D. Ray

发表

Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins

Lourdes Peña Castillo, Esther T. Chan, T. Hughes, 2009, Nature Biotechnology.

RNAcompete-S: Combined RNA sequence/structure preferences for RNA binding proteins derived from a single-step in vitro selection.

Kaitlin U Laverty, Kate B. Cook, T. Hughes, 2017, Methods.

Analysis of Escherichia coli RNase E and RNase III activity in vivo using tiling microarrays

Lourdes Peña Castillo, T. Hughes, D. Ray, 2010, Nucleic acids research.

Cross-regulation between an alternative splicing activator and a transcription repressor controls neurogenesis.

Qun Pan, B. Blencowe, Q. Pan, 2011, Molecular cell.

Large-scale interaction profiling of PDZ domains through proteomic peptide-phage display using human and viral phage peptidomes

Tony Pawson, Roland Arnold, Rakesh Joshi, 2014, Proceedings of the National Academy of Sciences.

West Nile Virus 5′-Cap Structure Is Formed by Sequential Guanine N-7 and Ribose 2′-O Methylations by Nonstructural Protein 5

Yi Guo, Hongmin Li, Hongping Dong, 2006, Journal of Virology.

Recent advances in flavivirus antiviral drug discovery and vaccine development.

D. Ray, P. Shi, 2006, Recent patents on anti-infective drug discovery.

Enhancer-like properties of an RNA element that modulates Tombusvirus RNA accumulation.

D. Ray, K. White, 1999, Virology.

An RRM–ZnF RNA recognition module targets RBM10 to exonic sequences to promote exon exclusion

T. Hughes, Q. Morris, D. Ray, 2017, Nucleic acids research.

Multilayered Control of Alternative Splicing Regulatory Networks by Transcription Factors.

Robert J. Weatheritt, T. Hughes, B. Blencowe, 2017, Molecular cell.

Regulation of alternative polyadenylation by the C2H2-zinc-finger protein Sp1.

B. Blencowe, D. Ray, Xinghua Guo, 2022, Molecular cell.

The Crystal Structure of th e NHL Domain in Complex with RNA Reveals the Molecular Basis of Drosophila Brain-Tumor-Mediated Gene Regulation Graphical

Kate B. Cook, T. Hughes, Q. Morris, 2022 .

Brain tumor is a sequence-specific RNA-binding protein that directs maternal mRNA clearance during the Drosophila maternal-to-zygotic transition

Kate B. Cook, T. Hughes, Q. Morris, 2015, Genome Biology.

PRIESSTESS: interpretable, high-performing models of the sequence and structure preferences of RNA-binding proteins

Kaitlin U Laverty, T. Hughes, Q. Morris, 2022, Nucleic acids research.

An Internally Located RNA Hairpin Enhances Replication of Tomato Bushy Stunt Virus RNAs

D. Ray, K. White, 2003, Journal of Virology.

The RNA-binding protein SERBP1 functions as a novel oncogenic factor in glioblastoma by bridging cancer metabolism and epigenetic regulation

Gabriela D. A. Guardia, Yi-ming Li, T. Hughes, 2020, Genome Biology.

RNAcontext: A New Method for Learning the Sequence and Structure Binding Preferences of RNA-Binding Proteins

Esther T. Chan, T. Hughes, Q. Morris, 2010, PLoS Comput. Biol..

A compendium of RNA-binding motifs for decoding gene regulation

Brendan J. Frey, Xiao Li, Hong Zheng, 2013, Nature.

Identifying mRNA sequence elements for target recognition by human Argonaute proteins

T. Hughes, D. Ray, Zhaolei Zhang, 2014, Genome research.

human Argonaute proteins Identifying mRNA sequence elements for target recognition by Material

Zhaolei Zhang, TaeHyung Kim, Timothy R. Hughes, 2014 .

RNAcontext: A New Method for Learning the Sequence and Structure Binding Preferences of RNA-Binding Proteins

Quaid Morris, Timothy R. Hughes, Esther T. Chan, 2010, PLoS Comput. Biol..

The TRIM-NHL protein NHL-2 is a Co-Factor in the Nuclear and Somatic RNAi Pathways in C . 1 elegans 2 3

Z. Weng, T. Hughes, Q. Morris, 2019 .

The TRIM-NHL protein NHL-2 is a Novel Co-Factor of the CSR-1 and HRDE-1 22G-RNA Pathways

Z. Weng, T. Hughes, Q. Morris, 2018, bioRxiv.

The TRIM-NHL protein NHL-2 is a Novel Co-Factor of the CSR-1 and HRDE-1 22 G-RNA 1 Pathways 2 3

Z. Weng, T. Hughes, Q. Morris, 2018 .

Oncogenic Activation of the RNA Binding Protein NELFE and MYC Signaling in Hepatocellular Carcinoma.

