메뉴 건너뛰기




Volumn 12, Issue 4, 2007, Pages 424-432

Discovery of cSNPs in pigs using full-length enriched cDNA libraries of the Korean native pig as a source of genetic diversity

Author keywords

Alternative splicing; Full length cDNA libraries; Korean native pig; NAGNAG acceptor; SNP

Indexed keywords

AMINO ACID; COMPLEMENTARY DNA; VALINE;

EID: 34548612520     PISSN: 12268372     EISSN: None     Source Type: Journal    
DOI: 10.1007/BF02931066     Document Type: Article
Times cited : (2)

References (44)
  • 1
    • 30344460649 scopus 로고    scopus 로고
    • Cloning and sequencing of a novel glutaryl acylase β-subunit gene of Pseudomonas cepacia BY21 from bioinformatics
    • Jeong, Y. S., H. J. Yoo, S. D. Kim, D. H. Nam, and Y. H. Khang (2005) Cloning and sequencing of a novel glutaryl acylase β-subunit gene of Pseudomonas cepacia BY21 from bioinformatics. Biotechnol. Bioprocess Eng. 10: 510-515.
    • (2005) Biotechnol. Bioprocess Eng , vol.10 , pp. 510-515
    • Jeong, Y.S.1    Yoo, H.J.2    Kim, S.D.3    Nam, D.H.4    Khang, Y.H.5
  • 2
    • 33745616505 scopus 로고    scopus 로고
    • Recent advances in DNA sequencing by end-labeled free-solution electrophoresis (ELFSE)
    • Won, J. I. (2006) Recent advances in DNA sequencing by end-labeled free-solution electrophoresis (ELFSE). Biotechnol. Bioprocess Eng. 11: 179-186.
    • (2006) Biotechnol. Bioprocess Eng , vol.11 , pp. 179-186
    • Won, J.I.1
  • 3
    • 34248379206 scopus 로고    scopus 로고
    • Evaluation of central metabolism based on a genomic database of Synechocystis PCC6803
    • Hong, S. J. and C. G. Lee (2007) Evaluation of central metabolism based on a genomic database of Synechocystis PCC6803. Biotechnol. Bioprocess Eng. 12: 165-173.
    • (2007) Biotechnol. Bioprocess Eng , vol.12 , pp. 165-173
    • Hong, S.J.1    Lee, C.G.2
  • 4
    • 0032997217 scopus 로고    scopus 로고
    • The essence of SNPs
    • Brookes, A. J. (1999) The essence of SNPs. Gene 234: 177-186.
    • (1999) Gene , vol.234 , pp. 177-186
    • Brookes, A.J.1
  • 5
    • 33846588874 scopus 로고    scopus 로고
    • SNPs, silent but not invisible
    • Komar, A. A. (2007) SNPs, silent but not invisible. Science 315: 466-467.
    • (2007) Science , vol.315 , pp. 466-467
    • Komar, A.A.1
  • 6
    • 15944380783 scopus 로고    scopus 로고
    • Inferring SNP function using evolutionary, structural and computational methods
    • Dimmic, M. W., S. R. Sunyaev, and C. Bustamante (2005) Inferring SNP function using evolutionary, structural and computational methods. Pac. Symp. Biocomput. 10: 382-384.
    • (2005) Pac. Symp. Biocomput , vol.10 , pp. 382-384
    • Dimmic, M.W.1    Sunyaev, S.R.2    Bustamante, C.3
  • 7
    • 0035756174 scopus 로고    scopus 로고
    • High-throughput identification, database storage and analysis of SNPs in EST sequences
    • Useche, F. J., G. Gao, M. Hanafey, and A. Rafalski (2001) High-throughput identification, database storage and analysis of SNPs in EST sequences. Genome Inform. Ser. 12: 194-203.
    • (2001) Genome Inform. Ser , vol.12 , pp. 194-203
    • Useche, F.J.1    Gao, G.2    Hanafey, M.3    Rafalski, A.4
  • 8
    • 0031690079 scopus 로고    scopus 로고
    • Single nucleotide polymorphism hunting in cyberspace
    • Gu, Z., L. Hillier, and P. Y. Kwok (1998) Single nucleotide polymorphism hunting in cyberspace. Hum. Mutat. 12: 221-225.
