메뉴 건너뛰기




Volumn 8, Issue , 2007, Pages

Modeling SAGE tag formation and its effects on data interpretation within a Bayesian framework

Author keywords

[No Author keywords available]

Indexed keywords

GENE EXPRESSION LEVELS; HIGH-THROUGHPUT METHOD; MARGINAL POSTERIOR DISTRIBUTION; MODEL BASED APPROACH; MRNA EXPRESSION LEVEL; POSTERIOR PROBABILITY; SERIAL ANALYSIS OF GENE EXPRESSIONS; YEAST SACCHAROMYCES CEREVISIAE;

EID: 38749113349     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-8-403     Document Type: Article
Times cited : (5)

References (24)
  • 1
    • 0028789793 scopus 로고
    • Serial Analysis of Gene Expression
    • 10.1126/science.270.5235.484 7570003
    • Velculescu VE Zhang L Vogelstein B Kinzler KW Serial Analysis of Gene Expression Science 1995, 270(5235):484-487. 10.1126/science.270.5235.484 7570003
    • (1995) Science , vol.270 , Issue.5235 , pp. 484-487
    • Velculescu, V.E.1    Zhang, L.2    Vogelstein, B.3    Kinzler, K.W.4
  • 2
    • 0036021408 scopus 로고    scopus 로고
    • General Statistics of Stochastic Process of Gene Expression in Eukaryotic Cells
    • 1462190 12136033
    • Kuznetsov VA Knott GD Bonner RF General Statistics of Stochastic Process of Gene Expression in Eukaryotic Cells Genetics 2002, 161(3):1321-1332. 1462190 12136033
    • (2002) Genetics , vol.161 , Issue.3 , pp. 1321-1332
    • Kuznetsov, V.A.1    Knott, G.D.2    Bonner, R.F.3
  • 4
    • 0348143189 scopus 로고    scopus 로고
    • Using credibility intervals instead of hypothesis tests in SAGE analysis
    • 10.1093/bioinformatics/btg357 14668232
    • Vencio RZN Brentani H Pereira CAB Using credibility intervals instead of hypothesis tests in SAGE analysis Bioinformatics 2003, 19:2461-2464. 10.1093/bioinformatics/btg357 14668232
    • (2003) Bioinformatics , vol.19 , pp. 2461-2464
    • Vencio, R.Z.N.1    Brentani, H.2    Pereira, C.A.B.3
  • 5
    • 0030823821 scopus 로고    scopus 로고
    • SAGE transcript profiles for p53-dependent growth regulation
    • 10.1038/sj.onc.1201091 9285562
    • Madden SL Galella EA Zhu J Bertelsen AH Beaudry GA SAGE transcript profiles for p53-dependent growth regulation Oncogene 1997, 15(9):1079-85. 10.1038/sj.onc.1201091 9285562
    • (1997) Oncogene , vol.15 , Issue.9 , pp. 1079-1085
    • Madden, S.L.1    Galella, E.A.2    Zhu, J.3    Bertelsen, A.H.4    Beaudry, G.A.5
  • 6
    • 0030681260 scopus 로고    scopus 로고
    • The significance of digital gene expression profiles
    • 9331369
    • Audic S Claverie JM The significance of digital gene expression profiles Genome Res 1997, 7(10):986-95. 9331369
    • (1997) Genome Res , vol.7 , Issue.10 , pp. 986-995
    • Audic, S.1    Claverie, J.M.2
  • 7
    • 0037340843 scopus 로고    scopus 로고
    • Can transcriptome size be estimated from SAGE catalogs?
    • 10.1093/bioinformatics/btg018 12611798
    • Stern MD Anisimov SV Boheler KR Can transcriptome size be estimated from SAGE catalogs? Bioinformatics 2003, 19(4):443-8. 10.1093/bioinformatics/ btg018 12611798
    • (2003) Bioinformatics , vol.19 , Issue.4 , pp. 443-448
    • Stern, M.D.1    Anisimov, S.V.2    Boheler, K.R.3
  • 8
    • 3142555412 scopus 로고    scopus 로고
    • Clustering analysis of SAGE data using a Poisson approach
    • 463327 15239836 10.1186/gb-2004-5-7-r51
    • Cai L Huang H Blackshaw S Liu J Cepko C Wong W Clustering analysis of SAGE data using a Poisson approach Genome Biology 2004, 5(7):R51. http://genomebiology.com/2004/5/7/R51 463327 15239836 10.1186/gb-2004-5-7-r51
    • (2004) Genome Biology , vol.5 , Issue.7
    • Cai, L.1    Huang, H.2    Blackshaw, S.3    Liu, J.4    Cepko, C.5    Wong, W.6
  • 10
    • 33745269780 scopus 로고    scopus 로고
    • Modeling Sage data with a truncated gamma-Poisson model
    • 1479844 16549008 10.1186/1471-2105-7-157
    • Thygesen HH Zwinderman AH Modeling Sage data with a truncated gamma-Poisson model BMC Bioinformatics 2006, 7:157. 1479844 16549008 10.1186/1471-2105-7-157
    • (2006) BMC Bioinformatics , vol.7 , pp. 157
    • Thygesen, H.H.1    Zwinderman, A.H.2
  • 11
    • 0042334741 scopus 로고    scopus 로고
    • Bayesian shrinkage estimation of the relative abundance of mRNA transcripts using SAGE
    • 10.1111/1541-0420.00057 14601748
