Identification of eQTLs and sQTLs associated with meat quality in beef

Genome-wide association study reveals novel loci associated with body size and carcass yields in Pekin ducks

(2019) Meng-Ting Deng et al.   BMC GENOMICS

Genome wide association and gene enrichment analysis reveal membrane anchoring and structural proteins associated with meat quality in beef

(2019) Joel D. Leal-Gutiérrez et al.   BMC GENOMICS

Quantifying the contribution of sequence variants with regulatory and evolutionary significance to 34 bovine complex traits

(2019) Ruidong Xiang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Identification of Splicing Quantitative Trait Loci (sQTLs) in Diverse Ecotypes of Arabidopsis thaliana

(2019) Waqas Khokhar et al.   Frontiers in Plant Science

NTF3 Is a Novel Target Gene of the Transcription Factor POU3F2 and Is Required for Neuronal Differentiation

(2018) Yi-Mei J. Lin et al.   MOLECULAR NEUROBIOLOGY

GWAS and eQTL analysis identifies a SNP associated with both residual feed intake and GFRA2 expression in beef cattle

(2018) Marc G. Higgins et al.   Scientific Reports

Genomic-polygenic and polygenic predictions for nine ultrasound and carcass traits in Angus-Brahman multibreed cattle using three sets of genotypes

(2017) M.A. Elzo et al.   Livestock Science

Distant eQTLs and Non-coding Sequences Play Critical Roles in Regulating Gene Expression and Quantitative Trait Variation in Maize

(2017) Haijun Liu et al.   Molecular Plant

Homozygous truncating mutation in prenatally expressed skeletal isoform of TTN gene results in arthrogryposis multiplex congenita and myopathy without cardiac involvement

(2017) Ana Fernández-Marmiesse et al.   NEUROMUSCULAR DISORDERS

TM4SF1 Promotes Metastasis of Pancreatic Cancer via Regulating the Expression of DDR1

(2017) Jia-chun Yang et al.   Scientific Reports

MicroRNA-9 suppresses cell migration and invasion through downregulation of TM4SF1 in colorectal cancer

(2016) YOUNG RAN PARK et al.   INTERNATIONAL JOURNAL OF ONCOLOGY

Growth and reproduction genomic-polygenic and polygenic parameters and prediction trends as Brahman fraction increases in an Angus-Brahman multibreed population

(2016) M.A. Elzo et al.   Livestock Science

RNA-seq analysis for detecting quantitative trait-associated genes

(2016) Minseok Seo et al.   Scientific Reports

Sequence-based Association Analysis Reveals an MGST1 eQTL with Pleiotropic Effects on Bovine Milk Composition

(2016) Mathew D. Littlejohn et al.   Scientific Reports

MetaDiff: differential isoform expression analysis using random-effects meta-regression

(2015) Cheng Jia et al.   BMC BIOINFORMATICS

The role of the histone demethylase KDM4A in cancer

(2015) Lissania Guerra-Calderas et al.   Cancer Genetics

The actin/MKL1 signalling pathway influences cell growth and gene expression through large-scale chromatin reorganization and histone post-translational modifications

(2014) Gilles Flouriot et al.   BIOCHEMICAL JOURNAL

The many faces of small nucleolar RNAs

(2014) Tomaž Bratkovič et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Ntf3 acts downstream of Sip1 in cortical postmitotic neurons to control progenitor cell fate through feedback signaling

(2014) S. Parthasarathy et al.   DEVELOPMENT

Mediation Analysis Demonstrates That Trans-eQTLs Are Often Explained by Cis-Mediation: A Genome-Wide Analysis among 1,800 South Asians

(2014) Brandon L. Pierce et al.   PLoS Genetics

Depletion of PHF14, a novel histone-binding protein gene, causes neonatal lethality in mice due to respiratory failure

(2013) Qin Huang et al.   ACTA BIOCHIMICA ET BIOPHYSICA SINICA

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

(2012) A. A. Shabalin   BIOINFORMATICS

Deficiency in Mammalian Histone H2B Ubiquitin Ligase Bre1 (Rnf20/Rnf40) Leads to Replication Stress and Chromosomal Instability

(2012) S. B. Chernikova et al.   CANCER RESEARCH

Detecting differential usage of exons from RNA-seq data

(2012) S. Anders et al.   GENOME RESEARCH

Integrin signalling and function in immune cells

(2012) Yanbo Zhang et al.   IMMUNOLOGY

Differential analysis of gene regulation at transcript resolution with RNA-seq

(2012) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

TM4SF1: a tetraspanin-like protein necessary for nanopodia formation and endothelial cell migration

(2011) Andrew Zukauskas et al.   ANGIOGENESIS

ULK1 inhibits the kinase activity of mTORC1 and cell proliferation

(2011) Chang Hwa Jung et al.   Autophagy

The requirement of uncoordinated 51-like kinase 1 (ULK1) and ULK2 in the regulation of autophagy

(2011) Eun-Ju Lee et al.   Autophagy

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Modulating F-actin organization induces organ growth by affecting the Hippo pathway

(2011) Leticia Sansores-Garcia et al.   EMBO JOURNAL

Genome-Wide Linkage Analysis of Global Gene Expression in Loin Muscle Tissue Identifies Candidate Genes in Pigs

(2011) Juan Pedro Steibel et al.   PLoS One

A New Isoform of the Histone Demethylase JMJD2A/KDM4A Is Required for Skeletal Muscle Differentiation

(2011) Laure Verrier et al.   PLoS Genetics

Understanding mechanisms underlying human gene expression variation with RNA sequencing

(2010) Joseph K. Pickrell 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

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

Estrogenic GPR30 signalling induces proliferation and migration of breast cancer cells through CTGF

(2009) Deo Prakash Pandey et al.   EMBO JOURNAL

Investigation of neuromuscular abnormalities in neurotrophin-3-deficient mice

(2009) Philip W. Sheard et al.   EUROPEAN JOURNAL OF NEUROSCIENCE

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

(2009) Da Wei Huang et al.   Nature Protocols

The histone H2B-specific ubiquitin ligase RNF20/hBRE1 acts as a putative tumor suppressor through selective regulation of gene expression

(2008) E. Shema et al.   GENES & DEVELOPMENT

A multiple testing correction method for genetic association studies using correlated single nucleotide polymorphisms

(2008) Xiaoyi Gao et al.   GENETIC EPIDEMIOLOGY