An Integrated Regulatory Network Reveals Pervasive Cross-Regulation among Transcription and Splicing Factors

An Alternative Splicing Switch Regulates Embryonic Stem Cell Pluripotency and Reprogramming

(2011) Mathieu Gabut et al.   CELL

Intrinsically disordered proteins: regulation and disease

(2011) M Madan Babu et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Cross-Regulation between an Alternative Splicing Activator and a Transcription Repressor Controls Neurogenesis

(2011) Bushra Raj et al.   MOLECULAR CELL

A cis-regulatory map of the Drosophila genome

(2011) Nicolas Nègre et al.   NATURE

Regulatory evolution through divergence of a phosphoswitch in the transcription factor CEBPB

(2011) Vincent J. Lynch et al.   NATURE

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

Functional consequences of developmentally regulated alternative splicing

(2011) Auinash Kalsotra et al.   NATURE REVIEWS GENETICS

Comparative Analysis of Serine/Arginine-Rich Proteins across 27 Eukaryotes: Insights into Sub-Family Classification and Extent of Alternative Splicing

(2011) Dale N. Richardson et al.   PLoS One

Networking in a global world: Establishing functional connections between neural splicing regulators and their target transcripts

(2011) J. A. Calarco et al.   RNA

Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP

(2010) Markus Hafner et al.   CELL

Sex determination in Drosophila: The view from the top

(2010) Helen Salz et al.   FLY

Integration of a splicing regulatory network within the meiotic gene expression program of Saccharomyces cerevisiae

(2010) E. M. Munding et al.   GENES & DEVELOPMENT

Deciphering the splicing code

(2010) Yoseph Barash et al.   NATURE

Analysis and design of RNA sequencing experiments for identifying isoform regulation

(2010) Yarden Katz et al.   NATURE METHODS

Co-regulation of alternative splicing by diverse splicing factors in Caenorhabditis elegans

(2010) Sergio Barberan-Soler et al.   NUCLEIC ACIDS RESEARCH

SFmap: a web server for motif analysis and prediction of splicing factor binding sites

(2010) I. Paz et al.   NUCLEIC ACIDS RESEARCH

Integrative Modeling Defines the Nova Splicing-Regulatory Network and Its Combinatorial Controls

(2010) C. Zhang et al.   SCIENCE

Analysis of Combinatorial Regulation: Scaling of Partnerships between Regulators with the Number of Governed Targets

(2010) Nitin Bhardwaj et al.   PLoS Computational Biology

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists

(2009) Eran Eden et al.   BMC BIOINFORMATICS

Alternative Splicing of Transcription Factors' Genes: Beyond the Increase of Proteome Diversity

(2009) David Talavera et al.   COMPARATIVE AND FUNCTIONAL GENOMICS

Large-scale Proteomics Analysis of the Human Kinome

(2009) Felix S. Oppermann et al.   MOLECULAR & CELLULAR PROTEOMICS

Genome-wide Analysis of PTB-RNA Interactions Reveals a Strategy Used by the General Splicing Repressor to Modulate Exon Inclusion or Skipping

(2009) Yuanchao Xue et al.   MOLECULAR CELL

Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture

(2009) Raja Jothi et al.   Molecular Systems Biology

A census of human transcription factors: function, expression and evolution

(2009) Juan M. Vaquerizas et al.   NATURE REVIEWS GENETICS

An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells

(2009) Gene W Yeo et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Antagonistic factors control the unproductive splicing of SC35 terminal intron

(2009) Natacha Dreumont et al.   NUCLEIC ACIDS RESEARCH

A computational approach for genome-wide mapping of splicing factor binding sites

(2009) Martin Akerman et al.   GENOME BIOLOGY

Functional integration of transcriptional and RNA processing machineries

(2008) Shatakshi Pandit et al.   CURRENT OPINION IN CELL BIOLOGY

Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts

(2008) J. R. Sanford et al.   GENOME RESEARCH

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

(2008) Donny D. Licatalosi et al.   NATURE

Evolvability and hierarchy in rewired bacterial gene networks

(2008) Mark Isalan et al.   NATURE

Expression of 24,426 human alternative splicing events and predicted cis regulation in 48 tissues and cell lines

(2008) John C Castle et al.   NATURE GENETICS

Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

(2008) Anton Valouev et al.   NATURE METHODS

Identification of Nuclear and Cytoplasmic mRNA Targets for the Shuttling Protein SF2/ASF

(2008) Jeremy R. Sanford et al.   PLoS One

High-Quality Binary Protein Interaction Map of the Yeast Interactome Network

(2008) H. Yu et al.   SCIENCE

Coupling and coordination in gene expression processes: a systems biology view

(2007) Suzanne Komili et al.   NATURE REVIEWS GENETICS