Bibliography on
Microarray Data Analysis

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© Copyright, 1999-2010 Wentian Li
of North Shore LIJ Research Institute

http://www.nslij-genetics.org/microarray/
2003

  1. Tero Aittokallio, Markus Kurki, Olli Nevalainen, Tuomas Nikula, Anne West and Riitta Lahesmaa (2003), "Computational strategies for analyzing data in gene expression microarray experiments", Journal of Bioinformatics and Computational Biology, 1(3):541-586.
    [abstract]

  2. A Albrecht, SA Vinterbo, L Ohno-Machado (2003), "An Epicurean learning approach to gene-expression data classification", Artificial Intelligence in Medicine, 28(1):75-87.

  3. O Alter, PO Brown, D Botstein (2003), "Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms", Proceedings of the National Academy of Sciences, 100(6):3351-3356.
    [abstract]

  4. database
    Ramswamy Anbazhagan (2003), "Microarray data assembler", Bioinformatics, 19:157-158.
    [abstract]

  5. Pascale Anderle, Manuel Duval, Sorin Draghici, Alexander Kuklin, Timothy G Littlejohn, Juan F Medrano, David Vilanova, Matthew Alan Roberts (2003), "Gene expression databases and data mining", Biotechniques, 34(suppl):S36-S44.

  6. Jesus Angulo, Jean Serra (2003), "Automatic analysis of DNA microarray images using mathematical morphology", Bioinformatics, 19:553-562.
    [abstract]

  7. AA Antipova, P Tamayo, TR Golub (2003), "A strategy for oligonucleotide microarray probe reduction", Genome Biology, 2(12):research0073.

  8. A Antoniadis, S Lambert-Lacroix, F Leblanc (2003), "Effective dimension reduction methods for tumor classification using gene expression data", Bioinformatics , 19:563-570.
    [abstract] [PDF] [ webpage from the authors: www-lmc.imag.fr/SMS/software/microarrays/]

  9. database
    Gary L Argraves, Jeremy L Barth, W Scott Argraves (2003), "The MUSC DNA Microarray Database", Bioinformatics , 19:2473-2474.
    [abstract]

  10. affymetrix
    M Astrand (2003), "Contrast normalization of oligonucleotide arrays", Journal of Computational Biology, 10(1):95-102.
    [abstract]

  11. H Auer, S Lyianarachchi, D Newsom, M I Klisovic, u Marcucci, K Kornacker (2003), "Chipping away at the chip bias: RNA degradation in microarray analysis" (correspondence), Nature Genetics, 35(4)"292-293.
    [ supplement information from the publisher]]
    [ supplement materials from the authors]

  12. Francisco Azuaje (2003), "Discovering genomic expression patterns with self-organizing neural networks " in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp. 261-273.

  13. F Azuaje (2003), "Clustering-based approaches to discovering and visualising microarray data patterns", Briefings in Bioinformatics, 4(1):31-42.

  14. Francisco Azuaje, Nadia Bolshakova (2003), "Clustering genomic expression data: design and evaluation principles", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.230-245.

  15. AM Bagirov, B Ferguson, S Ivkovic, G Saunders, J Yearwood (2003), "New algorithms for multi-class cancer diagnosis using tumor gene expression signatures", Bioinformatics, 19:1800-1807.
    [abstract]

  16. Gabor Balazsi, Krin A Kay, Albert-Laszlo Barabasi, Zoltan N Oltvai (2003), "Spurious spatial periodicity of co-expression in microarray data due to printing design", Nucleic Acids Research, 31(15):4425-4433.

  17. Ziv Bar-Joseph, Erik D Demaine, David K Gifford, Nathan Srebro, Angele M Hamel, Tommi S Jaakkola(2003), "K-ary clustering with optimal leaf ordering for gene expression data", Bioinformatics , 19:1070-1078.
    [abstract]

  18. A Barczak, MW Rodriguez, K Hanspers, LL Koth, YC Tai, BM Bolstad, TP Speed, DJ Erle (2003), "Spotted long oligonucleotide arrays for human gene expression analysis", Genome Research, 13(7):1775-1785.
    [abstract]

  19. Asa Ben-Hur, Isabelle Guyon (2003), "Detecting stable clusters using principal component analysis", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein and AB Khodursky (Methods in Molecular Biology Series, Vol 224) (Humana Press), pp.159-182.