    • Morris JS Baggerly KA Coombes KR Bayesian shrinkage estimation of the relative abundance of mRNA transcripts using SAGE Biometrics 2003, 59:476-486. 10.1111/1541-0420.00057 14601748
    • (2003) Biometrics , vol.59 , pp. 476-486
    • Morris, J.S.1    Baggerly, K.A.2    Coombes, K.R.3
  • 12
    • 0043009767 scopus 로고    scopus 로고
    • Differential expression in SAGE: Accounting for normal between-library variation
    • 10.1093/bioinformatics/btg173
    • Baggerly KA Deng L Morris JS Aldaz CM Differential expression in SAGE: accounting for normal between-library variation Bioinform 2003, 19:1477-1483. 10.1093/bioinformatics/btg173
    • (2003) Bioinform , vol.19 , pp. 1477-1483
    • Baggerly, K.A.1    Deng, L.2    Morris, J.S.3    Aldaz, C.M.4
  • 13
    • 13244287798 scopus 로고    scopus 로고
    • Bayesian model accounting for within-class biological variability in Serial Analysis of Gene Expression (SAGE)
    • 517707 15339345
    • Vencio RZN Brentani H Patrao DFC Pereira CAB Bayesian model accounting for within-class biological variability in Serial Analysis of Gene Expression (SAGE) BMC Bioinformatics 2004, 5:. 517707 15339345
    • (2004) BMC Bioinformatics , vol.5
    • Vencio, R.Z.N.1    Brentani, H.2    Patrao, D.F.C.3    Pereira, C.A.B.4
  • 14
    • 0034800372 scopus 로고    scopus 로고
    • Detecting the impact of sequencing errors on SAGE data
    • 10.1093/bioinformatics/17.9.840 11590101
    • Colinge J Feger G Detecting the impact of sequencing errors on SAGE data Bioinformatics 2001, 17:840-842. 10.1093/bioinformatics/17.9.840 11590101
    • (2001) Bioinformatics , vol.17 , pp. 840-842
    • Colinge, J.1    Feger, G.2
  • 15
    • 3042641339 scopus 로고    scopus 로고
    • Correction of sequence-based artifacts in serial analysis of gene expression
    • 10.1093/bioinformatics/bth077 14871862
    • Akmaev VR Wang CJ Correction of sequence-based artifacts in serial analysis of gene expression Bioinformatics 2004, 20:1254-1263. 10.1093/ bioinformatics/bth077 14871862
    • (2004) Bioinformatics , vol.20 , pp. 1254-1263
    • Akmaev, V.R.1    Wang, C.J.2
  • 17
    • 10944232800 scopus 로고    scopus 로고
    • Post-transcriptional Expression Regulation in the Yeast Saccharomyces cerevisiae on a Genomic Scale
    • 10.1074/mcp.M400099-MCP200 15326222
    • Beyer A Hollunder J Nasheuer HP Wilhelm T Post-transcriptional Expression Regulation in the Yeast Saccharomyces cerevisiae on a Genomic Scale Mol Cell Proteomics 2004, 3(11):1083-1092. http://www.mcponline.org/cgi/content/abstract/3/11/1083 10.1074/mcp.M400099-MCP200 15326222
    • (2004) Mol Cell Proteomics , vol.3 , Issue.11 , pp. 1083-1092
    • Beyer, A.1    Hollunder, J.2    Nasheuer, H.P.3    Wilhelm, T.4
  • 18
    • 23644460630 scopus 로고    scopus 로고
    • Tag-based approaches for transcriptome research and genome annotation
    • 10.1038/nmeth768 15973418
    • Harbers M Carninci P Tag-based approaches for transcriptome research and genome annotation Nat Methods 2005, 2(7):495-502. 10.1038/nmeth768 15973418
    • (2005) Nat Methods , vol.2 , Issue.7 , pp. 495-502
    • Harbers, M.1    Carninci, P.2
  • 22
    • 0004062749 scopus 로고    scopus 로고
    • Wolfram Research Inc Champaign, IL: Wolfram Research Inc., version 5.2 edition
    • Wolfram Research Inc Mathematica Champaign, IL: Wolfram Research Inc., version 5.2 edition 2005.
    • (2005) Mathematica
  • 23
    • 84874666156 scopus 로고    scopus 로고
    • Improved Estimates of the Relative Abundance of mRNA using SAGE, a Gibbs Sampling Approach
    • submitted 17900319
    • Zaretzki R Gilchrist MA Briggs WM Armagan A Improved Estimates of the Relative Abundance of mRNA using SAGE, a Gibbs Sampling Approach Biometrics. submitted 17900319
    • Biometrics
    • Zaretzki, R.1    Gilchrist, M.A.2    Briggs, W.M.3    Armagan, A.4
  • 24
    • 1442329652 scopus 로고    scopus 로고
    • Genome-wide analysis of mRNA lengths in Saccharomyces cerevisiae
    • 395734 14709174 10.1186/gb-2003-5-1-r2
    • Hurowitz EH Brown PO Genome-wide analysis of mRNA lengths in Saccharomyces cerevisiae Genome Biol 2003, 5(1):R2. 395734 14709174 10.1186/gb-2003-5-1-r2
    • (2003) Genome Biol , vol.5 , Issue.1
    • Hurowitz, E.H.1    Brown, P.O.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.