DNA Analysis (La Jolla)

Getting Started

Internal SBMRI

  • If you have an iLab account, please login at the top right or use this link https://ilab.sanfordburnham.org/
  • If you do not have an iLab account, please click HERE to request an account. All fields are required.

 

External SBMRI

  • You must have a Customer ID and iLab account to request services from this facility.
  • To obtain a Customer ID please email Eveline Hernandez at ehernandez@sanfordburnham.org
  • To obtain an iLab account, please click HERE.


Forgot your password? Please click HERE.

 

Overview of Services

 

 

The DNA Analysis Facility at Sanford-Burnham in La Jolla provides next-generation sequencing services, from experimental design to data analysis. The facility has two next-generation sequencers, the Life Technologies Ion Torrent PGM and Ion Proton sequencers. Both platforms offer rapid turnaround, with sequencing run times ranging from 2-7 hours. The Ion Torrent can provide up to 1 Gb of sequencing data, with reads up to 400 bases in length. The Ion Torrent is ideal for sequencing of small genomes and targeted sequencing of predefined gene sets, such as mutations in genes associated with cancer. The Ion Proton currently produces up to 10 Gb of sequence data with read lengths up to 200 bases and will support several applications including, whole transcriptome, and whole exome sequencing. The P II chip for the Ion Proton, scheduled for release by September 2013, has an advertised output of 30 Gb, sufficient for whole genome sequencing. As a core facility, the sequencing facility provides state-of-the-art equipment and expertise, which would be impractical for individual labs to maintain. The core also provides sequencing services to investigators outside of Sanford-Burnham.

 

Included in the cost of sequencing is basic bioinformatic analysis (SNP/InDel calling, transcript abundance). The core also provides advice on experimental design, and guidance on the capabilities of next-generation sequencing. Advanced bioinformatic and systems biology analysis is available through the Bioinformatics & Data Management core in La Jolla.

 

The core also supports the NanoString nCounter, providing sample handling and training. The nCounter is a simple, cost-effective way to profile hundreds of mRNAs, microRNAs, non-coding RNAs, or DNA targets simultaneously with high sensitivity and precision. Digital detection of target molecules and high levels of multiplexing eliminate the compromise between data quality and data quantity. The nCounter Analysis System uses molecular “barcodes” and single molecule imaging to detect and count up to 800 unique sequences in a single reaction.


Leadership

 

Brian James, Ph.D. | Facility Director

(858) 646 - 3100 x4084

bjames@sanfordburnham.org

 

Craig Hauser, Ph.D. | Scientific Director

chauser@sanfordburnham.org


Location and hours of operation

 

Hours Location

Monday - Friday

9:00AM - 5:00PM

Excluding Holidays     

Building 2 Room 2201

La Jolla, California 92103

 

Sanford-Burnham Medical Research Institute, La Jolla

10901 North Torrey Pines Road
La Jolla, California 92037

Links and Resources

  1. www.sanfordburnham.org
  2. DNA Analysis Public Website
  3. DNA Analysis Intenal Website

Services

Name Description Price
Ion Torrent PGM and Ion Proton Next Gen Sequencing 

 

To request this service please contact Brian James directly.


The facility provides high throughput “next gen” sequencing on the Life Technologies Ion Torrent PGM and Ion Proton sequencers. Both platforms offer rapid turnaround, with sequencing run times ranging from 2-7 hours. The Ion Torrent can provide up to 1Gb of sequencing data from a 318 chip, with reads up to 400 bases in length. The Ion Torrent is ideal for sequencing of small genomes and targeted sequencing of predefined gene sets. The Ion Proton P I chip produces up to 10Gb of sequence data with read lengths up to 200 bases. The P II chip for the Ion Proton, scheduled to be released in the summer of 2013, has an advertised output of 30Gb and a very low per base reagent cost. The Ion Proton will support several applications including, whole transcriptome, and whole exome sequencing.

 
*
NanoString nCounter Processing and Training 

A simple, cost-effective way to profile hundreds of mRNAs, microRNAs, non-coding RNAs, or DNA targets simultaneously with high sensitivity and precision. Digital detection of target molecules and high levels of multiplexing eliminate the compromise between data quality and data quantity. The nCounter Analysis System uses molecular “barcodes” and single molecule imaging to detect and count up to 800 unique sequences in a single reaction.

 
*
Bioanalyzer Chip Run    *
Ion 314 Chip    *
Ion 316Chip    *
Ion DNA Barcoding (1-16) 

 

Price is per sample.

 
*
Ion PGM 200 bp Sequencing 

 

Price is per sample.

 
*
Ion Xpress Fragment Library  

 

Pricing is per reaction

 
*
Ion Xpress Template  

 

Price is per sample

 
*
PGM and Proton Labor Cost (per sample) 

 

Price is per sample.

 
*