T. Hughes, Q. Morris, D. Ray, 2017, Cancer cell.

Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians

T. Hughes, Q. Morris, B. Blencowe, 2016, eLife.

Structure and Function of Flavivirus NS5 Methyltransferase

Yi Guo, Hongmin Li, Hongping Dong, 2007, Journal of Virology.

Distinct RNA Elements Confer Specificity to Flavivirus RNA Cap Methylation Events

D. Ray, P. Shi, C. Ho, 2007, Journal of Virology.

The X-linked splicing regulator MBNL3 has been co-opted to restrict placental growth in eutherians

T. Hughes, Q. Morris, D. Ray, 2021, bioRxiv.

RNAcompete methodology and application to determine sequence preferences of unconventional RNA-binding proteins.

Timothy R. Hughes, Quaid D. Morris, T. Hughes, 2017, Methods.

The Crystal Structure of the NHL Domain in Complex with RNA Reveals the Molecular Basis of Drosophila Brain-Tumor-Mediated Gene Regulation.

Julia C. Engelmann, Kate B. Cook, T. Hughes, 2015, Cell reports.

A Chemical Biology Approach to Model Pontocerebellar Hypoplasia Type 1B (PCH1B).

T. Hughes, Q. Morris, D. Ray, 2018, ACS chemical biology.

A second functional RNA domain in the 5' UTR of the Tomato bushy stunt virus genome: intra- and interdomain interactions mediate viral RNA replication.

D. Ray, K. White, Baodong Wu, 2003, RNA.

ARGLU1 is a Glucocorticoid Receptor Coactivator and Splicing Modulator Important in Stress Hormone Signaling and Brain Development

Gary D Bader, Serge Gueroussov, T. Hughes, 2016, bioRxiv.

ARGLU 1 is a Glucocorticoid Receptor Coactivator and Splicing Modulator Important in Stress Hormone Signaling and Brain Development

Gary D Bader, Serge Gueroussov, T. Hughes, 2016 .

The p92 Polymerase Coding Region Contains an Internal RNA Element Required at an Early Step in Tombusvirus Genome Replication

D. Ray, P. D. Nagy, Wei Xu, 2005, Journal of Virology.

3'-Terminal RNA secondary structures are important for accumulation of tomato bushy stunt virus DI RNAs.

Hong Na, D. Ray, M. Fabian, 2003, Virology.

RNA-binding proteins that lack canonical RNA-binding domains are rarely sequence-specific

Kaitlin U Laverty, H. Najafabadi, T. Hughes, 2023, Scientific Reports.

ARGLU1 is a transcriptional coactivator and splicing regulator important for stress hormone signaling and development

Gary D Bader, Michelle S. Scott, Serge Gueroussov, 2019, Nucleic acids research.

Paralogs hnRNP L and hnRNP LL Exhibit Overlapping but Distinct RNA Binding Constraints

Sarah A. Smith, Kate B. Cook, T. Hughes, 2013, PloS one.

A pair of RNA-binding proteins controls networks of splicing events contributing to specialization of neural cell types.

Quaid Morris, Arun K. Ramani, Mei Zhen, 2014, Molecular cell.

Structure and Function of Flavivirus NS 5 Methyltransferase

D. Ray, Yi Guo, P. Shi, 2007 .

The TRIM-NHL protein NHL-2 is a co-factor in the nuclear and somatic RNAi pathways in C. elegans

Z. Weng, T. Hughes, Q. Morris, 2018, eLife.

Brain tumor is a sequence-specific RNA-binding protein that directs maternal mRNA clearance during the Drosophila maternal-to-zygotic transition

Kate B. Cook, T. Hughes, Q. Morris, 2015, Genome Biology.

Structural Properties of a Multifunctional T-Shaped RNA Domain That Mediate Efficient Tomato Bushy Stunt Virus RNA Replication

D. Ray, K. White, Hong Na, 2004, Journal of Virology.

A pair of RNA-binding proteins controls networks of splicing events contributing to specialization of neural cell types.

Arun K. Ramani, John A. Calarco, A. Fraser, 2014, Molecules and Cells.

Cross-regulation between an alternative splicing activator and a transcription repressor controls neurogenesis.

B. Blencowe, Q. Pan, D. Ray, 2011, Molecular cell.

Multilayered Control of Alternative Splicing Regulatory Networks by Transcription Factors.

Robert J. Weatheritt, Frederick S. Vizeacoumar, T. Hughes, 2017, Molecular cell.

Uncovering a mammalian neural-specific poly(A) binding protein with unique properties

D. Ray, M. Fabian, Benedeta Hasaj, 2023, Genes & development.