(8) Bioconductor: An Open Source Framework for Bioinformatics and Computational Biology
作者： Mark Reimers , Vincent J. Carey
DOI: 10.1016/S0076-6879(06)11008-3
关键词:
摘要: This chapter describes the Bioconductor project and details of its open source facilities for analysis microarray other high‐throughput biological experiments. Particular attention is paid to concepts container workflow design, connections metadata statistical products, support quality assessment, calibration inference uncertainty measures when tens thousands simultaneous tests are performed.
sci-hub.se 参考文章(12)
Mohammad Shojatalab, Alvis Brazma, Misha Kapushesky, Helen Parkinson, Ugis Sarkans, Data storage and analysis in ArrayExpress. Methods in Enzymology. ,vol. 411, pp. 370- 386 ,(2006) , 10.1016/S0076-6879(06)11020-4
Alvis Brazma, Pascal Hingamp, John Quackenbush, Gavin Sherlock, Paul Spellman, Chris Stoeckert, John Aach, Wilhelm Ansorge, Catherine A. Ball, Helen C. Causton, Terry Gaasterland, Patrick Glenisson, Frank C.P. Holstege, Irene F. Kim, Victor Markowitz, John C. Matese, Helen Parkinson, Alan Robinson, Ugis Sarkans, Steffen Schulze-Kremer, Jason Stewart, Ronald Taylor, Jaak Vilo, Martin Vingron, Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nature Genetics. ,vol. 29, pp. 365- 371 ,(2001) , 10.1038/NG1201-365
Carl Troein, Johan Vallon‐Christersson, Lao H. Saal, An introduction to BioArray Software Environment. Methods in Enzymology. ,vol. 411, pp. 99- 119 ,(2006) , 10.1016/S0076-6879(06)11007-1
Ross Ihaka, Robert Gentleman, R: A Language for Data Analysis and Graphics Journal of Computational and Graphical Statistics. ,vol. 5, pp. 299- 314 ,(1996) , 10.1080/10618600.1996.10474713
Douglas M. Bates, Programming with Data: A Guide to the S Language Technometrics. ,vol. 41, pp. 266- 267 ,(1998) , 10.1080/00401706.1999.10485682
Li Zhang, Michael F Miles, Kenneth D Aldape, A model of molecular interactions on short oligonucleotide microarrays Nature Biotechnology. ,vol. 21, pp. 818- 821 ,(2003) , 10.1038/NBT836
Dennise D. Dalma‐Weiszhausz, Janet Warrington, Eugene Y. Tanimoto, C. Garrett Miyada, The affymetrix GeneChip platform: an overview. Methods in Enzymology. ,vol. 410, pp. 3- 28 ,(2006) , 10.1016/S0076-6879(06)10001-4
T. R. Golub, D. K. Slonim, P. Tamayo, C. Huard, M. Gaasenbeek, J. P. Mesirov, H. Coller, M. L. Loh, J. R. Downing, M. A. Caligiuri, C. D. Bloomfield, E. S. Lander, Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science. ,vol. 286, pp. 531- 537 ,(1999) , 10.1126/SCIENCE.286.5439.531
Yoav Benjamini, Yosef Hochberg, Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing Journal of the Royal Statistical Society: Series B (Methodological). ,vol. 57, pp. 289- 300 ,(1995) , 10.1111/J.2517-6161.1995.TB02031.X
V. G. Tusher, R. Tibshirani, G. Chu, Significance analysis of microarrays applied to the ionizing radiation response Proceedings of the National Academy of Sciences of the United States of America. ,vol. 98, pp. 5116- 5121 ,(2001) , 10.1073/PNAS.091062498