Genomics Core

The Scripps Research Genomics Core Facility housed in the Skaggs/MB building Rm 28, provides a variety of genomics related services including Next Generation Sequencing (NGS),  single cell RNAseq and immuno-sequencing, spatial transcriptomics, custom microarray fabrication/analysis and quantitative and digital PCR. Our facility has extensive experience in NGS experimental design, preparation of sequencing libraries, custom microarray fabrication as well as novel sequencing technology applications. Our core provides assistance involving genomics technologies such as; experimental design, grant applications, interpretation of sequencing and microarray results and education of students, staff and faculty.

The Genomics Core Facility, established in 2008, focuses on Genomics Technologies including next generation sequencing, single cell genomics, spatial transcriptomics/protein profiling, qPCR, ddPCR and microarray fabrication/analysis. We are a full-service operation and can assist in experimental design, library preparation and sequencing.

The Genomics Core is equipped with a variety of instruments including:

Sequencing Instruments: Element Avidi, Illumina NextSeq2000 and Oxford Nanopore MinIon 

Single Cell and Spatial Profiling: 10X Genomics Chromium X, NanoString GeoMX

Nucleic Acid Analysis Tools: Agilent Bioanalyzer 2100 and Tapestation, ThermoFisher, Qubit, Fluoroskan Microplate Fluorometer, Covaris-DNA shearing ultrasonicator, QuantStudio Pro6 qPCR, Biorad QX200 ddPCR

High-throughput liquid handling systems: EPmotion and SPTLabtech Mosquito HV, Opentrons (OT-2)

 Microarray Technology: MicroGridII contact microarray printer, Innoscan 1100AL confocal microarray scanner.

We encourage parties interested in using our facility to set up a meeting with Steven Head, call (858) 784-2263 or internal 4-2263, to discuss details and specifics experimental design sample preparation and cost.

Services

 1. Sequencing
  1. Element Aviti
  2. Illumina Nextseq200
  3. Oxford Nanopore Minion

2.Genomics Assays
  1. 10X Genomics Chromium X (single cell
  2. NanoString GeoMX digital spatial profiler

3.RNA/DNA analysis
  1. Agilent Bioanalyzer 2100
  2. Agilent Tapestation
  3. Thermo Fisher Qubit
  4. Thermo Fisher Fluoroskan Microplate Fluorometer

4.Microarray
  1. MicroGrid II contact microarray printer
  2. Innoscan 1100AL confocal microarray scanner

5.Liquid handling
  1. Opentrons (OT-2)
  2. Eppendorf epMotion 5075
  3. SPT Labtech Mosquito HV

6.PCR
  1. ThermoFisher QuantStudio Pro 6 qPCR
  2. Bio-Rad QX200 digital droplet PCR

Staff Contact Information

 Names

 Title

 Email Address

 Phone Number

Genomics Core Main Line

N/A

N/A

(858) 784-2263

Steve Head

Director, Senior

shead@scripps.edu

(858)784-2218

Nina Tung

Administrative Assistant

ninat@scripps.edu

(858)784-2680

Sheila Kay

Project Manager

shkay@scripps.edu

(858)784-2084

Tony Mondala

Scientific Manager, Senior

tmondala@scripps.edu

(858)784-2262

John Shimashita

Research Assistant, III

jshimo@scripps.edu

(858)784-2463

Jessica Ledesma

Research Assistant,III

jledesma@scripps.edu

(858)784-2467

Ryan McBride

Scientific Associate

rmcbride@scripps.edu

(858)784-2676

Nicholas Lee

Research Assistant

nvlee@scripps.edu

(858)784-2373

Physical Address to the Genomics Core Facility

Bldg. Name: Skaggs Institute For Chemical Biology

10596 N. Torrey Pines Rd.

MB-28

La Jolla, CA 92037

Shipping Address 

Attn: (list contact person at the Genomics Core facility)

Genomics Core Facility

9060 Activity Rd Unit F

MB28

San Diego CA 92126

How to Submit a Sample Submission Request Form to the Genomics Core Facility for Internal Users.

Here is the link to access the Idea Elan Infinity  database, https://secure21.ideaelan.com/secure/public/applogin.aspx. Once you register in the new database please go to your "Home Page," and select "Facilities"(as seen below).  Next you will select “Request Access,” to the Core and we will approve your access asap. Once you are a user of the facility and would like to submit an NGS form for services to the Genomics Core, you will find the NGS form under "Request Services." If you have any questions or issues with using Elan Infinity or if you are an external customer, please contact Sheila (shkay@scripps.edu ; (858) 784-2263 or 2084) for assistance.

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