Year |
Citation |
Score |
2024 |
Wang B, Starr AL, Fraser HB. Cell-type-specific -regulatory divergence in gene expression and chromatin accessibility revealed by human-chimpanzee hybrid cells. Elife. 12. PMID 38358392 DOI: 10.7554/eLife.89594 |
0.419 |
|
2024 |
Pettie KP, Mumbach M, Lea AJ, Ayroles J, Chang HY, Kasowski M, Fraser HB. Chromatin activity identifies differential gene regulation across human ancestries. Genome Biology. 25: 21. PMID 38225662 DOI: 10.1186/s13059-024-03165-2 |
0.456 |
|
2023 |
Wang B, Starr AL, Fraser HB. Cell type-specific -regulatory divergence in gene expression and chromatin accessibility revealed by human-chimpanzee hybrid cells. Biorxiv : the Preprint Server For Biology. PMID 37292820 DOI: 10.1101/2023.05.22.541747 |
0.419 |
|
2023 |
Chen SA, Kern AF, Ang RML, Xie Y, Fraser HB. Gene-by-environment interactions are pervasive among natural genetic variants. Cell Genomics. 3: 100273. PMID 37082145 DOI: 10.1016/j.xgen.2023.100273 |
0.322 |
|
2023 |
Mack KL, Square TA, Zhao B, Miller CT, Fraser HB. Evolution of spatial and temporal cis-regulatory divergence in sticklebacks. Molecular Biology and Evolution. PMID 36805962 DOI: 10.1093/molbev/msad034 |
0.362 |
|
2023 |
Starr AL, Gokhman D, Fraser HB. Accounting for cis-regulatory constraint prioritizes genes likely to affect species-specific traits. Genome Biology. 24: 11. PMID 36658652 DOI: 10.1186/s13059-023-02846-8 |
0.78 |
|
2022 |
García-Nieto PE, Wang B, Fraser HB. Transcriptome diversity is a systematic source of variation in RNA-sequencing data. Plos Computational Biology. 18: e1009939. PMID 35324895 DOI: 10.1371/journal.pcbi.1009939 |
0.316 |
|
2022 |
Hu CK, York RA, Metz HC, Bedford NL, Fraser HB, Hoekstra HE. cis-Regulatory changes in locomotor genes are associated with the evolution of burrowing behavior. Cell Reports. 38: 110360. PMID 35172153 DOI: 10.1016/j.celrep.2022.110360 |
0.396 |
|
2021 |
Nivina A, Herrera Paredes S, Fraser HB, Khosla C. GRINS: Genetic elements that recode assembly-line polyketide synthases and accelerate their diversification. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34162709 DOI: 10.1073/pnas.2100751118 |
0.761 |
|
2021 |
Nivina A, Herrera Paredes S, Fraser HB, Khosla C. GRINS: Genetic elements that recode assembly-line polyketide synthases and accelerate their diversification. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34162709 DOI: 10.1073/pnas.2100751118 |
0.761 |
|
2021 |
Weiss CV, Harshman L, Inoue F, Fraser HB, Petrov DA, Ahituv N, Gokhman D. The -regulatory effects of modern human-specific variants. Elife. 10. PMID 33885362 DOI: 10.7554/eLife.63713 |
0.785 |
|
2021 |
Gokhman D, Agoglia RM, Kinnebrew M, Gordon W, Sun D, Bajpai VK, Naqvi S, Chen C, Chan A, Chen C, Petrov DA, Ahituv N, Zhang H, Mishina Y, Wysocka J, ... ... Fraser HB, et al. Publisher Correction: Human-chimpanzee fused cells reveal cis-regulatory divergence underlying skeletal evolution. Nature Genetics. PMID 33762754 DOI: 10.1038/s41588-021-00849-4 |
0.763 |
|
2021 |
Gokhman D, Agoglia RM, Kinnebrew M, Gordon W, Sun D, Bajpai VK, Naqvi S, Chen C, Chan A, Chen C, Petrov DA, Ahituv N, Zhang H, Mishina Y, Wysocka J, ... ... Fraser HB, et al. Human-chimpanzee fused cells reveal cis-regulatory divergence underlying skeletal evolution. Nature Genetics. PMID 33731941 DOI: 10.1038/s41588-021-00804-3 |
0.785 |
|
2021 |
Agoglia RM, Sun D, Birey F, Yoon SJ, Miura Y, Sabatini K, Pașca SP, Fraser HB. Primate cell fusion disentangles gene regulatory divergence in neurodevelopment. Nature. PMID 33731928 DOI: 10.1038/s41586-021-03343-3 |
