Agilent R&D will be updating the code base on the iLab Stanford instance this Friday, April 23rd at 1 AM (UTC). iLab sites will be unavailable for about 4 hours, during the update. Additional details can be found on the Agilent Status Page

Stanford Genomics


Overview of Services


Stanford Genomics provides assays, services, and access to scientific instrumentation for genomic research.  The facility is the product of combining the Genetics Sequencing Service Center (GSSC) and the Stanford Functional Genomics Facility (SFGF).   


Stanford Genomics is currently accessible and available to assist the Stanford research community with ongoing research projects as well as COVID-19 related research projects.  Please indicate in your iLab request if your project is COVID-19 related so that we can prioritize your critical and essential research.  Please contact Luisa Jimenez ( or John Coller ( if assistance is needed.    


Available Services: 

  • High-throughput Sequencing and Library Construction utilizing Illumina NovaSeq, HiSeq 4000, NextSeq, MiSeq, and iSeq.
  • Single-Cell RNA-Seq utilizing 10x Genomics Chromium
  • Single-Cell RNA-Seq from FACS sorted cells 
  • Gene Expresion Assays - Microarray Platforms: Affymetrix, Illumina, Agilent
  • Whole Genome Genotyping Assays - Microarray Platforms: Illumina and Affymetrix
  • Karyotyping (Illumina)
  • Gene Expression and Genotyping using real-time PCR 
  • Digital PCR (BioRad)
  • Nanostring single molecule counting
  • Bioanalyzer DNA, RNA and Protein analysis, Qubit quantification, DNA shearing on Covaris
  • Sample Tracking, Sample Contamination and Cell Line Authentication Services
  • TALEN construction
  • Custom Array Printing of any material
  • Preferred pricing on Custom Oligonucleotides from IDT - Stanford-IDT Portal
  • Streamlined ordering and preferred pricing for Oligo Pools from Agilent


Available Equipment 24/7:  (You can request 24/7 access to the following equipment by going to the Request Services tab and selecting SFGF 24/7 Access)

  • Sequencers:  Illumina iSeq 100, MiSeq, NextSeq
  • Real-time PCR:  QuantSutio 12K Flex, ABI 7900HT, ABI StepOnePlus, Roche LightCycler 480, Stratagene MX 3005p
  • Microarray Scanners:  Agilent Scanner, Axon Scanner
  • Imagers:  GE Typhoon TRIO, LiCOR Odyssey, Alpha Imager
  • Quanitation:  Bioanalyzer, Nanodrop, Qubit 2.0 and 3.0 Fluorometers
  • Automation:  Biomek FX, Agilent Bravo, Formulatrix Mantis, Microarray Printer, NuGEN Mondrian
  • General Equipment:  Tetrad PCR Machines 


Getting Started

  • Stanford Users:  LOGIN or REGISTER for an iLab account using valid Stanford credentials (SUNet ID).




John Coller, PhD | Stanford Genomics Service Center Director

Office: CCSR 0120  -  (650) 736-1026

Lab: CCSR 0120  -  (650) 736-2434

Email:  john.coller at



Name Role Phone Email  Location

Luisa Jimenez

Administration 736-1763 CCSR 4256

Alain Boussard

Programmer 736-1763 CCSR 4256
Xuhuai Ji

High Throughput Sequencing (MiSeq)

NGS Library Preparation

NGS Sample QC

736-2434 CCSR 0120
Vanita Natu

Genome Wide Genotyping

NGS Library Preparation

Sample Tracking and Cell Line Authenication

NGS Sample QC

736-2434   CCSR 0120
Vida Shokoohi

Genome Wide Gene Expression

PCR Gene Expression and Genotyping

NGS Library Preparation

DNA and RNA Sample Extraction and QC

736-2434 CCSR 0120
Dhananjay Wagh

High Throughput Sequencing (NextSeq)

Digitial PCR

Biomolecule Binding Assays

NGS Sample QC

10X Genomics

736-2434 CCSR 0120


Location and Hours of Operation





Stanford Genomics Service Center 
CCSR 0120
269 Campus Drive 
Stanford, CA 94305-5177 


Mailing Address:

Stanford Genomics Service Center
CCSR 4256, MC 5177
269 Campus Drive
Stanford, CA 94305-5177 


Shipping Address:

Stanford Genomics Service Center
CCSR Building Room 0120
1291 Welch Rd, Stanford, CA 94305-5177 


Contact Info:

Office: (650)736-1763
Lab: (650)736-2434
Fax: (650)736-2432 


8 a.m. - 6 p.m., Monday to Friday  

24/7 access for trained users




Links and Resources




Publication Acknowledgement 


As with all Stanford Service Centers, credit must be given to the Stanford Genomics Service Center for data that results in a publication. If the work done at SGSC produces data resulting in a figure in a publication, you are required to acknowledge the Stanford Genomics Service Center in the publication. Further, if SGSC staff members provided significant experimental design, data interpretation, or other intellectual contribution (as evaluated by the PI), then it is expected that these individuals will be coauthors on the publication. 


The Illumina HiSeq 4000 was purchased using a NIH S10 Shared Instrumentation Grant (S10OD018220).  The Illumina  NovaSeq 6000 was also purchased using a NIH S10 Shared Instrumentation Grant (1S10OD02521201).  Please acknowledge the grant in any publications using data from these instruments.


Return to Top



Name Role Phone Email Location
John Coller, Ph.D.
john.coller at
CCSR 0120
Debra Panasuk
Finance Manager
Biomedical Innovations Building, 240 Pasteur Dr., Palo Alto, CA 94304-5422

Price List

Search available services: View: by category alphabetically
Custom Labor (8)
Consulting (2)
Custom Materials (8)
No Charge (1)