Modulation of nonsense mediated decay by rapamycin

SplAdder: identification, quantification and testing of alternative splicing events from RNA-Seq data

(2016) André Kahles et al.   BIOINFORMATICS

Quantitative visualization of alternative exon expression from RNA-seq data

(2015) Yarden Katz et al.   BIOINFORMATICS

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

The Reactome pathway Knowledgebase

(2015) Antonio Fabregat et al.   NUCLEIC ACIDS RESEARCH

Identification of elements in human long 3′ UTRs that inhibit nonsense-mediated decay

(2015) Kalodiah G. Toma et al.   RNA

Proteomic analysis of cap-dependent translation identifies LARP1 as a key regulator of 5'TOP mRNA translation

(2014) J. Tcherkezian et al.   GENES & DEVELOPMENT

Gene Ontology Consortium: going forward

(2014)   NUCLEIC ACIDS RESEARCH

rMATS: Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data

(2014) Shihao Shen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Active Role for the Ribosome in Determining the Fate of Oxidized mRNA

(2014) Carrie L. Simms et al.   Cell Reports

Organizing Principles of Mammalian Nonsense-Mediated mRNA Decay

(2013) Maximilian Wei-Lin Popp et al.   Annual Review of Genetics

Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool

(2013) Edward Y Chen et al.   BMC BIOINFORMATICS

Global analyses of UPF1 binding and function reveal expanded scope of nonsense-mediated mRNA decay

(2013) J. A. Hurt et al.   GENOME RESEARCH

Competition between Pre-mRNAs for the Splicing Machinery Drives Global Regulation of Splicing

(2013) Elizabeth M. Munding et al.   MOLECULAR CELL

Nutrient regulation of the mTOR Complex 1 signaling pathway

(2013) Sang Gyun Kim et al.   MOLECULES AND CELLS

Nonsense-mediated mRNA decay occurs during eIF4F-dependent translation in human cells

(2013) Sébastien Durand et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

eIF4E-bound mRNPs are substrates for nonsense-mediated mRNA decay in mammalian cells

(2013) Simone C Rufener et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Reactome pathway knowledgebase

(2013) David Croft et al.   NUCLEIC ACIDS RESEARCH

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

mTOR Signaling in Growth Control and Disease

(2012) Mathieu Laplante et al.   CELL

RNA Homeostasis Governed by Cell Type-Specific and Branched Feedback Loops Acting on NMD

(2011) Lulu Huang et al.   MOLECULAR CELL

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The Pioneer Round of Translation: Features and Functions

(2010) Lynne E. Maquat et al.   CELL

Control of fibroblast fibronectin expression and alternative splicing via the PI3K/Akt/mTOR pathway

(2010) Eric S. White et al.   EXPERIMENTAL CELL RESEARCH

Nonsense-mediated mRNA decapping occurs on polyribosomes in Saccharomyces cerevisiae

(2010) Wenqian Hu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Remodeling of the pioneer translation initiation complex involves translation and the karyopherin importin  

(2009) H. Sato et al.   GENES & DEVELOPMENT

Co-translational mRNA decay in Saccharomyces cerevisiae

(2009) Wenqian Hu et al.   NATURE

The molecular basis for the regulation of the cap-binding complex by the importins

(2009) Sandra M G Dias et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Hierarchy of Exon-Junction Complex Assembly by the Spliceosome Explains Key Features of Mammalian Nonsense-Mediated mRNA Decay

(2009) Niels H. Gehring et al.   PLOS BIOLOGY

SKAR Links Pre-mRNA Splicing to mTOR/S6K1-Mediated Enhanced Translation Efficiency of Spliced mRNAs

(2008) Xiaoju Max Ma et al.   CELL

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

(2008) Qun Pan et al.   NATURE GENETICS

Control of eIF4E cellular localization by eIF4E-binding proteins, 4E-BPs

(2008) L. Rong et al.   RNA

Posttranscriptional Gene Regulation by Spatial Rearrangement of the 3′ Untranslated Region

(2008) Andrea B Eberle et al.   PLOS BIOLOGY