Publications

Greg Gibson  - (Pub Med)

On the utilization of polygenic risk scores for therapeutic targeting.
Gibson G.
PLoS Genet. (2019) 15:e1008060. PMID: 31022172

Comprehensive Multiple eQTL Detection and Its Application to GWAS Interpretation.
Zeng B, Lloyd-Jones LR, Montgomery GW, Metspalu A, Esko T, Franke L, Vosa U, Claringbould A, Brigham KL, Quyyumi AA, Idaghdour Y, Yang J, Visscher PM, Powell JE, Gibson G.
Genetics (2019) 212: 905-918. PMID: 31123039

Differential transcriptome and development of human peripheral plasma cell subsets.
Garimalla S, Nguyen DC, Halliley JL, Tipton C, Rosenberg AF, Fucile CF, Saney CL, Kyu S, Kaminski D, Qian Y, Scheuermann RH, Gibson G, Sanz I, Lee FE.
JCI Insight. (2019) 4(9): 126732. PMID: 31045577

Clinical and biological predictors of response to standardised paediatric colitis therapy (PROTECT): a multicentre inception cohort study.
Hyams JS, Davis Thomas S, Gotman N, Haberman Y, …, Marigorta UM, Gibson G, Xavier RJ, Kugathasan S, Walters T, Denson LA.
Lancet (2019) 393:1708-1720. PMID: 30935734


King Jordan - (Pub Med)

Native American admixture recapitulates population-specific migration and settlement of the continental United States
Jordan IK, Rishishwar L, Conley AB.
PLoS Genet. (2019) 15:e1008225. PMID: 31545791

Assortative Mating on Ancestry-Variant Traits in Admixed Latin American Populations.
Norris ET, Rishishwar L, Wang L, Conley AB, Chande AT, Dabrowski AM, Valderrama-Aguirre A, Jordan IK.
Front Genet. (2019) 10:359. PMID: 31105740

Population Pharmacogenomics for Precision Public Health in Colombia.
Nagar SD, Moreno AM, Norris ET, Rishishwar L, Conley AB, O'Neal KL, Vélez-Gómez S, Montes-Rodríguez C, Jaraba-Álvarez WV, Torres I, Medina-Rivas MA, Valderrama-Aguirre A, Jordan IK, Gallo JE.
Front Genet. (2019) 10:241. PMID: 30967898

Evidence for positive selection on recent human transposable element insertions.
Rishishwar L, Wang L, Wang J, Yi SV, Lachance J, Jordan IK.
Gene. (2018) 675:69-79. PMID: 29953920


Joseph Lachance - (Pub Med)

Genetic disease risks can be misestimated across global populations.
Kim MS, Patel KP, Teng AK, Berens AJ, Lachance J.
Genome Biol. (2018) 19(1):179. PMID: 30424772

Genetic Hitchhiking and Population Bottlenecks Contribute to Prostate Cancer Disparities in Men of African Descent.
Lachance J, Berens AJ, Hansen MEB, Teng AK, Tishkoff SA, Rebbeck TR.
Cancer Res. (2018) 78:2432-2443. PMID: 29438991

Phylogeny Estimation by Integration over Isolation with Migration Models.
Hey J, Chung Y, Sethuraman A, Lachance J, Tishkoff S, Sousa VC, Wang Y.
Mol Biol Evol. (2018) 35:2805-2818. PMID: 30137463


Patrick McGrath - (Pub Med)

Evolution of Yin and Yang isoforms of a chromatin remodeling subunit precedes the creation of two genes.
Xu W, Long L, Zhao Y, Stevens L, Felipe I, Munoz J, Ellis RE, McGrath PT.
Elife. (2019) 8: e48119. PMID: 31498079

A primer on pheromone signaling in Caenorhabditis elegans for systems biologists.
McGrath PT, Ruvinsky I.
Curr Opin Syst Biol. (2019) 13:23-30. PMID: 30984890

