Notice Number: NOT-HG-12-001

Update: The following update relating to this announcement has been issued:

• November 16, 2011 - See Notice NOT-HG-12-002. The purpose of this Notice is to inform interested applicants from eligible institutions that NHGRI is changing the receipt date for RFA-HG-11-024 and RFA-HG-11-025.

Key Dates
Release Date: October 19, 2011

Issued by
National Human Genome Research Institute (NHGRI)

Purpose

The purpose of this Notice is to modify the language in the FOA research scope in RFA-HG-11-024, Expanding the Encyclopedia of DNA Elements (ENCODE) in the Human and Model Organisms (U54).

This FOA describes specific scientific projects that are solicited. Due to an error, one bullet referring to functional RNA molecules was partially duplicated and another referring to functional sequence elements within RNA molecules was omitted. In addition, the eighth bullet should be indented to improve clarity. This Notice provides the correct language.

The changes occur in Part 2, Section I.

Original language:

Projects are solicited to develop:

Maps of all classes of functional RNA molecules in a larger number of cell types and tissues;
Fine structural genome annotation (of the human and mouse genomes only) by improving gene models using newly available data, e.g., RNA-seq data
Maps of sites of open chromatin in a larger number of cell types and tissues
Maps of selected histone marks and other relevant chromatin proteins in a larger number of cell types and tissues
Maps of sites of DNA methylation in a larger number of cell types and tissues, and at higher resolution, where applicable
Maps of all classes of functional RNA molecules in a well justified set of cell types and tissues
Maps of the binding sites for more transcription factors, using a minimum of two Tier 1 (or Tier 2 if a factor is not expressed in Tier 1) cell types for each previously unstudied factor, and additional, well justified cell types as resources permit
For transcription factors for which binding site maps already exist, development of maps in additional cell types will be considered, but will be of lower priority and expansion of this data set must be strongly justified

Revised language:

Projects are solicited to develop:

Maps of all classes of functional RNA molecules in a larger number of cell types and tissues
Fine structural genome annotation (of the human and mouse genomes only) by improving gene models using newly available data, e.g., RNA-seq data
Maps of sites of open chromatin in a larger number of cell types and tissues
Maps of selected histone marks and other relevant chromatin proteins in a larger number of cell types and tissues
Maps of sites of DNA methylation in a larger number of cell types and tissues, and at higher resolution, where applicable
Maps of all functional sequence elements within RNA molecules in a well justified set of cell types and tissues
Maps of the binding sites for more transcription factors, using a minimum of two Tier 1 (or Tier 2 if a factor is not expressed in Tier 1) cell types for each previously unstudied factor, and additional, well justified cell types as resources permit.
For transcription factors for which binding site maps already exist, development of maps in additional cell types will be considered, but will be of lower priority and expansion of this data set must be strongly justified.

Inquiries

Please direct all inquiries by email to:

Elise A. Feingold, Ph.D.
Program Director, Genome Analysis
National Human Genome Research Institute
National Institutes of Health
5635 Fishers Lane
Suite 4076, MSC 9305
Bethesda, MD 20892-9305 (mail)
Phone: (301) 496-7531
FAX: (301) 480-2770
Email: [email protected]
www.genome.gov/ENCODE