The SWI/SNF subunit BRG1 affects alternative splicing by changing RNA binding factor interactions with nascent RNA

Co-transcriptional splicing efficiencies differ within genes and between cell types

(2021) Karan Bedi et al.   RNA

The phase separation-dependent FUS interactome reveals nuclear and cytoplasmic function of liquid–liquid phase separation

(2021) Stefan Reber et al.   NUCLEIC ACIDS RESEARCH

A Genome-wide CRISPR Screen Reveals a Role for the Non-canonical Nucleosome-Remodeling BAF Complex in Foxp3 Expression and Regulatory T Cell Function

(2020) Chin-San Loo et al.   IMMUNITY

Coupling of PARP1-mediated chromatin structural changes to transcriptional RNA polymerase II elongation and cotranscriptional splicing

(2019) Elena A. Matveeva et al.   Epigenetics & Chromatin

Functional Network Analysis Reveals the Relevance of SKIIP in the Regulation of Alternative Splicing by p38 SAPK

(2019) Caterina Carbonell et al.   Cell Reports

Combinatorial regulation of alternative splicing

(2019) Hossein Shenasa et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Sequence and Evolutionary Features for the Alternatively Spliced Exons of Eukaryotic Genes

(2019) Shi-Yi Chen et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Spliceosomal disruption of the non-canonical BAF complex in cancer

(2019) Daichi Inoue et al.   NATURE

Histone and RNA-binding protein interaction creates crosstalk network for regulation of alternative splicing

(2018) Yong-Eun Kim et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Structure and Conformational Dynamics of the Human Spliceosomal B act Complex

(2018) David Haselbach et al.   CELL

Structure of the human activated spliceosome in three conformational states

(2018) Xiaofeng Zhang et al.   CELL RESEARCH

Regulation of alternative mRNA splicing: old players and new perspectives

(2018) Heidi Dvinge   FEBS LETTERS

Transcription elongation rate affects nascent histone pre-mRNA folding and 3′ end processing

(2018) Tassa Saldi et al.   GENES & DEVELOPMENT

HNRNPA1 promotes recognition of splice site decoys by U2AF2 in vivo

(2018) Jonathan M. Howard et al.   GENOME RESEARCH

In vitro iCLIP-based modeling uncovers how the splicing factor U2AF2 relies on regulation by cofactors

(2018) F.X. Reymond Sutandy et al.   GENOME RESEARCH

SWI/SNF interacts with cleavage and polyadenylation factors and facilitates pre-mRNA 3′ end processing

(2018) Simei Yu et al.   NUCLEIC ACIDS RESEARCH

Myc-Associated Zinc Finger Protein Regulates the Pro-Inflammatory Response in Colitis and Colon Cancer via STAT3 Signaling

(2018) Daniel Triner et al.   MOLECULAR AND CELLULAR BIOLOGY

Modular Organization and Assembly of SWI/SNF Family Chromatin Remodeling Complexes

(2018) Nazar Mashtalir et al.   CELL

RNA Polymerase II Phosphorylated on CTD Serine 5 Interacts with the Spliceosome during Co-transcriptional Splicing

(2018) Takayuki Nojima et al.   MOLECULAR CELL

A non-canonical SWI/SNF complex is a synthetic lethal target in cancers driven by BAF complex perturbation

(2018) Brittany C. Michel et al.   NATURE CELL BIOLOGY

Interaction paths promote module integration and network-level robustness of spliceosome to cascading effects

(2018) Paulo R. Guimarães et al.   Scientific Reports

Splicing and Chromatin Factors Jointly Regulate Epidermal Differentiation

(2018) Sabine E.J. Tanis et al.   Cell Reports

Classifying Included and Excluded Exons in Exon Skipping Event Using Histone Modifications

(2018) Wei Chen et al.   Frontiers in Genetics

A Novel 12q13.2-q13.3 Microdeletion Syndrome With Combined Features of Diamond Blackfan Anemia, Pierre Robin Sequence and Klippel Feil Deformity

(2018) Domenico Roberti et al.   Frontiers in Genetics

RNA Pol II Dynamics Modulate Co-transcriptional Chromatin Modification, CTD Phosphorylation, and Transcriptional Direction

(2017) Nova Fong et al.   MOLECULAR CELL

Cryo-EM structure of a human spliceosome activated for step 2 of splicing

(2017) Karl Bertram et al.   NATURE

Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes

(2017) Cedric R. Clapier et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The chromatin remodeling complex Swi/Snf regulates splicing of meiotic transcripts in Saccharomyces cerevisiae

