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Volumn 11, Issue 1, 2016, Pages 1-9

SIFT missense predictions for genomes

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[No Author keywords available]

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AMINO ACID;

EID: 84949459120     PISSN: 17542189     EISSN: 17502799     Source Type: Journal    
DOI: 10.1038/nprot.2015.123     Document Type: Article
Times cited : (1000)

References (33)
  • 1
    • 70350134644 scopus 로고    scopus 로고
    • Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx)
    • Xia, Q. et al. Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx). Science 326, 433-436 (2009).
    • (2009) Science , vol.326 , pp. 433-436
    • Xia, Q.1
  • 2
    • 65449132092 scopus 로고    scopus 로고
    • Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds
    • The Bovine HapMap Consortium. Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds. Science 324, 528-532 (2009).
    • (2009) Science , vol.324 , pp. 528-532
    • The Bovine HapMap Consortium1
  • 3
    • 84867875610 scopus 로고    scopus 로고
    • A map of rice genome variation reveals the origin of cultivated rice
    • Huang, X. et al. A map of rice genome variation reveals the origin of cultivated rice. Nature 490, 497-501 (2012).
    • (2012) Nature , vol.490 , pp. 497-501
    • Huang, X.1
  • 4
    • 33745434299 scopus 로고    scopus 로고
    • Sequencing multiple and diverse rice varieties. Connecting whole-genome variation with phenotypes
    • McNally, K.L. et al. Sequencing multiple and diverse rice varieties. Connecting whole-genome variation with phenotypes. Plant Physiol. 141, 26-31 (2006).
    • (2006) Plant Physiol. , vol.141 , pp. 26-31
    • McNally, K.L.1
  • 7
    • 47149117454 scopus 로고    scopus 로고
    • Evolution of genes and genomes on the Drosophila phylogeny
    • Drosophila 12 Genomes Consortium. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450, 203-218 (2007).
    • (2007) Nature , vol.450 , pp. 203-218
    • Drosophila 12 Genomes Consortium1
  • 8
    • 77953006646 scopus 로고    scopus 로고
    • The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance
    • Atanur, S.S. et al. The genome sequence of the spontaneously hypertensive rat: analysis and functional significance. Genome Res. 20, 791-803 (2010).
    • (2010) Genome Res. , vol.20 , pp. 791-803
    • Atanur, S.S.1
  • 9
    • 84856057629 scopus 로고    scopus 로고
    • LGI2 truncation causes a remitting focal epilepsy in dogs
    • Seppälä, E.H. et al. LGI2 truncation causes a remitting focal epilepsy in dogs. PLoS Genet. 7, e1002194 (2011).
    • (2011) PLoS Genet. , vol.7
    • Seppälä, E.H.1
  • 10
    • 68149165614 scopus 로고    scopus 로고
    • Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm
    • Kumar, P., Henikoff, S. & Ng, P.C. Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm. Nat. Protoc. 4, 1073-1081 (2009).
    • (2009) Nat. Protoc. , vol.4 , pp. 1073-1081
    • Kumar, P.1    Henikoff, S.2    Ng, P.C.3
  • 11
    • 0036119504 scopus 로고    scopus 로고
    • Accounting for human polymorphisms predicted to affect protein function
    • Ng, P.C. & Henikoff, S. Accounting for human polymorphisms predicted to affect protein function. Genome Res. 12, 436-446 (2002).
    • (2002) Genome Res. , vol.12 , pp. 436-446
    • Ng, P.C.1    Henikoff, S.2
  • 12
    • 0043122919 scopus 로고    scopus 로고
    • SIFT: Predicting amino acid changes that affect protein function
    • Ng, P.C. & Henikoff, S. SIFT: predicting amino acid changes that affect protein function. Nucleic Acids Res. 31, 3812-3814 (2003).
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3812-3814
    • Ng, P.C.1    Henikoff, S.2
  • 13
    • 84864430562 scopus 로고    scopus 로고
    • SIFT web server: Predicting effects of amino acid substitutions on proteins
    • Sim, N.L. et al. SIFT web server: predicting effects of amino acid substitutions on proteins. Nucleic Acids Res. 40, W452-W457 (2012).
    • (2012) Nucleic Acids Res. , vol.40 , pp. W452-W457
    • Sim, N.L.1
  • 14
    • 3042602443 scopus 로고    scopus 로고
    • Traditional mutagenesis meets functional genomics
    • Henikoff, S., Till, B.J. & Comai, L. TILLING. Traditional mutagenesis meets functional genomics. Plant Physiol. 135, 630-636 (2004).
    • (2004) Plant Physiol. , vol.135 , pp. 630-636
    • Henikoff, S.1    Till, B.J.2    Comai, L.T.3
  • 15
    • 84869018429 scopus 로고    scopus 로고
    • CSF1R mutations identified in three families with autosomal dominantly inherited leukoencephalopathy
    • Mitsui, J. et al. CSF1R mutations identified in three families with autosomal dominantly inherited leukoencephalopathy. Am. J. Med. Genet. B Neuropsychiatr. Genet. 159B, 951-957 (2012).
    • (2012) Am. J. Med. Genet. B Neuropsychiatr. Genet. , vol.159 B , pp. 951-957
    • Mitsui, J.1
  • 16
    • 84863556835 scopus 로고    scopus 로고
    • Evolution and functional impact of rare coding variation from deep sequencing of human exomes
    • Tennessen, J.A. et al. Evolution and functional impact of rare coding variation from deep sequencing of human exomes. Science 337, 64-69 (2012).
    • (2012) Science , vol.337 , pp. 64-69
    • Tennessen, J.A.1
  • 17
    • 84923353165 scopus 로고    scopus 로고
    • Evolution of Darwin's finches and their beaks revealed by genome sequencing
    • Lamichhaney, S. et al. Evolution of Darwin's finches and their beaks revealed by genome sequencing. Nature 518, 371-375 (2015).
    • (2015) Nature , vol.518 , pp. 371-375
    • Lamichhaney, S.1
  • 18
    • 84925858791 scopus 로고    scopus 로고
    • Variability of candidate genes, genetic structure and association with sugar accumulation and climacteric behavior in a broad germplasm collection of melon (Cucumis melo L.)
    • Leida, C. et al. Variability of candidate genes, genetic structure and association with sugar accumulation and climacteric behavior in a broad germplasm collection of melon (Cucumis melo L.). BMC Genet. 16, 28 (2015).
    • (2015) BMC Genet. , vol.16 , pp. 28
    • Leida, C.1
  • 19
    • 84924595721 scopus 로고    scopus 로고
    • Variant discovery in a QTL region on chromosome 3 associated with fatness in chickens
    • Moreira, G.C. et al. Variant discovery in a QTL region on chromosome 3 associated with fatness in chickens. Anim. Genet. 46, 141-147 (2015).
    • (2015) Anim. Genet. , vol.46 , pp. 141-147
    • Moreira, G.C.1
  • 20
    • 84939879694 scopus 로고    scopus 로고
    • Wx gene in diploid wheat: Molecular characterization of five novel alleles from einkorn (Triticum monococcum L ssp monococcum) and T. Urartu
    • Ortega, R., Guzmán, C. & Alvarez, J. Wx gene in diploid wheat: molecular characterization of five novel alleles from einkorn (Triticum monococcum L. ssp. monococcum) and T. urartu. Mol. Breeding 34, 1137-1146 (2014).
    • (2014) Mol. Breeding , vol.34 , pp. 1137-1146
    • Ortega, R.1    Guzmán, C.2    Alvarez, J.3
  • 21
    • 84949461386 scopus 로고    scopus 로고
    • The accumulation of deleterious mutations as a consequence of domestication and improvement in sunflowers and other Compositae crops
    • Renaut, S. & Rieseberg, L.H. The accumulation of deleterious mutations as a consequence of domestication and improvement in sunflowers and other Compositae crops. Mol. Biol. Evol. 32, 2273-2283 (2015).
    • (2015) Mol. Biol. Evol. , vol.32 , pp. 2273-2283
    • Renaut, S.1    Rieseberg, L.H.2
  • 22
    • 84939495183 scopus 로고    scopus 로고
    • Whole-genome resequencing analyses of five pig breeds, including Korean wild and native, and three European origin breeds
    • Choi, J.W. et al. Whole-genome resequencing analyses of five pig breeds, including Korean wild and native, and three European origin breeds. DNA Res. 22, 259-267 (2015).
    • (2015) DNA Res. , vol.22 , pp. 259-267
    • Choi, J.W.1
  • 23
    • 0001259916 scopus 로고
    • Longest increasing and decreasing subsequences
    • Schensted, C. Longest increasing and decreasing subsequences. Can. J. Math. 13, 179-191 (1961).
    • (1961) Can. J. Math. , vol.13 , pp. 179-191
    • Schensted, C.1
  • 25
    • 0035026704 scopus 로고    scopus 로고
    • Predicting deleterious amino acid substitutions
    • Ng, P.C. & Henikoff, S. Predicting deleterious amino acid substitutions. Genome Res. 11, 863-874 (2001).
    • (2001) Genome Res. , vol.11 , pp. 863-874
    • Ng, P.C.1    Henikoff, S.2
  • 26
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul, S.F. et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402 (1997).
    • (1997) Nucleic Acids Res. , vol.25 , pp. 3389-3402
    • Altschul, S.F.1
  • 27
    • 34347388470 scopus 로고    scopus 로고
    • UniRef: Comprehensive and non-redundant UniProt reference clusters
    • Suzek, B.E., Huang, H., McGarvey, P., Mazumder, R. & Wu, C.H. UniRef: comprehensive and non-redundant UniProt reference clusters. Bioinformatics 23, 1282-1288 (2007).
    • (2007) Bioinformatics , vol.23 , pp. 1282-1288
    • Suzek, B.E.1    Huang, H.2    McGarvey, P.3    Mazumder, R.4    Wu, C.H.5
  • 28
    • 77951640946 scopus 로고    scopus 로고
    • A method and server for predicting damaging missense mutations
    • Adzhubei, I.A. et al. A method and server for predicting damaging missense mutations. Nat. Methods 7, 248-249 (2010).
    • (2010) Nat. Methods , vol.7 , pp. 248-249
    • Adzhubei, I.A.1
  • 29
    • 0030921749 scopus 로고    scopus 로고
    • Lac repressor genetic map in real space
    • Pace, H.C. et al. Lac repressor genetic map in real space. Trends Biochem. Sci. 22, 334-339 (1997).
    • (1997) Trends Biochem. Sci. , vol.22 , pp. 334-339
    • Pace, H.C.1
  • 31
    • 0036079158 scopus 로고    scopus 로고
    • The human genome browser at UCSC
    • Kent, W.J. et al. The human genome browser at UCSC. Genome Res. 12, 996-1006 (2002).
    • (2002) Genome Res. , vol.12 , pp. 996-1006
    • Kent, W.J.1
  • 32
    • 84856585935 scopus 로고    scopus 로고
    • Phytozome: A comparative platform for green plant genomics
    • Goodstein, D.M. et al. Phytozome: a comparative platform for green plant genomics. Nucleic Acids Res. 40, D1178-D1186 (2012).
    • (2012) Nucleic Acids Res. , vol.40 , pp. D1178-D1186
    • Goodstein, D.M.1
  • 33
    • 13444306641 scopus 로고    scopus 로고
    • NCBI Reference Sequence (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
    • Pruitt, K.D., Tatusova, T. & Maglott, D.R. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 33, D501-D504 (2005).
    • (2005) Nucleic Acids Res. , vol.33 , pp. D501-D504
    • Pruitt, K.D.1    Tatusova, T.2    Maglott, D.R.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.