Service Workflow
Step 1: Create an Account
Step 2: Request Services
- After creating the BRC account, Contact us at brc_epigenomics@cornell.edu to schedule a consultation and we will assist you in requesting the appropriate services.
Step 3: Submit Samples
After discussing projects during the free consultation and by email, researchers will email us their sample submission form (SSF). Sample drop off should be scheduled by email for delivery on dry ice either in person in Biotech 467, on the C2C bus (Weill Cornell only), or shipped as described below. All samples are photographed and documented upon arrival.
Shipping Instructions
Take a picture of the tubes so that their labels are visible
Please check that tube labels and order agree with the forms you have submitted and are legible in the photo.
Ship samples in dry ice, and if you include your own antibody, ship the antibody on ice.
Include a sample tube with plain ice to verify temperature integrity during transit.
Deliver or send samples via express mail to:
Cornell Epigenomics Core (EGC)
526 Campus Road
467 Biotech Bldg
Ithaca, NY 14853
Step 4: Process Samples
Step 5: Access Data
- -Sample turnaround time is approximately 2-3 months
- -Quality control reports are provided, along with a data summary
- -Sequencing files and QC report are provided via Box link
- -Cite us! All presentations and publications including this data should acknowledge the Cornell BRC Epigenomics Facility and include our facility RRID (RRID:SCR_021287). Thanks!
Datafiles & Analysis
We provide the raw FastQ files, raw BAMs, filtered BAMs, and strand-specific bigWig files from the sequencing results to you together with a copy of this summary report. The files are available in a shared Cornell Box folder for 30 days. An invitation to join the Box folder will be sent to you. We keep the metainformation and raw files for you as a part of this service.
- Here are instructions to use Filezilla if you want a GUI interface
- Here are instructions to use the command line
Dr. Will Lai has developed a GUI interface for some standard approaches to analyzing ChIP-exo data. You can download the software from his repo – https://github.com/CEGRcode/scriptmanager.
- A “ScriptManager-Tutorial.docx” is available with step-by-step screenshot tutorials.
- Here are recordings of Dr. Lai’s prior epigenomics training sessions. Download materials are available but videos will require BioHPC account login which is free to members of Cornell community.
- Please let us know if you would like to schedule a meeting for a consultation on your data and analyses.
Step 6: Finish Up
Acknowledging EGC services
If you publish data that has been generated with the help of the services we provide, mentioning the Cornell Institute of Biotechnology in the acknowledgments section is very helpful. Here is why. You can also review our authorship guidelines.
To cite us is simple, just put (Cornell University BRC Epigenomics Core Facility, RRID:SCR_021287) in your acknowledgements.