Publications by authors named "Debashish Ray"

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CisBP-RNA: a web resource for eukaryotic RNA-binding proteins and their motifs.
Diego A Rosado-Tristani, Mihai Albu, Xiaoting Chen, Alexander Sasse, Kaitlin U Laverty, Debashish Ray

Nucleic Acids Res· October 2025

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At-RS31 orchestrates hierarchical cross-regulation of splicing factors and integrates alternative splicing with TOR-ABA pathways.
Tino Köster, Peter Venhuizen, Martin Lewinski, Ezequiel Petrillo, Yamile Marquez, Debashish Ray

New Phytol· July 2025

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A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function.
Alexander Sasse, Debashish Ray, Kaitlin U Laverty, Cyrus L Tam, Mihai Albu

Nat Biotechnol· July 2025

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A TATA-box-binding protein binds single-stranded DNA in two modes: To poly(G) tracts and to flexible DNA regions.
Kieran Freitag, Melanie Marlow, Joella Joseph, Robert Ta, Jessica Krekhno, Debashish Ray

J Biol Chem· June 2025

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At-RS31 orchestrates hierarchical cross-regulation of splicing factors and integrates alternative splicing with TOR-ABA pathways.
Tino Köster, Peter Venhuizen, Martin Lewinski, Ezequiel Petrillo, Yamile Marquez, Debashish Ray

bioRxiv· December 2024

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Reconstructing the sequence specificities of RNA-binding proteins across eukaryotes.
Alexander Sasse, Debashish Ray, Kaitlin U Laverty, Cyrus L Tam, Mihai Albu

bioRxiv· October 2024

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Uncovering a mammalian neural-specific poly(A) binding protein with unique properties.
Sahil Sharma, Sam Kajjo, Zineb Harra, Benedeta Hasaj, Victoria Delisle, Debashish Ray

Genes Dev· August 2023

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RNA-binding proteins that lack canonical RNA-binding domains are rarely sequence-specific.
Debashish Ray, Kaitlin U Laverty, Arttu Jolma, Kate Nie, Reuben Samson

Sci Rep· March 2023

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PRIESSTESS: interpretable, high-performing models of the sequence and structure preferences of RNA-binding proteins.
Kaitlin U Laverty, Arttu Jolma, Sara E Pour, Hong Zheng, Debashish Ray

Nucleic Acids Res· October 2022

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Regulation of alternative polyadenylation by the C2H2-zinc-finger protein Sp1.
Jingwen Song, Syed Nabeel-Shah, Shuye Pu, Hyunmin Lee, Ulrich Braunschweig, Debashish Ray

Mol Cell· September 2022

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The X-linked splicing regulator MBNL3 has been co-opted to restrict placental growth in eutherians.
Thomas Spruce, Mireya Plass, André Gohr, Debashish Ray, María Martínez de Lagrán

PLoS Biol· April 2022

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The RNA-binding protein SERBP1 functions as a novel oncogenic factor in glioblastoma by bridging cancer metabolism and epigenetic regulation.
Adam Kosti, Patricia Rosa de Araujo, Wei-Qing Li, Gabriela D A Guardia, Jennifer Chiou, Debashish Ray

Genome Biol· August 2020

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ARGLU1 is a transcriptional coactivator and splicing regulator important for stress hormone signaling and development.
Lilia Magomedova, Jens Tiefenbach, Emma Zilberman, Florian Le Billan, Veronique Voisin, Debashish Ray

Nucleic Acids Res· April 2019

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The TRIM-NHL protein NHL-2 is a co-factor in the nuclear and somatic RNAi pathways in . e.
Gregory M Davis, Shikui Tu, Joshua Wt Anderson, Rhys N Colson, Menachem J Gunzburg, Debashish Ray

Elife· December 2018

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A Chemical Biology Approach to Model Pontocerebellar Hypoplasia Type 1B (PCH1B).
Liberty François-Moutal, Shahriyar Jahanbakhsh, Andrew D L Nelson, Debashish Ray, David D Scott

ACS Chem Biol· October 2018

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RNAcompete-S: Combined RNA sequence/structure preferences for RNA binding proteins derived from a single-step in vitro selection.
Kate B Cook, Shankar Vembu, Kevin C H Ha, Hong Zheng, Kaitlin U Laverty, Debashish Ray

Methods· August 2017

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Oncogenic Activation of the RNA Binding Protein NELFE and MYC Signaling in Hepatocellular Carcinoma.
Hien Dang, Atsushi Takai, Marshonna Forgues, Yotsowat Pomyen, Haiwei Mou, Debashish Ray

Cancer Cell· July 2017

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An RRM-ZnF RNA recognition module targets RBM10 to exonic sequences to promote exon exclusion.
Katherine M Collins, Yaroslav A Kainov, Evangelos Christodolou, Debashish Ray, Quaid Morris

Nucleic Acids Res· June 2017

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RNAcompete methodology and application to determine sequence preferences of unconventional RNA-binding proteins.
Debashish Ray, Kevin C H Ha, Kate Nie, Hong Zheng, Timothy R Hughes

Methods· April 2017

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Multilayered Control of Alternative Splicing Regulatory Networks by Transcription Factors.
Hong Han, Ulrich Braunschweig, Thomas Gonatopoulos-Pournatzis, Robert J Weatheritt, Calley L Hirsch, Debashish Ray

Mol Cell· February 2017

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Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians.
Jordi Solana, Manuel Irimia, Salah Ayoub, Marta Rodriguez Orejuela, Vera Zywitza, Debashish Ray

Elife· August 2016

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The Crystal Structure of the NHL Domain in Complex with RNA Reveals the Molecular Basis of Drosophila Brain-Tumor-Mediated Gene Regulation.
Inga Loedige, Leonhard Jakob, Thomas Treiber, Debashish Ray, Mathias Stotz

Cell Rep· November 2015

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Brain tumor is a sequence-specific RNA-binding protein that directs maternal mRNA clearance during the Drosophila maternal-to-zygotic transition.
John D Laver, Xiao Li, Debashish Ray, Kate B Cook, Noah A Hahn

Genome Biol· May 2015

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A pair of RNA-binding proteins controls networks of splicing events contributing to specialization of neural cell types.
Adam D Norris, Shangbang Gao, Megan L Norris, Debashish Ray, Arun K Ramani

Mol Cell· June 2014

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Identifying mRNA sequence elements for target recognition by human Argonaute proteins.
Jingjing Li, TaeHyung Kim, Razvan Nutiu, Debashish Ray, Timothy R Hughes

Genome Res· May 2014

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