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Julien F. Ayroles, Ph.D - Publications

Affiliations: 
OEB Havard/Cornell 
Area:
Quantitative Genetics
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38 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Melo D, Pallares LF, Ayroles JF. Reassessing the modularity of gene co-expression networks using the Stochastic Block Model. Plos Computational Biology. 20: e1012300. PMID 39074140 DOI: 10.1371/journal.pcbi.1012300  0.741
2024 Abraham JO, Lin B, Miller AE, Henry LP, Demmel MY, Warungu R, Mwangi M, Lobura PM, Pallares LF, Ayroles JF, Pringle RM, Rubenstein DI. Determinants of microbiome composition: Insights from free-ranging hybrid zebras (Equus quagga × grevyi). Molecular Ecology. e17370. PMID 38682799 DOI: 10.1111/mec.17370  0.687
2023 Bruijning M, Ayroles JF, Henry LP, Koskella B, Meyer KM, Metcalf CJE. Relative abundance data can misrepresent heritability of the microbiome. Microbiome. 11: 222. PMID 37814275 DOI: 10.1186/s40168-023-01669-w  0.308
2023 Wolf S, Melo D, Garske KM, Pallares LF, Lea AJ, Ayroles JF. Characterizing the landscape of gene expression variance in humans. Plos Genetics. 19: e1010833. PMID 37410774 DOI: 10.1371/journal.pgen.1010833  0.764
2023 Melo D, Pallares LF, Ayroles JF. Reassessing the modularity of gene co-expression networks using the Stochastic Block Model. Biorxiv : the Preprint Server For Biology. PMID 37398186 DOI: 10.1101/2023.05.31.542906  0.742
2023 Wolf S, Abhyankar V, Melo D, Ayroles JF, Pallares LF. From GWAS to signal validation: An approach for estimating SNP genetic effects while preserving genomic context. Biorxiv : the Preprint Server For Biology. PMID 36945453 DOI: 10.1101/2023.03.09.531909  0.758
2022 Lea AJ, Garcia A, Arevalo J, Ayroles JF, Buetow K, Cole SW, Eid Rodriguez D, Gutierrez M, Highland HM, Hooper PL, Justice A, Kraft T, North KE, Stieglitz J, Kaplan H, et al. Natural selection of immune and metabolic genes associated with health in two lowland Bolivian populations. Proceedings of the National Academy of Sciences of the United States of America. 120: e2207544120. PMID 36574663 DOI: 10.1073/pnas.2207544120  0.315
2022 Pallares LF, Lea AJ, Han C, Filippova EV, Andolfatto P, Ayroles JF. Dietary stress remodels the genetic architecture of lifespan variation in outbred Drosophila. Nature Genetics. PMID 36550361 DOI: 10.1038/s41588-022-01246-1  0.759
2022 Lea AJ, Peng J, Ayroles JF. Diverse environmental perturbations reveal the evolution and context-dependency of genetic effects on gene expression levels. Genome Research. 32: 1826-1839. PMID 36229124 DOI: 10.1101/gr.276430.121  0.429
2021 Werkhoven Z, Bravin A, Skutt-Kakaria K, Reimers P, Pallares LF, Ayroles J, de Bivort BL. The structure of behavioral variation within a genotype. Elife. 10. PMID 34664550 DOI: 10.7554/eLife.64988  0.708
2021 Akhund-Zade J, Lall S, Gajda E, Yoon D, Ayroles JF, de Bivort BL. Genetic basis of offspring number-body weight tradeoff in Drosophila melanogaster. G3 (Bethesda, Md.). PMID 33871609 DOI: 10.1093/g3journal/jkab129  0.323
2020 Rau CD, Gonzales NM, Bloom JS, Park D, Ayroles J, Palmer AA, Lusis AJ, Zaitlen N. Modeling epistasis in mice and yeast using the proportion of two or more distinct genetic backgrounds: Evidence for "polygenic epistasis". Plos Genetics. 16: e1009165. PMID 33104702 DOI: 10.1371/journal.pgen.1009165  0.328
2019 Pallares LF, Picard S, Ayroles JF. TM3'seq: A Tagmentation-Mediated 3' Sequencing Approach for Improving Scalability of RNAseq Experiments. G3 (Bethesda, Md.). PMID 31676507 DOI: 10.1534/G3.119.400821  0.708
2019 Bruijning M, Metcalf CJE, Jongejans E, Ayroles JF. The Evolution of Variance Control. Trends in Ecology & Evolution. PMID 31519463 DOI: 10.1016/J.Tree.2019.08.005  0.389
2019 Lea A, Subramaniam M, Ko A, Lehtimäki T, Raitoharju E, Kähönen M, Seppälä I, Mononen N, Raitakari OT, Ala-Korpela M, Pajukanta P, Zaitlen N, Ayroles JF. Genetic and environmental perturbations lead to regulatory decoherence. Elife. 8. PMID 30834892 DOI: 10.7554/Elife.40538  0.405
2019 Lea A, Subramaniam M, Ko A, Lehtimäki T, Raitoharju E, Kähönen M, Seppälä I, Mononen N, Raitakari OT, Ala-Korpela M, Pajukanta P, Zaitlen N, Ayroles JF. Author response: Genetic and environmental perturbations lead to regulatory decoherence Elife. DOI: 10.7554/Elife.40538.030  0.373
2018 Dumitrascu B, Darnell G, Ayroles J, Engelhardt BE. Statistical tests for detecting variance effects in quantitative trait studies. Bioinformatics (Oxford, England). PMID 29982387 DOI: 10.1093/Bioinformatics/Bty565  0.421
2018 Schrider DR, Ayroles J, Matute DR, Kern AD. Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia. Plos Genetics. 14: e1007341. PMID 29684059 DOI: 10.1371/Journal.Pgen.1007341  0.407
2015 Zwarts L, Vanden Broeck L, Cappuyns E, Ayroles JF, Magwire MM, Vulsteke V, Clements J, Mackay TF, Callaerts P. The genetic basis of natural variation in mushroom body size in Drosophila melanogaster. Nature Communications. 6: 10115. PMID 26656654 DOI: 10.1038/Ncomms10115  0.593
2015 Ayroles JF, Buchanan SM, O'Leary C, Skutt-Kakaria K, Grenier JK, Clark AG, Hartl DL, de Bivort BL. Behavioral idiosyncrasy reveals genetic control of phenotypic variability. Proceedings of the National Academy of Sciences of the United States of America. 112: 6706-11. PMID 25953335 DOI: 10.1073/Pnas.1503830112  0.456
2013 Corbett-Detig RB, Zhou J, Clark AG, Hartl DL, Ayroles JF. Genetic incompatibilities are widespread within species. Nature. 504: 135-7. PMID 24196712 DOI: 10.1038/Nature12678  0.461
2012 Massouras A, Waszak SM, Albarca-Aguilera M, Hens K, Holcombe W, Ayroles JF, Dermitzakis ET, Stone EA, Jensen JD, Mackay TF, Deplancke B. Genomic variation and its impact on gene expression in Drosophila melanogaster. Plos Genetics. 8: e1003055. PMID 23189034 DOI: 10.1371/Journal.Pgen.1003055  0.648
2012 Huang W, Richards S, Carbone MA, Zhu D, Anholt RR, Ayroles JF, Duncan L, Jordan KW, Lawrence F, Magwire MM, Warner CB, Blankenburg K, Han Y, Javaid M, Jayaseelan J, et al. Epistasis dominates the genetic architecture of Drosophila quantitative traits. Proceedings of the National Academy of Sciences of the United States of America. 109: 15553-9. PMID 22949659 DOI: 10.1073/Pnas.1213423109  0.617
2012 Ober U, Ayroles JF, Stone EA, Richards S, Zhu D, Gibbs RA, Stricker C, Gianola D, Schlather M, Mackay TF, Simianer H. Using whole-genome sequence data to predict quantitative trait phenotypes in Drosophila melanogaster. Plos Genetics. 8: e1002685. PMID 22570636 DOI: 10.1371/Journal.Pgen.1002685  0.552
2012 Mackay TF, Richards S, Stone EA, Barbadilla A, Ayroles JF, Zhu D, Casillas S, Han Y, Magwire MM, Cridland JM, Richardson MF, Anholt RR, Barrón M, Bess C, Blankenburg KP, et al. The Drosophila melanogaster Genetic Reference Panel. Nature. 482: 173-8. PMID 22318601 DOI: 10.1038/Nature10811  0.632
2011 Ayroles JF, Laflamme BA, Stone EA, Wolfner MF, Mackay TF. Functional genome annotation of Drosophila seminal fluid proteins using transcriptional genetic networks. Genetics Research. 93: 387-95. PMID 22189604 DOI: 10.1017/S0016672311000346  0.66
2011 Rowe KC, Singhal S, Macmanes MD, Ayroles JF, Morelli TL, Rubidge EM, Bi K, Moritz CC. Museum genomics: low-cost and high-accuracy genetic data from historical specimens. Molecular Ecology Resources. 11: 1082-92. PMID 21791033 DOI: 10.1111/J.1755-0998.2011.03052.X  0.648
2010 Jumbo-Lucioni P, Ayroles JF, Chambers MM, Jordan KW, Leips J, Mackay TF, De Luca M. Systems genetics analysis of body weight and energy metabolism traits in Drosophila melanogaster. Bmc Genomics. 11: 297. PMID 20459830 DOI: 10.1186/1471-2164-11-297  0.655
2010 Kocher SD, Ayroles JF, Stone EA, Grozinger CM. Individual variation in pheromone response correlates with reproductive traits and brain gene expression in worker honey bees. Plos One. 5: e9116. PMID 20161742 DOI: 10.1371/Journal.Pone.0009116  0.442
2009 Morozova TV, Ayroles JF, Jordan KW, Duncan LH, Carbone MA, Lyman RF, Stone EA, Govindaraju DR, Ellison RC, Mackay TF, Anholt RR. Alcohol sensitivity in Drosophila: translational potential of systems genetics. Genetics. 183: 733-45, 1SI-12SI. PMID 19652175 DOI: 10.1534/Genetics.109.107490  0.611
2009 Ayroles JF, Hughes KA, Rowe KC, Reedy MM, Rodriguez-Zas SL, Drnevich JM, Cáceres CE, Paige KN. A genomewide assessment of inbreeding depression: gene number, function, and mode of action. Conservation Biology : the Journal of the Society For Conservation Biology. 23: 920-30. PMID 19627320 DOI: 10.1111/J.1523-1739.2009.01186.X  0.735
2009 Edwards AC, Ayroles JF, Stone EA, Carbone MA, Lyman RF, Mackay TF. A transcriptional network associated with natural variation in Drosophila aggressive behavior. Genome Biology. 10: R76. PMID 19607677 DOI: 10.1186/Gb-2009-10-7-R76  0.643
2009 Mackay TF, Stone EA, Ayroles JF. The genetics of quantitative traits: challenges and prospects. Nature Reviews. Genetics. 10: 565-77. PMID 19584810 DOI: 10.1038/Nrg2612  0.618
2009 Harbison ST, Carbone MA, Ayroles JF, Stone EA, Lyman RF, Mackay TF. Co-regulated transcriptional networks contribute to natural genetic variation in Drosophila sleep. Nature Genetics. 41: 371-5. PMID 19234472 DOI: 10.1038/Ng.330  0.55
2009 Ayroles JF, Carbone MA, Stone EA, Jordan KW, Lyman RF, Magwire MM, Rollmann SM, Duncan LH, Lawrence F, Anholt RR, Mackay TF. Systems genetics of complex traits in Drosophila melanogaster. Nature Genetics. 41: 299-307. PMID 19234471 DOI: 10.1038/Ng.332  0.659
2009 Carbone MA, Ayroles JF, Yamamoto A, Morozova TV, West SA, Magwire MM, Mackay TF, Anholt RR. Overexpression of myocilin in the Drosophila eye activates the unfolded protein response: implications for glaucoma. Plos One. 4: e4216. PMID 19148291 DOI: 10.1371/Journal.Pone.0004216  0.501
2006 Ayroles JF, Gibson G. Analysis of variance of microarray data. Methods in Enzymology. 411: 214-33. PMID 16939792 DOI: 10.1016/S0076-6879(06)11011-3  0.423
2006 Hughes KA, Ayroles JF, Reedy MM, Drnevich JM, Rowe KC, Ruedi EA, Cáceres CE, Paige KN. Segregating variation in the transcriptome: cis regulation and additivity of effects. Genetics. 173: 1347-55. PMID 16624921 DOI: 10.1534/Genetics.105.051474  0.753
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