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 fully open.  If your research is COVID-19 related please let us know so that we can prioritize your reseached as needed.  Please contact Luisa Jimenez (luisaj@stanford.edu) or John Coller (jcoller@stanford.edu) 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).

 

 

Leadership

John Coller, PhD | Stanford Genomics Service Center Director

Office: CCSR 0120  -  (650) 736-1026

Lab: CCSR 0120  -  (650) 736-2434

Email:  john.coller at stanford.edu

 

Staff

  • Luisa Jimenez
  • Alain Boussard
  • Dhananjay Wagh
  • Elizabeth Zuo
  • Jason Wu
  • John Coller
  • Nick Addleman
  • Samira Karimi
  • Vanita Natu
  • Vida Shokoohi
  • Xuhuai Ji
  • Yana Ryan
  • Michael Blanco
  • Sopheak Sim
 

Location and Hours of Operation

Location

Hours 

 

On Campus:

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

On Porter:

Stanford Genomics Service Center 
Canary 2108
3155 Porter Dr. 
Stanford, CA 94304 

 

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 

Email:  microarray@stanford.edu

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.

 

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Contacts

Name Role Phone Email Location
John Coller, Ph.D.
Director
 
650.736.1026
 
john.coller at stanford.edu
 
CCSR 0120
 
Luisa Jimenez
Administrator
 
650.736-1763
 
luisaj@stanford.edu
 
3155 Porter Dr, Rm 1208 & CCSR 4256
 
Debra Panasuk
Finance Manager
 
650.725.7483
 
dpanasuk@stanford.edu
 
Biomedical Innovations Building, 240 Pasteur Dr., Palo Alto, CA 94304-5422
 

Price List


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