메뉴 건너뛰기




Volumn 16, Issue 1, 2015, Pages

Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project

(41)  Andersson, Leif a,b   Archibald, Alan L c   Bottema, Cynthia D d   Brauning, Rudiger e   Burgess, Shane C f   Burt, Dave W c   Casas, Eduardo g   Cheng, Hans H h   Clarke, Laura i   Couldrey, Christine j   Dalrymple, Brian P k   Elsik, Christine G l   Foissac, Sylvain m   Giuffra, Elisabetta n   Groenen, Martien A o   Hayes, Ben J p,q,r   Huang, LuSheng S s   Khatib, Hassan t   Kijas, James W k   Kim, Heebal u   more..


Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; DOMESTIC ANIMAL; EVOLUTION; EVOLUTIONARY ADAPTATION; FUNCTIONAL ANNOTATION OF ANIMAL GENOMES PROJECT; GENE SEQUENCE; GENETIC ASSOCIATION; GENETIC SELECTION; GENOME; GENOMICS; GENOTYPE PHENOTYPE CORRELATION; INFORMATION PROCESSING; INTERNATIONAL COOPERATION; NONHUMAN; PHENOTYPE; SPECIES DIVERSITY; ANIMAL; COMPUTER PROGRAM; GENETIC DATABASE; GENETICS; MOLECULAR GENETICS;

EID: 84935833067     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/s13059-015-0622-4     Document Type: Article
Times cited : (235)

References (54)
  • 1
    • 84865790047 scopus 로고    scopus 로고
    • An integrated encyclopedia of DNA elements in the human genome
    • Encode Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012;489:57-74.
    • (2012) Nature , vol.489 , pp. 57-74
  • 2
    • 84879884020 scopus 로고    scopus 로고
    • Molecular consequences of animal breeding
    • Andersson L. Molecular consequences of animal breeding. Curr Opin Genet Dev. 2013;23:295-301.
    • (2013) Curr Opin Genet Dev. , vol.23 , pp. 295-301
    • Andersson, L.1
  • 3
    • 0036799595 scopus 로고    scopus 로고
    • Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the only known example of polar overdominance in mammals
    • Freking BA, Murphy SK, Wylie AA, Rhodes SJ, Keele JW, Leymaster KA, et al. Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the only known example of polar overdominance in mammals. Genome Res. 2002;12:1496-506.
    • (2002) Genome Res. , vol.12 , pp. 1496-1506
    • Freking, B.A.1    Murphy, S.K.2    Wylie, A.A.3    Rhodes, S.J.4    Keele, J.W.5    Leymaster, K.A.6
  • 4
    • 33745577150 scopus 로고    scopus 로고
    • A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects muscularity in sheep
    • Clop A, Marcq F, Takeda H, Pirottin D, Tordoir X, Bibé B, et al. A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects muscularity in sheep. Nat Genet. 2006;38:813-8.
    • (2006) Nat Genet. , vol.38 , pp. 813-818
    • Clop, A.1    Marcq, F.2    Takeda, H.3    Pirottin, D.4    Tordoir, X.5    Bibé, B.6
  • 5
    • 0242363235 scopus 로고    scopus 로고
    • A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig
    • Van Laere AS, Nguyen M, Braunschweig M, Nezer C, Collette C, Moreau L, et al. A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig. Nature. 2003;425:832-6.
    • (2003) Nature. , vol.425 , pp. 832-836
    • Van Laere, A.S.1    Nguyen, M.2    Braunschweig, M.3    Nezer, C.4    Collette, C.5    Moreau, L.6
  • 6
    • 84865517682 scopus 로고    scopus 로고
    • Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice
    • Andersson LS, Larhammar M, Memic F, Wootz H, Schwochow D, Rubin CJ, et al. Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice. Nature. 2012;488:642-6.
    • (2012) Nature. , vol.488 , pp. 642-646
    • Andersson, L.S.1    Larhammar, M.2    Memic, F.3    Wootz, H.4    Schwochow, D.5    Rubin, C.J.6
  • 7
    • 84865777825 scopus 로고    scopus 로고
    • Linking disease associations with regulatory information in the human genome
    • Schaub MA, Boyle AP, Kundaje A, Batzoglou S, Snyder M. Linking disease associations with regulatory information in the human genome. Genome Res. 2012;22:1748-59.
