Genomics Core Facility

Overview of Services

The Genomics Core Facility is housed within the Lewis-Sigler Institute for Integrative Genomics at Princeton University. The facility provides researchers with access to state of the art, high-throughput sequencing technologies and  is fully equipped for all aspects of microarray labeling, hybridization, data acquisition. In addition, the core facility offers sequencing library preparation services, consultation on experimental design and data analysis. Collaborations on developing novel sequencing applications are also welcome. The staff provide training on use of the self service equipment, troubleshooting, and assistance with software and data analysis. The Core Facility works closely with the Research Computing Staff to provide researchers with computing power and consulting services to analyze the Sequencing and Microarray data.

Contigency Plans for Operation - Updated 3/24/20 - Facility is Currently Shutdown

The primary contact for the Genomics Core Facility is Wei Wang, the director, ww3@princeton.edu, 609-258-6998.  If he is not available during the limited operations, please contact Jessica Wiggins, the lab manager, jbuckles@princeton.edu, 609-258-9365.

The Genomics Core Facility will continue to provide services and access to shared instruments as long as our lab and staff are available and doing so is permitted by the University.  Longer turnaround time is likely due to potential shortage of staffing.  Sequencing of user provided libraries will be put on top priority to best support the ongoing genomics research.  For NovaSeq sequencing, request for whole flowcells is recommended over individual lanes to reduce the waiting time for other matching libraries.  Users are encouraged to submit iLab request for genomics services at the earliest convenience so that the core facility can plan the work and order the required reagents to prevent processing delay.  This is especially important for sequencing with uncommon parameters such as long read length (like NovaSeq 300nt or Miseq 600nt) or large read number (like NovaSeq S1 or S2 flowcell), as well as for library preparation on large number of samples which takes more hands-on time. 

All core facility staff have been cross-trained on almost all of the genomics services provided and shared instruments.  All major instruments in the Genomics core facility have been supported by Uninterruptible Power Supply to mitigate brief outage of electricity.  Phone numbers of the core facility staff are posted on the iLab web page to provide technical help on shared instruments.  Shutdown procedures for main instruments are summarized in the appendix of the contingency plan, and the procedure printout is attach to each instrument for everybody to follow in case the core facility staff are unavailable for an extended period. 

In accordance with the university guideline on social distancing, in person training on shared instruments has been paused in general. Urgent need for training may still be accommodated upon request.  The users can instead request the corresponding services provided by the core staff.  Users are encouraged to use the sample drop off freezer set up in the core lab, instead of submitting samples to core staff in person.  The core staff will try to maintain the recommended six feet distance when feasible, and may stagger their work time to some extent as 2 shifts (normal and late shifts which overlap) when needed. 

In case our building or the entire campus were closed, the core facility staff who is able to work will continue to work remotely to support the genomics research.  Users can log in to our iLab system at https://princeton.corefacilities.org/service_center/3970 to send internal messaging, or email genomics-core@princeton.edu in which all core facility staff can communicate with users and to each other.  In addition, the users can directly email the core facility director at ww3@princeton.edu to obtain consultation on experimental design, data analysis, as well as collaboration on evaluating and developing new sequencing methods.  All members of the core facility have exchanged cellular numbers for emergency communication.  Instruments in the facility will be shut down when the entire campus is closed. 

The core facility has requested the following online systems to be maintained functional at all times: HTSEQ database for sequencing data storage and delivery, local GALAXY system for data analysis, and iLab system for ordering and sample tracking. 

To minimize the potential interruption of services due to significant disruption of supplies, the Genomics Core Facility has been ordering and stocking up consumables and reagents with no or long expiration as much as possible.  For expensive reagents with limited shelf life, such as the Illumina sequencing kits, the facility will carefully monitor the usage and place frequent small orders to maintain the stock. 

List of Services

Full Service

  • Next Generation Sequencing on NovaSeq 6000 and MiSEQ
  • Next Generation Sequencing Library Prep
  • DNA and RNA QC on Bioanalyzer
  • Blue Pippin Size Selection

Self Service

  • QPCR
  • ddPCR
  • Agilent Microarray Labeling, Hybridization, Scanning
  • Biomek Liquid Handling Robot
  • Biotek plate reader
  • Kingfisher Flex DNA or RNA extraction
  • Covaris 
  • Agilent Bioanalyzer and TapeStation

Getting Started

  • Princeton Clients: If you already have an account, log in (upper right corner) and go to the Request Services or Schedule Equipment tabs.  If you are a new user, log in (upper right corner) using a valid Princeton ID.
  • Non-Princeton Clients: If you already have an account, log in (upper right corner) with approved iLab credentials.  If you are a new external user, Register to setup an iLab account.
  • Visit the iLab Help Site or Customer Help Manual for further guidance using iLab's Core Facility Services.

 

Location and hours of operation

Hours Location

9-5pm

Lewis Sigler Institute
003 Carl Icahn Laboratory
Princeton, NJ

Links and Resources

  1. http://lsi.princeton.edu/facilities/sequencing-facility
  2. https://htseq.princeton.edu/

Acknowledgement

We appreciate that you have chosen our facility to conduct your study and would like to remind you to remember us when writing your manuscript, as authorship and acknowledgment are indicators of our facilities success.  If we've contributed to the experimental design, produced experimental data, and/or helped with analysis, interpretation or writing of the text then you should acknowledge us. If the work carried out has been exceptional or the person doing it has done significantly more than would normally be expected you might consider naming that person in the acknowledgment or adding that individual as an author on the paper. 

Examples:

"We thank the Princeton University Genomics Core Facility Staff for library preparation and sequencing."

Or

"We thank (individual staff member) and the Princeton University Genomics Core Facility for library preparation and sequencing."

 

 

Contacts

Name Role Phone Email Location
Wei Wang
Director
 
609-258-6998
 
ww3@princeton.edu
 
Icahn134A
 
Jessica Wiggins
Lab Manager
 
609-258-9365
 
jbuckles@princeton.edu
 
Icahn 005
 
Jennifer Miller
Research Specialist
 
609-258-0381
 
jmm6@princeton.edu
 
Icahn 005
 
Ling Guo
Research Specialist
 
609-258-0381
 
lguo@princeton.edu
 
Icahn 005
 
Nephthaly Jean-Charles
Research Specialist
 
609-258-0381
 
naj4@princeton.edu
 
Icahn 005