Graham Mcvicker

Title(s)	Associate Adjunct Professor, Cellular and Molecular Medicine
School	Vc-health Sciences-schools
Address	9500 Gilman Drive # La Jolla CA 92093
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Publications

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.

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Analysis of single-cell CRISPR perturbations indicates that enhancers predominantly act multiplicatively. Cell Genom. 2024 Oct 10; 100672. Zhou JL, Guruvayurappan K, Toneyan S, Chen HV, Chen AR, Koo P, McVicker G. PMID: 39406234.

View in: PubMed Mentions: Fields:
Gen Genetics
Analysis of single-cell CRISPR perturbations indicates that enhancers act multiplicatively and provides limited evidence for epistatic-like interactions. bioRxiv. 2024 Jul 09. Zhou J, Guruvayurappan K, Toneyan S, Chen HV, Chen AR, Koo P, McVicker G. PMID: 37163096; PMCID: PMC10168320.

View in: PubMed Mentions:
Multi-omic QTL mapping in early developmental tissues reveals phenotypic and temporal complexity of regulatory variants underlying GWAS loci. bioRxiv. 2024 Apr 11. Arthur TD, Nguyen JP, D'Antonio-Chronowska A, Jaureguy J, Silva N, Henson B, iPSCORE Consortium, Panopoulos AD, Belmonte JCI, D'Antonio M, McVicker G, Frazer KA. PMID: 38645112; PMCID: PMC11030419.

View in: PubMed Mentions:
Author Correction: Single-nucleus genomics in outbred rats with divergent cocaine addiction-like behaviors reveals changes in amygdala GABAergic inhibition. Nat Neurosci. 2023 Nov; 26(11):2035. Zhou JL, de Guglielmo G, Ho AJ, Kallupi M, Pokhrel N, Li HR, Chitre AS, Munro D, Mohammadi P, Carrette LLG, George O, Palmer AA, McVicker G, Telese F. PMID: 37845545; PMCID: PMC10620070.

View in: PubMed Mentions: Fields:
Neu Neurology
Single-nucleus genomics in outbred rats with divergent cocaine addiction-like behaviors reveals changes in amygdala GABAergic inhibition. Nat Neurosci. 2023 Nov; 26(11):1868-1879. Zhou JL, de Guglielmo G, Ho AJ, Kallupi M, Pokhrel N, Li HR, Chitre AS, Munro D, Mohammadi P, Carrette LLG, George O, Palmer AA, McVicker G, Telese F. PMID: 37798411; PMCID: PMC10620093.

View in: PubMed Mentions: 4 Fields:
Neu Neurology
Translation:Humans Animals Cells
Deletion mapping of regulatory elements for GATA3 in T cells reveals a distal enhancer involved in allergic diseases. Am J Hum Genet. 2023 04 06; 110(4):703-714. Chen HV, Lorenzini MH, Lavalle SN, Sajeev K, Fonseca A, Fiaux PC, Sen A, Luthra I, Ho AJ, Chen AR, Guruvayurappan K, O'Connor C, McVicker G. PMID: 36990085; PMCID: PMC10119147.

View in: PubMed Mentions: 4 Fields:
Gen Genetics
Translation:Humans Cells
Structural variants drive context-dependent oncogene activation in cancer. Nature. 2022 12; 612(7940):564-572. Xu Z, Lee DS, Chandran S, Le VT, Bump R, Yasis J, Dallarda S, Marcotte S, Clock B, Haghani N, Cho CY, Akdemir KC, Tyndale S, Futreal PA, McVicker G, Wahl GM, Dixon JR. PMID: 36477537; PMCID: PMC9810360.

View in: PubMed Mentions: 28 Fields:
Sci Science
Translation:Humans Cells
Systematic discovery and functional dissection of enhancers needed for cancer cell fitness and proliferation. Cell Rep. 2022 11 08; 41(6):111630. Chen PB, Fiaux PC, Zhang K, Li B, Kubo N, Jiang S, Hu R, Rooholfada E, Wu S, Wang M, Wang W, McVicker G, Mischel PS, Ren B. PMID: 36351387; PMCID: PMC9687083.