  20. Sven Bergmann, Jan Ihmels, Naama Barkai (2003), "Iterative signature algorithm for the analysis of large-scale gene expression data", Physical Review E, 67(3):031902.

  21. DP Berrar, CS Downes, W Dubitzky (2003), "Multiclass cancer classification using gene expression profiling and probabilistic neural networks", Biocomputing 2003: Proceedings of the Pacific Symposium , 8:5-16.

  22. C Bhattacharya, LR Grate, A Rizki, D Radisky, FJ Molina, MI Jordan, MJ Bissell, IS Mian (2003), "Simultaneous classification and relevant feature identification in high-dimensional spaces: application to molecular profiling data", Signal Processing, 83(4):729-743.
    [abstract]

  23. Soumyaroop Bhattacharya, Dang Long, James Lyons-Weiler (2003), "Overcoming confounded controls in the analysis of gene expression data from microarray experiments", Applied Bioinformatics, 2(4):197-208.
    [abstract]

  24. S Bicciato, A Luchini, C Di Bello (2003), "PCA disjoint models for multiclass cancer analysis using gene expression data", Bioinformatics, 19:571-578.
    [abstract]

  25. David R Bickel (2003), "Robust cluster analysis of microarray gene expression data with the number of clusters determined biologically", Bioinformatics, 19:818-824.
    [abstract]

  26. Rahul Bijlani, Yinhe Cheng, David A Pearce, Andrew I Brooks, Mitsunori Ogihara (2003), "Prediction of biologically significant components from microarray data: Independently Consistent Expression Discriminator (ICED)", Bioinformatics, 19:62-70.
    [abstract]

  27. S Bilke, T Breslin, M Sigvardssorf (2003), "Probabilistic estimation of microarray data reliability and underlying gene expression", BMC Bioinformatics, 4:40
    [html]

  28. Seth Blackshaw, Winston P Kuo, Peter J Park, Motokazu Tsujikawa, Jenny M Gunnersen, Hamish S Scott, Wee-Ming Boon, Seong-Seng Tan, Constance L Cepko (2003), "MicroSAGE is highly representative and reproducible but reveals major differences in gene expression among samples obtained from similar tissues", Genome Biology, 4(3):R17.

  29. Eric Bair, Robert Tibshirani (2003), "Machine learning methods applied to DNA microarray data can improve the diagnosis of cancer", SIGKDD Explorations, 5(2):48-55.
    [abstract] [PDF]

  30. Karen M Bloch, Gonzalo R Arce (2003), "Median correlation for the analysis of gene expression data", Signal Processing, 83(4):811-823.
    [abstract]

  31. affymetrix
    BM Bolstad, RA Irizarry, M Åstrand, TP Speed (2003), "A comparison of normalization methods for high density oligonucleotide array data based on variance and bias", Bioinformatics, 19:185-193.
    [abstract]

  32. N Bolshakova, F Azuaje (2003), "Cluster validation techniques for genome expression data", Signal Processing, 83(4):825-833.
    [abstract]

  33. N Bolshakova, F Azuaje (2003), "Machaon CVE: cluster validation for gene expression data", Bioinformatics, 19(18):2494-2495.
    [abstract]

  34. Anne-Laure Boulesteix, Gerhard Tutz, Korbinian Strimmer (2003), "A CART-based approach to discover emerging patterns in microarray data", Bioinformatics, 19:2465-2472.
    [abstract]

  35. database
    Alvis Brazma, Helen Parkinson, Ugis Sarkans, Mohammadreza Shojatalab, Jaak Vilo, Niran Abeygunawardena, Ele Holloway, Misha Kapushesky, Patrick Kemmeren, Gonzalo Garcia Lara, Ahmet Oezcimen, Philippe Rocca-Serra, and Susanna-Assunta Sansone (2003), "ArrayExpress - a public repository for microarray gene expression data at the EBI", Nucleic Acids Research, 31:68-71.