(2017) Srivats Venkataramanan et al.   NUCLEIC ACIDS RESEARCH

Comparative Analysis and Classification of Cassette Exons and Constitutive Exons

(2017) Ying Cui et al.   Biomed Research International

Histone modifications influence skipped exons inclusion

(2017) Yue Hou et al.   Journal of Bioinformatics and Computational Biology

Co-transcriptional splicing and the CTD code

(2016) Noélia Custódio et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

ATP-dependent chromatin remodeling during mammalian development

(2016) Swetansu K. Hota et al.   DEVELOPMENT

Coupling of RNA Polymerase II Transcription Elongation with Pre-mRNA Splicing

(2016) Tassa Saldi et al.   JOURNAL OF MOLECULAR BIOLOGY

Sub1 contacts the RNA polymerase II stalk to modulate mRNA synthesis

(2016) Miguel Garavís et al.   NUCLEIC ACIDS RESEARCH

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Oxidative stress controls the choice of alternative last exons via a Brahma–BRCA1–CstF pathway

(2016) Gabriele A. Fontana et al.   NUCLEIC ACIDS RESEARCH

ATPγS stalls splicing after B complex formation but prior to spliceosome activation

(2016) Dmitry E. Agafonov et al.   RNA

Comprehensive RNA Polymerase II Interactomes Reveal Distinct and Varied Roles for Each Phospho-CTD Residue

(2016) Kevin M. Harlen et al.   Cell Reports

A Broad Set of Chromatin Factors Influences Splicing

(2016) Eric Allemand et al.   PLoS Genetics

Large-scale remodeling of a repressed exon ribonucleoprotein to an exon definition complex active for splicing

(2016) Somsakul Pop Wongpalee et al.   eLife

Regulation of Alternative Splicing Through Coupling with Transcription and Chromatin Structure

(2015) Shiran Naftelberg et al.   Annual Review of Biochemistry

Mechanisms and Regulation of Alternative Pre-mRNA Splicing

(2015) Yeon Lee et al.   Annual Review of Biochemistry

SWI/SNF Chromatin Remodeling and Human Malignancies

(2015) Julien Masliah-Planchon et al.   Annual Review of Pathology-Mechanisms of Disease

Global analysis of physical and functional RNA targets of hnRNP L reveals distinct sequence and epigenetic features of repressed and enhanced exons

(2015) Brian S. Cole et al.   RNA

Mammalian SWI/SNF chromatin remodeling complexes and cancer: Mechanistic insights gained from human genomics

(2015) C. Kadoch et al.   Science Advances

SWI/SNF chromatin remodeling complexes and cancer

(2014) Jaclyn A. Biegel et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART C-SEMINARS IN MEDICAL GENETICS

How Slow RNA Polymerase II Elongation Favors Alternative Exon Skipping

(2014) Gwendal Dujardin et al.   MOLECULAR CELL

BS69/ZMYND11 Reads and Connects Histone H3.3 Lysine 36 Trimethylation-Decorated Chromatin to Regulated Pre-mRNA Processing

(2014) Rui Guo et al.   MOLECULAR CELL

Context-dependent control of alternative splicing by RNA-binding proteins

(2014) Xiang-Dong Fu et al.   NATURE REVIEWS GENETICS

RBPmap: a web server for mapping binding sites of RNA-binding proteins

(2014) Inbal Paz et al.   NUCLEIC ACIDS RESEARCH

Argonaute-1 binds transcriptional enhancers and controls constitutive and alternative splicing in human cells

(2014) M. Allo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Crosslinking-immunoprecipitation (iCLIP) analysis reveals global regulatory roles of hnRNP L

(2014) Oliver Rossbach et al.   RNA Biology

Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

(2014) Iris Jonkers et al.   eLife

Dynamic Integration of Splicing within Gene Regulatory Pathways

(2013) Ulrich Braunschweig et al.   CELL

Chromatin’s thread to alternative splicing regulation

(2013) Camilla Iannone et al.   CHROMOSOMA

DNA-methylation effect on cotranscriptional splicing is dependent on GC architecture of the exon-intron structure

(2013) S. Gelfman et al.   GENOME RESEARCH

hnRNP U Enhances Caspase-9 Splicing and Is Modulated by AKT-dependent Phosphorylation of hnRNP L

(2013) Ngoc T. Vu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Transcriptome-Wide RNA Interaction Profiling Reveals Physical and Functional Targets of hnRNP L in Human T Cells

(2013) G. Shankarling et al.   MOLECULAR AND CELLULAR BIOLOGY

Regulation of alternative splicing by local histone modifications: potential roles for RNA-guided mechanisms

(2013) H.-L. Zhou et al.   NUCLEIC ACIDS RESEARCH

Finding the target sites of RNA-binding proteins

(2013) Xiao Li et al.   Wiley Interdisciplinary Reviews-RNA

Co-transcriptional regulation of alternative pre-mRNA splicing

(2012) Sanjeev Shukla et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The RNA polymerase II CTD coordinates transcription and RNA processing