    • (2012) Genome Res. , vol.22 , pp. 1748-1759
    • Schaub, M.A.1    Boyle, A.P.2    Kundaje, A.3    Batzoglou, S.4    Snyder, M.5
  • 8
    • 10644283823 scopus 로고    scopus 로고
    • Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
    • International Chicken Genome Sequencing Consortium. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature. 2004;432:695-716.
    • (2004) Nature. , vol.432 , pp. 695-716
  • 11
    • 84901852226 scopus 로고    scopus 로고
    • The sheep genome illuminates biology of the rumen and lipid metabolism
    • Jiang Y, Xie M, Chen W, Talbot R, Maddox JF, Faraut T, et al. The sheep genome illuminates biology of the rumen and lipid metabolism. Science. 2014;344:1168-73.
    • (2014) Science. , vol.344 , pp. 1168-1173
    • Jiang, Y.1    Xie, M.2    Chen, W.3    Talbot, R.4    Maddox, J.F.5    Faraut, T.6
  • 12
    • 84907867272 scopus 로고    scopus 로고
    • The genomic substrate for adaptive radiation in African cichlid fish
    • Brawand D, Wagner CE, Li YI, Malinsky M, Keller I, Fan S, et al. The genomic substrate for adaptive radiation in African cichlid fish. Nature. 2014;513:375-81.
    • (2014) Nature. , vol.513 , pp. 375-381
    • Brawand, D.1    Wagner, C.E.2    Li, Y.I.3    Malinsky, M.4    Keller, I.5    Fan, S.6
  • 13
    • 77950080740 scopus 로고    scopus 로고
    • Whole-genome resequencing reveals loci under selection during chicken domestication
    • Rubin CJ, Zody MC, Eriksson J, Meadows JR, Sherwood E, Webster MT, et al. Whole-genome resequencing reveals loci under selection during chicken domestication. Nature. 2010;464:587-91.
    • (2010) Nature. , vol.464 , pp. 587-591
    • Rubin, C.J.1    Zody, M.C.2    Eriksson, J.3    Meadows, J.R.4    Sherwood, E.5    Webster, M.T.6
  • 14
    • 84907190357 scopus 로고    scopus 로고
    • Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication
    • Carneiro M, Rubin CJ, Di Palma F, Albert FW, Alfoldi J, Barrio AM, et al. Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication. Science. 2014;345:1074-9.
    • (2014) Science. , vol.345 , pp. 1074-1079
    • Carneiro, M.1    Rubin, C.J.2    Di Palma, F.3    Albert, F.W.4    Alfoldi, J.5    Barrio, A.M.6
  • 21
    • 84868694916 scopus 로고    scopus 로고
    • Completion of the swine genome will simplify the production of swine as a large animal biomedical model
    • Walters EM, Wolf E, Whyte JJ, Mao J, Renner S, Nagashima H. Completion of the swine genome will simplify the production of swine as a large animal biomedical model. BMC Med Genomics. 2012;5:55.
    • (2012) BMC Med Genomics. , vol.5 , pp. 55
    • Walters, E.M.1    Wolf, E.2    Whyte, J.J.3    Mao, J.4    Renner, S.5    Nagashima, H.6
  • 22
    • 84900407549 scopus 로고    scopus 로고
    • Applications of population genetics to animal breeding, from Wright, Fisher and Lush to genomic prediction
    • Hill WG. Applications of population genetics to animal breeding, from Wright, Fisher and Lush to genomic prediction. Genetics. 2014;196:1-16.
    • (2014) Genetics. , vol.196 , pp. 1-16
    • Hill, W.G.1
  • 23
    • 0035045051 scopus 로고    scopus 로고
    • Prediction of total genetic value using genome-wide dense marker maps
    • Meuwissen TH, Hayes BJ, Goddard ME. Prediction of total genetic value using genome-wide dense marker maps. Genetics. 2001;157:1819-29.
    • (2001) Genetics. , vol.157 , pp. 1819-1829
    • Meuwissen, T.H.1    Hayes, B.J.2    Goddard, M.E.3
  • 24
    • 77955482663 scopus 로고    scopus 로고
    • Accurate prediction of genetic values for complex traits by whole-genome resequencing
    • Meuwissen T, Goddard M. Accurate prediction of genetic values for complex traits by whole-genome resequencing. Genetics. 2010;185:623-31.
    • (2010) Genetics. , vol.185 , pp. 623-631
    • Meuwissen, T.1    Goddard, M.2
  • 25
    • 84905483050 scopus 로고    scopus 로고
    • Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle
    • Daetwyler HD, Capitan A, Pausch H, Stothard P, van Binsbergen R, Brondum RF, et al. Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle. Nat Genet. 2014;46:858-65.
    • (2014) Nat Genet. , vol.46 , pp. 858-865
    • Daetwyler, H.D.1    Capitan, A.2    Pausch, H.3    Stothard, P.4    van Binsbergen, R.5    Brondum, R.F.6
  • 26
    • 84915821124 scopus 로고    scopus 로고
    • The effects of demography and long-term selection on the accuracy of genomic prediction with sequence data
    • MacLeod IM, Hayes BJ, Goddard ME. The effects of demography and long-term selection on the accuracy of genomic prediction with sequence data. Genetics. 2014;198:1671-84.
    • (2014) Genetics. , vol.198 , pp. 1671-1684
    • MacLeod, I.M.1    Hayes, B.J.2    Goddard, M.E.3
  • 27
    • 84902653143 scopus 로고    scopus 로고
    • Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle
    • Koufariotis L, Chen YP, Bolormaa S, Hayes BJ. Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle. BMC Genomics. 2014;15:436.
    • (2014) BMC Genomics. , vol.15 , pp. 436
    • Koufariotis, L.1    Chen, Y.P.2    Bolormaa, S.3    Hayes, B.J.4
  • 28
    • 84864462544 scopus 로고    scopus 로고
    • A map of the cis-regulatory sequences in the mouse genome
    • Shen Y, Yue F, McCleary DF, Ye Z, Edsall L, Kuan S, et al. A map of the cis-regulatory sequences in the mouse genome. Nature. 2012;488:116-20.
    • (2012) Nature. , vol.488 , pp. 116-120
    • Shen, Y.1    Yue, F.2    McCleary, D.F.3    Ye, Z.4    Edsall, L.5    Kuan, S.6
  • 29
    • 84911462077 scopus 로고    scopus 로고
    • A comparative encyclopedia of DNA elements in the mouse genome
    • Yue F, Cheng Y, Breschi A, Vierstra J, Wu W, Ryba T, et al. A comparative encyclopedia of DNA elements in the mouse genome. Nature. 2014;515:355-64.
    • (2014) Nature. , vol.515 , pp. 355-364
    • Yue, F.1    Cheng, Y.2    Breschi, A.3    Vierstra, J.4    Wu, W.5    Ryba, T.6
  • 30
    • 78650331647 scopus 로고    scopus 로고
    • Identification of functional elements and regulatory circuits by Drosophila modENCODE
    • Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, et al. Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science. 2010;330:1787-97.
    • (2010) Science. , vol.330 , pp. 1787-1797
    • Roy, S.1    Ernst, J.2    Kharchenko, P.V.3    Kheradpour, P.4    Negre, N.5    Eaton, M.L.6
  • 31
    • 78650410139 scopus 로고    scopus 로고
    • Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project
    • Gerstein MB, Lu ZJ, Van Nostrand EL, Cheng C, Arshinoff BI, Liu T, et al. Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science. 2010;330:1775-87.
    • (2010) Science. , vol.330 , pp. 1775-1787
    • Gerstein, M.B.1    Lu, Z.J.2    Van Nostrand, E.L.3    Cheng, C.4    Arshinoff, B.I.5    Liu, T.6
  • 34
    • 77953062527 scopus 로고    scopus 로고
    • Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding
    • Schmidt D, Wilson MD, Ballester B, Schwalie PC, Brown GD, Marshall A, et al. Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding. Science. 2010;328:1036-40.
    • (2010) Science. , vol.328 , pp. 1036-1040
    • Schmidt, D.1    Wilson, M.D.2    Ballester, B.3    Schwalie, P.C.4    Brown, G.D.5    Marshall, A.6
  • 35
    • 84904691723 scopus 로고    scopus 로고
    • Genomic data integration for ecological and evolutionary traits in non-model organisms
    • Tagu D, Colbourne JK, Nègre N. Genomic data integration for ecological and evolutionary traits in non-model organisms. BMC Genomics. 2014;15:490.
    • (2014) BMC Genomics. , vol.15 , pp. 490
    • Tagu, D.1    Colbourne, J.K.2    Nègre, N.3
  • 36
    • 84889649328 scopus 로고    scopus 로고
    • Perspectives of international human epigenome consortium
    • Bae JB. Perspectives of international human epigenome consortium. Genomics Inform. 2013;11:7-14.
    • (2013) Genomics Inform. , vol.11 , pp. 7-14
    • Bae, J.B.1
  • 38
    • 84935891733 scopus 로고    scopus 로고
    • The FAANG Consortium. http://www.faang.org
  • 39
    • 84865859048 scopus 로고    scopus 로고
    • What does our genome encode?
    • Stamatoyannopoulos JA. What does our genome encode? Genome Res. 2012;22:1602-11.
    • (2012) Genome Res. , vol.22 , pp. 1602-1611
    • Stamatoyannopoulos, J.A.1
  • 41
    • 84865745578 scopus 로고    scopus 로고
    • The making of ENCODE: lessons for big-data projects
    • Birney E. The making of ENCODE: lessons for big-data projects. Nature. 2012;489:49-51.
    • (2012) Nature. , vol.489 , pp. 49-51
    • Birney, E.1
  • 42
    • 84876031068 scopus 로고    scopus 로고
    • The ENCODE project: missteps overshadowing a success
    • Eddy SR. The ENCODE project: missteps overshadowing a success. Curr Biol. 2013;23:R259-61.
    • (2013) Curr Biol. , vol.23 , pp. R259-R261
    • Eddy, S.R.1
  • 44
    • 84865727393 scopus 로고    scopus 로고
    • The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression
    • Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, Tilgner H, et al. The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res. 2012;22:1775-89.
    • (2012) Genome Res. , vol.22 , pp. 1775-1789
    • Derrien, T.1    Johnson, R.2    Bussotti, G.3    Tanzer, A.4    Djebali, S.5    Tilgner, H.6
  • 46
    • 84890449615 scopus 로고    scopus 로고
    • Functional transcriptomics in the post-ENCODE era
    • Mudge JM, Frankish A, Harrow J. Functional transcriptomics in the post-ENCODE era. Genome Res. 2013;23:1961-73.
    • (2013) Genome Res. , vol.23 , pp. 1961-1973
    • Mudge, J.M.1    Frankish, A.2    Harrow, J.3
  • 48
    • 84888877924 scopus 로고    scopus 로고
    • Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
    • Buenrostro JD, Giresi PG, Zaba LC, Chang HY, Greenleaf WJ. Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Nat Methods. 2013;10:1213-8.
    • (2013) Nat Methods. , vol.10 , pp. 1213-1218
    • Buenrostro, J.D.1    Giresi, P.G.2    Zaba, L.C.3    Chang, H.Y.4    Greenleaf, W.J.5
  • 50
    • 84899415536 scopus 로고    scopus 로고
    • CTCF: an architectural protein bridging genome topology and function
    • Ong CT, Corces VG. CTCF: an architectural protein bridging genome topology and function. Nat Rev Genet. 2014;15:234-46.
    • (2014) Nat Rev Genet. , vol.15 , pp. 234-246
    • Ong, C.T.1    Corces, V.G.2
  • 51
    • 84907420615 scopus 로고    scopus 로고
    • Comparative analysis of metazoan chromatin organization
    • Ho JW, Jung YL, Liu T, Alver BH, Lee S, Ikegami K, et al. Comparative analysis of metazoan chromatin organization. Nature. 2014;512:449-52.
    • (2014) Nature. , vol.512 , pp. 449-452
    • Ho, J.W.1    Jung, Y.L.2    Liu, T.3    Alver, B.H.4    Lee, S.5    Ikegami, K.6
  • 52
    • 27144500218 scopus 로고    scopus 로고
    • Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis
    • Meissner A, Gnirke A, Bell GW, Ramsahoye B, Lander ES, Jaenisch R. Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Res. 2005;33:5868-77.
    • (2005) Nucleic Acids Res. , vol.33 , pp. 5868-5877
    • Meissner, A.1    Gnirke, A.2    Bell, G.W.3    Ramsahoye, B.4    Lander, E.S.5    Jaenisch, R.6
  • 54
    • 84919949716 scopus 로고    scopus 로고
    • A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping
    • Rao SS, Huntley MH, Durand NC, Stamenova EK, Bochkov ID, Robinson JT, et al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell. 2014;159:1665-80.
    • (2014) Cell. , vol.159 , pp. 1665-1680
    • Rao, S.S.1    Huntley, M.H.2    Durand, N.C.3    Stamenova, E.K.4    Bochkov, I.D.5    Robinson, J.T.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.