  36. Per Broberg (2003), "Statistical methods for ranking differentially expressed genes", Genome Biology, 4:R41.
    [PDF]

  37. Marcel Brun, David Sabbagh, Seungchan Kim, Edward R Dougherty (2003), "Corrected small-sample estimation of the Bayes error", Bioinformatics, 19:944-951.
    [abstract]

  38. Efstathia Bura, Ruth M Pfeiffer (2003), "Graphical methods for class prediction using dimension reduction techniques on DNA microarray data", Bioinformatics, 19:1252-1258.
    [abstract]

  39. Colin Campbell (2003), "New analytical techniques for the interpretation of microarray data" (editorial), Bioinformatics, 19:1045.

  40. JH Chang, SW Chi, BT Zhang (2003), "Gene expression pattern analysis via latent variable models coupled with topographic clustering", Genomics & Informatics, 1(1):32-39.

  41. affymetrix
    Chris Cheadle, Yoon S Cho-Chung, Kevin G Becker, Marquis P Vawter (2003), "Application of z-score transformation to Affymetrix® data", Applied Bioinformatics, 2(4):209-217.
    [abstract]

  42. Zhijian J Chen, Laurent Gaté, Warren Davis, Kristina E Ile, Kenneth D Te (2003), "Sensitivity and fidelity of DNA microarray improved with integration of Amplified Differential Gene Expression (ADGE)", BMC Genomics, 4:28.

  43. DY Chiang, AM Moses, M Kamvysselis, ES Lander (2003), "Phylogenetically and spatially conserved word pairs associated with gene expression changes in yeasts", Proceedings of the Seventh International Conference on Research in Computational Molecular Biology , pp. 84-93.

  44. JH Cho, D Lee, JY Park, IB Lee (2003), "New gene selection method for classification of cancer subtypes considering within-class variation", FEBS Letters, 551(1-3):3-7.

  45. Sung-Bae Cho, Hong-Hee Won (2003), "Machine learning in DNA microarray analysis for cancer classification", Proceedings of the First Asia-Pacific bioinformatics conference on Bioinformatics (Australian Computer Society Inc.), pp.189-188.

  46. Jung Kyoon Choi, Ung Sik Yu, Sangsoo Kim, Ook Joon Yoo (2003), "Combining multiple microarray studies and modeling interstudy variation", Bioinformatics, 19 (suppl 1):i84-i90.
    [abstract]

  47. Tianjiao Chu, Clark Glymour, Richard Scheines, Peter Spirtes (2003), "A statistical problem for inference to regulatory structure from associations of gene expression measurements with microarrays", Bioinformatics, 19:1147-1152.
    [abstract]

  48. Steve W Cole, Zoran Galic, Jerome A Zack (2003), "Controlling false-negative errors in microarray differential expression analysis: a PRIM approach", Bioinformatics, 19:1808-1816.
    [abstract]

  49. Chad Creighton, Samir Hanash (2003), "Mining gene expression databases for association rules", Bioinformatics, 19:79-86.
    [abstract]

  50. Xiangqin Cui, Gary A Churchill (2003), "Statistical tests for differential expression in cDNA microarray experiments", Genome Biology, 4(4):210.

  51. Xiangqin Cui, M Kathleen Kerr, Gary A Churchill (2003), "Transformations for cDNA microarray data", Statistical Applications in Genetics and Molecular Biology, 2(1):4.

  52. AC Culhane, G Perriere, DG Higgins (2003), "Cross-platform comparison and visualisation of gene expression data using co-inertia analysis", BMC Bioinformatics, 4(1):59.

  53. Marla D Curran, Hong Liu, Fan Long, Nanxiang Ge (2003), "Statistical methods for joint data mining of gene expression and DNA sequence database", SIGKDD Explorations, 5(2):122-129.
    [abstract] [PDF]

  54. protein
    P Cutler (2003), "Protein arrays: The current state-of-the-art", Proteomics. 3(1):3-18.

  55. review
    Susmita Datta (2003), "Statistical techniques for microarray data: a partial overview", Communications in Statistics - Theory and Methods, 32:263-280.