View in: PubMed Mentions: 8 Fields:
Cel Cell Biology Mol Molecular Biology
Translation:Humans Cells
Allele-specific expression reveals genes with recurrent cis-regulatory alterations in high-risk neuroblastoma. Genome Biol. 2022 03 04; 23(1):71. Sen A, Huo Y, Elster J, Zage PE, McVicker G. PMID: 35246212; PMCID: PMC8896304.

View in: PubMed Mentions: Fields:
Gen Genetics
Translation:Humans
Leveraging Allele-Specific Expression for Therapeutic Response Gene Discovery in Glioblastoma. Cancer Res. 2022 02 01; 82(3):377-390. Sen A, Prager BC, Zhong C, Park D, Zhu Z, Gimple RC, Wu Q, Bernatchez JA, Beck S, Clark AE, Siqueira-Neto JL, Rich JN, McVicker G. PMID: 34903607; PMCID: PMC9122831.

View in: PubMed Mentions: 2 Fields:
Neo Neoplasms
Translation:Humans Cells
Discovering single nucleotide variants and indels from bulk and single-cell ATAC-seq. Nucleic Acids Res. 2021 08 20; 49(14):7986-7994. Massarat AR, Sen A, Jaureguy J, Tyndale ST, Fu Y, Erikson G, McVicker G. PMID: 34313779; PMCID: PMC8373110.

View in: PubMed Mentions: 5 Fields:
Bio Biochemistry
Translation:Humans Animals Cells
Discovering functional sequences with RELICS, an analysis method for CRISPR screens. PLoS Comput Biol. 2020 Sep; 16(9):e1008194. Fiaux PC, Chen HV, Chen PB, Chen AR, McVicker G. PMID: 32936799; PMCID: PMC7521704.

View in: PubMed Mentions: 5 Fields:
Com Computational Biology
Translation:Humans Cells
Brain cell type-specific enhancer-promoter interactome maps and disease-risk association. Science. 2019 11 29; 366(6469):1134-1139. Nott A, Holtman IR, Coufal NG, Schlachetzki JCM, Yu M, Hu R, Han CZ, Pena M, Xiao J, Wu Y, Keulen Z, Pasillas MP, O'Connor C, Nickl CK, Schafer ST, Shen Z, Rissman RA, Brewer JB, Gosselin D, Gonda DD, Levy ML, Rosenfeld MG, McVicker G, Gage FH, Ren B, Glass CK. PMID: 31727856; PMCID: PMC7028213.

View in: PubMed Mentions: 300 Fields:
Sci Science
Translation:Humans Cells
Impact of Genetic Polymorphisms on Human Immune Cell Gene Expression. Cell. 2018 11 29; 175(6):1701-1715.e16. Schmiedel BJ, Singh D, Madrigal A, Valdovino-Gonzalez AG, White BM, Zapardiel-Gonzalo J, Ha B, Altay G, Greenbaum JA, McVicker G, Seumois G, Rao A, Kronenberg M, Peters B, Vijayanand P. PMID: 30449622; PMCID: PMC6289654.

View in: PubMed Mentions: 377 Fields:
Cel Cell Biology
Translation:Humans CTClinical Trials
A comparison of nucleosome organization in Drosophila cell lines. PLoS One. 2017; 12(6):e0178590. Martin RL, Maiorano J, Beitel GJ, Marko JF, McVicker G, Fondufe-Mittendorf YN. PMID: 28570602; PMCID: PMC5453549.

View in: PubMed Mentions: 3 Fields:
Med Medicine (General)Sci Science
Translation:Animals Cells
A Genomic Map of the Effects of Linked Selection in Drosophila. PLoS Genet. 2016 08; 12(8):e1006130. Elyashiv E, Sattath S, Hu TT, Strutsovsky A, McVicker G, Andolfatto P, Coop G, Sella G. PMID: 27536991; PMCID: PMC4990265.

