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Volumn 397, Issue 1, 2010, Pages 120-126

tsORFdb: Theoretical Small Open Reading Frames (ORFs) database and massProphet: Peptide Mass Fingerprinting (PMF) tool for unknown small functional ORFs

Author keywords

Bioinformatics; Database; ORFeomics; Peptide Mass Fingerprinting; Proteomics; sORFs (Small Open Reading Frames)

Indexed keywords

PEPTIDE; PROTEIN;

EID: 77953618664     PISSN: 0006291X     EISSN: 10902104     Source Type: Journal    
DOI: 10.1016/j.bbrc.2010.05.093     Document Type: Article
Times cited : (6)

References (27)
  • 1
    • 0031304362 scopus 로고    scopus 로고
    • Molecular imaging of biological samples: localization of peptides and proteins using MALDI-TOF MS
    • Caprioli R.M., Farmer T.B., and Gile J. Molecular imaging of biological samples: localization of peptides and proteins using MALDI-TOF MS. Anal. Chem. 69 (1997) 4751-4760
    • (1997) Anal. Chem. , vol.69 , pp. 4751-4760
    • Caprioli, R.M.1    Farmer, T.B.2    Gile, J.3
  • 2
    • 0034234766 scopus 로고    scopus 로고
    • Improvements in protein identification by MALDI-TOF-MS peptide mapping
    • Egelhofer V., Bussow K., Luebbert C., Lehrach H., and Nordhoff E. Improvements in protein identification by MALDI-TOF-MS peptide mapping. Anal. Chem. 72 (2000) 2741-2750
    • (2000) Anal. Chem. , vol.72 , pp. 2741-2750
    • Egelhofer, V.1    Bussow, K.2    Luebbert, C.3    Lehrach, H.4    Nordhoff, E.5
  • 3
    • 0035139370 scopus 로고    scopus 로고
    • MALDI-TOF-MS analysis of protein and DNA
    • Bonk T., and Humeny A. MALDI-TOF-MS analysis of protein and DNA. Neuroscientist 7 (2001) 6-12
    • (2001) Neuroscientist , vol.7 , pp. 6-12
    • Bonk, T.1    Humeny, A.2
  • 5
    • 0042386240 scopus 로고    scopus 로고
    • Protein identification: the origins of peptide mass fingerprinting
    • Henzel W.J., Watanabe C., and Stults J.T. Protein identification: the origins of peptide mass fingerprinting. J. Am. Soc. Mass Spectrom. 14 (2003) 931-942
    • (2003) J. Am. Soc. Mass Spectrom. , vol.14 , pp. 931-942
    • Henzel, W.J.1    Watanabe, C.2    Stults, J.T.3
  • 6
    • 0034213595 scopus 로고    scopus 로고
    • ProFound: an expert system for protein identification using mass spectrometric peptide mapping information
    • Zhang W., and Chait B.T. ProFound: an expert system for protein identification using mass spectrometric peptide mapping information. Anal. Chem. 72 (2000) 2482-2489
    • (2000) Anal. Chem. , vol.72 , pp. 2482-2489
    • Zhang, W.1    Chait, B.T.2
  • 9
    • 34547782215 scopus 로고    scopus 로고
    • How does eukaryotic gene prediction work?
    • Brent M.R. How does eukaryotic gene prediction work?. Nat. Biotechnol. 25 (2007) 883-885
    • (2007) Nat. Biotechnol. , vol.25 , pp. 883-885
    • Brent, M.R.1
  • 10
    • 34250305146 scopus 로고    scopus 로고
    • E. Birney, J.A. Stamatoyannopoulos, A. Dutta, R. Guigo, T.R. Gingeras, E.H. Margulies, Z. Weng, M. Snyder, E.T. Dermitzakis, R.E. Thurman, M.S. Kuehn, C.M. Taylor, S. Neph, C.M. Koch, S. Asthana, A. Malhotra, I. Adzhubei, J.A. Greenbaum, R.M. Andrews, P. Flicek, P.J. Boyle, H. Cao, N.P. Carter, G.K. Clelland, S. Davis, N. Day, P. Dhami, S.C. Dillon, M.O. Dorschner, H. Fiegler, P.G. Giresi, J. Goldy, M. Hawrylycz, A. Haydock, R. Humbert, K.D. James, B.E. Johnson, E.M. Johnson, T.T. Frum, E.R. Rosenzweig, N. Karnani, K. Lee, G.C. Lefebvre, P.A. Navas, F. Neri, S.C. Parker, P.J. Sabo, R. Sandstrom, A. Shafer, D. Vetrie, M. Weaver, S. Wilcox, M. Yu, F.S. Collins, J. Dekker, J.D. Lieb, T.D. Tullius, G.E. Crawford, S. Sunyaev, W.S. Noble, I. Dunham, F. Denoeud, A. Reymond, P. Kapranov, J. Rozowsky, D. Zheng, R. Castelo, A. Frankish, J. Harrow, S. Ghosh, A. Sandelin, I.L. Hofacker, R. Baertsch, D. Keefe, S. Dike, J. Cheng, H.A. Hirsch, E.A. Sekinger, J. Lagarde, J.F. Abril, A. Shahab, C. Flam
    • E. Birney, J.A. Stamatoyannopoulos, A. Dutta, R. Guigo, T.R. Gingeras, E.H. Margulies, Z. Weng, M. Snyder, E.T. Dermitzakis, R.E. Thurman, M.S. Kuehn, C.M. Taylor, S. Neph, C.M. Koch, S. Asthana, A. Malhotra, I. Adzhubei, J.A. Greenbaum, R.M. Andrews, P. Flicek, P.J. Boyle, H. Cao, N.P. Carter, G.K. Clelland, S. Davis, N. Day, P. Dhami, S.C. Dillon, M.O. Dorschner, H. Fiegler, P.G. Giresi, J. Goldy, M. Hawrylycz, A. Haydock, R. Humbert, K.D. James, B.E. Johnson, E.M. Johnson, T.T. Frum, E.R. Rosenzweig, N. Karnani, K. Lee, G.C. Lefebvre, P.A. Navas, F. Neri, S.C. Parker, P.J. Sabo, R. Sandstrom, A. Shafer, D. Vetrie, M. Weaver, S. Wilcox, M. Yu, F.S. Collins, J. Dekker, J.D. Lieb, T.D. Tullius, G.E. Crawford, S. Sunyaev, W.S. Noble, I. Dunham, F. Denoeud, A. Reymond, P. Kapranov, J. Rozowsky, D. Zheng, R. Castelo, A. Frankish, J. Harrow, S. Ghosh, A. Sandelin, I.L. Hofacker, R. Baertsch, D. Keefe, S. Dike, J. Cheng, H.A. Hirsch, E.A. Sekinger, J. Lagarde, J.F. Abril, A. Shahab, C. Flamm, C. Fried, J. Hackermuller, J. Hertel, M. Lindemeyer, K. Missal, A. Tanzer, S. Washietl, J. Korbel, O. Emanuelsson, J.S. Pedersen, N. Holroyd, R. Taylor, D. Swarbreck, N. Matthews, M.C. Dickson, D.J. Thomas, M.T. Weirauch, J. Gilbert, et al., Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project, Nature 447 (2007) 799-816.
  • 11
    • 33644639611 scopus 로고    scopus 로고
    • Small open reading frames: not so small anymore
    • Sopko R., and Andrews B. Small open reading frames: not so small anymore. Genome Res. 16 (2006) 314-315
    • (2006) Genome Res. , vol.16 , pp. 314-315
    • Sopko, R.1    Andrews, B.2
  • 13
    • 34249021370 scopus 로고    scopus 로고
    • Peptides encoded by short ORFs control development and define a new eukaryotic gene family
    • Galindo M.I., Pueyo J.I., Fouix S., Bishop S.A., and Couso J.P. Peptides encoded by short ORFs control development and define a new eukaryotic gene family. PLoS Biol. 5 (2007) e106
    • (2007) PLoS Biol. , vol.5
    • Galindo, M.I.1    Pueyo, J.I.2    Fouix, S.3    Bishop, S.A.4    Couso, J.P.5
  • 15
    • 0034714532 scopus 로고    scopus 로고
    • Four years of post-genomic life with 6000 yeast genes
    • Goffeau A. Four years of post-genomic life with 6000 yeast genes. FEBS Lett. 480 (2000) 37-41
    • (2000) FEBS Lett. , vol.480 , pp. 37-41
    • Goffeau, A.1
  • 16
    • 0030856840 scopus 로고    scopus 로고
    • Analysis of the yeast genome: identification of new non-coding and small ORF-containing RNAs
    • Olivas W.M., Muhlrad D., and Parker R. Analysis of the yeast genome: identification of new non-coding and small ORF-containing RNAs. Nucl. Acids Res. 25 (1997) 4619-4625
    • (1997) Nucl. Acids Res. , vol.25 , pp. 4619-4625
    • Olivas, W.M.1    Muhlrad, D.2    Parker, R.3
  • 20
  • 22
    • 0025217034 scopus 로고
    • Alternative ribosomal initiation gives rise to chicken brain-type creatine kinase isoproteins with heterogeneous amino termini
    • Soldati T., Schafer B.W., and Perriard J.C. Alternative ribosomal initiation gives rise to chicken brain-type creatine kinase isoproteins with heterogeneous amino termini. J. Biol. Chem. 265 (1990) 4498-4506
    • (1990) J. Biol. Chem. , vol.265 , pp. 4498-4506
    • Soldati, T.1    Schafer, B.W.2    Perriard, J.C.3
  • 24
    • 12944269065 scopus 로고
    • Rapid identification of proteins by peptide-mass fingerprinting
    • Pappin D.J., Hojrup P., and Bleasby A.J. Rapid identification of proteins by peptide-mass fingerprinting. Curr. Biol. 3 (1993) 327-332
    • (1993) Curr. Biol. , vol.3 , pp. 327-332
    • Pappin, D.J.1    Hojrup, P.2    Bleasby, A.J.3
  • 25
    • 0025950944 scopus 로고
    • Searching protein sequence libraries: comparison of the sensitivity and selectivity of the Smith-Waterman and FASTA algorithms
    • Pearson W.R. Searching protein sequence libraries: comparison of the sensitivity and selectivity of the Smith-Waterman and FASTA algorithms. Genomics 11 (1991) 635-650
    • (1991) Genomics , vol.11 , pp. 635-650
    • Pearson, W.R.1
  • 26
    • 0036226603 scopus 로고    scopus 로고
    • BLAT-the BLAST-like alignment tool
    • Kent W.J. BLAT-the BLAST-like alignment tool. Genome Res. 12 (2002) 656-664
    • (2002) Genome Res. , vol.12 , pp. 656-664
    • Kent, W.J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.