0.347 |
|
2021 |
Singh-Babak SD, Babak T, Fraser HB, Johnson AD. Lineage-specific selection and the evolution of virulence in the clade. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33723044 DOI: 10.1073/pnas.2016818118 |
0.396 |
|
2020 |
Fraser HB. Detecting selection with a genetic cross. Proceedings of the National Academy of Sciences of the United States of America. 117: 22323-22330. PMID 32848059 DOI: 10.1073/Pnas.2014277117 |
0.342 |
|
2020 |
Zhao Q, Dacre M, Nguyen T, Pjanic M, Liu B, Iyer D, Cheng P, Wirka R, Kim JB, Fraser HB, Quertermous T. Molecular mechanisms of coronary disease revealed using quantitative trait loci for TCF21 binding, chromatin accessibility, and chromosomal looping. Genome Biology. 21: 135. PMID 32513244 DOI: 10.1186/S13059-020-02049-5 |
0.323 |
|
2019 |
Tehranchi A, Hie B, Dacre M, Kaplow I, Pettie K, Combs P, Fraser HB. Fine-mapping -regulatory variants in diverse human populations. Elife. 8. PMID 30650056 DOI: 10.7554/Elife.39595 |
0.453 |
|
2018 |
Combs PA, Krupp JJ, Khosla NM, Bua D, Petrov DA, Levine JD, Fraser HB. Tissue-Specific cis-Regulatory Divergence Implicates eloF in Inhibiting Interspecies Mating in Drosophila. Current Biology : Cb. 28: 3969-3975.e3. PMID 30503619 DOI: 10.1016/J.Cub.2018.10.036 |
0.56 |
|
2018 |
Martin T, Fraser HB. Comparative expression profiling reveals widespread coordinated evolution of gene expression across eukaryotes. Nature Communications. 9: 4963. PMID 30470754 DOI: 10.1038/S41467-018-07436-Y |
0.508 |
|
2018 |
York RA, Patil C, Abdilleh K, Johnson ZV, Conte MA, Genner MJ, McGrath PT, Fraser HB, Fernald RD, Streelman JT. Behavior-dependent regulation reveals genes and pathways associated with bower building in cichlid fishes. Proceedings of the National Academy of Sciences of the United States of America. PMID 30397142 DOI: 10.1073/Pnas.1810140115 |
0.438 |
|
2018 |
Combs PA, Fraser HB. Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic. Plos Genetics. 14: e1007631. PMID 30383747 DOI: 10.1371/Journal.Pgen.1007631 |
0.457 |
|
2018 |
Fraser HB. Improving Estimates of Compensatory cis-trans Regulatory Divergence. Trends in Genetics : Tig. PMID 30270122 DOI: 10.1016/J.Tig.2018.09.003 |
0.485 |
|
2018 |
Sharon E, Chen SA, Khosla NM, Smith JD, Pritchard JK, Fraser HB. Functional Genetic Variants Revealed by Massively Parallel Precise Genome Editing. Cell. PMID 30245013 DOI: 10.1016/J.Cell.2018.08.057 |
0.393 |
|
2018 |
Tehranchi A, Hie B, Dacre M, Kaplow I, Pettie K, Combs P, Fraser HB. Author response: Fine-mapping cis-regulatory variants in diverse human populations Elife. DOI: 10.7554/Elife.39595.033 |
0.331 |
|
2018 |
McCoy R, Demko Z, Ryan A, Banjevic M, Hill M, Sigurjonsson S, Rabinowitz M, Fraser H, Petrov D. Common variants associated with mitotic-origin of aneuploidy in human embryos Reproductive Biomedicine Online. 36: e1. DOI: 10.1016/J.Rbmo.2017.10.002 |
0.51 |
|
2017 |
Carja O, MacIsaac JL, Mah SM, Henn BM, Kobor MS, Feldman MW, Fraser HB. Worldwide patterns of human epigenetic variation. Nature Ecology & Evolution. 1: 1577-1583. PMID 29185505 DOI: 10.1038/S41559-017-0299-Z |
0.393 |
|
2017 |
Kita R, Venkataram S, Zhou Y, Fraser HB. High-resolution mapping of cis-regulatory variation in budding yeast. Proceedings of the National Academy of Sciences of the United States of America. 114: E10736-E10744. PMID 29183975 DOI: 10.1073/Pnas.1717421114 |
0.491 |
|
2017 |
Artieri CG, Naor A, Turgeman-Grott I, Zhou Y, York R, Gophna U, Fraser HB. Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids. Scientific Reports. 7: 3986. PMID 28638059 DOI: 10.1038/S41598-017-04278-4 |