View in: PubMed Mentions: 78 Fields:
Gen Genetics
Translation:Animals
WASP: allele-specific software for robust molecular quantitative trait locus discovery. Nat Methods. 2015 Nov; 12(11):1061-3. van de Geijn B, McVicker G, Gilad Y, Pritchard JK. PMID: 26366987; PMCID: PMC4626402.

View in: PubMed Mentions: 279 Fields:
Cli Clinical Laboratory Techniques
Translation:Humans
Methylation QTLs are associated with coordinated changes in transcription factor binding, histone modifications, and gene expression levels. PLoS Genet. 2014 Sep; 10(9):e1004663. Banovich NE, Lan X, McVicker G, van de Geijn B, Degner JF, Blischak JD, Roux J, Pritchard JK, Gilad Y. PMID: 25233095; PMCID: PMC4169251.

View in: PubMed Mentions: 155 Fields:
Gen Genetics
Translation:Humans Cells
The chromatin architectural proteins HMGD1 and H1 bind reciprocally and have opposite effects on chromatin structure and gene regulation. BMC Genomics. 2014 Feb 01; 15:92. Nalabothula N, McVicker G, Maiorano J, Martin R, Pritchard JK, Fondufe-Mittendorf YN. PMID: 24484546; PMCID: PMC3928079.

View in: PubMed Mentions: 20 Fields:
Gen Genetics
Translation:Animals Cells
The genome shows its sensitive side. Nat Methods. 2014 Jan; 11(1):39-40. Raj A, McVicker G. PMID: 24378702.

View in: PubMed Mentions: 3 Fields:
Cli Clinical Laboratory Techniques
Translation:Humans Cells
Identification of genetic variants that affect histone modifications in human cells. Science. 2013 Nov 08; 342(6159):747-9. McVicker G, van de Geijn B, Degner JF, Cain CE, Banovich NE, Raj A, Lewellen N, Myrthil M, Gilad Y, Pritchard JK. PMID: 24136359; PMCID: PMC3947669.

View in: PubMed Mentions: 251 Fields:
Sci Science
Translation:Humans Cells
Controls of nucleosome positioning in the human genome. PLoS Genet. 2012; 8(11):e1003036. Gaffney DJ, McVicker G, Pai AA, Fondufe-Mittendorf YN, Lewellen N, Michelini K, Widom J, Gilad Y, Pritchard JK. PMID: 23166509; PMCID: PMC3499251.

View in: PubMed Mentions: 165 Fields:
Gen Genetics
Translation:Humans Cells
Trans genomic capture and sequencing of primate exomes reveals new targets of positive selection. Genome Res. 2011 Oct; 21(10):1686-94. George RD, McVicker G, Diederich R, Ng SB, MacKenzie AP, Swanson WJ, Shendure J, Thomas JH. PMID: 21795384; PMCID: PMC3202285.

View in: PubMed Mentions: 54 Fields:
Gen Genetics
Translation:Humans Animals
Genome variation in Cryptococcus gattii, an emerging pathogen of immunocompetent hosts. mBio. 2011; 2(1):e00342-10. D'Souza CA, Kronstad JW, Taylor G, Warren R, Yuen M, Hu G, Jung WH, Sham A, Kidd SE, Tangen K, Lee N, Zeilmaker T, Sawkins J, McVicker G, Shah S, Gnerre S, Griggs A, Zeng Q, Bartlett K, Li W, Wang X, Heitman J, Stajich JE, Fraser JA, Meyer W, Carter D, Schein J, Krzywinski M, Kwon-Chung KJ, Varma A, Wang J, Brunham R, Fyfe M, Ouellette BF, Siddiqui A, Marra M, Jones S, Holt R, Birren BW, Galagan JE, Cuomo CA. PMID: 21304167; PMCID: PMC3037005.

View in: PubMed Mentions: 118 Fields:
Mic Microbiology
Translation:Humans Animals PHPublic Health
Genomic signatures of germline gene expression. Genome Res. 2010 Nov; 20(11):1503-11. McVicker G, Green P. PMID: 20686123; PMCID: PMC2963814.

