CLIP and Massively Parallel Functional Analysis of CELF6 Reveal a Role in Destabilizing Synaptic Gene mRNAs through Interaction with 3′ UTR Elements

CELF6 modulates triple-negative breast cancer progression by regulating the stability of FBP1 mRNA

(2020) Xiaowei Yang et al.   BREAST CANCER RESEARCH AND TREATMENT

Loss of CELF6 RNA binding protein impairs cocaine conditioned place preference and contextual fear conditioning

(2019) Susan E. Maloney et al.   GENES BRAIN AND BEHAVIOR

RNA-binding protein CELF6 is cell cycle regulated and controls cancer cell proliferation by stabilizing p21

(2019) Gang Liu et al.   Cell Death & Disease

PTRE-seq reveals mechanism and interactions of RNA binding proteins and miRNAs

(2018) Kyle A. Cottrell et al.   Nature Communications

Trans -acting translational regulatory RNA binding proteins

(2018) Robert F. Harvey et al.   Wiley Interdisciplinary Reviews-RNA

CRISPR/Cas9-mediated integration enables TAG-eCLIP of endogenously tagged RNA binding proteins

(2017) Eric L. Van Nostrand et al.   METHODS

A Requirement for Mena, an Actin Regulator, in Local mRNA Translation in Developing Neurons

(2017) Marina Vidaki et al.   NEURON

Highly accessible AU-rich regions in 3’ untranslated regions are hotspots for binding of regulatory factors

(2017) Mireya Plass et al.   PLoS Computational Biology

Polarized localization of voltage-gated Na+channels is regulated by concerted FGF13 and FGF14 action

(2016) Juan Lorenzo Pablo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Translational control by 5'-untranslated regions of eukaryotic mRNAs

(2016) A. G. Hinnebusch et al.   SCIENCE

The RNA-binding protein Celf6 is highly expressed in diencephalic nuclei and neuromodulatory cell populations of the mouse brain

(2015) Susan E. Maloney et al.   Brain Structure & Function

Antagonistic regulation of mRNA expression and splicing by CELF and MBNL proteins

(2015) Eric T. Wang et al.   GENOME RESEARCH

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Fmrp targets or not: long, highly brain-expressed genes tend to be implicated in autism and brain disorders

(2015) Rebecca L Ouwenga et al.   Molecular Autism

Cytoplasmic Polyadenylation Element Binding Proteins in Development, Health, and Disease

(2014) Maria Ivshina et al.   Annual Review of Cell and Developmental Biology

RNA-binding protein-mediated post-transcriptional controls of gene expression: Integration of molecular mechanisms at the 3′ end of mRNAs?

(2014) Caroline Vindry et al.   BIOCHEMICAL PHARMACOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

ABLIM1splicing is abnormal in skeletal muscle of patients with DM1 and regulated by MBNL, CELF and PTBP1

(2014) Natsumi Ohsawa et al.   GENES TO CELLS

Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis

(2014) Michael J Moore et al.   Nature Protocols

The human splicing code reveals new insights into the genetic determinants of disease

(2014) H. Y. Xiong et al.   SCIENCE

Global target mRNA specification and regulation by the RNA-binding protein ZFP36

(2014) Neelanjan Mukherjee et al.   GENOME BIOLOGY

The Disruption of Celf6, a Gene Identified by Translational Profiling of Serotonergic Neurons, Results in Autism-Related Behaviors

(2013) J. D. Dougherty et al.   JOURNAL OF NEUROSCIENCE

A compendium of RNA-binding motifs for decoding gene regulation

(2013) Debashish Ray et al.   NATURE

Circular RNAs are a large class of animal RNAs with regulatory potency

(2013) Sebastian Memczak et al.   NATURE

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

Site identification in high-throughput RNA–protein interaction data

(2012) Philip J. Uren et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

A general and simple method for obtainingR2from generalized linear mixed-effects models

(2012) Shinichi Nakagawa et al.   Methods in Ecology and Evolution

CELF4 Regulates Translation and Local Abundance of a Vast Set of mRNAs, Including Genes Associated with Regulation of Synaptic Function

(2012) Jacy L. Wagnon et al.   PLoS Genetics

Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

(2012) Yoichiro Sugimoto et al.   GENOME BIOLOGY

DREME: motif discovery in transcription factor ChIP-seq data

(2011) Timothy L. Bailey   BIOINFORMATICS

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

Cytoplasmic polyadenylation and translational control

(2011) Ana Villalba et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Integrative Regulatory Mapping Indicates that the RNA-Binding Protein HuR Couples Pre-mRNA Processing and mRNA Stability

(2011) Neelanjan Mukherjee et al.   MOLECULAR CELL

Transcriptome-wide Analysis of Regulatory Interactions of the RNA-Binding Protein HuR

(2011) Svetlana Lebedeva et al.   MOLECULAR CELL

Mapping in vivo protein-RNA interactions at single-nucleotide resolution from HITS-CLIP data

(2011) Chaolin Zhang et al.   NATURE BIOTECHNOLOGY

A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins

(2011) Shivendra Kishore et al.   NATURE METHODS

The importance of CELF control: molecular and biological roles of the CUG-BP, Elav-like family of RNA-binding proteins

(2011) Twishasri Dasgupta et al.   Wiley Interdisciplinary Reviews-RNA

Identification of RNA-protein interaction networks using PAR-CLIP

(2011) Manuel Ascano et al.   Wiley Interdisciplinary Reviews-RNA

PARalyzer: definition of RNA binding sites from PAR-CLIP short-read sequence data

(2011) David L Corcoran et al.   GENOME BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data

(2010) Robert C McLeay et al.   BMC BIOINFORMATICS

The cyclin-dependent kinase inhibitor p21 is regulated by RNA-binding protein PCBP4 via mRNA stability

(2010) Ariane Scoumanne et al.   NUCLEIC ACIDS RESEARCH

Poly(C)-binding proteins as transcriptional regulators of gene expression

(2009) Hack Sun Choi et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Pathogenic mechanisms of myotonic dystrophy

(2009) Johanna E. Lee et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Simultaneous Inference in General Parametric Models

(2008) Torsten Hothorn et al.   BIOMETRICAL JOURNAL

A Combinatorial Code for CPE-Mediated Translational Control

(2008) Maria Piqué et al.   CELL

Application of a Translational Profiling Approach for the Comparative Analysis of CNS Cell Types

(2008) Joseph P. Doyle et al.   CELL

A Translational Profiling Approach for the Molecular Characterization of CNS Cell Types

(2008) Myriam Heiman et al.   CELL

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH