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Items: 1 to 50 of 623

1.

Special Issue: Repetitive DNA Sequences.

Lower SE, Dion-Côté AM, Clark AG, Barbash DA.

Genes (Basel). 2019 Nov 6;10(11). pii: E896. doi: 10.3390/genes10110896.

2.

Silica Exposure Differentially Modulates Autoimmunity in Lupus Strains and Autoantibody Transgenic Mice.

Foster MH, Ord JR, Zhao EJ, Birukova A, Fee L, Korte FM, Asfaw YG, Roggli VL, Ghio AJ, Tighe RM, Clark AG.

Front Immunol. 2019 Oct 1;10:2336. doi: 10.3389/fimmu.2019.02336. eCollection 2019.

3.

Hypothalamic transcriptome of tame and aggressive silver foxes (Vulpes vulpes) identifies gene expression differences shared across brain regions.

Rosenfeld CS, Hekman JP, Johnson JL, Lyu Z, Ortega MT, Joshi T, Mao J, Vladimirova AV, Gulevich RG, Kharlamova AV, Acland GM, Hecht EE, Wang X, Clark AG, Trut LN, Behura SK, Kukekova AV.

Genes Brain Behav. 2019 Oct 11. doi: 10.1111/gbb.12614. [Epub ahead of print]

PMID:
31605445
4.

Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations.

Fragoza R, Das J, Wierbowski SD, Liang J, Tran TN, Liang S, Beltran JF, Rivera-Erick CA, Ye K, Wang TY, Yao L, Mort M, Stenson PD, Cooper DN, Wei X, Keinan A, Schimenti JC, Clark AG, Yu H.

Nat Commun. 2019 Sep 12;10(1):4141. doi: 10.1038/s41467-019-11959-3.

5.

Female Genetic Contributions to Sperm Competition in Drosophila melanogaster.

Chen DS, Delbare SYN, White SL, Sitnik J, Chatterjee M, DoBell E, Weiss O, Clark AG, Wolfner MF.

Genetics. 2019 Jul;212(3):789-800. doi: 10.1534/genetics.119.302284. Epub 2019 May 17.

PMID:
31101677
6.

Sexual conflict through mother's curse and father's curse.

Ågren JA, Munasinghe M, Clark AG.

Theor Popul Biol. 2019 Oct;129:9-17. doi: 10.1016/j.tpb.2018.12.007. Epub 2019 May 2.

PMID:
31054851
7.

CRISPR Gene Drive Efficiency and Resistance Rate Is Highly Heritable with No Common Genetic Loci of Large Effect.

Champer J, Wen Z, Luthra A, Reeves R, Chung J, Liu C, Lee YL, Liu J, Yang E, Messer PW, Clark AG.

Genetics. 2019 May;212(1):333-341. doi: 10.1534/genetics.119.302037. Epub 2019 Mar 27.

PMID:
30918006
8.

Integrated analysis of population genomics, transcriptomics and virulence provides novel insights into Streptococcus pyogenes pathogenesis.

Kachroo P, Eraso JM, Beres SB, Olsen RJ, Zhu L, Nasser W, Bernard PE, Cantu CC, Saavedra MO, Arredondo MJ, Strope B, Do H, Kumaraswami M, Vuopio J, Gröndahl-Yli-Hannuksela K, Kristinsson KG, Gottfredsson M, Pesonen M, Pensar J, Davenport ER, Clark AG, Corander J, Caugant DA, Gaini S, Magnussen MD, Kubiak SL, Nguyen HAT, Long SW, Porter AR, DeLeo FR, Musser JM.

Nat Genet. 2019 Mar;51(3):548-559. doi: 10.1038/s41588-018-0343-1. Epub 2019 Feb 18.

PMID:
30778225
9.

Cancer cells in the tumor core exhibit spatially coordinated migration patterns.

Staneva R, El Marjou F, Barbazan J, Krndija D, Richon S, Clark AG, Vignjevic DM.

J Cell Sci. 2019 Mar 15;132(6). pii: jcs220277. doi: 10.1242/jcs.220277.

10.

Demographic History of the Human Commensal Drosophila melanogaster.

Arguello JR, Laurent S, Clark AG.

Genome Biol Evol. 2019 Mar 1;11(3):844-854. doi: 10.1093/gbe/evz022.

11.

Maximum Likelihood Estimation of Fitness Components in Experimental Evolution.

Liu J, Champer J, Langmüller AM, Liu C, Chung J, Reeves R, Luthra A, Lee YL, Vaughn AH, Clark AG, Messer PW.

Genetics. 2019 Mar;211(3):1005-1017. doi: 10.1534/genetics.118.301893. Epub 2019 Jan 24.

PMID:
30679262
12.

Molecular safeguarding of CRISPR gene drive experiments.

Champer J, Chung J, Lee YL, Liu C, Yang E, Wen Z, Clark AG, Messer PW.

Elife. 2019 Jan 22;8. pii: e41439. doi: 10.7554/eLife.41439.

13.

Allele frequency dynamics in a pedigreed natural population.

Chen N, Juric I, Cosgrove EJ, Bowman R, Fitzpatrick JW, Schoech SJ, Clark AG, Coop G.

Proc Natl Acad Sci U S A. 2019 Feb 5;116(6):2158-2164. doi: 10.1073/pnas.1813852116. Epub 2018 Dec 31.

14.

Author Correction: Genus-wide sequencing support a two-locus model for sex-determination in Phoenix.

Torres MF, Mathew LS, Ahmed I, Al-Azwani IK, Krueger R, Rivera-Nuñez D, Mohamoud YA, Clark AG, Suhre K, Malek JA.

Nat Commun. 2018 Dec 3;9(1):5219. doi: 10.1038/s41467-018-07742-5.

15.

Selfish genetic elements.

Ågren JA, Clark AG.

PLoS Genet. 2018 Nov 15;14(11):e1007700. doi: 10.1371/journal.pgen.1007700. eCollection 2018 Nov. Review.

16.

Allele-specific expression elucidates cis-regulatory logic.

Delbare SYN, Clark AG.

PLoS Genet. 2018 Nov 1;14(11):e1007690. doi: 10.1371/journal.pgen.1007690. eCollection 2018 Nov. No abstract available.

17.

Genus-wide sequencing supports a two-locus model for sex-determination in Phoenix.

Torres MF, Mathew LS, Ahmed I, Al-Azwani IK, Krueger R, Rivera-Nuñez D, Mohamoud YA, Clark AG, Suhre K, Malek JA.

Nat Commun. 2018 Sep 28;9(1):3969. doi: 10.1038/s41467-018-06375-y. Erratum in: Nat Commun. 2018 Dec 3;9(1):5219.

18.

Genomic responses to selection for tame/aggressive behaviors in the silver fox (Vulpes vulpes).

Wang X, Pipes L, Trut LN, Herbeck Y, Vladimirova AV, Gulevich RG, Kharlamova AV, Johnson JL, Acland GM, Kukekova AV, Clark AG.

Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):10398-10403. doi: 10.1073/pnas.1800889115. Epub 2018 Sep 18.

19.

3D cell migration in the presence of chemical gradients using microfluidics.

Clark AG, Simon A, Aizel K, Bibette J, Bremond N, Vignjevic DM.

Methods Cell Biol. 2018;147:133-147. doi: 10.1016/bs.mcb.2018.06.007. Epub 2018 Aug 22.

PMID:
30165955
20.

Infrared Thermographic Analysis of Surface Temperature of the Hands During Exposure to Normobaric Hypoxia.

Jones D, Covins SF, Miller GE, Morrison KI, Clark AG, Calcott SD, Anderson AM, Lucas SJE, Imray CHE.

High Alt Med Biol. 2018 Dec;19(4):388-393. doi: 10.1089/ham.2018.0008. Epub 2018 Aug 22.

PMID:
30132730
21.

Author Correction: Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours.

Kukekova AV, Johnson JL, Xiang X, Feng S, Liu S, Rando HM, Kharlamova AV, Herbeck Y, Serdyukova NA, Xiong Z, Beklemischeva V, Koepfli KP, Gulevich RG, Vladimirova AV, Hekman JP, Perelman PL, Graphodatsky AS, O'Brien SJ, Wang X, Clark AG, Acland GM, Trut LN, Zhang G.

Nat Ecol Evol. 2018 Sep;2(9):1514. doi: 10.1038/s41559-018-0664-6.

PMID:
30104754
22.

Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours.

Kukekova AV, Johnson JL, Xiang X, Feng S, Liu S, Rando HM, Kharlamova AV, Herbeck Y, Serdyukova NA, Xiong Z, Beklemischeva V, Koepfli KP, Gulevich RG, Vladimirova AV, Hekman JP, Perelman PL, Graphodatsky AS, O'Brien SJ, Wang X, Clark AG, Acland GM, Trut LN, Zhang G.

Nat Ecol Evol. 2018 Sep;2(9):1479-1491. doi: 10.1038/s41559-018-0611-6. Epub 2018 Aug 6. Erratum in: Nat Ecol Evol. 2018 Aug 13;:.

23.

Overexpression of a glutathione S-transferase (Mdgst) and a galactosyltransferase-like gene (Mdgt1) is responsible for imidacloprid resistance in house flies.

Reid WR, Sun H, Becnel JJ, Clark AG, Scott JG.

Pest Manag Sci. 2019 Jan;75(1):37-44. doi: 10.1002/ps.5125. Epub 2018 Aug 28.

PMID:
29931724
24.

Rates and Patterns of Mutation in Tandem Repetitive DNA in Six Independent Lineages of Chlamydomonas reinhardtii.

Flynn JM, Lower SE, Barbash DA, Clark AG.

Genome Biol Evol. 2018 Jul 1;10(7):1673-1686. doi: 10.1093/gbe/evy123.

25.

Reducing resistance allele formation in CRISPR gene drive.

Champer J, Liu J, Oh SY, Reeves R, Luthra A, Oakes N, Clark AG, Messer PW.

Proc Natl Acad Sci U S A. 2018 May 22;115(21):5522-5527. doi: 10.1073/pnas.1720354115. Epub 2018 May 7.

26.

Satellite DNA evolution: old ideas, new approaches.

Lower SS, McGurk MP, Clark AG, Barbash DA.

Curr Opin Genet Dev. 2018 Apr;49:70-78. doi: 10.1016/j.gde.2018.03.003. Epub 2018 Mar 23. Review.

27.

Variable Rates of Simple Satellite Gains across the Drosophila Phylogeny.

Wei KH, Lower SE, Caldas IV, Sless TJS, Barbash DA, Clark AG.

Mol Biol Evol. 2018 Apr 1;35(4):925-941. doi: 10.1093/molbev/msy005. Erratum in: Mol Biol Evol. 2018 Jul 1;35(7):1821.

28.

The human microbiome in evolution.

Davenport ER, Sanders JG, Song SJ, Amato KR, Clark AG, Knight R.

BMC Biol. 2017 Dec 27;15(1):127. doi: 10.1186/s12915-017-0454-7. Review.

29.

Altered toll-like receptor responsiveness underlies a dominant heritable defect in B cell tolerance in autoimmune New Zealand Black mice.

Clark AG, Buckley ES, Foster MH.

Eur J Immunol. 2018 Mar;48(3):492-497. doi: 10.1002/eji.201747287. Epub 2018 Jan 19.

30.

Reshaping the Energy Landscape Transforms the Mechanism and Binding Kinetics of DNA Threading Intercalation.

Clark AG, Naufer MN, Westerlund F, Lincoln P, Rouzina I, Paramanathan T, Williams MC.

Biochemistry. 2018 Feb 6;57(5):614-619. doi: 10.1021/acs.biochem.7b01036. Epub 2018 Jan 5.

PMID:
29243480
31.

Roles of Female and Male Genotype in Post-Mating Responses in Drosophila melanogaster.

Delbare SYN, Chow CY, Wolfner MF, Clark AG.

J Hered. 2017 Oct 30;108(7):740-753. doi: 10.1093/jhered/esx081.

32.

A tuneable microfluidic system for long duration chemotaxis experiments in a 3D collagen matrix.

Aizel K, Clark AG, Simon A, Geraldo S, Funfak A, Vargas P, Bibette J, Vignjevic DM, Bremond N.

Lab Chip. 2017 Nov 7;17(22):3851-3861. doi: 10.1039/c7lc00649g.

PMID:
29022983
33.

The Relationship Between the Human Genome and Microbiome Comes into View.

Goodrich JK, Davenport ER, Clark AG, Ley RE.

Annu Rev Genet. 2017 Nov 27;51:413-433. doi: 10.1146/annurev-genet-110711-155532. Epub 2017 Sep 20. Review.

34.

Variation in Position Effect Variegation Within a Natural Population.

Kelsey KJP, Clark AG.

Genetics. 2017 Nov;207(3):1157-1166. doi: 10.1534/genetics.117.300306. Epub 2017 Sep 20.

35.

Cancer-associated fibroblasts lead tumor invasion through integrin-β3-dependent fibronectin assembly.

Attieh Y, Clark AG, Grass C, Richon S, Pocard M, Mariani P, Elkhatib N, Betz T, Gurchenkov B, Vignjevic DM.

J Cell Biol. 2017 Nov 6;216(11):3509-3520. doi: 10.1083/jcb.201702033. Epub 2017 Sep 20.

36.

A murine Ig light chain transgene reveals IGKV3 gene contributions to anti-collagen types IV and II specificities.

Clark AG, Worni-Schudel IM, Korte FM, Foster MH.

Mol Immunol. 2017 Nov;91:49-56. doi: 10.1016/j.molimm.2017.08.015. Epub 2017 Sep 5.

37.

Selection Constrains High Rates of Tandem Repetitive DNA Mutation in Daphnia pulex.

Flynn JM, Caldas I, Cristescu ME, Clark AG.

Genetics. 2017 Oct;207(2):697-710. doi: 10.1534/genetics.117.300146. Epub 2017 Aug 15.

38.

Deconstructing isolation-by-distance: The genomic consequences of limited dispersal.

Aguillon SM, Fitzpatrick JW, Bowman R, Schoech SJ, Clark AG, Coop G, Chen N.

PLoS Genet. 2017 Aug 3;13(8):e1006911. doi: 10.1371/journal.pgen.1006911. eCollection 2017 Aug.

39.

Evolutionary Dynamics of Male Reproductive Genes in the Drosophila virilis Subgroup.

Ahmed-Braimah YH, Unckless RL, Clark AG.

G3 (Bethesda). 2017 Sep 7;7(9):3145-3155. doi: 10.1534/g3.117.1136.

40.

Novel CRISPR/Cas9 gene drive constructs reveal insights into mechanisms of resistance allele formation and drive efficiency in genetically diverse populations.

Champer J, Reeves R, Oh SY, Liu C, Liu J, Clark AG, Messer PW.

PLoS Genet. 2017 Jul 20;13(7):e1006796. doi: 10.1371/journal.pgen.1006796. eCollection 2017 Jul.

41.

Genomic signatures of local adaptation in the Drosophila immune response.

Early AM, Clark AG.

Fly (Austin). 2017 Oct 2;11(4):277-283. doi: 10.1080/19336934.2017.1337612. Epub 2017 Jun 6.

42.

Actin cortex architecture regulates cell surface tension.

Chugh P, Clark AG, Smith MB, Cassani DAD, Dierkes K, Ragab A, Roux PP, Charras G, Salbreux G, Paluch EK.

Nat Cell Biol. 2017 Jun;19(6):689-697. doi: 10.1038/ncb3525. Epub 2017 May 22.

43.

A Pooled Sequencing Approach Identifies a Candidate Meiotic Driver in Drosophila.

Wei KH, Reddy HM, Rathnam C, Lee J, Lin D, Ji S, Mason JM, Clark AG, Barbash DA.

Genetics. 2017 May;206(1):451-465. doi: 10.1534/genetics.116.197335. Epub 2017 Mar 3.

44.

Estimating mating rates in wild Drosophila melanogaster females by decay rates of male reproductive proteins in their reproductive tracts.

Giardina TJ, Clark AG, Fiumera AC.

Mol Ecol Resour. 2017 Nov;17(6):1202-1209. doi: 10.1111/1755-0998.12661. Epub 2017 Mar 24.

PMID:
28213940
45.

Avian W and mammalian Y chromosomes convergently retained dosage-sensitive regulators.

Bellott DW, Skaletsky H, Cho TJ, Brown L, Locke D, Chen N, Galkina S, Pyntikova T, Koutseva N, Graves T, Kremitzki C, Warren WC, Clark AG, Gaginskaya E, Wilson RK, Page DC.

Nat Genet. 2017 Mar;49(3):387-394. doi: 10.1038/ng.3778. Epub 2017 Jan 30.

46.

Drosophila Genotype Influences Commensal Bacterial Levels.

Early AM, Shanmugarajah N, Buchon N, Clark AG.

PLoS One. 2017 Jan 17;12(1):e0170332. doi: 10.1371/journal.pone.0170332. eCollection 2017.

47.

Rapid Expansion of Immune-Related Gene Families in the House Fly, Musca domestica.

Sackton TB, Lazzaro BP, Clark AG.

Mol Biol Evol. 2017 Apr 1;34(4):857-872. doi: 10.1093/molbev/msw285.

48.

Integrative modelling of tumour DNA methylation quantifies the contribution of metabolism.

Mehrmohamadi M, Mentch LK, Clark AG, Locasale JW.

Nat Commun. 2016 Dec 14;7:13666. doi: 10.1038/ncomms13666.

49.

Evolution of Resistance Against CRISPR/Cas9 Gene Drive.

Unckless RL, Clark AG, Messer PW.

Genetics. 2017 Feb;205(2):827-841. doi: 10.1534/genetics.116.197285. Epub 2016 Dec 10.

50.

ABO antigen and secretor statuses are not associated with gut microbiota composition in 1,500 twins.

Davenport ER, Goodrich JK, Bell JT, Spector TD, Ley RE, Clark AG.

BMC Genomics. 2016 Nov 21;17(1):941.

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