The Stanford Center for Clinical and Translational Research and Education

Gene Expression Profiling, Genotyping & Genomic Analysis

High School Student

Have Questions?

Please see the individual resource websites for contact information. If you cannot find what you are looking for, please
contact Bruce D. Koch, PhD  email

Also see

Gene Expression Profiling, Genotyping & Genomic Analysis

DNA sequencing (standard long reads: 500-750bp or Nextgen: 18-150bp), microarrays, qPCR)

Shared Facilities:

Protein and Nucleic Acid Facility (PAN)
  • Description — The Protein and Nucleic Acid (PAN) Facility is a multifaceted biotechnology fee-for-service laboratory. In Molecular Genetics the services include Gene Expression and Genotypring (Affymetrix microarray), quantitative methylation and mutation analysis (PyroMark), qPCR, DNA sequencing and fragment analysis, Nucleic Acid QC (Agilent Bioanalyzer) and Oligonucleotide synthesis. For protein characterization the laboratory offers Protein Sequencing, Peptide Synthesis, Protein Identification (MALDI) and Biomolecular interaction analysis using Surface Plasmon Resonance (Biacore).
  • Location — Beckman Center B065/B017
  • Questions — Contact Michael Eckart, PhD  email, (650) 723-1907
  • Website
  • Selected References

    Transgenerational epigenetic inheritance of longevity in Caenorhabditis elegans. Greer EL, Maures TJ, Ucar D, Hauswirth AG, Mancini E, Lim JP, Benayoun BA, Shi Y and Brunet A. Nature 2011; 479: 365–371. PubMedID: 22012258.

    Antagonistic VEGF variants engineered to simultaneously bind to and inhibit VEGFR2 and αvβ3 integrin. Papo N, Silverman AP, Lahti JL, and Cochran JR. Proc Natl Acad Sci U S A. 2011 Aug 23; 108 (34): 14067-14072. PubMedID: 21825147; PMCID: PMC3161552.

    Masking the 5′ terminal nucleotides of the hepatitis C virus genome by an unconventional microRNA-target RNA complex. Machlin ES, Sarnow P and Sagan SM. Proc Natl Acad Sci U S A. 2011 Feb 22; 108(8): 3193–3198. PubMedID: 21220300; PMCID: PMC3044371.

Sequencing Service Center
  • Description — The Sequencing Service Center (SSC) allows the Stanford community to access cost-effective high throughput sequencing, performed at the Stanford Center for Genomics and Personalized Medicine. Our goal is to facilitate small to medium-sized projects that are best served by modest numbers of sample submissions from individual users, and that are billed on a per-lane basis.
  • Location — Dropoff: Edwards R301
  • Questions — Contact Arend Sidow, PhD  email, (650) 498-7024
  • Website

Stanford Functional Genomics Facility (SFGF)
  • Description — The Stanford Functional Genomics Facility (SFGF) provides microarrays and microarray services to researchers within the Stanford community and beyond. The facility also provides 24/7 access to instruments, equipment and software utilized within the microarray field. We support all arrays based on a microscope slide format including Agilent, Illumina, Nimblegen, and arrays produced by SFGF. Besides printing cDNA and oligonucliotide microarrays, the facility can also print arrays of your material in a high throughput fashion, including proteins, peptides, antibodies, cell lysates, siRNAs, etc.
  • Location — Center for Clinical Sciences Research (CCSR), 0120
  • Questions — Contact John Coller, PhD  email, (650) 736-2434
  • Website
  • Selected References

    The essential genome of a bacterium. Christen B, Abeliuk E, Collier JM, Kalogeraki VS, Passarelli B, Coller JA, Fero MJ, McAdams HH, Shapiro L. Mol Syst Biol. 2011 Aug 30;7:528. PubMedID: 21878915; PMCID: PMC3202797

    Single-molecule sequencing of an individual human genome. Pushkarev D, Neff NF, Quake SR. Nat. Biotechnol. 2009 Sep;27(9):847-50. Epub 2009 Aug 10. PubMedID: 19668243.

    Direct lineage conversion of terminally differentiated hepatocytes to functional neurons. Marro S, Pang ZP, Yang N, Tsai MC, Qu K, Chang HY, Südhof TC, Wernig M. Cell Stem Cell. 2011 Oct 4;9(4):374-82. PubMedID: 21962918.