  56. Susmita Datta, Somnath Datta (2003), "Comparisons and validation of statistical clustering techniques for microarray gene expression data", Bioinformatics, 19:459-466.
    [abstract] [PDF] [ supplement materials from the authors: http://www.mathstat.gsu.edu/~matsnd/clustering/supp.htm ]

  57. WPH de Boer, JJ Oudejans, CJLM Meijer, J Lankelma (2003), "Analysing gene expressions with GRANK", Bioinformatics, 19:2000-2001.
    [abstract]

  58. networks
    MJL de Hoon, S Imoto, K Kobayashi, N Ogasawara, S Miyano (2003), "Inferring gene regulatory networks from time-ordered gene expression data of Bacillus Subtilis using differential equations", Biocomputing 2003: Proceedings of the Pacific Symposium , 8:17-28.

  59. Werner Dubitzky, Martin Granzow, C Stephen Downes, Daniel Berrar (2003), "Introduction to microarray data analysis", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.1-46.

  60. database
    Jorge Garcia de la Nava, Sacha van Hijum, and Oswaldo Trelles (2003), "PreP: gene expression data pre-processing", Bioinformatics, 19:2328-2329.
    [abstract]

  61. Jorge Garcia De La Nava, Daniel Franco Santaella, Jesus Cuenca Alba, Jose Maria Carazo, Oswaldo Trelles, Alberto Pascual-Montano (2003), "Engene: the processing and exploratory analysis of gene expression data", Bioinformatics, 19:657-658.
    [abstract]

  62. Doulaye Dembele, Philippe Kastner (2003), "Fuzzy C-means method for clustering microarray data", Bioinformatics, 19:973-980.
    [abstract]

  63. Marcel Dettling, Peter Buhlmann (2003), "Boosting for tumor classification with gene expression data", Bioinformatics, 19:1061-1069.
    [abstract]

  64. JM Deutsch (2003), "Evolutionary algorithms for finding optimal gene sets in microarray prediction", Bioinformatics, 19:45-52.
    [abstract]

  65. database
    Maximilian Diehn, Gavin Sherlock, Gail Binkley, Heng Jin, John C Matese, Tina Hernandez-Boussard, Christian A Rees, J Michael Cherry, David Botstein, Patrick O Brown, Ash A Alizadeh (2003), "SOURCE: a unified genomic resource of functional annotations, ontologies, and gene expression data", Nucleic Acids Research, 31:219-223.

  66. CHQ Ding (2003), "Unsupervised feature selection via two-way ordering in gene expression analysis", Bioinformatics, 19:1259-1266.

    [abstract] [ supplement materials from the author: www.nersc.gov/~cding/2way/]

  67. K Dobbin, JH Shih, R Simon (2003), "Statistical design of reverse dye microarrays", Bioinformatics, 19:803-810.
    [abstract]

  68. Igor Dozmorov, Michael Centola (2003), "An associative analysis of gene expression array data", Bioinformatics, 19:204-211.
    [abstract]

  69. Sorin Draghici, Purvesh Khatri, Rui P Martins, G Charles Ostermeier, Stephen A Krawetz (2003), "Global functional profiling of gene expression", Genomics, 81(2):98-104.
    [PDF]

  70. database
    Sorin Draghici, Purvesh Khatri, Abhik Shah, Michael A Tainsky (2003), "Assessing the functional bias of commercial microarrays using the onto-compare database", Biotechniques, 34(suppl):S55-S61.

  71. Sorin Draghici, Olga Kulaeva, Bruce Hoff, Anton Petrov, Soheil Shams, Michael A Tainsky (2003), "Noise sampling method: an ANOVA approach allowing robust selection of differentially regulated genes measured by DNA microarrays", Bioinformatics, 19:1348-1359.
    [abstract]

  72. Sorin Draghici, Stephen A Krawetz (2003), "Global functional profiling of gene expression data" in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.306-325.

  73. Alexei L. Drobyshev, Martin Hrabe de Angelis, Johannes Beckers (2003), "Artefacts and reliability of DNA microarray expression profiling data", Current Genomics, 4(7):615-621.