    • (1998) Hum. Mutat , vol.12 , pp. 221-225
    • Gu, Z.1    Hillier, L.2    Kwok, P.Y.3
  • 9
    • 0344838601 scopus 로고    scopus 로고
    • Redundancy based detection of sequence polymorphisms in expressed sequence tag data using autoSNP
    • Barker, G., J. Batley, H. O. Sullivan, K. J. Edwards, and D. Edwards (2003) Redundancy based detection of sequence polymorphisms in expressed sequence tag data using autoSNP. Bioinformatics 19: 421-422.
    • (2003) Bioinformatics , vol.19 , pp. 421-422
    • Barker, G.1    Batley, J.2    Sullivan, H.O.3    Edwards, K.J.4    Edwards, D.5
  • 10
    • 0033018816 scopus 로고    scopus 로고
    • Reliable identification of large numbers of candidate SNPs from public EST data
    • Buetow, K. H., M. N. Edmonson, and A. B. Cassidy (1999) Reliable identification of large numbers of candidate SNPs from public EST data. Nat. Genet. 21: 323-325.
    • (1999) Nat. Genet , vol.21 , pp. 323-325
    • Buetow, K.H.1    Edmonson, M.N.2    Cassidy, A.B.3
  • 11
    • 0032721621 scopus 로고    scopus 로고
    • Identification of candidate coding region single nucleotide polymorphisms in 165 human genes using assembled expressed sequence tags
    • Garg, K., P. Green, and D. A. Nickerson (1999) Identification of candidate coding region single nucleotide polymorphisms in 165 human genes using assembled expressed sequence tags. Genome Res. 9: 1087-1092.
    • (1999) Genome Res , vol.9 , pp. 1087-1092
    • Garg, K.1    Green, P.2    Nickerson, D.A.3
  • 13
    • 0043207446 scopus 로고    scopus 로고
    • A double-screening method to identify reliable candidate non-synonymous SNPs from chicken EST data
    • Kim, H., C. J. Schmidt, K. S. Decker, and M. G. Emara (2003) A double-screening method to identify reliable candidate non-synonymous SNPs from chicken EST data. Anim. Genet. 34: 249-254.
    • (2003) Anim. Genet , vol.34 , pp. 249-254
    • Kim, H.1    Schmidt, C.J.2    Decker, K.S.3    Emara, M.G.4
  • 15
    • 3543078755 scopus 로고    scopus 로고
    • Single nucleotide polymorphisms associated with rat expressed sequences
    • Guryev, V., E. Berezikov, R. Malik, R. H. A. Plasterk, and E. Cuppen (2004) Single nucleotide polymorphisms associated with rat expressed sequences. Genome Res. 14: 1438-1443.
    • (2004) Genome Res , vol.14 , pp. 1438-1443
    • Guryev, V.1    Berezikov, E.2    Malik, R.3    Plasterk, R.H.A.4    Cuppen, E.5
  • 18
    • 33645304570 scopus 로고    scopus 로고
    • Confirming single nucleotide polymorphisms from expressed sequence tag datasets derived from three cattle cDNA libraries
    • Lee, S. H., E. W. Park, Y. M. Cho, J. W. Lee, H. Y. Kim, J. H. Lee, S. J. Oh, I. C. Cheong, and D. H. Yoon (2006) Confirming single nucleotide polymorphisms from expressed sequence tag datasets derived from three cattle cDNA libraries. J. Biochem. Mol. Biol. 39: 183-188.
    • (2006) J. Biochem. Mol. Biol , vol.39 , pp. 183-188
    • Lee, S.H.1    Park, E.W.2    Cho, Y.M.3    Lee, J.W.4    Kim, H.Y.5    Lee, J.H.6    Oh, S.J.7    Cheong, I.C.8    Yoon, D.H.9
  • 19
    • 1642358496 scopus 로고    scopus 로고
    • Analysis of a full-length cDNA library constructed from swine olfactory bulb for elucidation of expressed genes and their transcription initiation sites
