Stanford Core Services

Proteomics, Genomics and Imaging Resources for Translational Research @ Stanford

Protein and Nucleic Acid (PAN) Facility

View website

Director: Michael Eckart, PhD  (
Beckman Center, B065

  • Gene Expression Analysis:  Microarrays (Affymetrix), Real-time PCR, Pyrosequencing (Quantification and CpG methylation and genetic alterations), Nucleic Acid QC (Bioanalyzer).
  • DNA Sequencing
  • Oligonucleotide sequencing
  • Next-Generation Sequencing
  • Biomolecular Interaction Analysis (Surface Plasmon Resonance – Biacore)
  • Protein Sequencing
  • Peptide Synthesis
  • Protein Identification
  • Mass Spectrometry

Human Immune Monitoring Center (HIMC)

View website

Director: Holden T. Maecker, PhD   (
Fairchild Science Building, Room D039

  • Multiplex Luminex assays for cytokines
  • Immunophenotyping by flow cytometry
  • Phosho-epitope flow cytometry
  • RNA/DNA extraction and genomic assays
  • Serum and PBMC preparations and banking
  • CyTOF mass cytometry phenotyping assay

Stanford Functional Genomics Facility (SFGF)

View website

Director: John Coller, PhD     (

  • High-throughput sequencing and library preparation for Illumina MiSeq, MiSeq, GAIIx, and HiSeq2000
  • Microarrays processing utilizing Illumina, Affymetrix, Agilent, Nimblegen, Stanford and other commercial and custom microarrays
  • Antibody phenotyping microarrays
  • Microarray production for any type of biological material (cDNA, oligonucleotides, antibodies, peptides, cells, lysates)
  • 24/7 access to equipment in the lab
  • Reagents: Antibodies, Open Biosystem products, and doping controls

Stanford University Mass Spectrometry Laboratory (SUMS)

View website

Director: Allis Chien, PhD
Mudd 167A

  • Proteomics: Protein identification, post-translational and synthetic modification, global proteome analysis, differential analysis and quantitative proteomics – labeled and label-free.
  • Quantitative applications and assays: Quantitation of analytes in biological matcies, pharmacokinetic studies and PK assessment, protein and peptide quantification and biomarker verification.
  • Metabolomics and drug metabolism: Primary metabolite profiling, metabolite identification, small molecule biomarker discovery and identification, lipid profiling and structural analysis.
  • General analysis: Mass determination, MS/MS, MSn, analytical scale LC-UV-MS, high resolution accurate mass MS (molecular formula confirmation)
  • Open access lab: LC-MS, GC-MS
  • Consulation, experimental design, education and informatics support for data analysis.
  • Custom projects: Method development, protein folding, non-covalent interactions.

Cell Sciences Imaging Facility (CSIF)

View website

Director: Jonathan Mulholland, MA (

  • Fluorescence microscopy services: Training and consultation in the use of confocal, deconvolution, and multi-photon for multidimentional (3D, 4D) imaging of fixed and live cell tissue samples
  • Electron microscopy services: Full service laboratory with sample preparation and training for both transmission and scanning electron microscopy technologies
  • Data management includes server storage and tape data archiving.

Stanford Center for Innovation and In-vivo Imaging (SCI3)

View website

Director: Tim Doyle, PhD

  • Small animal imaging instrumentation for both structural and functional analyses with the capability of in vivo optical bioluminescence and fluorescence imaging, MRI, MicroCT, MicroPET, MicroSPECT, Ultrasound and Photo-acoustic imaging
  • Training and education in imaging of cellular and molecular processes for high quality image data
  • Reagents and support services for optimal in vivo analysis.
  • Data handling: 14-terabyte storage system with both RAID and tape backup.

Related Links

Computational Resources for Translational Research @ Stanford

Philip W. Lavori PhD

Professor of Biostatistics and Statistics, and Chair, Dept. of Health Research and Policy, School of Medicine
Redwood Bldg T152a

Area of expertiseClinical research (especially trials)

Nigam Shah, MBBS, PhD

Assistant Professor of Medicine (biomedical informatics
Center for Biomedical Informatics Research
MSOB, X-229

Area of expertiseMethods to analyze large unstructured data sets for data-driven medicine: medical informatics, knowledge representation, unstructured data-mining, ontologies.

Useful Websites

SPECTRUM: Bioinformatics

Stanford Center for Biomedical Informatics Research

Quantitative Sciences Unit, Dept. of Medicine

Other Core Resources for Translational Research