FREE SHIPPING over $40
OVER 9000 FIVE-STAR REVIEWS
5% OFF ALL SUBSCRIPTIONS
100% HAPPINESS GUARANTEE
Analyze Diet
0
Home / Equine Research Bank / Front Genet / “Adopt-a-Tissue” Initiative Advances Efforts to ...
Frontiers in genetics2021; 12; 649959; doi: 10.3389/fgene.2021.649959

“Adopt-a-Tissue” Initiative Advances Efforts to Identify Tissue-Specific Histone Marks in the Mare.

Abstract: No abstract available
Get Full Text
Publication Date: 2021-03-26 PubMed ID: 33841506PubMed Central: PMC8033197DOI: 10.3389/fgene.2021.649959Google Scholar: Lookup
The Equine Research Bank provides access to a large database of publicly available scientific literature. Inclusion in the Research Bank does not imply endorsement of study methods or findings by Mad Barn.
LinkedInCopy
  • Journal Article

Cite This Article

APA
Kingsley NB, Hamilton NA, Lindgren G, Orlando L, Bailey E, Brooks S, McCue M, Kalbfleisch TS, MacLeod JN, Petersen JL, Finno CJ, Bellone RR. (2021). “Adopt-a-Tissue” Initiative Advances Efforts to Identify Tissue-Specific Histone Marks in the Mare. Front Genet, 12, 649959. https://doi.org/10.3389/fgene.2021.649959

Publication

Frontiers in genetics
ISSN: 1664-8021
NlmUniqueID: 101560621
Country: Switzerland
Language: English
Volume: 12
Pages: 649959
PII: 649959

Researcher Affiliations

Kingsley, N B
  • Veterinary Genetics Laboratory, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States.
  • Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States.
Hamilton, Natasha A
  • Faculty of Science, School of Life and Environmental Science, University of Sydney, Camperdown, NSW, Australia.
Lindgren, Gabriella
  • Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences, Uppsala, Sweden.
  • Livestock Genetics, Department of Biosystems, KU Leuven, Leuven, Belgium.
Orlando, Ludovic
  • Centre d'Anthropobiologie et Génomique de Toulouse (CAGT), Faculté de Médecine Purpan, Université Toulouse III-Paul Sabatier, Toulouse, France.
Bailey, Ernie
  • Maxwell H. Gluck Equine Research Center, Department of Veterinary Science, University of Kentucky, Lexington, KY, United States.
Brooks, Samantha
  • Department of Animal Sciences, University of Florida, Gainesville, FL, United States.
McCue, Molly
  • Department of Veterinary Population Medicine, College of Veterinary Medicine, University of Minnesota, St. Paul, MN, United States.
Kalbfleisch, T S
  • Maxwell H. Gluck Equine Research Center, Department of Veterinary Science, University of Kentucky, Lexington, KY, United States.
MacLeod, James N
  • Maxwell H. Gluck Equine Research Center, Department of Veterinary Science, University of Kentucky, Lexington, KY, United States.
Petersen, Jessica L
  • Department of Animal Science, University of Nebraska-Lincoln, Lincoln, NE, United States.
Finno, Carrie J
  • Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States.
Bellone, Rebecca R
  • Veterinary Genetics Laboratory, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States.
  • Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, Davis, CA, United States.

Grant Funding

  • L40 TR001136 / NCATS NIH HHS

Conflict of Interest Statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.

References

This article includes 57 references
  1. Aken BL, Ayling S, Barrell D, Clarke L, Curwen V, Fairley S, Fernandez Banet J, Billis K, García Girón C, Hourlier T, Howe K, Kähäri A, Kokocinski F, Martin FJ, Murphy DN, Nag R, Ruffier M, Schuster M, Tang YA, Vogel JH, White S, Zadissa A, Flicek P, Searle SM. The Ensembl gene annotation system.. Database (Oxford) 2016;2016.
    doi: 10.1093/database/baw093pmc: PMC4919035pubmed: 27337980google scholar: lookup
  2. Andersson L, Archibald AL, Bottema CD, Brauning R, Burgess SC, Burt DW, Casas E, Cheng HH, Clarke L, Couldrey C, Dalrymple BP, Elsik CG, Foissac S, Giuffra E, Groenen MA, Hayes BJ, Huang LS, Khatib H, Kijas JW, Kim H, Lunney JK, McCarthy FM, McEwan JC, Moore S, Nanduri B, Notredame C, Palti Y, Plastow GS, Reecy JM, Rohrer GA, Sarropoulou E, Schmidt CJ, Silverstein J, Tellam RL, Tixier-Boichard M, Tosser-Klopp G, Tuggle CK, Vilkki J, White SN, Zhao S, Zhou H. Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project.. Genome Biol 2015 Mar 25;16(1):57.
    doi: 10.1186/s13059-015-0622-4pmc: PMC4373242pubmed: 25854118google scholar: lookup
  3. Andrews S, Krueger F, Segonds-Pichon A, Biggins L, Krueger C, Wingett S. Trim Galore. .
  4. Bailey E. Horse genomics and the Dorothy Russell Havemeyer Foundation. Forward.. Anim Genet 2010 Dec;41 Suppl 2:1.
    doi: 10.1111/j.1365-2052.2010.02136.xpubmed: 21322892google scholar: lookup
  5. Ball AN, Phillips JN, McIlwraith CW, Kawcak CE, Samulski RJ, Goodrich LR. Genetic modification of scAAV-equine-BMP-2 transduced bone-marrow-derived mesenchymal stem cells before and after cryopreservation: An "off-the-shelf" option for fracture repair.. J Orthop Res 2019 Jun;37(6):1310-1317.
    doi: 10.1002/jor.24209pubmed: 30578639google scholar: lookup
  6. Bao Y, Vinciotti V, Wit E, 't Hoen PA. Accounting for immunoprecipitation efficiencies in the statistical analysis of ChIP-seq data.. BMC Bioinformatics 2013 May 30;14:169.
    doi: 10.1186/1471-2105-14-169pmc: PMC3717085pubmed: 23721376google scholar: lookup
  7. Bellone RR, Brooks SA, Sandmeyer L, Murphy BA, Forsyth G, Archer S, Bailey E, Grahn B. Differential gene expression of TRPM1, the potential cause of congenital stationary night blindness and coat spotting patterns (LP) in the Appaloosa horse (Equus caballus).. Genetics 2008 Aug;179(4):1861-70.
    doi: 10.1534/genetics.108.088807pmc: PMC2516064pubmed: 18660533google scholar: lookup
  8. Bellone RR, Holl H, Setaluri V, Devi S, Maddodi N, Archer S, Sandmeyer L, Ludwig A, Foerster D, Pruvost M, Reissmann M, Bortfeldt R, Adelson DL, Lim SL, Nelson J, Haase B, Engensteiner M, Leeb T, Forsyth G, Mienaltowski MJ, Mahadevan P, Hofreiter M, Paijmans JL, Gonzalez-Fortes G, Grahn B, Brooks SA. Evidence for a retroviral insertion in TRPM1 as the cause of congenital stationary night blindness and leopard complex spotting in the horse.. PLoS One 2013;8(10):e78280.
    doi: 10.1371/journal.pone.0078280pmc: PMC3805535pubmed: 24167615google scholar: lookup
  9. Burns EN, Bordbari MH, Mienaltowski MJ, Affolter VK, Barro MV, Gianino F, Gianino G, Giulotto E, Kalbfleisch TS, Katzman SA, Lassaline M, Leeb T, Mack M, Müller EJ, MacLeod JN, Ming-Whitfield B, Alanis CR, Raudsepp T, Scott E, Vig S, Zhou H, Petersen JL, Bellone RR, Finno CJ. Generation of an equine biobank to be used for Functional Annotation of Animal Genomes project.. Anim Genet 2018 Dec;49(6):564-570.
    doi: 10.1111/age.12717pmc: PMC6264908pubmed: 30311254google scholar: lookup
  10. Caetano AR, Shiue YL, Lyons LA, O'Brien SJ, Laughlin TF, Bowling AT, Murray JD. A comparative gene map of the horse (Equus caballus).. Genome Res 1999 Dec;9(12):1239-49.
    doi: 10.1101/gr.9.12.1239pmc: PMC311003pubmed: 10613847google scholar: lookup
  11. Carelli FN, Sharma G, Ahringer J. Broad Chromatin Domains: An Important Facet of Genome Regulation.. Bioessays 2017 Dec;39(12).
    doi: 10.1002/bies.201700124pubmed: 29058338google scholar: lookup
  12. Chowdhary BP, Raudsepp T, Honeycutt D, Owens EK, Piumi F, Guérin G, Matise TC, Kata SR, Womack JE, Skow LC. Construction of a 5000(rad) whole-genome radiation hybrid panel in the horse and generation of a comprehensive and comparative map for ECA11.. Mamm Genome 2002 Feb;13(2):89-94.
    doi: 10.1007/s00335-001-2089-8pubmed: 11889556google scholar: lookup
  13. Curik I, Druml T, Seltenhammer M, Sundström E, Pielberg GR, Andersson L, Sölkner J. Complex inheritance of melanoma and pigmentation of coat and skin in Grey horses.. PLoS Genet 2013;9(2):e1003248.
    doi: 10.1371/journal.pgen.1003248pmc: PMC3567150pubmed: 23408897google scholar: lookup
  14. . An integrated encyclopedia of DNA elements in the human genome.. Nature 2012 Sep 6;489(7414):57-74.
    doi: 10.1038/nature11247pmc: PMC3439153pubmed: 22955616google scholar: lookup
  15. . ENCODE Guidelines for Experiments Generating ChIP-seq Data. .
  16. . FAANGMine. .
  17. Giuffra E, Tuggle CK. Functional Annotation of Animal Genomes (FAANG): Current Achievements and Roadmap.. Annu Rev Anim Biosci 2019 Feb 15;7:65-88.
    doi: 10.1146/annurev-animal-020518-114913pubmed: 30427726google scholar: lookup
  18. Guérin G, Bailey E, Bernoco D, Anderson I, Antczak DF, Bell K, Binns MM, Bowling AT, Brandon R, Cholewinski G, Cothran EG, Ellegren H, Förster M, Godard S, Horin P, Ketchum M, Lindgren G, McPartlan H, Mériaux JC, Mickelson JR, Millon LV, Murray J, Neau A, Røed K, Ziegle J. Report of the International Equine Gene Mapping Workshop: male linkage map.. Anim Genet 1999 Oct;30(5):341-54.
    doi: 10.1046/j.1365-2052.1999.00510.xpubmed: 10582279google scholar: lookup
  19. Guérin G, Bailey E, Bernoco D, Anderson I, Antczak DF, Bell K, Biros I, Bjørnstad G, Bowling AT, Brandon R, Caetano AR, Cholewinski G, Colling D, Eggleston M, Ellis N, Flynn J, Gralak B, Hasegawa T, Ketchum M, Lindgren G, Lyons LA, Millon LV, Mariat D, Murray J, Neau A, Røed K, Sandberg K, Skow LC, Tammen I, Tozaki T, Van Dyk E, Weiss B, Young A, Ziegle J. The second generation of the International Equine Gene Mapping Workshop half-sibling linkage map.. Anim Genet 2003 Jun;34(3):161-8.
    doi: 10.1046/j.1365-2052.2003.00973.xpubmed: 12755815google scholar: lookup
  20. Harrison PW, Fan J, Richardson D, Clarke L, Zerbino D, Cochrane G, Archibald AL, Schmidt CJ, Flicek P. FAANG, establishing metadata standards, validation and best practices for the farmed and companion animal community.. Anim Genet 2018 Dec;49(6):520-526.
    doi: 10.1111/age.12736pmc: PMC6334167pubmed: 30311252google scholar: lookup
  21. Hestand MS, Kalbfleisch TS, Coleman SJ, Zeng Z, Liu J, Orlando L, MacLeod JN. Annotation of the Protein Coding Regions of the Equine Genome.. PLoS One 2015;10(6):e0124375.
    doi: 10.1371/journal.pone.0124375pmc: PMC4481266pubmed: 26107351google scholar: lookup
  22. Hisey EA, Hermans H, Lounsberry ZT, Avila F, Grahn RA, Knickelbein KE, Duward-Akhurst SA, McCue ME, Kalbfleisch TS, Lassaline ME, Back W, Bellone RR. Whole genome sequencing identified a 16 kilobase deletion on ECA13 associated with distichiasis in Friesian horses.. BMC Genomics 2020 Nov 30;21(1):848.
    doi: 10.1186/s12864-020-07265-8pmc: PMC7706231pubmed: 33256610google scholar: lookup
  23. Kalbfleisch TS, Rice ES, DePriest MS Jr, Walenz BP, Hestand MS, Vermeesch JR, O Connell BL, Fiddes IT, Vershinina AO, Saremi NF, Petersen JL, Finno CJ, Bellone RR, McCue ME, Brooks SA, Bailey E, Orlando L, Green RE, Miller DC, Antczak DF, MacLeod JN. Improved reference genome for the domestic horse increases assembly contiguity and composition.. Commun Biol 2018;1:197.
    doi: 10.1038/s42003-018-0199-zpmc: PMC6240028pubmed: 30456315google scholar: lookup
  24. Kharchenko PV, Tolstorukov MY, Park PJ. Design and analysis of ChIP-seq experiments for DNA-binding proteins.. Nat Biotechnol 2008 Dec;26(12):1351-9.
    doi: 10.1038/nbt.1508pmc: PMC2597701pubmed: 19029915google scholar: lookup
  25. Kingsley NB, Kern C, Creppe C, Hales EN, Zhou H, Kalbfleisch TS, MacLeod JN, Petersen JL, Finno CJ, Bellone RR. Functionally Annotating Regulatory Elements in the Equine Genome Using Histone Mark ChIP-Seq.. Genes (Basel) 2019 Dec 18;11(1).
    doi: 10.3390/genes11010003pmc: PMC7017286pubmed: 31861495google scholar: lookup
  26. Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, Gerstein M, Gertz J, Hartemink AJ, Hoffman MM, Iyer VR, Jung YL, Karmakar S, Kellis M, Kharchenko PV, Li Q, Liu T, Liu XS, Ma L, Milosavljevic A, Myers RM, Park PJ, Pazin MJ, Perry MD, Raha D, Reddy TE, Rozowsky J, Shoresh N, Sidow A, Slattery M, Stamatoyannopoulos JA, Tolstorukov MY, White KP, Xi S, Farnham PJ, Lieb JD, Wold BJ, Snyder M. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia.. Genome Res 2012 Sep;22(9):1813-31.
    doi: 10.1101/gr.136184.111pmc: PMC3431496pubmed: 22955991google scholar: lookup
  27. Lanz S, Brunner A, Graubner C, Marti E, Gerber V. Insect Bite Hypersensitivity in Horses is Associated with Airway Hyperreactivity.. J Vet Intern Med 2017 Nov;31(6):1877-1883.
    doi: 10.1111/jvim.14817pmc: PMC5697210pubmed: 28921663google scholar: lookup
  28. Leeb T, Vogl C, Zhu B, de Jong PJ, Binns MM, Chowdhary BP, Scharfe M, Jarek M, Nordsiek G, Schrader F, Blöcker H. A human-horse comparative map based on equine BAC end sequences.. Genomics 2006 Jun;87(6):772-6.
    doi: 10.1016/j.ygeno.2006.03.002pubmed: 16603334google scholar: lookup
  29. Li H, Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform.. Bioinformatics 2009 Jul 15;25(14):1754-60.
    doi: 10.1093/bioinformatics/btp324pmc: PMC2705234pubmed: 19451168google scholar: lookup
  30. Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R. The Sequence Alignment/Map format and SAMtools.. Bioinformatics 2009 Aug 15;25(16):2078-9.
    doi: 10.1093/bioinformatics/btp352pmc: PMC2723002pubmed: 19505943google scholar: lookup
  31. Lowdon RF, Jang HS, Wang T. Evolution of Epigenetic Regulation in Vertebrate Genomes.. Trends Genet 2016 May;32(5):269-283.
    doi: 10.1016/j.tig.2016.03.001pmc: PMC4842087pubmed: 27080453google scholar: lookup
  32. Lyne R, Smith R, Rutherford K, Wakeling M, Varley A, Guillier F, Janssens H, Ji W, Mclaren P, North P, Rana D, Riley T, Sullivan J, Watkins X, Woodbridge M, Lilley K, Russell S, Ashburner M, Mizuguchi K, Micklem G. FlyMine: an integrated database for Drosophila and Anopheles genomics.. Genome Biol 2007;8(7):R129.
    doi: 10.1186/gb-2007-8-7-r129pmc: PMC2323218pubmed: 17615057google scholar: lookup
  33. Mansour TA, Scott EY, Finno CJ, Bellone RR, Mienaltowski MJ, Penedo MC, Ross PJ, Valberg SJ, Murray JD, Brown CT. Tissue resolved, gene structure refined equine transcriptome.. BMC Genomics 2017 Jan 20;18(1):103.
    doi: 10.1186/s12864-016-3451-2pmc: PMC5251313pubmed: 28107812google scholar: lookup
  34. Martin M. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet J 17, 10–12.
    doi: 10.14806/ej.17.1.200google scholar: lookup
  35. McCoy AM, McCue ME. Validation of imputation between equine genotyping arrays.. Anim Genet 2014 Feb;45(1):153.
    doi: 10.1111/age.12093pmc: PMC4000747pubmed: 24164665google scholar: lookup
  36. McCue ME, Bannasch DL, Petersen JL, Gurr J, Bailey E, Binns MM, Distl O, Guérin G, Hasegawa T, Hill EW, Leeb T, Lindgren G, Penedo MC, Røed KH, Ryder OA, Swinburne JE, Tozaki T, Valberg SJ, Vaudin M, Lindblad-Toh K, Wade CM, Mickelson JR. A high density SNP array for the domestic horse and extant Perissodactyla: utility for association mapping, genetic diversity, and phylogeny studies.. PLoS Genet 2012 Jan;8(1):e1002451.
    doi: 10.1371/journal.pgen.1002451pmc: PMC3257288pubmed: 22253606google scholar: lookup
  37. McLean CY, Reno PL, Pollen AA, Bassan AI, Capellini TD, Guenther C, Indjeian VB, Lim X, Menke DB, Schaar BT, Wenger AM, Bejerano G, Kingsley DM. Human-specific loss of regulatory DNA and the evolution of human-specific traits.. Nature 2011 Mar 10;471(7337):216-9.
    doi: 10.1038/nature09774pmc: PMC3071156pubmed: 21390129google scholar: lookup
  38. Nord AS, Blow MJ, Attanasio C, Akiyama JA, Holt A, Hosseini R, Phouanenavong S, Plajzer-Frick I, Shoukry M, Afzal V, Rubenstein JL, Rubin EM, Pennacchio LA, Visel A. Rapid and pervasive changes in genome-wide enhancer usage during mammalian development.. Cell 2013 Dec 19;155(7):1521-31.
    doi: 10.1016/j.cell.2013.11.033pmc: PMC3989111pubmed: 24360275google scholar: lookup
  39. O'Geen H, Echipare L, Farnham PJ. Using ChIP-seq technology to generate high-resolution profiles of histone modifications.. Methods Mol Biol 2011;791:265-86.
    doi: 10.1007/978-1-61779-316-5_20pmc: PMC4151291pubmed: 21913086google scholar: lookup
  40. Penedo MC, Millon LV, Bernoco D, Bailey E, Binns M, Cholewinski G, Ellis N, Flynn J, Gralak B, Guthrie A, Hasegawa T, Lindgren G, Lyons LA, Røed KH, Swinburne JE, Tozaki T. International Equine Gene Mapping Workshop Report: a comprehensive linkage map constructed with data from new markers and by merging four mapping resources.. Cytogenet Genome Res 2005;111(1):5-15.
    doi: 10.1159/000085664pubmed: 16093715google scholar: lookup
  41. . Picard toolkit. Broad Institute, GitHub Repos.
  42. Ramírez F, Ryan DP, Grüning B, Bhardwaj V, Kilpert F, Richter AS, Heyne S, Dündar F, Manke T. deepTools2: a next generation web server for deep-sequencing data analysis.. Nucleic Acids Res 2016 Jul 8;44(W1):W160-5.
    doi: 10.1093/nar/gkw257pmc: PMC4987876pubmed: 27079975google scholar: lookup
  43. Raudsepp T, Gustafson-Seabury A, Durkin K, Wagner ML, Goh G, Seabury CM, Brinkmeyer-Langford C, Lee EJ, Agarwala R, Stallknecht-Rice E, Schäffer AA, Skow LC, Tozaki T, Yasue H, Penedo MC, Lyons LA, Khazanehdari KA, Binns MM, MacLeod JN, Distl O, Guérin G, Leeb T, Mickelson JR, Chowdhary BP. A 4,103 marker integrated physical and comparative map of the horse genome.. Cytogenet Genome Res 2008;122(1):28-36.
    doi: 10.1159/000151313pmc: PMC2587302pubmed: 18931483google scholar: lookup
  44. Raudsepp T, Santani A, Wallner B, Kata SR, Ren C, Zhang HB, Womack JE, Skow LC, Chowdhary BP. A detailed physical map of the horse Y chromosome.. Proc Natl Acad Sci U S A 2004 Jun 22;101(25):9321-6.
    doi: 10.1073/pnas.0403011101pmc: PMC438975pubmed: 15197257google scholar: lookup
  45. Rhie SK, Guo Y, Tak YG, Yao L, Shen H, Coetzee GA, Laird PW, Farnham PJ. Identification of activated enhancers and linked transcription factors in breast, prostate, and kidney tumors by tracing enhancer networks using epigenetic traits.. Epigenetics Chromatin 2016;9:50.
    doi: 10.1186/s13072-016-0102-4pmc: PMC5103450pubmed: 27833659google scholar: lookup
  46. Rieder S, Stricker C, Joerg H, Dummer R, Stranzinger G. A comparative genetic approach for the investigation of ageing grey horse melanoma. J. Anim. Breed. Genet. 117, 73–82.
    doi: 10.1111/j.1439-0388.2000x.00245.xgoogle scholar: lookup
  47. Rieder S, Taourit S, Mariat D, Langlois B, Guérin G. Mutations in the agouti (ASIP), the extension (MC1R), and the brown (TYRP1) loci and their association to coat color phenotypes in horses (Equus caballus).. Mamm Genome 2001 Jun;12(6):450-5.
    doi: 10.1007/s003350020017pubmed: 11353392google scholar: lookup
  48. Rosengren Pielberg G, Golovko A, Sundström E, Curik I, Lennartsson J, Seltenhammer MH, Druml T, Binns M, Fitzsimmons C, Lindgren G, Sandberg K, Baumung R, Vetterlein M, Strömberg S, Grabherr M, Wade C, Lindblad-Toh K, Pontén F, Heldin CH, Sölkner J, Andersson L. A cis-acting regulatory mutation causes premature hair graying and susceptibility to melanoma in the horse.. Nat Genet 2008 Aug;40(8):1004-9.
    doi: 10.1038/ng.185pubmed: 18641652google scholar: lookup
  49. Schaefer RJ, Schubert M, Bailey E, Bannasch DL, Barrey E, Bar-Gal GK, Brem G, Brooks SA, Distl O, Fries R, Finno CJ, Gerber V, Haase B, Jagannathan V, Kalbfleisch T, Leeb T, Lindgren G, Lopes MS, Mach N, da Câmara Machado A, MacLeod JN, McCoy A, Metzger J, Penedo C, Polani S, Rieder S, Tammen I, Tetens J, Thaller G, Verini-Supplizi A, Wade CM, Wallner B, Orlando L, Mickelson JR, McCue ME. Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds.. BMC Genomics 2017 Jul 27;18(1):565.
    doi: 10.1186/s12864-017-3943-8pmc: PMC5530493pubmed: 28750625google scholar: lookup
  50. Schmidt D, Wilson MD, Ballester B, Schwalie PC, Brown GD, Marshall A, Kutter C, Watt S, Martinez-Jimenez CP, Mackay S, Talianidis I, Flicek P, Odom DT. Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding.. Science 2010 May 21;328(5981):1036-40.
    doi: 10.1126/science.1186176pmc: PMC3008766pubmed: 20378774google scholar: lookup
  51. Shibata Y, Sheffield NC, Fedrigo O, Babbitt CC, Wortham M, Tewari AK, London D, Song L, Lee BK, Iyer VR, Parker SC, Margulies EH, Wray GA, Furey TS, Crawford GE. Extensive evolutionary changes in regulatory element activity during human origins are associated with altered gene expression and positive selection.. PLoS Genet 2012 Jun;8(6):e1002789.
    doi: 10.1371/journal.pgen.1002789pmc: PMC3386175pubmed: 22761590google scholar: lookup
  52. . SICERpy. GitHub Repository.
  53. Swinburne JE, Boursnell M, Hill G, Pettitt L, Allen T, Chowdhary B, Hasegawa T, Kurosawa M, Leeb T, Mashima S, Mickelson JR, Raudsepp T, Tozaki T, Binns M. Single linkage group per chromosome genetic linkage map for the horse, based on two three-generation, full-sibling, crossbred horse reference families.. Genomics 2006 Jan;87(1):1-29.
    doi: 10.1016/j.ygeno.2005.09.001pubmed: 16314071google scholar: lookup
  54. Tuggle CK, Giuffra E, White SN, Clarke L, Zhou H, Ross PJ, Acloque H, Reecy JM, Archibald A, Bellone RR, Boichard M, Chamberlain A, Cheng H, Crooijmans RP, Delany ME, Finno CJ, Groenen MA, Hayes B, Lunney JK, Petersen JL, Plastow GS, Schmidt CJ, Song J, Watson M. GO-FAANG meeting: a Gathering On Functional Annotation of Animal Genomes.. Anim Genet 2016 Oct;47(5):528-33.
    doi: 10.1111/age.12466pmc: PMC5082551pubmed: 27453069google scholar: lookup
  55. Wade CM, Giulotto E, Sigurdsson S, Zoli M, Gnerre S, Imsland F, Lear TL, Adelson DL, Bailey E, Bellone RR, Blöcker H, Distl O, Edgar RC, Garber M, Leeb T, Mauceli E, MacLeod JN, Penedo MC, Raison JM, Sharpe T, Vogel J, Andersson L, Antczak DF, Biagi T, Binns MM, Chowdhary BP, Coleman SJ, Della Valle G, Fryc S, Guérin G, Hasegawa T, Hill EW, Jurka J, Kiialainen A, Lindgren G, Liu J, Magnani E, Mickelson JR, Murray J, Nergadze SG, Onofrio R, Pedroni S, Piras MF, Raudsepp T, Rocchi M, Røed KH, Ryder OA, Searle S, Skow L, Swinburne JE, Syvänen AC, Tozaki T, Valberg SJ, Vaudin M, White JR, Zody MC, Lander ES, Lindblad-Toh K. Genome sequence, comparative analysis, and population genetics of the domestic horse.. Science 2009 Nov 6;326(5954):865-7.
    doi: 10.1126/science.1178158pmc: PMC3785132pubmed: 19892987google scholar: lookup
  56. Zang C, Schones DE, Zeng C, Cui K, Zhao K, Peng W. A clustering approach for identification of enriched domains from histone modification ChIP-Seq data.. Bioinformatics 2009 Aug 1;25(15):1952-8.
    doi: 10.1093/bioinformatics/btp340pmc: PMC2732366pubmed: 19505939google scholar: lookup
  57. Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based analysis of ChIP-Seq (MACS).. Genome Biol 2008;9(9):R137.
    doi: 10.1186/gb-2008-9-9-r137pmc: PMC2592715pubmed: 18798982google scholar: lookup

Citations

This article has been cited 0 times.
Subscribe to our newsletter
Join 99,034 horse owners like you who receive our email updates on horse health and nutrition.