  74. Ron O Dror, Jonathan G Murnick, Nicola J Rinaldi, Voichita D Marinescu, Ryan M. Rifkin, Richard A Young (2003), "Bayesian estimation of transcript levels using a general model of array measurement noise", Journal of Computational Biology, 10(3/4):433-452.
    [abstract]

  75. Sandrine Dudoit, Jane Fridlyand (2003), "Bagging to improve the accuracy of a clustering procedure", Bioinformatics, 19:1090-1099.
    [abstract]

  76. review
    S Dudoit, RC Gentleman, J Quackenbush (2003), "Open source tools for microarray analysis", Biotechniques, 34(suppl):S45-S51.

  77. S Dudoit, JP Shaffer, JC Boldrick (2003), "Multiple hypothesis testing in microarray experiments", Statistical Science, 18(1):71-103.

  78. Sandrine Dudoit, Mark van der Laan, Sündüz Keles, Annette M. Molinaro, Sandra E. Sinisi, Siew Leng Teng (2003), "Loss-based estimation with cross-validation: applications to microarray data analysis", SIGKDD Explorations, 5(2):56-68.
    [abstract] [PDF]

  79. Sandrine Dudoit, YH Yang (2003), "Bioconductor R packages for exploratory analysis and normalization of cDNA microarray data", in The Analysis of Gene Expression Data: Methods and Software, eds. G Parmigiani, ES Garrett, RA Irizarry and SL Zeger (Springer), pp.?-?.

  80. Blythe Durbin, David M Rocke (2003), "Estimation of transformation parameters for microarray data", Bioinformatics, 19:1360-1367.
    [abstract]

  81. David Edwards (2003), "Non-linear normalization and background correction in one-channel cDNA microarray studies", Bioinformatics, 19:825-833.
    [abstract]

  82. database
    Gabriel S Eichler, Sui Huang, Donald E Ingber (2003), "Gene Expression Dynamics Inspector (GEDI): for integrative analysis of expression profiles", Bioinformatics, 19:2321-2322.
    [abstract]

  83. Kristof Engelen, Bert Coessens, Kathleen Marchal, Bart De Moor (2003), "MARAN: normalizing micro-array data", Bioinformatics, 19:893-894.
    [abstract]

  84. D Faller, HU Voss, J Timmer, U Hobohm (2003), "Normalization of DNA-microarray data by nonlinear correlation maximization", Journal of Computational Biology, 10(5):751-762.
    [abstract]

  85. Paul Fawcett (2003), "A primer on the visualization of microarray data", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein and AB Khodursky (Methods in Molecular Biology Series, Vol 224) (Humana Press), pp.183-218.

  86. J Lynn Fink, Scott Drewes, Hiren Patel, John B Welsh, Daniel R Masys, Jacques Corbeil, Michael Gribskov (2003), "2HAPI: a microarray data analysis system", Bioinformatics, 19:1443-1445.
    [abstract]

  87. Benny YM Fung, Vincent TY Ng (2003), "Classification of heterogeneous gene expression data", SIGKDD Explorations, 5(2):69-78.
    [abstract] [PDF]

  88. C Furlanello, M Serafini, S Merler, G Jurman (2003), "Entropy-based gene ranking without selection bias for the predictive classification of microarray data", BMC Bioinformatics, 4:54.

  89. C Furlanello, M Serafini, S Merler, G Jurman (2003), "An accelerated procedure for recursive feature ranking on microarray data", Neural Networks, 16(5-6):641-648.
    [abstract]

  90. Chikara Furusawa, Kunihiko Kaneko (2003) "Zipf's law in gene expression", Physical Review Letters, 90:088102.
    [abstract]
    or, arXiv e-print physics/0209103
    [abstract]

  91. Vitaly L Galinsky (2003), "Automatic registration of microarray images. I. Rectangular grid", Bioinformatics, 19:1824-1831.
    [abstract]

  92. Vitaly L Galinsky (2003), "Automatic registration of microarray images. II. Hexagonal grid", Bioinformatics, 19:1832-1836.
    [abstract]

  93. Yongchao Ge, Sandrine Dudoit, Terence P Speed (2003), "Resampling-based multiple testing for microarray data analysis", Sociedad de Estadistica e Investigacion Operativa Test, 12(1):1-77.
    [PDF]

  94. affymetrix
    Sue C Geller, Jeff P Gregg, Paul Hagerman, David M Rocke (2003), "Transformation and normalization of oligonucleotide microarray data", Bioinformatics, 19:1817-1823.
    [abstract]

  95. G Dennis Jr., BT Sherman, DA Hosack, J Yang, W Gao, HC Lane, RA Lempicki (2003), "DAVID: Database for Annotation, Visualization, and Integrated Discovery", Genome Biology, 4(5):P3.

