Poster abstracts
Poster number 30 submitted by Diego A Rosado-Tristani
CisBP-RNA: A database of sequence specific RNA-Binding Protein motifs
Diego A Rosado-Tristani (Division of Allergy and Immunology, Cincinnati Childrens Hospital Medical Center, Cincinnati, Ohio, USA), Mihai Albu, Debashish Ray, Timothy R Hughes (Donnelly Centre, University of Toronto, Toronto, ON, Canada), Cyrus L. Tam (Graduate Program in Computational Biology and Medicine, Weill-Cornell Graduate School, New York, NY, USA), Alexander Sasse (Center for Molecular Biology Heidelberg ZMBH, Heidelberg University, Germany), Kaitlin U Laverty, Quaid D Morris (Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA), Xiaoting Chen, Kevin Ernst, Lucinda P Lawson, Matthew T Weirauch (Center for Autoimmune Genomics and Etiology, Cincinnati Childrens Hospital Medical Center, Cincinnati, Ohio, USA)
Abstract:
Gene regulation is an essential process to all living organisms. Genes are regulated post-transcriptionally by RNA-binding proteins (RBPs). Understanding the nucleic acid-binding specificities exhibited by RBPs (i.e., their “motifs”) is vital for many efforts for understanding gene regulatory mechanisms. Motif information is generally spread across hundreds of studies, making it difficult for researchers to access and use motifs for analysis. Over a decade ago our group created the CisBP-RNA database, to serve as comprehensive resources for eukaryotic RBP motif data. The motifs contained in CisBP-RNA are either directly obtained from a range of experimental sources (e.g., RNAcompete, or variations of HT-SELEX) or computationally predicted (“inferred”) based on homology using our JPLE method. For human, 271 of the 465 human RBPs currently have motifs (58%). Our collective approach has enabled us to identify RBPs for ~700 eukaryotic species including both understudied and model organisms such as yeast, worm, fruit fly, and mouse, producing 29,504 RNA-binding motifs. In addition to providing user-friendly browsing and download capabilities, CisBP-RNA also offers web-based tools, facilitating users to perform exploratory and hypothesis-driven research, without requiring extensive computational expertise. We will continue the development of CisBP-RNA, expanding the number of motifs available, and integrating feedback from the community. CisBP-RNA can be accessed through www.cisbp.org/rna.
Keywords: RBP, RNA-binding Motifs, Database