.
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- Brutlag, Douglas L.
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- A module of Vector NTI for generating and analyzing biomolecular sequence contigs.
- Ibelgaufts, Horst.
- Database that presents search results as a graphic network that describes relationships discovered through text-mining. Relationship networks cluster important terms and act as a navigational tool. This approach is used to show relationships between a wide range of biomedical terms, including Medical Subject Heading, Gene Ontology, Pharmaceutical, Herbal medicine and Chemical as well as Gene and Protein terms.
- Barnas, Gary; Hu, Charles; Kneusel, Ron.Predicts the risk of heart disease within 10 years. The results are applicable only for the ages of 30 to 74. Risk factors include: sex, age, smoker, diabetes, blood pressure, and cholesterol.
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- Ho, Warren; McGinn, Thomas; Moore, Carlton.
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- Bhagwat, Medha.
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- 10 year CVD risk calculator — Creatinine clearance estimate by Cockcroft-Gault equation (170)
- Creatinine clearance estimate by Cockcroft-Gault equation (SI Units) — Java (170)
- JMP statistical discovery software — Primer3 software distribution (170)
- PrionDB : a molecular specific information system for prion proteins. — Zung self-rating depression scale (169)
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