Alternative splicing at GYNNGY 5′ splice sites: more noise, less regulation

Physiological state co-regulates thousands of mammalian mRNA splicing events at tandem splice sites and alternative exons

(2014) Karol Szafranski et al.   NUCLEIC ACIDS RESEARCH

Open questions: A logic (or lack thereof) of genome organization

(2013) Laurence D Hurst   BMC BIOLOGY

Pick one, but be quick: 5' splice sites and the problems of too many choices

(2013) X. Roca et al.   GENES & DEVELOPMENT

On the Immortality of Television Sets: "Function" in the Human Genome According to the Evolution-Free Gospel of ENCODE

(2013) D. Graur et al.   Genome Biology and Evolution

Widespread splicing changes in human brain development and aging

(2013) P. Mazin et al.   Molecular Systems Biology

Transcriptome and genome sequencing uncovers functional variation in humans

(2013) Tuuli Lappalainen et al.   NATURE

RefSeq: an update on mammalian reference sequences

(2013) Kim D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: 2014 update

(2013) Donna Karolchik et al.   NUCLEIC ACIDS RESEARCH

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

Widespread sex differences in gene expression and splicing in the adult human brain

(2013) Daniah Trabzuni et al.   Nature Communications

Ensembl 2013

(2012) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

Alternative mRNA processing increases the complexity of microRNA-based gene regulation in Arabidopsis

(2012) Xiaozeng Yang et al.   PLANT JOURNAL

Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution

(2012) S. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues

(2012) J. Merkin et al.   SCIENCE

Alternative Splicing of RNA Triplets Is Often Regulated and Accelerates Proteome Evolution

(2012) Robert K. Bradley et al.   PLOS BIOLOGY

TassDB2 - A comprehensive database of subtle alternative splicing events

(2010) Rileen Sinha et al.   BMC BIOINFORMATICS

Deciphering the splicing code

(2010) Yoseph Barash et al.   NATURE

Expansion of the eukaryotic proteome by alternative splicing

(2010) Timothy W. Nilsen et al.   NATURE

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Noisy Splicing Drives mRNA Isoform Diversity in Human Cells

(2010) Joseph K. Pickrell et al.   PLoS Genetics

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mRNA decay

(2009) Zhenguo Zhang et al.   BMC BIOLOGY

Genome-wide mapping of alternative splicing in Arabidopsis thaliana

(2009) S. A. Filichkin et al.   GENOME RESEARCH

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Comparative analysis of sequence features involved in the recognition of tandem splice sites

(2008) Ralf Bortfeldt et al.   BMC GENOMICS

A systematic analysis of intronic sequences downstream of 5' splice sites reveals a widespread role for U-rich motifs and TIA1/TIAL1 proteins in alternative splicing regulation

(2008) I. Aznarez et al.   GENOME RESEARCH

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

(2008) Qun Pan et al.   NATURE GENETICS

Assessing the fraction of short-distance tandem splice sites under purifying selection

(2008) M. Hiller et al.   RNA

Widespread and subtle: alternative splicing at short-distance tandem sites

(2008) Michael Hiller et al.   TRENDS IN GENETICS