# A Comprehensive Functional Map of Human Protein-RNA Interactions

> **NIH NIH U41** · UNIVERSITY OF CONNECTICUT SCH OF MED/DNT · 2020 · $2,269,711

## Abstract

OVERALL – PROJECT SUMMARY
The objective of the ENCORE (Encyclopedia of RNA Elements) Consortium is to
develop a foundational, functional map of protein-RNA interactions of RNA binding
proteins (RBPs) encoded in the human genome, and the RNA elements they bind to
across the transcriptome. These RNA elements, when expressed, form the basis of co-
and post-transcriptional regulation of human genes. Our strategy consists of developing
and integrating a physical map of 300 RBPs in two different human cell lines with
transcriptome-wide measurements of the effects of depleting these RBPs, their
localization patterns and their binding preferences independent of co-factor
associations. Over the past 4 years, our consortium (Burge, Graveley, Lecuyer and Yeo)
has established highly efficient data production workflows of experimental methods
(RNA bind-n-seq, RNA-seq, Localization and enhanced CLIP) that will enable us to
immediately expand these datasets, which form a crucial and missing link to decipher
the mechanisms of post-trancriptional regulation and how these impact genetic variation
and disease etiology. When combined with the data we generated over the past four
years, these efforts will culminate in a comprehensive map of the functional RNA
elements recognized by essentially all RBPs expressed in two human cell lines,
representing approximately half of the known complement of human RBPs. ENCORE
will (1) generate and validate a physical resource of cell lines expressing epitope-tagged
RBPs, (2) develop transcriptomics and imaging databases of these RBPs to provide
simple interfaces for the community to mine this resource, (3) develop and distribute
workflows for integrative analyses and shareable results from these workflows and (4)
provide training and outreach to establish ENCORE annotations as the standard
reference for co- and post-transcriptional research and clinical genomics efforts in the
long-term.

## Key facts

- **NIH application ID:** 9878899
- **Project number:** 5U41HG009889-03
- **Recipient organization:** UNIVERSITY OF CONNECTICUT SCH OF MED/DNT
- **Principal Investigator:** Brenton R. Graveley
- **Activity code:** U41 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2020
- **Award amount:** $2,269,711
- **Award type:** 5
- **Project period:** 2018-02-05 → 2022-01-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/9878899

## Citation

> US National Institutes of Health, RePORTER application 9878899, A Comprehensive Functional Map of Human Protein-RNA Interactions (5U41HG009889-03). Retrieved via AI Analytics 2026-05-23 from https://api.ai-analytics.org/grant/nih/9878899. Licensed CC0.

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