(2012) J.-P. Hsin et al.   GENES & DEVELOPMENT

Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs

(2012) H. Tilgner et al.   GENOME RESEARCH

Dynamic Protein-Protein Interaction Wiring of the Human Spliceosome

(2012) Anna Hegele et al.   MOLECULAR CELL

Argonaute proteins couple chromatin silencing to alternative splicing

(2012) Maya Ameyar-Zazoua et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The chromatin remodeling and mRNA splicing functions of the Brahma (SWI/SNF) complex are mediated by the SNR1/SNF5 regulatory subunit

(2012) Claudia B. Zraly et al.   NUCLEIC ACIDS RESEARCH

SAYP and Brahma are important for ‘repressive’ and ‘transient’ Pol II pausing

(2012) Nadezhda E. Vorobyeva et al.   NUCLEIC ACIDS RESEARCH

Combinations of Histone Modifications Mark Exon Inclusion Levels

(2012) Stefan Enroth et al.   PLoS One

Differential GC Content between Exons and Introns Establishes Distinct Strategies of Splice-Site Recognition

(2012) Maayan Amit et al.   Cell Reports

Psip1/Ledgf p52 Binds Methylated Histone H3K36 and Splicing Factors and Contributes to the Regulation of Alternative Splicing

(2012) Madapura M. Pradeepa et al.   PLoS Genetics

Exon and intron definition in pre-mRNA splicing

(2012) Laura De Conti et al.   Wiley Interdisciplinary Reviews-RNA

GC content around splice sites affects splicing through pre-mRNA secondary structures

(2011) Jing Zhang et al.   BMC GENOMICS

SWI/SNF regulates the alternative processing of a specific subset of pre-mRNAs in Drosophila melanogaster

(2011) Johan Waldholm et al.   BMC MOLECULAR BIOLOGY

ATP-dependent chromatin remodeling: genetics, genomics and mechanisms

(2011) Diana C Hargreaves et al.   CELL RESEARCH

Total RNA sequencing reveals nascent transcription and widespread co-transcriptional splicing in the human brain

(2011) Adam Ameur et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Functional mammalian spliceosomal complex E contains SMN complex proteins in addition to U1 and U2 snRNPs

(2011) Evgeny M. Makarov et al.   NUCLEIC ACIDS RESEARCH

Histone Deacetylase Activity Modulates Alternative Splicing

(2011) Jarmila Hnilicová et al.   PLoS One

SAF-A Forms a Complex with BRG1 and Both Components Are Required for RNA Polymerase II Mediated Transcription

(2011) Dzeneta Vizlin-Hodzic et al.   PLoS One

Understanding splicing regulation through RNA splicing maps

(2011) Joshua T. Witten et al.   TRENDS IN GENETICS

Chromatin density and splicing destiny: on the cross-talk between chromatin structure and splicing

(2010) Schraga Schwartz et al.   EMBO JOURNAL

Global impact of RNA polymerase II elongation inhibition on alternative splicing regulation

(2010) J. Y. Ip et al.   GENOME RESEARCH

Analysis and design of RNA sequencing experiments for identifying isoform regulation

(2010) Yarden Katz et al.   NATURE METHODS

Release of SF3 from the intron branchpoint activates the first step of pre-mRNA splicing

(2010) R. M. Lardelli et al.   RNA

Regulation of Alternative Splicing by Histone Modifications

(2010) R. F. Luco et al.   SCIENCE

Blom7α Is a Novel Heterogeneous Nuclear Ribonucleoprotein K Homology Domain Protein Involved in Pre-mRNA Splicing That Interacts with SNEVPrp19-Pso4

(2009) Johannes Grillari et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Heterogeneous Nuclear Ribonucleoprotein G Regulates Splice Site Selection by Binding to CC(A/C)-rich Regions in Pre-mRNA

(2009) Bettina Heinrich et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Variations in the composition of mammalian SWI/SNF chromatin remodelling complexes

(2009) Jessica Ryme et al.   JOURNAL OF CELLULAR BIOCHEMISTRY

Control of alternative splicing through siRNA-mediated transcriptional gene silencing

(2009) Mariano Alló et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Nucleosome positioning as a determinant of exon recognition

(2009) Hagen Tilgner et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

When chromatin meets splicing

(2009) Alberto R Kornblihtt et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Acetylation by the Transcriptional Coactivator Gcn5 Plays a Novel Role in Co-Transcriptional Spliceosome Assembly

(2009) Felizza Q. Gunderson et al.   PLoS Genetics

SWI/SNF Associates with Nascent Pre-mRNPs and Regulates Alternative Pre-mRNA Processing

(2009) Anu Tyagi et al.   PLoS Genetics

Brm transactivates the telomerase reverse transcriptase (TERT) gene and modulates the splicing patterns of its transcripts in concert with p54nrb

(2008) Taiji Ito et al.   BIOCHEMICAL JOURNAL

Characterization of an alternatively spliced GADD45α, GADD45α1 isoform, in arsenic-treated epithelial cells

(2008) Yadong Zhang et al.   MOLECULAR CARCINOGENESIS

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE