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Articles published in PLoS Genet

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Single Articles


    June 2022
  1. ANDERSON H, Davison S, Lytle KM, Honkanen L, et al
    Genetic epidemiology of blood type, disease and trait variants, and genome-wide genetic diversity in over 11,000 domestic cats.
    PLoS Genet. 2022;18:e1009804.
    PubMed     Abstract available


  2. BORDENSTEIN SR, Bordenstein SR
    Widespread phages of endosymbionts: Phage WO genomics and the proposed taxonomic classification of Symbioviridae.
    PLoS Genet. 2022;18:e1010227.
    PubMed     Abstract available


  3. TOURNEBIZE R, Chu G, Moorjani P
    Reconstructing the history of founder events using genome-wide patterns of allele sharing across individuals.
    PLoS Genet. 2022;18:e1010243.
    PubMed     Abstract available


  4. BARNADA SM, Isopi A, Tejada-Martinez D, Goubert C, et al
    Genomic features underlie the co-option of SVA transposons as cis-regulatory elements in human pluripotent stem cells.
    PLoS Genet. 2022;18:e1010225.
    PubMed     Abstract available


    May 2022
  5. SMITH TE, Li Y, Perreau J, Moran NA, et al
    Elucidation of host and symbiont contributions to peptidoglycan metabolism based on comparative genomics of eight aphid subfamilies and their Buchnera.
    PLoS Genet. 2022;18:e1010195.
    PubMed     Abstract available


  6. GIBSON G
    Perspectives on rigor and reproducibility in single cell genomics.
    PLoS Genet. 2022;18:e1010210.
    PubMed    


    April 2022
  7. OZIRMAK LERMI N, Gray SB, Bowen CM, Reyes-Uribe L, et al
    Comparative molecular genomic analyses of a spontaneous rhesus macaque model of mismatch repair-deficient colorectal cancer.
    PLoS Genet. 2022;18:e1010163.
    PubMed     Abstract available


  8. ONETTO CA, Sosnowski MR, Van Den Heuvel S, Borneman AR, et al
    Population genomics of the grapevine pathogen Eutypa lata reveals evidence for population expansion and intraspecific differences in secondary metabolite gene clusters.
    PLoS Genet. 2022;18:e1010153.
    PubMed     Abstract available


  9. DESBOIS M, Opperman KJ, Amezquita J, Gaglio G, et al
    Ubiquitin ligase activity inhibits Cdk5 to control axon termination.
    PLoS Genet. 2022;18:e1010152.
    PubMed     Abstract available


  10. DEGIORGIO M, Szpiech ZA
    A spatially aware likelihood test to detect sweeps from haplotype distributions.
    PLoS Genet. 2022;18:e1010134.
    PubMed     Abstract available


  11. BARRIOS N, Gonzalez-Lagos C, Dreger DL, Parker HG, et al
    Patagonian sheepdog: Genomic analyses trace the footprints of extinct UK herding dogs to South America.
    PLoS Genet. 2022;18:e1010160.
    PubMed     Abstract available


  12. WANG C, Chen L, Chen Y, Jia W, et al
    Abnormal global alternative RNA splicing in COVID-19 patients.
    PLoS Genet. 2022;18:e1010137.
    PubMed     Abstract available


    March 2022
  13. CILLINGOVA A, Toth R, Mojakova A, Zeman I, et al
    Transcriptome and proteome profiling reveals complex adaptations of Candida parapsilosis cells assimilating hydroxyaromatic carbon sources.
    PLoS Genet. 2022;18:e1009815.
    PubMed     Abstract available


  14. SATI S, Jones P, Kim HS, Zhou LA, et al
    HiCuT: An efficient and low input method to identify protein-directed chromatin interactions.
    PLoS Genet. 2022;18:e1010121.
    PubMed     Abstract available


  15. KALMAR L, Gupta S, Kean IRL, Ba X, et al
    HAM-ART: An optimised culture-free Hi-C metagenomics pipeline for tracking antimicrobial resistance genes in complex microbial communities.
    PLoS Genet. 2022;18:e1009776.
    PubMed     Abstract available


  16. YANG N, Srivastav SP, Rahman R, Ma Q, et al
    Transposable element landscapes in aging Drosophila.
    PLoS Genet. 2022;18:e1010024.
    PubMed     Abstract available


    February 2022
  17. CHANGMAI P, Jaisamut K, Kampuansai J, Kutanan W, et al
    Indian genetic heritage in Southeast Asian populations.
    PLoS Genet. 2022;18:e1010036.
    PubMed     Abstract available


  18. CAVEDON M, vonHoldt B, Hebblewhite M, Hegel T, et al
    Genomic legacy of migration in endangered caribou.
    PLoS Genet. 2022;18:e1009974.
    PubMed     Abstract available


  19. HERNANDEZ-CASTRO LE, Villacis AG, Jacobs A, Cheaib B, et al
    Population genomics and geographic dispersal in Chagas disease vectors: Landscape drivers and evidence of possible adaptation to the domestic setting.
    PLoS Genet. 2022;18:e1010019.
    PubMed     Abstract available


  20. JOHRI P, Stephan W, Jensen JD
    Soft selective sweeps: Addressing new definitions, evaluating competing models, and interpreting empirical outliers.
    PLoS Genet. 2022;18:e1010022.
    PubMed     Abstract available


  21. CUEVAS A, Eroukhmanoff F, Ravinet M, Saetre GP, et al
    Predictors of genomic differentiation within a hybrid taxon.
    PLoS Genet. 2022;18:e1010027.
    PubMed     Abstract available


    January 2022
  22. HOLLOMON JM, Liu Z, Rusin SF, Jenkins NP, et al
    The Candida albicans Cdk8-dependent phosphoproteome reveals repression of hyphal growth through a Flo8-dependent pathway.
    PLoS Genet. 2022;18:e1009622.
    PubMed     Abstract available


  23. ALTINOGLU I, Abriat G, Carreaux A, Torres-Sanchez L, et al
    Analysis of HubP-dependent cell pole protein targeting in Vibrio cholerae uncovers novel motility regulators.
    PLoS Genet. 2022;18:e1009991.
    PubMed     Abstract available


  24. HAN J, Munro JE, Kocoski A, Barry AE, et al
    Population-level genome-wide STR discovery and validation for population structure and genetic diversity assessment of Plasmodium species.
    PLoS Genet. 2022;18:e1009604.
    PubMed     Abstract available


  25. TORRES-CAMPANA D, Horard B, Denaud S, Benoit G, et al
    Three classes of epigenomic regulators converge to hyperactivate the essential maternal gene deadhead within a heterochromatin mini-domain.
    PLoS Genet. 2022;18:e1009615.
    PubMed     Abstract available


    December 2021
  26. BROWN TS, Arogbokun O, Buckee CO, Chang HH, et al
    Distinguishing gene flow between malaria parasite populations.
    PLoS Genet. 2021;17:e1009335.
    PubMed     Abstract available


  27. POOK T, Nemri A, Gonzalez Segovia EG, Valle Torres D, et al
    Increasing calling accuracy, coverage, and read-depth in sequence data by the use of haplotype blocks.
    PLoS Genet. 2021;17:e1009944.
    PubMed     Abstract available


    October 2021
  28. PERRIN HJ, Currin KW, Vadlamudi S, Pandey GK, et al
    Chromatin accessibility and gene expression during adipocyte differentiation identify context-dependent effects at cardiometabolic GWAS loci.
    PLoS Genet. 2021;17:e1009865.
    PubMed     Abstract available


  29. HILL V, Akarsu H, Barbarroja RS, Cippa VL, et al
    Minimalistic mycoplasmas harbor different functional toxin-antitoxin systems.
    PLoS Genet. 2021;17:e1009365.
    PubMed     Abstract available


  30. LEEB T
    Domestic animal genetics.
    PLoS Genet. 2021;17:e1009831.
    PubMed    


  31. ARNING N, Sheppard SK, Bayliss S, Clifton DA, et al
    Machine learning to predict the source of campylobacteriosis using whole genome data.
    PLoS Genet. 2021;17:e1009436.
    PubMed     Abstract available


  32. STITZER MC, Anderson SN, Springer NM, Ross-Ibarra J, et al
    The genomic ecosystem of transposable elements in maize.
    PLoS Genet. 2021;17:e1009768.
    PubMed     Abstract available


  33. GIRI A, Khaipho-Burch M, Buckler ES, Ramstein GP, et al
    Haplotype associated RNA expression (HARE) improves prediction of complex traits in maize.
    PLoS Genet. 2021;17:e1009568.
    PubMed     Abstract available


    September 2021
  34. BRAULT V, Nguyen TL, Flores-Gutierrez J, Iacono G, et al
    Dyrk1a gene dosage in glutamatergic neurons has key effects in cognitive deficits observed in mouse models of MRD7 and Down syndrome.
    PLoS Genet. 2021;17:e1009777.
    PubMed     Abstract available


  35. BOWDEN J, Pilling LC, Turkmen D, Kuo CL, et al
    The Triangulation WIthin a STudy (TWIST) framework for causal inference within pharmacogenetic research.
    PLoS Genet. 2021;17:e1009783.
    PubMed     Abstract available


  36. CLAERHOUT S, Verstraete P, Warnez L, Vanpaemel S, et al
    CSYseq: The first Y-chromosome sequencing tool typing a large number of Y-SNPs and Y-STRs to unravel worldwide human population genetics.
    PLoS Genet. 2021;17:e1009758.
    PubMed     Abstract available


    August 2021
  37. DURAND R, Deschenes F, Burrus V
    Genomic islands targeting dusA in Vibrio species are distantly related to Salmonella Genomic Island 1 and mobilizable by IncC conjugative plasmids.
    PLoS Genet. 2021;17:e1009669.
    PubMed     Abstract available


  38. NITA A, Matsumoto A, Tang R, Shiraishi C, et al
    A ubiquitin-like protein encoded by the "noncoding" RNA TINCR promotes keratinocyte proliferation and wound healing.
    PLoS Genet. 2021;17:e1009686.
    PubMed     Abstract available


  39. ELLIS DA, Reyes-Martin F, Rodriguez-Lopez M, Cotobal C, et al
    R-loops and regulatory changes in chronologically ageing fission yeast cells drive non-random patterns of genome rearrangements.
    PLoS Genet. 2021;17:e1009784.
    PubMed     Abstract available


  40. SCHOTANUS K, Yadav V, Heitman J
    Epigenetic dynamics of centromeres and neocentromeres in Cryptococcus deuterogattii.
    PLoS Genet. 2021;17:e1009743.
    PubMed     Abstract available


  41. VAN DAM MH, Cabras AA, Henderson JB, Rominger AJ, et al
    The Easter Egg Weevil (Pachyrhynchus) genome reveals syntenic patterns in Coleoptera across 200 million years of evolution.
    PLoS Genet. 2021;17:e1009745.
    PubMed     Abstract available


  42. FELDMANN MJ, Piepho HP, Bridges WC, Knapp SJ, et al
    Average semivariance yields accurate estimates of the fraction of marker-associated genetic variance and heritability in complex trait analyses.
    PLoS Genet. 2021;17:e1009762.
    PubMed     Abstract available


  43. DEMETCI P, Cheng W, Darnell G, Zhou X, et al
    Multi-scale inference of genetic trait architecture using biologically annotated neural networks.
    PLoS Genet. 2021;17:e1009754.
    PubMed     Abstract available


    July 2021
  44. MACK KL, Jaggard JB, Persons JL, Roback EY, et al
    Repeated evolution of circadian clock dysregulation in cavefish populations.
    PLoS Genet. 2021;17:e1009642.
    PubMed     Abstract available


  45. AUDAIN E, Wilsdon A, Breckpot J, Izarzugaza JMG, et al
    Integrative analysis of genomic variants reveals new associations of candidate haploinsufficient genes with congenital heart disease.
    PLoS Genet. 2021;17:e1009679.
    PubMed     Abstract available


  46. WILLEMIN A, Lopez-Delisle L, Bolt CC, Gadolini ML, et al
    Induction of a chromatin boundary in vivo upon insertion of a TAD border.
    PLoS Genet. 2021;17:e1009691.
    PubMed     Abstract available


  47. ROWAN TN, Durbin HJ, Seabury CM, Schnabel RD, et al
    Powerful detection of polygenic selection and evidence of environmental adaptation in US beef cattle.
    PLoS Genet. 2021;17:e1009652.
    PubMed     Abstract available


  48. FRANCOIS O, Gain C
    A spectral theory for Wright's inbreeding coefficients and related quantities.
    PLoS Genet. 2021;17:e1009665.
    PubMed     Abstract available


  49. CHEN PB, Flint J
    What connectomics can learn from genomics.
    PLoS Genet. 2021;17:e1009692.
    PubMed    


  50. WEIN T, Wang Y, Barz M, Stucker FT, et al
    Essential gene acquisition destabilizes plasmid inheritance.
    PLoS Genet. 2021;17:e1009656.
    PubMed     Abstract available


  51. XIA S, VanKuren NW, Chen C, Zhang L, et al
    Genomic analyses of new genes and their phenotypic effects reveal rapid evolution of essential functions in Drosophila development.
    PLoS Genet. 2021;17:e1009654.
    PubMed     Abstract available


    June 2021
  52. ZHU L, Fukunaga R
    RNA-binding protein Maca is crucial for gigantic male fertility factor gene expression, spermatogenesis, and male fertility, in Drosophila.
    PLoS Genet. 2021;17:e1009655.
    PubMed     Abstract available


  53. RESCAN M, Grulois D, Aboud EO, de Villemereuil P, et al
    Predicting population genetic change in an autocorrelated random environment: Insights from a large automated experiment.
    PLoS Genet. 2021;17:e1009611.
    PubMed     Abstract available


  54. FUCHS S, Kucklick M, Lehmann E, Beckmann A, et al
    Towards the characterization of the hidden world of small proteins in Staphylococcus aureus, a proteogenomics approach.
    PLoS Genet. 2021;17:e1009585.
    PubMed     Abstract available


  55. ZHENG NS, Stone CA, Jiang L, Shaffer CM, et al
    High-throughput framework for genetic analyses of adverse drug reactions using electronic health records.
    PLoS Genet. 2021;17:e1009593.
    PubMed     Abstract available


    May 2021
  56. WANG S, Li H, Song M, Tao Z, et al
    Copy number signature analysis tool and its application in prostate cancer reveals distinct mutational processes and clinical outcomes.
    PLoS Genet. 2021;17:e1009557.
    PubMed     Abstract available


  57. WHITING JR, Paris JR, van der Zee MJ, Parsons PJ, et al
    Drainage-structuring of ancestral variation and a common functional pathway shape limited genomic convergence in natural high- and low-predation guppies.
    PLoS Genet. 2021;17:e1009566.
    PubMed     Abstract available


  58. BOYS IN, Mar KB, Schoggins JW
    Functional-genomic analysis reveals intraspecies diversification of antiviral receptor transporter proteins in Xenopus laevis.
    PLoS Genet. 2021;17:e1009578.
    PubMed     Abstract available


  59. EVANS JM, Parker HG, Rutteman GR, Plassais J, et al
    Multi-omics approach identifies germline regulatory variants associated with hematopoietic malignancies in retriever dog breeds.
    PLoS Genet. 2021;17:e1009543.
    PubMed     Abstract available


  60. HOSKENS H, Liu D, Naqvi S, Lee MK, et al
    3D facial phenotyping by biometric sibling matching used in contemporary genomic methodologies.
    PLoS Genet. 2021;17:e1009528.
    PubMed     Abstract available


    April 2021
  61. FERRIS KG, Chavez AS, Suzuki TA, Beckman EJ, et al
    The genomics of rapid climatic adaptation and parallel evolution in North American house mice.
    PLoS Genet. 2021;17:e1009495.
    PubMed     Abstract available


  62. GARCIA-BAYONA L, Coyne MJ, Comstock LE
    Mobile Type VI secretion system loci of the gut Bacteroidales display extensive intra-ecosystem transfer, multi-species spread and geographical clustering.
    PLoS Genet. 2021;17:e1009541.
    PubMed     Abstract available


    March 2021
  63. LUCEK K, Willi Y
    Drivers of linkage disequilibrium across a species' geographic range.
    PLoS Genet. 2021;17:e1009477.
    PubMed     Abstract available


  64. CARNEIRO M, Vieillard J, Andrade P, Boucher S, et al
    A loss-of-function mutation in RORB disrupts saltatorial locomotion in rabbits.
    PLoS Genet. 2021;17:e1009429.
    PubMed     Abstract available


  65. LI J, Sun L, Peng XL, Yu XM, et al
    Integrative genomic analysis of early neurogenesis reveals a temporal genetic program for differentiation and specification of preplate and Cajal-Retzius neurons.
    PLoS Genet. 2021;17:e1009355.
    PubMed     Abstract available


  66. WILLIS K, Burt A
    Double drives and private alleles for localised population genetic control.
    PLoS Genet. 2021;17:e1009333.
    PubMed     Abstract available


  67. MOLLER M, Habig M, Lorrain C, Feurtey A, et al
    Recent loss of the Dim2 DNA methyltransferase decreases mutation rate in repeats and changes evolutionary trajectory in a fungal pathogen.
    PLoS Genet. 2021;17:e1009448.
    PubMed     Abstract available


  68. HANNON E, Mansell G, Walker E, Nabais MF, et al
    Assessing the co-variability of DNA methylation across peripheral cells and tissues: Implications for the interpretation of findings in epigenetic epidemiology.
    PLoS Genet. 2021;17:e1009443.
    PubMed     Abstract available


  69. KORUNES KL, Goldberg A
    Human genetic admixture.
    PLoS Genet. 2021;17:e1009374.
    PubMed     Abstract available


  70. KERMINEN S, Cerioli N, Pacauskas D, Havulinna AS, et al
    Changes in the fine-scale genetic structure of Finland through the 20th century.
    PLoS Genet. 2021;17:e1009347.
    PubMed     Abstract available


  71. WALKER CR, Scally A, De Maio N, Goldman N, et al
    Short-range template switching in great ape genomes explored using pair hidden Markov models.
    PLoS Genet. 2021;17:e1009221.
    PubMed     Abstract available


    February 2021
  72. GARUD NR, Messer PW, Petrov DA
    Detection of hard and soft selective sweeps from Drosophila melanogaster population genomic data.
    PLoS Genet. 2021;17:e1009373.
    PubMed     Abstract available


  73. LIU N, Xu J, Liu H, Zhang S, et al
    Hippocampal transcriptome-wide association study and neurobiological pathway analysis for Alzheimer's disease.
    PLoS Genet. 2021;17:e1009363.
    PubMed     Abstract available


  74. ANDRADE P, Gazda MA, Araujo PM, Afonso S, et al
    Molecular parallelisms between pigmentation in the avian iris and the integument of ectothermic vertebrates.
    PLoS Genet. 2021;17:e1009404.
    PubMed     Abstract available


  75. BROVKINA MV, Duffie R, Burtis AEC, Clowney EJ, et al
    Fruitless decommissions regulatory elements to implement cell-type-specific neuronal masculinization.
    PLoS Genet. 2021;17:e1009338.
    PubMed     Abstract available


  76. YU MHC, Chan MCY, Chung CCY, Li AWT, et al
    Actionable pharmacogenetic variants in Hong Kong Chinese exome sequencing data and projected prescription impact in the Hong Kong population.
    PLoS Genet. 2021;17:e1009323.
    PubMed     Abstract available


  77. LENZ J, Liefke R, Funk J, Shoup S, et al
    Ush regulates hemocyte-specific gene expression, fatty acid metabolism and cell cycle progression and cooperates with dNuRD to orchestrate hematopoiesis.
    PLoS Genet. 2021;17:e1009318.
    PubMed     Abstract available


  78. LANGNER T, Harant A, Gomez-Luciano LB, Shrestha RK, et al
    Genomic rearrangements generate hypervariable mini-chromosomes in host-specific isolates of the blast fungus.
    PLoS Genet. 2021;17:e1009386.
    PubMed     Abstract available


  79. ZHANG JL, Fu SJ, Chen SJ, Chen HH, et al
    Vestigial mediates the effect of insulin signaling pathway on wing-morph switching in planthoppers.
    PLoS Genet. 2021;17:e1009312.
    PubMed     Abstract available


  80. YELMEN B, Decelle A, Ongaro L, Marnetto D, et al
    Creating artificial human genomes using generative neural networks.
    PLoS Genet. 2021;17:e1009303.
    PubMed     Abstract available


  81. ZHANG W, Huang J, Cook DE
    Histone modification dynamics at H3K27 are associated with altered transcription of in planta induced genes in Magnaporthe oryzae.
    PLoS Genet. 2021;17:e1009376.
    PubMed     Abstract available


  82. FARRIS J, Alam MS, Rajashekara AM, Haldar K, et al
    Genomic analyses of glycine decarboxylase neurogenic mutations yield a large-scale prediction model for prenatal disease.
    PLoS Genet. 2021;17:e1009307.
    PubMed     Abstract available


    January 2021
  83. VY HMT, Jordan DM, Balick DJ, Do R, et al
    Probing the aggregated effects of purifying selection per individual on 1,380 medical phenotypes in the UK Biobank.
    PLoS Genet. 2021;17:e1009337.
    PubMed     Abstract available


  84. WIETERS B, Steige KA, He F, Koch EM, et al
    Polygenic adaptation of rosette growth in Arabidopsis thaliana.
    PLoS Genet. 2021;17:e1008748.
    PubMed     Abstract available


  85. OCHOA A, Storey JD
    Estimating FST and kinship for arbitrary population structures.
    PLoS Genet. 2021;17:e1009241.
    PubMed     Abstract available


  86. FEDER AF, Pennings PS, Petrov DA
    The clarifying role of time series data in the population genetics of HIV.
    PLoS Genet. 2021;17:e1009050.
    PubMed     Abstract available


  87. SAINI N, Giacobone CK, Klimczak LJ, Papas BN, et al
    UV-exposure, endogenous DNA damage, and DNA replication errors shape the spectra of genome changes in human skin.
    PLoS Genet. 2021;17:e1009302.
    PubMed     Abstract available


  88. MONNAHAN PJ, Colicchio J, Fishman L, Macdonald SJ, et al
    Predicting evolutionary change at the DNA level in a natural Mimulus population.
    PLoS Genet. 2021;17:e1008945.
    PubMed     Abstract available


  89. MINETA K, Goto K, Gojobori T, Alkuraya FS, et al
    Population structure of indigenous inhabitants of Arabia.
    PLoS Genet. 2021;17:e1009210.
    PubMed     Abstract available


  90. LEHMAN BJ, Lopez-Diaz FJ, Santisakultarm TP, Fang L, et al
    Dynamic regulation of CTCF stability and sub-nuclear localization in response to stress.
    PLoS Genet. 2021;17:e1009277.
    PubMed     Abstract available


    December 2020
  91. SCHWABL P, Maiguashca Sanchez J, Costales JA, Ocana-Mayorga S, et al
    Culture-free genome-wide locus sequence typing (GLST) provides new perspectives on Trypanosoma cruzi dispersal and infection complexity.
    PLoS Genet. 2020;16:e1009170.
    PubMed     Abstract available


  92. SWAN AL, Schutt C, Rozman J, Del Mar Muniz Moreno M, et al
    Mouse mutant phenotyping at scale reveals novel genes controlling bone mineral density.
    PLoS Genet. 2020;16:e1009190.
    PubMed     Abstract available


    November 2020
  93. BALACHANDRA VK, Verma J, Shankar M, Tucey TM, et al
    The RSC (Remodels the Structure of Chromatin) complex of Candida albicans shows compositional divergence with distinct roles in regulating pathogenic traits.
    PLoS Genet. 2020;16:e1009071.
    PubMed     Abstract available


  94. LECA I, Phillips AW, Hofer I, Landler L, et al
    A proteomic survey of microtubule-associated proteins in a R402H TUBA1A mutant mouse.
    PLoS Genet. 2020;16:e1009104.
    PubMed     Abstract available


  95. GOLDSTEIN JA, Weinstock JS, Bastarache LA, Larach DB, et al
    LabWAS: Novel findings and study design recommendations from a meta-analysis of clinical labs in two independent biobanks.
    PLoS Genet. 2020;16:e1009077.
    PubMed     Abstract available


  96. DIOFANO F, Weinmann K, Schneider I, Thiessen KD, et al
    Genetic compensation prevents myopathy and heart failure in an in vivo model of Bag3 deficiency.
    PLoS Genet. 2020;16:e1009088.
    PubMed     Abstract available


    October 2020
  97. WATSON JA, Taylor AR, Ashley EA, Dondorp A, et al
    A cautionary note on the use of unsupervised machine learning algorithms to characterise malaria parasite population structure from genetic distance matrices.
    PLoS Genet. 2020;16:e1009037.
    PubMed     Abstract available


  98. QIAN J, Tanigawa Y, Du W, Aguirre M, et al
    A fast and scalable framework for large-scale and ultrahigh-dimensional sparse regression with application to the UK Biobank.
    PLoS Genet. 2020;16:e1009141.
    PubMed     Abstract available


  99. ZHANG W, Schoenebeck JJ
    The ninth life of the cat reference genome, Felis_catus.
    PLoS Genet. 2020;16:e1009045.
    PubMed    


  100. BROWN DW, Lin SH, Loh PR, Chanock SJ, et al
    Genetically predicted telomere length is associated with clonal somatic copy number alterations in peripheral leukocytes.
    PLoS Genet. 2020;16:e1009078.
    PubMed     Abstract available


  101. BUCKLEY RM, Davis BW, Brashear WA, Farias FHG, et al
    A new domestic cat genome assembly based on long sequence reads empowers feline genomic medicine and identifies a novel gene for dwarfism.
    PLoS Genet. 2020;16:e1008926.
    PubMed     Abstract available


  102. ATZINGER A, Lawrence JG
    Selection for ancient periodic motifs that do not impart DNA bending.
    PLoS Genet. 2020;16:e1009042.
    PubMed     Abstract available


  103. BOURGEOIS Y, Ruggiero RP, Hariyani I, Boissinot S, et al
    Disentangling the determinants of transposable elements dynamics in vertebrate genomes using empirical evidences and simulations.
    PLoS Genet. 2020;16:e1009082.
    PubMed     Abstract available


  104. DIAZ-SANTIAGO E, Jabato FM, Rojano E, Seoane P, et al
    Phenotype-genotype comorbidity analysis of patients with rare disorders provides insight into their pathological and molecular bases.
    PLoS Genet. 2020;16:e1009054.
    PubMed     Abstract available


    September 2020
  105. GROSS C, Bortoluzzi C, de Ridder D, Megens HJ, et al
    Prioritizing sequence variants in conserved non-coding elements in the chicken genome using chCADD.
    PLoS Genet. 2020;16:e1009027.
    PubMed     Abstract available


  106. SUMMERS DK, Perry DS, Rao B, Madhani HD, et al
    Coordinate genomic association of transcription factors controlled by an imported quorum sensing peptide in Cryptococcus neoformans.
    PLoS Genet. 2020;16:e1008744.
    PubMed     Abstract available


  107. MULLEN DJ, Yan C, Kang DS, Zhou B, et al
    TENET 2.0: Identification of key transcriptional regulators and enhancers in lung adenocarcinoma.
    PLoS Genet. 2020;16:e1009023.
    PubMed     Abstract available


  108. DESHPANDE O, Lara RZ, Zhang OR, Concepcion D, et al
    ZNF423 patient variants, truncations, and in-frame deletions in mice define an allele-dependent range of midline brain abnormalities.
    PLoS Genet. 2020;16:e1009017.
    PubMed     Abstract available


  109. ALI MB, Evans JM, Parker HG, Kim J, et al
    Genetic analysis of the modern Australian labradoodle dog breed reveals an excess of the poodle genome.
    PLoS Genet. 2020;16:e1008956.
    PubMed     Abstract available


  110. STRUNZ T, Kiel C, Grassmann F, Ratnapriya R, et al
    A mega-analysis of expression quantitative trait loci in retinal tissue.
    PLoS Genet. 2020;16:e1008934.
    PubMed     Abstract available


  111. STEIN V, Blank-Landeshammer B, Muntjes K, Marker R, et al
    The STRIPAK signaling complex regulates dephosphorylation of GUL1, an RNA-binding protein that shuttles on endosomes.
    PLoS Genet. 2020;16:e1008819.
    PubMed     Abstract available


    August 2020
  112. LI Z, Simianer H
    Pan-genomic open reading frames: A potential supplement of single nucleotide polymorphisms in estimation of heritability and genomic prediction.
    PLoS Genet. 2020;16:e1008995.
    PubMed     Abstract available


  113. BARTOLOMEI MS, Oakey RJ, Wutz A
    Genomic imprinting: An epigenetic regulatory system.
    PLoS Genet. 2020;16:e1008970.
    PubMed    


  114. ORD T, Puurand T, Ord D, Annilo T, et al
    A human-specific VNTR in the TRIB3 promoter causes gene expression variation between individuals.
    PLoS Genet. 2020;16:e1008981.
    PubMed     Abstract available


    July 2020
  115. HUANG YF
    Unified inference of missense variant effects and gene constraints in the human genome.
    PLoS Genet. 2020;16:e1008922.
    PubMed     Abstract available


    June 2020
  116. WEEDALL GD, Riveron JM, Hearn J, Irving H, et al
    An Africa-wide genomic evolution of insecticide resistance in the malaria vector Anopheles funestus involves selective sweeps, copy number variations, gene conversion and transposons.
    PLoS Genet. 2020;16:e1008822.
    PubMed     Abstract available


  117. JOSHI A, Mahmoud SA, Kim SK, Ogdahl JL, et al
    c-di-GMP inhibits LonA-dependent proteolysis of TfoY in Vibrio cholerae.
    PLoS Genet. 2020;16:e1008897.
    PubMed     Abstract available


  118. GRENGA L, Little RH, Chandra G, Woodcock SD, et al
    Control of mRNA translation by dynamic ribosome modification.
    PLoS Genet. 2020;16:e1008837.
    PubMed     Abstract available


  119. SETTER D, Mousset S, Cheng X, Nielsen R, et al
    VolcanoFinder: Genomic scans for adaptive introgression.
    PLoS Genet. 2020;16:e1008867.
    PubMed     Abstract available


  120. ALKAFEEF SS, Lane S, Yu C, Zhou T, et al
    Proteomic profiling of the monothiol glutaredoxin Grx3 reveals its global role in the regulation of iron dependent processes.
    PLoS Genet. 2020;16:e1008881.
    PubMed     Abstract available


    May 2020
  121. ROSS C, Szczepanek K, Lee M, Yang H, et al
    The genomic landscape of metastasis in treatment-naive breast cancer models.
    PLoS Genet. 2020;16:e1008743.
    PubMed     Abstract available


  122. AGRAWAL A, Chiu AM, Le M, Halperin E, et al
    Scalable probabilistic PCA for large-scale genetic variation data.
    PLoS Genet. 2020;16:e1008773.
    PubMed     Abstract available


  123. HUBER CD, Kim BY, Lohmueller KE
    Population genetic models of GERP scores suggest pervasive turnover of constrained sites across mammalian evolution.
    PLoS Genet. 2020;16:e1008827.
    PubMed     Abstract available


  124. NATRI HM, Bobowik KS, Kusuma P, Crenna Darusallam C, et al
    Genome-wide DNA methylation and gene expression patterns reflect genetic ancestry and environmental differences across the Indonesian archipelago.
    PLoS Genet. 2020;16:e1008749.
    PubMed     Abstract available


  125. BRUDERS R, Van Hollebeke H, Osborne EJ, Kronenberg Z, et al
    A copy number variant is associated with a spectrum of pigmentation patterns in the rock pigeon (Columba livia).
    PLoS Genet. 2020;16:e1008274.
    PubMed     Abstract available


  126. HOLLAND D, Frei O, Desikan R, Fan CC, et al
    Beyond SNP heritability: Polygenicity and discoverability of phenotypes estimated with a univariate Gaussian mixture model.
    PLoS Genet. 2020;16:e1008612.
    PubMed     Abstract available


  127. CHEN Q, Samayoa LF, Yang CJ, Bradbury PJ, et al
    The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication.
    PLoS Genet. 2020;16:e1008791.
    PubMed     Abstract available


  128. FAN J, Hu J, Xue C, Zhang H, et al
    ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing.
    PLoS Genet. 2020;16:e1008786.
    PubMed     Abstract available


  129. BRASO-VIVES M, Povolotskaya IS, Hartasanchez DA, Farre X, et al
    Copy number variants and fixed duplications among 198 rhesus macaques (Macaca mulatta).
    PLoS Genet. 2020;16:e1008742.
    PubMed     Abstract available


  130. NELSON D, Kelleher J, Ragsdale AP, Moreau C, et al
    Accounting for long-range correlations in genome-wide simulations of large cohorts.
    PLoS Genet. 2020;16:e1008619.
    PubMed     Abstract available


  131. TANIGAWA Y, Wainberg M, Karjalainen J, Kiiskinen T, et al
    Rare protein-altering variants in ANGPTL7 lower intraocular pressure and protect against glaucoma.
    PLoS Genet. 2020;16:e1008682.
    PubMed     Abstract available


  132. BHATNAGAR SR, Yang Y, Lu T, Schurr E, et al
    Simultaneous SNP selection and adjustment for population structure in high dimensional prediction models.
    PLoS Genet. 2020;16:e1008766.
    PubMed     Abstract available


  133. NESPOLO RF, Villarroel CA, Oporto CI, Tapia SM, et al
    An Out-of-Patagonia migration explains the worldwide diversity and distribution of Saccharomyces eubayanus lineages.
    PLoS Genet. 2020;16:e1008777.
    PubMed     Abstract available


    April 2020
  134. ZHONG Y, De T, Alarcon C, Park CS, et al
    Discovery of novel hepatocyte eQTLs in African Americans.
    PLoS Genet. 2020;16:e1008662.
    PubMed     Abstract available


  135. JACOBS A, Carruthers M, Yurchenko A, Gordeeva NV, et al
    Parallelism in eco-morphology and gene expression despite variable evolutionary and genomic backgrounds in a Holarctic fish.
    PLoS Genet. 2020;16:e1008658.
    PubMed     Abstract available


  136. RAM H, Sahadevan S, Gale N, Caggiano MP, et al
    An integrated analysis of cell-type specific gene expression reveals genes regulated by REVOLUTA and KANADI1 in the Arabidopsis shoot apical meristem.
    PLoS Genet. 2020;16:e1008661.
    PubMed     Abstract available


  137. LANGDON QK, Peris D, Eizaguirre JI, Opulente DA, et al
    Postglacial migration shaped the genomic diversity and global distribution of the wild ancestor of lager-brewing hybrids.
    PLoS Genet. 2020;16:e1008680.
    PubMed     Abstract available


  138. SELLINGER TPP, Abu Awad D, Moest M, Tellier A, et al
    Inference of past demography, dormancy and self-fertilization rates from whole genome sequence data.
    PLoS Genet. 2020;16:e1008698.
    PubMed     Abstract available


  139. LINQUIST S, Doolittle WF, Palazzo AF
    Getting clear about the F-word in genomics.
    PLoS Genet. 2020;16:e1008702.
    PubMed    


    March 2020
  140. HOHL M, Mojumdar A, Hailemariam S, Kuryavyi V, et al
    Modeling cancer genomic data in yeast reveals selection against ATM function during tumorigenesis.
    PLoS Genet. 2020;16:e1008422.
    PubMed     Abstract available


  141. MATHIESON I, Scally A
    What is ancestry?
    PLoS Genet. 2020;16:e1008624.
    PubMed    


  142. HU Y, Graff M, Haessler J, Buyske S, et al
    Minority-centric meta-analyses of blood lipid levels identify novel loci in the Population Architecture using Genomics and Epidemiology (PAGE) study.
    PLoS Genet. 2020;16:e1008684.
    PubMed     Abstract available


  143. OMURA CS, Lott SE
    The conserved regulatory basis of mRNA contributions to the early Drosophila embryo differs between the maternal and zygotic genomes.
    PLoS Genet. 2020;16:e1008645.
    PubMed     Abstract available


    December 2019
  144. KOWALSKI MH, Qian H, Hou Z, Rosen JD, et al
    Use of >100,000 NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium whole genome sequences improves imputation quality and detection of rare variant associations in admixed African and Hispanic/Latino populations.
    PLoS Genet. 2019;15:e1008500.
    PubMed     Abstract available


  145. HADJINEOPHYTOU C, Anonsen JH, Wang N, Ma KC, et al
    Genetic determinants of genus-level glycan diversity in a bacterial protein glycosylation system.
    PLoS Genet. 2019;15:e1008532.
    PubMed     Abstract available


  146. FUSTIER MA, Martinez-Ainsworth NE, Aguirre-Liguori JA, Venon A, et al
    Common gardens in teosintes reveal the establishment of a syndrome of adaptation to altitude.
    PLoS Genet. 2019;15:e1008512.
    PubMed     Abstract available


  147. CABALLERO M, Seidman DN, Qiao Y, Sannerud J, et al
    Crossover interference and sex-specific genetic maps shape identical by descent sharing in close relatives.
    PLoS Genet. 2019;15:e1007979.
    PubMed     Abstract available


  148. PHAM TB, Phong CH, Bennett JB, Hwang K, et al
    Experimental population modification of the malaria vector mosquito, Anopheles stephensi.
    PLoS Genet. 2019;15:e1008440.
    PubMed     Abstract available


  149. KING EA, Davis JW, Degner JF
    Are drug targets with genetic support twice as likely to be approved? Revised estimates of the impact of genetic support for drug mechanisms on the probability of drug approval.
    PLoS Genet. 2019;15:e1008489.
    PubMed     Abstract available


    November 2019
  150. RUNEMARK A, Vallejo-Marin M, Meier JI
    Eukaryote hybrid genomes.
    PLoS Genet. 2019;15:e1008404.
    PubMed     Abstract available


  151. HALACHEV M, Meynert A, Taylor MS, Vitart V, et al
    Increased ultra-rare variant load in an isolated Scottish population impacts exonic and regulatory regions.
    PLoS Genet. 2019;15:e1008480.
    PubMed     Abstract available


  152. LILUE J, Shivalikanjli A, Adams DJ, Keane TM, et al
    Mouse protein coding diversity: What's left to discover?
    PLoS Genet. 2019;15:e1008446.
    PubMed     Abstract available


  153. V BARROSO G, Puzovic N, Dutheil JY
    Inference of recombination maps from a single pair of genomes and its application to ancient samples.
    PLoS Genet. 2019;15:e1008449.
    PubMed     Abstract available


  154. SHIGEMATSU M, Morichika K, Kawamura T, Honda S, et al
    Genome-wide identification of short 2',3'-cyclic phosphate-containing RNAs and their regulation in aging.
    PLoS Genet. 2019;15:e1008469.
    PubMed     Abstract available


  155. SCHWEIZER RM, Velotta JP, Ivy CM, Jones MR, et al
    Physiological and genomic evidence that selection on the transcription factor Epas1 has altered cardiovascular function in high-altitude deer mice.
    PLoS Genet. 2019;15:e1008420.
    PubMed     Abstract available


  156. BOUAIN N, Korte A, Satbhai SB, Nam HI, et al
    Systems genomics approaches provide new insights into Arabidopsis thaliana root growth regulation under combinatorial mineral nutrient limitation.
    PLoS Genet. 2019;15:e1008392.
    PubMed     Abstract available


  157. HEARN J, Blaxter M, Schonrogge K, Nieves-Aldrey JL, et al
    Genomic dissection of an extended phenotype: Oak galling by a cynipid gall wasp.
    PLoS Genet. 2019;15:e1008398.
    PubMed     Abstract available


  158. DARRACQ A, Pak H, Bourgoin V, Zmiri F, et al
    NPM and NPM-MLF1 interact with chromatin remodeling complexes and influence their recruitment to specific genes.
    PLoS Genet. 2019;15:e1008463.
    PubMed     Abstract available


  159. DIAZ-PAPKOVICH A, Anderson-Trocme L, Ben-Eghan C, Gravel S, et al
    UMAP reveals cryptic population structure and phenotype heterogeneity in large genomic cohorts.
    PLoS Genet. 2019;15:e1008432.
    PubMed     Abstract available


    October 2019
  160. RICHARDS JK, Stukenbrock EH, Carpenter J, Liu Z, et al
    Local adaptation drives the diversification of effectors in the fungal wheat pathogen Parastagonospora nodorum in the United States.
    PLoS Genet. 2019;15:e1008223.
    PubMed     Abstract available


  161. CAPALBO A, Valero RA, Jimenez-Almazan J, Pardo PM, et al
    Optimizing clinical exome design and parallel gene-testing for recessive genetic conditions in preconception carrier screening: Translational research genomic data from 14,125 exomes.
    PLoS Genet. 2019;15:e1008409.
    PubMed     Abstract available


    September 2019
  162. MISIEWICZ Z, Iurato S, Kulesskaya N, Salminen L, et al
    Multi-omics analysis identifies mitochondrial pathways associated with anxiety-related behavior.
    PLoS Genet. 2019;15:e1008358.
    PubMed     Abstract available


  163. MEHRJOO Z, Fattahi Z, Beheshtian M, Mohseni M, et al
    Distinct genetic variation and heterogeneity of the Iranian population.
    PLoS Genet. 2019;15:e1008385.
    PubMed     Abstract available


  164. FONT-PORTERIAS N, Arauna LR, Poveda A, Bianco E, et al
    European Roma groups show complex West Eurasian admixture footprints and a common South Asian genetic origin.
    PLoS Genet. 2019;15:e1008417.
    PubMed     Abstract available


  165. JORDAN IK, Rishishwar L, Conley AB
    Native American admixture recapitulates population-specific migration and settlement of the continental United States.
    PLoS Genet. 2019;15:e1008225.
    PubMed     Abstract available


  166. MUSHAROFF S, Shringarpure S, Bustamante CD, Ramachandran S, et al
    The inference of sex-biased human demography from whole-genome data.
    PLoS Genet. 2019;15:e1008293.
    PubMed     Abstract available


  167. SUN M, Zhang J
    Chromosome-wide co-fluctuation of stochastic gene expression in mammalian cells.
    PLoS Genet. 2019;15:e1008389.
    PubMed     Abstract available


