Graham P. McVicker

发表

The Ensembl core software libraries.

E. Birney, M. Clamp, Craig Melsopp, 2004, Genome research.

A Genomic Map of the Effects of Linked Selection in Drosophila

Tina T. Hu, Shmuel Sattath, G. Coop, 2014, PLoS genetics.

An overview of Ensembl.

Simon C. Potter, James A. Cuff, R. Durbin, 2004, Genome research.

Controls of Nucleosome Positioning in the Human Genome

Daniel J. Gaffney, J. Pritchard, Y. Gilad, 2012, PLoS genetics.

Widespread Genomic Signatures of Natural Selection in Hominid Evolution

P. Green, Graham P. McVicker, D. Gordon, 2009, PLoS genetics.

Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression

J. Greenbaum, Bjoern Peters, Graham P. McVicker, 2018, Cell.

WASP: allele-specific software for robust molecular quantitative trait locus discovery

Jonathan K. Pritchard, Yoav Gilad, Graham McVicker, 2015, Nature Methods.

Trans genomic capture and sequencing of primate exomes reveals new targets of positive selection.

Jay Shendure, Renee D. George, Graham McVicker, 2011, Genome research.

A comparison of nucleosome organization in Drosophila cell lines

Yvonne N Fondufe-Mittendorf, Graham P. McVicker, J. Marko, 2017, PloS one.

Cell type-specific enhancer-promoter connectivity maps in the human brain and disease risk association

F. Gage, Simon T. Schafer, C. Glass, 2019 .

BreakCA, a method to discover indels using ChIP-seq and ATAC-seq reads, finds recurrent indels in regulatory regions of neuroblastoma genomes

Galina A. Erikson, Graham P. McVicker, Yi Fu, 2019, bioRxiv.

Deletion mapping of regulatory elements for GATA3 reveals a distal T helper 2 cell enhancer involved in allergic diseases

Patrick C. Fiaux, Aaron R. Chen, Graham P. McVicker, 2022, bioRxiv.

Leveraging Allele-Specific Expression for Therapeutic Response Gene Glioblastoma

Qiulian Wu, Graham P. McVicker, J. Bernatchez, 2021 .

First-Author Peer-Reviewed Publications (* equal contribution)

P. Green, J. Pritchard, Graham P. McVicker, 2014 .

Cocaine addiction-like behaviors are associated with long-term changes in gene regulation, energy metabolism, and GABAergic inhibition within the amygdala

Graham P. McVicker, L. Carrette, G. de Guglielmo, 2022, bioRxiv.

Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation

Patrick C. Fiaux, Poshen B. Chen, Kai Zhang, 2022, Cell reports.

Structural variants drive context-dependent oncogene activation in cancer

Jesse R. Dixon, P. Futreal, Graham P. McVicker, 2022, Nature.

TEXT S1 Materials and Methods text and supplemental figures. Download

René L. Warren, Sohrab P. Shah, James E. Galagan, 2011 .

Discovery and Functional Characterization of Pro-growth Enhancers in Human Cancer Cells

Patrick C. Fiaux, Poshen B. Chen, B. Ren, 2021, bioRxiv.

Brain cell type–specific enhancer–promoter interactome maps and disease-risk association

James B. Brewer, Fred H. Gage, Bing Ren, 2019, Science.

Genomic signatures of germline gene expression.

P. Green, Graham P. McVicker, G. McVicker, 2010, Genome research.

Ensembl 2004

Damian Smedley, Heikki Lehväslaiho, Yuan Chen, 2004, Nucleic Acids Res..

WASP: allele-specific software for robust discovery of molecular quantitative trait loci

J. Pritchard, Y. Gilad, Graham P. McVicker, 2014, bioRxiv.

Discovering functional sequences with RELICS, an analysis method for CRISPR regulatory screens

Graham McVicker, Patrick C. Fiaux, Hsiuyi V. Chen, 2019, bioRxiv.

Methylation QTLs Are Associated with Coordinated Changes in Transcription Factor Binding, Histone Modifications, and Gene Expression Levels

John D. Blischak, Jonathan K. Pritchard, Julien Roux, 2014, bioRxiv.

Identification of Genetic Variants That Affect Histone Modifications in Human Cells

Jonathan K. Pritchard, Jacob F. Degner, Yoav Gilad, 2013, Science.

Allele-specific expression reveals genes with recurrent cis-regulatory alterations in high-risk neuroblastoma

Graham P. McVicker, P. Zage, Arko Sen, 2022, Genome Biology.

Allele-specific expression links diverse cis-regulatory mutations to recurrent gene dysregulation in high-risk neuroblastoma

Graham P. McVicker, P. Zage, Arko Sen, 2021, bioRxiv.

Ensembl 2005

Damian Smedley, Ewan Birney, Javier Herrero, 2004, Nucleic Acids Res..

Leveraging Allele-Specific Expression for Therapeutic Response Gene Discovery in Glioblastoma

Qiulian Wu, Graham P. McVicker, J. Rich, 2021, Cancer Research.

Perspectives on ENCODE

Xintao Wei, Christopher B. Burge, Jason Liu, 2020, Nature.

GeneComber: Combining Outputs of Gene Prediction Programs for Improved Results

Alan K. Mackworth, Sohrab P. Shah, B. F. Francis Ouellette, 2003, Bioinform..

The chromatin architectural proteins HMGD1 and H1 bind reciprocally and have opposite effects on chromatin structure and gene regulation

Graham McVicker, John Maiorano, J. Pritchard, 2014, BMC Genomics.

Discovering single nucleotide variants and indels from bulk and single-cell ATAC-seq

Galina A. Erikson, Graham P. McVicker, Yi Fu, 2021, bioRxiv.

Discovering functional sequences with RELICS, an analysis method for CRISPR screens

Patrick C. Fiaux, Aaron R. Chen, Poshen B. Chen, 2020, PLoS Comput. Biol..

Deletion mapping of regulatory elements for GATA3 in T cells reveals a distal enhancer involved in allergic diseases.

Patrick C. Fiaux, Aaron R. Chen, Graham P. McVicker, 2023, American journal of human genetics.