Using credibility intervals instead of hypothesis tests in SAGE analysis

Bioinformatics

Volumn 19, Issue 18, 2003, Pages 2461-2464

  Vêncio, Ricardo Z N ^a   Brentani, Helena ^b,c   Pereira, Carlos A B ^a  

^a UNIVERSITY OF SÃO PAULO   (Brazil)

^b A C CAMARGO CANCER CENTER   (Brazil)

^c LUDWIG INSTITUTE FOR CANCER RESEARCH   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; ARTICLE; BAYES THEOREM; COMPUTER LANGUAGE; CONTROLLED STUDY; GENE EXPRESSION; HYPOTHESIS; INTERMETHOD COMPARISON; INTERNET; PRIORITY JOURNAL; SERIAL ANALYSIS OF GENE EXPRESSION; STATISTICAL ANALYSIS; STATISTICAL MODEL;

SALVIA;

EID: 0348143189     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btg357     Document Type: Article

References (13)

1. Boon,K., Osório,E.C., Greenhut,S.F., Schaefer,C.F., Shoemaker,J., Polyak,K., Morin,P.J., Buetow,K.H., Strausberg,R.L., Souza,S.J. and Riggins,G.J. (2002) An anatomy of normal and malignant gene expression. Proc. Natl Acad. Sci. USA, 99, 11287-11292.
2. Colinge,J. and Feger,G. (2001) Detecting the impact of sequencing errors on SAGE data. Bioinformatics, 17, 840-842.
3. Basu,D. and Ghosh,I. (1988) Statistical information and likelihood: a collection of critical essays by Dr. Basu. Lecture Notes in Statistics 45. Springer-Verlag, New York.
4. Kuznetsov,V.A., Knott,G.D. and Bonner,R.F. (2002) General statistics of stochastic process of gene expression in eukaryotic cells. Genetics, 161, 1321-1332.
5. Lal,A., Lash,A.E., Altschul,S.F., Velculescu,V.E., Zhang,L., McLendon,R.E., Marra,M.A., Prange,C., Morin,P.J., Polyak,K. et al. (1999) A public database for gene expression in human cancers. Cancer Res., 59, 5403-5407.
6. Man,M.Z., Wang,X. and Wang,Y. (2000) POWERGE: comparing statistical tests for SAGE experiments. Bioinfomatics, 16, 953-959.
7. Margulies,E.H., Kardia,S.L. and Innis,J.W. (2001) Identification and prevention of a GC content bias in SAGE libraries. Nucleic Acids Res., 29, e60.
8. Nadon,R. and Shoemaker,J. (2002) Statistical issues with microarrays: processing and analysis. Trends Genet., 18, 265-271.
9. Pereira,C.A. and Stern,J. (1999) Evidence and credibility: a full Bayesian test of precise hypothesis. Entropy, 1, 104-115.
10. Ruijter,J.M., Kampen,A.H.C. and Baas,F. (2002) Statistical evaluation of SAGE libraries: consequences for experimental design. Physiol. Genomics, 11, 37-44.
11. Stollberg,J., Urschitz,J., Urban,Z. and Boyd,C.D. (2000) A quantitative evaluation of SAGE. Genome Res., 10, 1241-1248.
12. Stern,M.D., Anisimov,S.V. and Boheler,K.R. (2003) Can transcriptome size be estimated from SAGE catalogs?. Bioinformatics, 19, 443-448.
13. Velculescu,V.E., Zhang,L., Vogelstein,B. and Kinzler,K.W. (1995) Serial analysis of gene expression. Science, 270, 484-487.