  168. HAYWARD JJ, White ME, Boyle M, Shannon LM, et al
    Imputation of canine genotype array data using 365 whole-genome sequences improves power of genome-wide association studies.
    PLoS Genet. 2019;15:e1008003.
    PubMed     Abstract available


  169. BARSH GS, Copenhaver GP, Prakash ES, Zarnescu DC, et al
    -2019 PLOS Genetics Research Prize: Fruit fly school - language and dialects for communicating a threat.
    PLoS Genet. 2019;15:e1008381.
    PubMed    


  170. BAKER RL, Leong WF, Brock MT, Rubin MJ, et al
    Integrating transcriptomic network reconstruction and eQTL analyses reveals mechanistic connections between genomic architecture and Brassica rapa development.
    PLoS Genet. 2019;15:e1008367.
    PubMed     Abstract available


  171. NOSHAY JM, Anderson SN, Zhou P, Ji L, et al
    Monitoring the interplay between transposable element families and DNA methylation in maize.
    PLoS Genet. 2019;15:e1008291.
    PubMed     Abstract available


    August 2019
  172. LOU S, Cotter KA, Li T, Liang J, et al
    GRAM: A GeneRAlized Model to predict the molecular effect of a non-coding variant in a cell-type specific manner.
    PLoS Genet. 2019;15:e1007860.
    PubMed     Abstract available


  173. PLATT A, Pivirotto A, Knoblauch J, Hey J, et al
    An estimator of first coalescent time reveals selection on young variants and large heterogeneity in rare allele ages among human populations.
    PLoS Genet. 2019;15:e1008340.
    PubMed     Abstract available


    July 2019
  174. GUNTHER T, Nettelblad C
    The presence and impact of reference bias on population genomic studies of prehistoric human populations.
    PLoS Genet. 2019;15:e1008302.
    PubMed     Abstract available


  175. GLUCK C, Glathar A, Tsompana M, Nowak N, et al
    Molecular dissection of the oncogenic role of ETS1 in the mesenchymal subtypes of head and neck squamous cell carcinoma.
    PLoS Genet. 2019;15:e1008250.
    PubMed     Abstract available


    June 2019
  176. LI Y, Li J
    Technical advances contribute to the study of genomic imprinting.
    PLoS Genet. 2019;15:e1008151.
    PubMed     Abstract available


  177. SORIDA M, Hirauchi T, Ishizaki H, Kaito W, et al
    Regulation of ectopic heterochromatin-mediated epigenetic diversification by the JmjC family protein Epe1.
    PLoS Genet. 2019;15:e1008129.
    PubMed     Abstract available


  178. HUANG BJ, Wandler AM, Meyer LK, Dail M, et al
    Convergent genetic aberrations in murine and human T lineage acute lymphoblastic leukemias.
    PLoS Genet. 2019;15:e1008168.
    PubMed     Abstract available


  179. FRITSCHE LG, Beesley LJ, VandeHaar P, Peng RB, et al
    Exploring various polygenic risk scores for skin cancer in the phenomes of the Michigan genomics initiative and the UK Biobank with a visual catalog: PRSWeb.
    PLoS Genet. 2019;15:e1008202.
    PubMed     Abstract available


  180. ORSTED M, Hoffmann AA, Sverrisdottir E, Nielsen KL, et al
    Genomic variation predicts adaptive evolutionary responses better than population bottleneck history.
    PLoS Genet. 2019;15:e1008205.
    PubMed     Abstract available


  181. RAGSDALE AP, Gravel S
    Models of archaic admixture and recent history from two-locus statistics.
    PLoS Genet. 2019;15:e1008204.
    PubMed     Abstract available


    May 2019
  182. YAN Q, Liu N, Forno E, Canino G, et al
    An integrative association method for omics data based on a modified Fisher's method with application to childhood asthma.
    PLoS Genet. 2019;15:e1008142.
    PubMed     Abstract available


  183. MA X, Feng F, Zhang Y, Elesawi IE, et al
    A novel rice grain size gene OsSNB was identified by genome-wide association study in natural population.
    PLoS Genet. 2019;15:e1008191.
    PubMed     Abstract available


  184. DURVASULA A, Sankararaman S
    A statistical model for reference-free inference of archaic local ancestry.
    PLoS Genet. 2019;15:e1008175.
    PubMed     Abstract available


  185. MIAO H, Wang L, Zhan H, Dai J, et al
    A long noncoding RNA distributed in both nucleus and cytoplasm operates in the PYCARD-regulated apoptosis by coordinating the epigenetic and translational regulation.
    PLoS Genet. 2019;15:e1008144.
    PubMed     Abstract available


  186. KRYVOKHYZHA D, Milesi P, Duan T, Orsucci M, et al
    Towards the new normal: Transcriptomic convergence and genomic legacy of the two subgenomes of an allopolyploid weed (Capsella bursa-pastoris).
    PLoS Genet. 2019;15:e1008131.
    PubMed     Abstract available


  187. SHOR T, Kalka I, Geiger D, Erlich Y, et al
    Estimating variance components in population scale family trees.
    PLoS Genet. 2019;15:e1008124.
    PubMed     Abstract available


  188. BI K, Linderoth T, Singhal S, Vanderpool D, et al
    Temporal genomic contrasts reveal rapid evolutionary responses in an alpine mammal during recent climate change.
    PLoS Genet. 2019;15:e1008119.
    PubMed     Abstract available


    April 2019
  189. DIETEL AK, Merker H, Kaltenpoth M, Kost C, et al
    Selective advantages favour high genomic AT-contents in intracellular elements.
    PLoS Genet. 2019;15:e1007778.
    PubMed     Abstract available


  190. MA Y, Wei P
    FunSPU: A versatile and adaptive multiple functional annotation-based association test of whole-genome sequencing data.
    PLoS Genet. 2019;15:e1008081.
    PubMed     Abstract available


  191. QANBARI S, Rubin CJ, Maqbool K, Weigend S, et al
    Genetics of adaptation in modern chicken.
    PLoS Genet. 2019;15:e1007989.
    PubMed     Abstract available


  192. SHEN D, Tang Z, Wang C, Wang J, et al
    Infection mechanisms and putative effector repertoire of the mosquito pathogenic oomycete Pythium guiyangense uncovered by genomic analysis.
    PLoS Genet. 2019;15:e1008116.
    PubMed     Abstract available


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