0.487 |
|
2016 |
Kita R, Fraser HB. Local Adaptation of Sun-Exposure-Dependent Gene Expression Regulation in Human Skin. Plos Genetics. 12: e1006382. PMID 27760139 DOI: 10.1371/Journal.Pgen.1006382 |
0.426 |
|
2016 |
Sharon E, Sibener LV, Battle A, Fraser HB, Garcia KC, Pritchard JK. Genetic variation in MHC proteins is associated with T cell receptor expression biases. Nature Genetics. PMID 27479906 DOI: 10.1038/Ng.3625 |
0.412 |
|
2016 |
Tehranchi AK, Myrthil M, Martin T, Hie BL, Golan D, Fraser HB. Pooled ChIP-Seq Links Variation in Transcription Factor Binding to Complex Disease Risk. Cell. PMID 27087447 DOI: 10.1016/J.Cell.2016.03.041 |
0.382 |
|
2015 |
Naranjo S, Smith JD, Artieri CG, Zhang M, Zhou Y, Palmer ME, Fraser HB. Dissecting the Genetic Basis of a Complex cis-Regulatory Adaptation. Plos Genetics. 11: e1005751. PMID 26713447 DOI: 10.1371/Journal.Pgen.1005751 |
0.5 |
|
2015 |
Agoglia RM, Fraser HB. Disentangling Sources of Selection on Exonic Transcriptional Enhancers. Molecular Biology and Evolution. PMID 26500252 DOI: 10.1093/Molbev/Msv234 |
0.385 |
|
2015 |
Kaplow IM, MacIsaac JL, Mah SM, McEwen LM, Kobor MS, Fraser HB. A pooling-based approach to mapping genetic variants associated with DNA methylation. Genome Research. 25: 907-17. PMID 25910490 DOI: 10.1101/Gr.183749.114 |
0.353 |
|
2015 |
McCoy RC, Demko Z, Ryan A, Banjevic M, Hill M, Sigurjonsson S, Rabinowitz M, Fraser HB, Petrov DA. Common variants spanning PLK4 are associated with mitotic-origin aneuploidy in human embryos. Science (New York, N.Y.). 348: 235-8. PMID 25859044 DOI: 10.1097/Ogx.0000000000000223 |
0.55 |
|
2015 |
Babak T, DeVeale B, Tsang EK, Zhou Y, Li X, Smith KS, Kukurba KR, Zhang R, Li JB, van der Kooy D, Montgomery SB, Fraser HB. Genetic conflict reflected in tissue-specific maps of genomic imprinting in human and mouse. Nature Genetics. 47: 544-9. PMID 25848752 DOI: 10.1038/Ng.3274 |
0.469 |
|
2014 |
Artieri CG, Fraser HB. Transcript length mediates developmental timing of gene expression across Drosophila. Molecular Biology and Evolution. 31: 2879-89. PMID 25069653 DOI: 10.1093/Molbev/Msu226 |
0.443 |
|
2014 |
Artieri CG, Fraser HB. Evolution at two levels of gene expression in yeast. Genome Research. 24: 411-21. PMID 24318729 DOI: 10.1101/Gr.165522.113 |
0.45 |
|
2013 |
Fraser HB. Cell-cycle regulated transcription associates with DNA replication timing in yeast and human. Genome Biology. 14: R111. PMID 24098959 DOI: 10.1186/Gb-2013-14-10-R111 |
0.336 |
|
2013 |
Chang J, Zhou Y, Hu X, Lam L, Henry C, Green EM, Kita R, Kobor MS, Fraser HB. The molecular mechanism of a cis-regulatory adaptation in yeast. Plos Genetics. 9: e1003813. PMID 24068973 DOI: 10.1371/Journal.Pgen.1003813 |
0.453 |
|
2013 |
Smith JD, McManus KF, Fraser HB. A novel test for selection on cis-regulatory elements reveals positive and negative selection acting on mammalian transcriptional enhancers. Molecular Biology and Evolution. 30: 2509-18. PMID 23904330 DOI: 10.1093/Molbev/Mst134 |
0.411 |
|
2013 |
Irimia M, Maeso I, Roy SW, Fraser HB. Ancient cis-regulatory constraints and the evolution of genome architecture. Trends in Genetics : Tig. 29: 521-8. PMID 23791467 DOI: 10.1016/J.Tig.2013.05.008 |
0.723 |
|
2013 |
Fraser HB. Gene expression drives local adaptation in humans. Genome Research. 23: 1089-96. PMID 23539138 DOI: 10.1101/Gr.152710.112 |
0.496 |
|
2012 |
Ariza-Cosano A, Visel A, Pennacchio LA, Fraser HB, Gómez-Skarmeta JL, Irimia M, Bessa J. Differences in enhancer activity in mouse and zebrafish reporter assays are often associated with changes in gene expression. Bmc Genomics. 13: 713. PMID 23253453 DOI: 10.1186/1471-2164-13-713 |
0.672 |
|
2012 |
Lam LL, Emberly E, Fraser HB, Neumann SM, Chen E, Miller GE, Kobor MS. Factors underlying variable DNA methylation in a human community cohort. Proceedings of the National Academy of Sciences of the United States of America. 109: 17253-60. PMID 23045638 DOI: 10.1073/Pnas.1121249109 |
0.344 |
|
2012 |
Irimia M, Tena JJ, Alexis MS, Fernandez-Miñan A, Maeso I, Bogdanovic O, de la Calle-Mustienes E, Roy SW, Gómez-Skarmeta JL, Fraser HB. Extensive conservation of ancient microsynteny across metazoans due to cis-regulatory constraints. Genome Research. 22: 2356-67. PMID 22722344 DOI: 10.1101/Gr.139725.112 |
0.718 |
|
2012 |
Fraser HB, Levy S, Chavan A, Shah HB, Perez JC, Zhou Y, Siegal ML, Sinha H. Polygenic cis-regulatory adaptation in the evolution of yeast pathogenicity. Genome Research. 22: 1930-9. PMID 22645260 DOI: 10.1101/Gr.134080.111 |
0.483 |
|
2012 |
Fraser HB, Lam LL, Neumann SM, Kobor MS. Population-specificity of human DNA methylation. Genome Biology. 13: R8. PMID 22322129 DOI: 10.1186/Gb-2012-13-2-R8 |
0.327 |
|
2011 |
Lamb JR, Zhang C, Xie T, Wang K, Zhang B, Hao K, Chudin E, Fraser HB, Millstein J, Ferguson M, Suver C, Ivanovska I, Scott M, Philippar U, Bansal D, et al. Predictive genes in adjacent normal tissue are preferentially altered by sCNV during tumorigenesis in liver cancer and may rate limiting. Plos One. 6: e20090. PMID 21750698 DOI: 10.1371/Journal.Pone.0020090 |
0.432 |
|
2011 |
Fraser HB. Genome-wide approaches to the study of adaptive gene expression evolution: systematic studies of evolutionary adaptations involving gene expression will allow many fundamental questions in evolutionary biology to be addressed. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 33: 469-77. PMID 21538412 DOI: 10.1002/Bies.201000094 |
0.516 |
|
2011 |
Fraser HB, Babak T, Tsang J, Zhou Y, Zhang B, Mehrabian M, Schadt EE. Systematic detection of polygenic cis-regulatory evolution. Plos Genetics. 7: e1002023. PMID 21483757 DOI: 10.1371/Journal.Pgen.1002023 |
0.531 |
|
2010 |
Babak T, Garrett-Engele P, Armour CD, Raymond CK, Keller MP, Chen R, Rohl CA, Johnson JM, Attie AD, Fraser HB, Schadt EE. Genetic validation of whole-transcriptome sequencing for mapping expression affected by cis-regulatory variation. Bmc Genomics. 11: 473. PMID 20707912 DOI: 10.1186/1471-2164-11-473 |
0.43 |
|
2010 |
Fraser HB, Moses AM, Schadt EE. Evidence for widespread adaptive evolution of gene expression in budding yeast. Proceedings of the National Academy of Sciences of the United States of America. 107: 2977-82. PMID 20133628 DOI: 10.1073/Pnas.0912245107 |
0.69 |
|
2010 |
Fraser HB, Schadt EE. The quantitative genetics of phenotypic robustness. Plos One. 5: e8635. PMID 20072615 DOI: 10.1371/Journal.Pone.0008635 |
0.398 |
|
2010 |
Fraser HB, Moses AM, Schadt EE. Reply to Jensen and Rando: Population size change does not account for widespread gene expression adaptation in yeast Proceedings of the National Academy of Sciences of the United States of America. 107: E111. DOI: 10.1073/Pnas.1006152107 |
0.648 |
|
2009 |
Yassour M, Kaplan T, Fraser HB, Levin JZ, Pfiffner J, Adiconis X, Schroth G, Luo S, Khrebtukova I, Gnirke A, Nusbaum C, Thompson DA, Friedman N, Regev A. Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing. Proceedings of the National Academy of Sciences of the United States of America. 106: 3264-9. PMID 19208812 DOI: 10.1073/Pnas.0812841106 |
0.446 |
|
2009 |
Fraser HB, Xie X. Common polymorphic transcript variation in human disease. Genome Research. 19: 567-75. PMID 19189928 DOI: 10.1101/Gr.083477.108 |
0.395 |
|
2007 |
Fraser HB, Plotkin JB. Using protein complexes to predict phenotypic effects of gene mutation. Genome Biology. 8: R252. PMID 18042286 DOI: 10.1186/Gb-2007-8-11-R252 |
0.414 |
|
2007 |
Plotkin JB, Fraser HB. Assessing the determinants of evolutionary rates in the presence of noise. Molecular Biology and Evolution. 24: 1113-21. PMID 17347158 DOI: 10.1093/Molbev/Msm044 |
0.358 |
|
2006 |
Fraser HB. Coevolution, modularity and human disease. Current Opinion in Genetics & Development. 16: 637-44. PMID 17005391 DOI: 10.1016/J.Gde.2006.09.001 |
0.426 |
|
2006 |
Plotkin JB, Dushoff J, Desai MM, Fraser HB. Estimating selection pressures from limited comparative data. Molecular Biology and Evolution. 23: 1457-9. PMID 16754640 DOI: 10.1093/Molbev/Msl021 |
0.31 |
|
2005 |
Fraser HB, Khaitovich P, Plotkin JB, Pääbo S, Eisen MB. Aging and gene expression in the primate brain. Plos Biology. 3: e274. PMID 16048372 DOI: 10.1371/Journal.Pbio.0030274 |
0.624 |
|
2005 |
Wall DP, Hirsh AE, Fraser HB, Kumm J, Giaever G, Eisen MB, Feldman MW. Functional genomic analysis of the rates of protein evolution. Proceedings of the National Academy of Sciences of the United States of America. 102: 5483-8. PMID 15800036 DOI: 10.1073/Pnas.0501761102 |
0.582 |
|
2005 |
Fraser HB. Modularity and evolutionary constraint on proteins. Nature Genetics. 37: 351-2. PMID 15750592 DOI: 10.1038/Ng1530 |
0.316 |
|
2005 |
Hirsh AE, Fraser HB, Wall DP. Adjusting for selection on synonymous sites in estimates of evolutionary distance. Molecular Biology and Evolution. 22: 174-7. PMID 15371530 DOI: 10.1093/Molbev/Msh265 |
0.354 |
|
2004 |
Gasch AP, Moses AM, Chiang DY, Fraser HB, Berardini M, Eisen MB. Conservation and evolution of cis-regulatory systems in ascomycete fungi. Plos Biology. 2: e398. PMID 15534694 DOI: 10.1371/Journal.Pbio.0020398 |
0.79 |
|
2004 |
Fraser HB, Hirsh AE, Wall DP, Eisen MB. Coevolution of gene expression among interacting proteins. Proceedings of the National Academy of Sciences of the United States of America. 101: 9033-8. PMID 15175431 DOI: 10.1073/Pnas.0402591101 |
0.581 |
|
2004 |
Fraser HB, Hirsh AE, Giaever G, Kumm J, Eisen MB. Noise minimization in eukaryotic gene expression. Plos Biology. 2: e137. PMID 15124029 DOI: 10.1371/Journal.Pbio.0020137 |
0.622 |
|
2004 |
Plotkin JB, Dushoff J, Fraser HB. Detecting selection using a single genome sequence of M. tuberculosis and P. falciparum. Nature. 428: 942-5. PMID 15118727 DOI: 10.1038/Nature02458 |
0.38 |
|
2003 |
Fraser HB, Wall DP, Hirsh AE. A simple dependence between protein evolution rate and the number of protein-protein interactions. Bmc Evolutionary Biology. 3: 11. PMID 12769820 DOI: 10.1186/1471-2148-3-11 |
0.309 |
|
2003 |
Pál C, Papp B, Hurst LD, Hirsh AE, Fraser HB. Genomic function: Rate of evolution and gene dispensability Nature. 421: 496-498. PMID 12556881 DOI: 10.1038/421496B |
0.33 |
|
2003 |
Hirsh AE, Fraser HB. Genomic function (communication arising): Rate of evolution and gene dispensability Nature. 421: 497-498. DOI: 10.1038/421497A |
0.362 |
|
2002 |
Fraser HB, Hirsh AE, Steinmetz LM, Scharfe C, Feldman MW. Evolutionary rate in the protein interaction network. Science (New York, N.Y.). 296: 750-2. PMID 11976460 DOI: 10.1126/Science.1068696 |
0.312 |
|
2001 |
Hirsh AE, Fraser HB. Protein dispensability and rate of evolution. Nature. 411: 1046-9. PMID 11429604 DOI: 10.1038/35082561 |
0.388 |
|
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