Resolving the polymorphism-in-probe problem is critical for correct interpretation of expression QTL studies

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

(2012) A. A. Shabalin   BIOINFORMATICS

MAPT expression and splicing is differentially regulated by brain region: relation to genotype and implication for tauopathies

(2012) Daniah Trabzuni et al.   HUMAN MOLECULAR GENETICS

Mapping cis- and trans-regulatory effects across multiple tissues in twins

(2012) Elin Grundberg et al.   NATURE GENETICS

Integration of GWAS SNPs and tissue specific expression profiling reveal discrete eQTLs for human traits in blood and brain

(2012) Dena G. Hernandez et al.   NEUROBIOLOGY OF DISEASE

A new strategy to reduce allelic bias in RNA-Seq readmapping

(2012) Ravi Vijaya Satya et al.   NUCLEIC ACIDS RESEARCH

Brain Expression Genome-Wide Association Study (eGWAS) Identifies Human Disease-Associated Variants

(2012) Fanggeng Zou et al.   PLoS Genetics

Patterns of Cis Regulatory Variation in Diverse Human Populations

(2012) Barbara E. Stranger et al.   PLoS Genetics

seeQTL: a searchable database for human eQTLs

(2011) Kai Xia et al.   BIOINFORMATICS

Quality control parameters on a large dataset of regionally dissected human control brains for whole genome expression studies

(2011) Daniah Trabzuni et al.   JOURNAL OF NEUROCHEMISTRY

Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies

(2011)   LANCET

AlleleSeq: analysis of allele-specific expression and binding in a network framework

(2011) J. Rozowsky et al.   Molecular Systems Biology

A Two-Stage Meta-Analysis Identifies Several New Loci for Parkinson's Disease

(2011) et al.   PLoS Genetics

Genevar: a database and Java application for the analysis and visualization of SNP-gene associations in eQTL studies

(2010) T.-P. Yang et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Disentangling the Role of the Tau Gene Locus in Sporadic Tauopathies

(2010) J. Vandrovcova et al.   Current Alzheimer Research

MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes

(2010) Yun Li et al.   GENETIC EPIDEMIOLOGY

Transcriptome genetics using second generation sequencing in a Caucasian population

(2010) Stephen B. Montgomery et al.   NATURE

Understanding mechanisms underlying human gene expression variation with RNA sequencing

(2010) Joseph K. Pickrell et al.   NATURE

Comprehensive Survey of SNPs in the Affymetrix Exon Array Using the 1000 Genomes Dataset

(2010) Eric R. Gamazon et al.   PLoS One

Genetics and Beyond – The Transcriptome of Human Monocytes and Disease Susceptibility

(2010) Tanja Zeller et al.   PLoS One

Abundant Quantitative Trait Loci Exist for DNA Methylation and Gene Expression in Human Brain

(2010) J. Raphael Gibbs et al.   PLoS Genetics

Genotype Imputation

(2009) Yun Li et al.   Annual Review of Genomics and Human Genetics

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data

(2009) Jacob F. Degner et al.   BIOINFORMATICS

Genetics of human gene expression: mapping DNA variants that influence gene expression

(2009) Vivian G. Cheung et al.   NATURE REVIEWS GENETICS

Mapping complex disease traits with global gene expression

(2009) William Cookson et al.   NATURE REVIEWS GENETICS

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data

(2009) Nuno L. Barbosa-Morais et al.   NUCLEIC ACIDS RESEARCH

A Homozygous Mutation in Human PRICKLE1 Causes an Autosomal-Recessive Progressive Myoclonus Epilepsy-Ataxia Syndrome

(2008) Alexander G. Bassuk et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Position dependent mismatch discrimination on DNA microarrays – experiments and model

(2008) Thomas Naiser et al.   BMC BIOINFORMATICS

Impact of point-mutations on the hybridization affinity of surface-bound DNA/DNA and RNA/DNA oligonucleotide-duplexes: Comparison of single base mismatches and base bulges

(2008) Thomas Naiser et al.   BMC BIOTECHNOLOGY

Strong position-dependent effects of sequence mismatches on signal ratios measured using long oligonucleotide microarrays

(2008) Catriona Rennie et al.   BMC GENOMICS

The Sun Health Research Institute Brain Donation Program: Description and Eexperience, 1987–2007

(2008) Thomas G. Beach et al.   CELL AND TISSUE BANKING

Effect of polymorphisms within probe–target sequences on olignonucleotide microarray experiments

(2008) David Benovoy et al.   NUCLEIC ACIDS RESEARCH

Revealing the architecture of gene regulation: the promise of eQTL studies

(2008) Yoav Gilad et al.   TRENDS IN GENETICS

Tissue-Specific Genetic Control of Splicing: Implications for the Study of Complex Traits

(2008) Erin L Heinzen et al.   PLOS BIOLOGY