View in: PubMed Mentions: 19 Fields:
Gen Genetics
Translation:Humans Animals Cells
Widespread genomic signatures of natural selection in hominid evolution. PLoS Genet. 2009 May; 5(5):e1000471. McVicker G, Gordon D, Davis C, Green P. PMID: 19424416; PMCID: PMC2669884.

View in: PubMed Mentions: 241 Fields:
Gen Genetics
Translation:Humans Animals Cells
Ensembl 2005. Nucleic Acids Res. 2005 Jan 01; 33(Database issue):D447-53. Hubbard T, Andrews D, Caccamo M, Cameron G, Chen Y, Clamp M, Clarke L, Coates G, Cox T, Cunningham F, Curwen V, Cutts T, Down T, Durbin R, Fernandez-Suarez XM, Gilbert J, Hammond M, Herrero J, Hotz H, Howe K, Iyer V, Jekosch K, Kahari A, Kasprzyk A, Keefe D, Keenan S, Kokocinsci F, London D, Longden I, McVicker G, Melsopp C, Meidl P, Potter S, Proctor G, Rae M, Rios D, Schuster M, Searle S, Severin J, Slater G, Smedley D, Smith J, Spooner W, Stabenau A, Stalker J, Storey R, Trevanion S, Ureta-Vidal A, Vogel J, White S, Woodwark C, Birney E. PMID: 15608235; PMCID: PMC540092.

View in: PubMed Mentions: 185 Fields:
Bio Biochemistry
Translation:Humans Animals Cells
The Ensembl core software libraries. Genome Res. 2004 May; 14(5):929-33. Stabenau A, McVicker G, Melsopp C, Proctor G, Clamp M, Birney E. PMID: 15123588; PMCID: PMC479122.

View in: PubMed Mentions: 72 Fields:
Gen Genetics
Translation:Humans Animals
An overview of Ensembl. Genome Res. 2004 May; 14(5):925-8. Birney E, Andrews TD, Bevan P, Caccamo M, Chen Y, Clarke L, Coates G, Cuff J, Curwen V, Cutts T, Down T, Eyras E, Fernandez-Suarez XM, Gane P, Gibbins B, Gilbert J, Hammond M, Hotz HR, Iyer V, Jekosch K, Kahari A, Kasprzyk A, Keefe D, Keenan S, Lehvaslaiho H, McVicker G, Melsopp C, Meidl P, Mongin E, Pettett R, Potter S, Proctor G, Rae M, Searle S, Slater G, Smedley D, Smith J, Spooner W, Stabenau A, Stalker J, Storey R, Ureta-Vidal A, Woodwark KC, Cameron G, Durbin R, Cox A, Hubbard T, Clamp M. PMID: 15078858; PMCID: PMC479121.

View in: PubMed Mentions: 184 Fields:
Gen Genetics
Ensembl 2004. Nucleic Acids Res. 2004 Jan 01; 32(Database issue):D468-70. Birney E, Andrews D, Bevan P, Caccamo M, Cameron G, Chen Y, Clarke L, Coates G, Cox T, Cuff J, Curwen V, Cutts T, Down T, Durbin R, Eyras E, Fernandez-Suarez XM, Gane P, Gibbins B, Gilbert J, Hammond M, Hotz H, Iyer V, Kahari A, Jekosch K, Kasprzyk A, Keefe D, Keenan S, Lehvaslaiho H, McVicker G, Melsopp C, Meidl P, Mongin E, Pettett R, Potter S, Proctor G, Rae M, Searle S, Slater G, Smedley D, Smith J, Spooner W, Stabenau A, Stalker J, Storey R, Ureta-Vidal A, Woodwark C, Clamp M, Hubbard T. PMID: 14681459; PMCID: PMC308772.

View in: PubMed Mentions: 76 Fields:
Bio Biochemistry
Translation:Humans Animals
GeneComber: combining outputs of gene prediction programs for improved results. Bioinformatics. 2003 Jul 01; 19(10):1296-7. Shah SP, McVicker GP, Mackworth AK, Rogic S, Ouellette BF. PMID: 12835277.

View in: PubMed Mentions: 8 Fields:
Com Computational Biology