Changes to social feeding behaviors are not sufficient for fitness gains of the Caenorhabditis elegans N2 reference strain.
Zhao Y, Long L, Xu W, Campbell RF, Large EE, Greene JS, McGrath PT.
Elife. (2018) 7: e38675. PMID: 30328811


Annalise Paaby - (Pub Med)

Analysis of Epistasis in Natural Traits Using Model Organisms.
Campbell RF, McGrath PT, Paaby AB.
Trends Genet. (2018) 34:883-898. PMID: 30166071

Cryptic Genetic Variation in Evolutionary Developmental Genetics.
Paaby AB, Gibson G.
Biology (Basel). (2016) 5(2): E28. PMID: 27304973


Peng Qiu

COSMID: A Web-based Tool for Identifying and Validating CRISPR/Cas Off-target Sites
TJ Cradick, P Qiu, CM Lee, EJ Fine, G Bao
Molecular Therapy


Todd Streelman - (Pub Med)

Developmental plasticity of epithelial stem cells in tooth and taste bud renewal.
Bloomquist RF, Fowler TE, An Z, Yu TY, Abdilleh K, Fraser GJ, Sharpe PT, Streelman JT.
Proc Natl Acad Sci U S A. (2019) 116:17858-17866. PMID: 31427537

Behavior-dependent cis regulation reveals genes and pathways associated with bower building in cichlid fishes.
York RA, Patil C, Abdilleh K, Johnson ZV, Conte MA, Genner MJ, McGrath PT, Fraser HB, Fernald RD, Streelman JT.
Proc Natl Acad Sci U S A. (2018) 115:E11081-E11090. PMID: 30397142

A quiescent cell population replenishes mesenchymal stem cells to drive accelerated growth in mouse incisors.
An Z, Sabalic M, Bloomquist RF, Fowler TE, Streelman T, Sharpe PT.
Nat Commun. (2018) 9:378. PMID: 29371677

Genome-wide protein phylogenies for four African cichlid species.
Ramakrishnan Varadarajan A, Mopuri R, Streelman JT, McGrath PT./br> BMC Evol Biol. (2018) 18:1. PMID: 29368592


Eberhard Voit

From within Host Dynamics to the Epidemiology of Infectious Disease: Scientific Overview and Challenges.
Gutierrez JB, Galinski MR, Cantrell S, Voit EO
Math Biosci.

Computational Inference of the Structure and Regulation of the Lignin Pathway in Panicum Virgatum
Faraji M, Fonseca LL, Escamilla-Treviño L, Dixon RA, Voit EO
Biotechnol Biofuels


May Wang

Models for Predicting Stage in Head and Neck Squamous Cell Carcinoma using Proteomic and Transcriptomic Data
C Kaddi, M Wang
IEEE

A Semi-Supervised Method for Predicting Cancer Survival Using Incomplete Clinical Data
HR Hassanzadeh, JH Phan, MD Wang
arXiv


Soojin Yi - (Pub Med)

Accelerated evolution of oligodendrocytes in the human brain.
Berto S, Mendizabal I, Usui N, Toriumi K, Chatterjee P, Douglas C, Tamminga CA, Preuss TM, Yi SV, Konopka G.
Proc Natl Acad Sci U S A. (2019) 116:24334-24342. PMID: 31712436

Regional epigenetic differentiation of the Z Chromosome between sexes in a female heterogametic system.
Sun D, Maney DL, Layman TS, Chatterjee P, Yi SV.
Genome Res. (2019) 29:1673-1684. PMID: 31548356

Cell type-specific epigenetic links to schizophrenia risk in the brain.
Mendizabal I, Berto S, Usui N, Toriumi K, Chatterjee P, Douglas C, Huh I, Jeong H, Layman T, Tamminga CA, Preuss TM, Konopka G, Yi SV.
Genome Biol. (2019) 20:135. PMID: 31288836

Functional conservation of sequence determinants at rapidly evolving regulatory regions across mammals.
Huh I, Mendizabal I, Park T, Yi SV.
PLoS Comput Biol. (2018) 14:e1006451. PMID: 30289877