    • Fujisaki, S., A. Sugiyama, T. Eguchi, Y. Watanabe, H. Hiraiwa, D. Honma, T. Saito, and H. Yasue (2004) Analysis of a full-length cDNA library constructed from swine olfactory bulb for elucidation of expressed genes and their transcription initiation sites. J. Vet. Med. Sci. 66: 15-23.
    • (2004) J. Vet. Med. Sci , vol.66 , pp. 15-23
    • Fujisaki, S.1    Sugiyama, A.2    Eguchi, T.3    Watanabe, Y.4    Hiraiwa, H.5    Honma, D.6    Saito, T.7    Yasue, H.8
  • 22
    • 33749388277 scopus 로고    scopus 로고
    • Abundantly expressed genes in pig adipose tissue: An expressed sequence tag approach
    • Chen, C. H., E. C. Lin, W. T. K. Cheng, H. S. Sun, H. J. Mersmann, and S. T. Ding (2006) Abundantly expressed genes in pig adipose tissue: an expressed sequence tag approach. J. Anim. Sci. 84: 2673-2683.
    • (2006) J. Anim. Sci , vol.84 , pp. 2673-2683
    • Chen, C.H.1    Lin, E.C.2    Cheng, W.T.K.3    Sun, H.S.4    Mersmann, H.J.5    Ding, S.T.6
  • 24
    • 33846066202 scopus 로고    scopus 로고
    • PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10147 porcine full-length cDNA sequences
    • Uenishi, H., T. Eguchi-Ogawa, H. Shinkai, N. Okumura, K. Suzuki, D. Toki, N. Hamasima, and T. Awata (2007) PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10147 porcine full-length cDNA sequences. Nucleic Acids Res. 35: D650-D653.
    • (2007) Nucleic Acids Res , vol.35
    • Uenishi, H.1    Eguchi-Ogawa, T.2    Shinkai, H.3    Okumura, N.4    Suzuki, K.5    Toki, D.6    Hamasima, N.7    Awata, T.8
  • 25
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencing tracers using phred. II. Error probabilities
    • Ewing, B. and P. Green (1998) Base-calling of automated sequencing tracers using phred. II. Error probabilities. Genome Res. 8: 186-194.
    • (1998) Genome Res , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 26
    • 0031955518 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. Accuracy assessment
    • Ewing, B., L. Hillier, M. C. Wendl, and P. Green (1998) Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 8: 175-185.
    • (1998) Genome Res , vol.8 , pp. 175-185
    • Ewing, B.1    Hillier, L.2    Wendl, M.C.3    Green, P.4
  • 27
    • 0031955116 scopus 로고    scopus 로고
    • Consed: A graphical tool for sequence finishing
    • Gordon, D., C. Abajian, and P. Green (1998) Consed: a graphical tool for sequence finishing. Genome Res. 8: 195-202.
    • (1998) Genome Res , vol.8 , pp. 195-202
    • Gordon, D.1    Abajian, C.2    Green, P.3
  • 30
    • 3242810318 scopus 로고    scopus 로고
    • MEGA3: Integrated software for Molecular Evolutionary Genetic Analysis and sequence alignment
    • Kumar, S., K. Tamura, and M. Nei (2004) MEGA3: Integrated software for Molecular Evolutionary Genetic Analysis and sequence alignment. Brief. Bioinform. 5: 150-163.
    • (2004) Brief. Bioinform , vol.5 , pp. 150-163
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 32
    • 9644278038 scopus 로고    scopus 로고
    • Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity
    • Hiller, M., K. Huse, K. Szafranski, N. Jahn, J. Hampe, S. Schreiber, R. Backofen, and M. Platzer (2004) Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity. Nat. Genet. 36: 1255-1257.
    • (2004) Nat. Genet , vol.36 , pp. 1255-1257
    • Hiller, M.1    Huse, K.2    Szafranski, K.3    Jahn, N.4    Hampe, J.5    Schreiber, S.6    Backofen, R.7    Platzer, M.8
  • 33
    • 31544473503 scopus 로고    scopus 로고
    • Single-nucleotide polymorphisms in NAGNAG acceptors are highly predictive for variations of alternative splicing
    • Hiller, M., K. Huse, K. Szafranski, N. Jahn, J. Hampe, S. Schreiber, R. Backofen, and M. Platzer (2006) Single-nucleotide polymorphisms in NAGNAG acceptors are highly predictive for variations of alternative splicing. Am. J. Hum. Genet. 78: 291-302.
    • (2006) Am. J. Hum. Genet , vol.78 , pp. 291-302
    • Hiller, M.1    Huse, K.2    Szafranski, K.3    Jahn, N.4    Hampe, J.5    Schreiber, S.6    Backofen, R.7    Platzer, M.8
  • 35
    • 0035865322 scopus 로고    scopus 로고
    • A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms
    • The International SNP Map Working Group
    • The International SNP Map Working Group (2001) A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature 409: 928-933.
    • (2001) Nature , vol.409 , pp. 928-933
  • 37
    • 33646752105 scopus 로고    scopus 로고
    • Prospecting for pig single nucleotide polymorphisms in the human genome: Have we struck gold?
    • Grapes, L., S. Rudd, R. L. Fernando, K. Megy, D. Rocha, and M. F. Rothschild (2006) Prospecting for pig single nucleotide polymorphisms in the human genome: have we struck gold? J. Anim. Breed. Genet. 123: 145-151.
    • (2006) J. Anim. Breed. Genet , vol.123 , pp. 145-151
    • Grapes, L.1    Rudd, S.2    Fernando, R.L.3    Megy, K.4    Rocha, D.5    Rothschild, M.F.6
  • 38
    • 0036017145 scopus 로고    scopus 로고
    • Single nucleotide polymorphism (SNP) discovery in porcine expressed genes
    • Fahrenkrug, S. C., B. A. Freking, T. P. L. Smith, G. A. Rohrer, and J. W. Keele (2002) Single nucleotide polymorphism (SNP) discovery in porcine expressed genes. Anim. Genet. 33: 186-195.
    • (2002) Anim. Genet , vol.33 , pp. 186-195
    • Fahrenkrug, S.C.1    Freking, B.A.2    Smith, T.P.L.3    Rohrer, G.A.4    Keele, J.W.5
  • 39
    • 30844437570 scopus 로고    scopus 로고
    • Analysis of public single nucleotide polymorphisms in commercial pig populations
    • Kollers, S., K. Megy, and D. Rocha (2005) Analysis of public single nucleotide polymorphisms in commercial pig populations. Anim. Genet. 36: 426-431.
    • (2005) Anim. Genet , vol.36 , pp. 426-431
    • Kollers, S.1    Megy, K.2    Rocha, D.3
  • 41
    • 0037062982 scopus 로고    scopus 로고
    • Alternative pre-mRNA splicing and proteome expansion in metazoans
    • Maniatis, T. and B. Tasic (2002) Alternative pre-mRNA splicing and proteome expansion in metazoans. Nature 418: 236-243.
    • (2002) Nature , vol.418 , pp. 236-243
    • Maniatis, T.1    Tasic, B.2
  • 43
    • 33751355666 scopus 로고    scopus 로고
    • Alternative splicing at NAGNAG acceptors: Simply noise or noise and more?
    • Hiller, M., K. Szafranski, R. Backofen, and M. Platzer (2006) Alternative splicing at NAGNAG acceptors: simply noise or noise and more? PLoS Genet. 2: e207.
    • (2006) PLoS Genet , vol.2
    • Hiller, M.1    Szafranski, K.2    Backofen, R.3    Platzer, M.4
  • 44
    • 0035878968 scopus 로고    scopus 로고
    • Neuroendocrine secretory protein 7 B2: Structure, expression and functions
    • Mbikay, M., N. G. Seidah, and M. Chretien (2001) Neuroendocrine secretory protein 7 B2: structure, expression and functions. Biochem. J. 357: 329-342.
    • (2001) Biochem. J , vol.357 , pp. 329-342
    • Mbikay, M.1    Seidah, N.G.2    Chretien, M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.