  96. Gad Getz, Hilah Gal, Itai Kela, Daniel A Notterman, Eytan Domany (2003), "Coupled two-way clustering analysis of breast cancer and colon cancer gene expression data", Bioinformatics, 19:1079-1089.
    [abstract]

  97. Greg Gibson (2003), "Microarray analysis: genome-scale hypothesis scanning" (primer), PLoS Biology, 1(1):28-29.
    [PDF]

  98. Peter J Giles, David Kipling (2003), "Normality of oligonucleotide microarray data and implications for parametric statistical analyses", Bioinformatics, 19:2254-2262.
    [abstract]

  99. CA Glasbey, P Ghazal (2003), "Combinatorial image analysis of DNA microarray features", Bioinformatics, 19:194-203.
    [abstract]

  100. Patrick Glenisson, Janick Mathys, Bart De Moor (2003), "Meta-clustering of gene expression data and literature-based information", SIGKDD Explorations, 5(2):101-112.
    [abstract] [PDF]

  101. review
    Todd Golub (2003), "Cancer analysis on arrays", Annual Review of Genomics and Human Genetics, 4:?-?.

  102. database
    Jeremy Gollub, Catherine A Ball, Gail Binkley, Janos Demeter, David B Finkelstein, Joan M Hebert, Tina Hernandez-Boussard, Heng Jin, Miroslava Kaloper, John C Matese, Mark Schroeder, Patrick O Brown, David Botstein, Gavin Sherlock (2003), "The Stanford Microarray Database: data access and quality assessment tools", Nucleic Acids Research, 31:94-96.

  103. GJ Gordon, RV Jensen, LL Hsiao, SR Gullans, JE Blumenstock, WG Richards, MT Jaklitsch, DJ Sugarbaker, R Bueno (2003), "Using gene expression ratios to predict outcome among patients with mesothelioma", Journal of National Cancer Institute, 95(8):598-605.

  104. GJ Gordon, WG Richards, DJ Sugarbaker, MT Jaklitsch, R Bueno (2003), "A prognostic test for adenocarcinoma of the lung from gene expression profiling data", Cancer Epidemiology Biomarkers & Prevention, 12(9):905-910.
    [abstract]

  105. Raphael Gottardo, James A. Pannucci, Cheryl R. Kuske, Thomas Brettin (2003), "Statistical analysis of microarray data: a Bayesian approach", Biostatistics, 4:597-620.

  106. A Grewal, J Stockton, C Bolger (2003), "Tools for discovery: gene expression enterprise solutions", Current Opinion in Drug Discovery & Development, 6(3):333-338.

  107. SK Gruvberger, M Ringner, P Eden, A Borg, M Ferno, C Peterson, PS Meltzer (2003), "Expression profiling to predict outcome in breast cancer: the influence of sample selection", Breast Cancer Research, 5:23-26.

  108. database
    Alessandro Guffanti, Giacomo Finocchiaro, James F Reid, Lucilla Luzi, Myriam Alcalay, Stefano Confalonieri, Lelio Lassandro, Heiko Muller (2003), "Automated DNA chip annotation tables at IFOM: the importance of synchronisation and cross-referencing of sequence databases", Applied Bioinformatics, 2(4):245-249.
    [abstract]

  109. Xu Guo, Huilin Qi, Catherine M Verfaillie, Wei Pan (2003), "Statistical significance analysis of longitudinal gene expression data", Bioinformatics, 19:1628-1635.
    [abstract]

  110. Vineet Gupta, Alex Cherkassky, Pamela Chatis, Richard Joseph, Andrew L Johnson, Jeffrey Broadbent, Tom Erickson, James DiMeo (2003), "Directly labeled mRNA produces highly precise and unbiased differential gene expression data" Nucleic Acids Research, 31(4):e13.

  111. Blaise Hanczar, Melanie Courtine, Arriel Benis, Corneliu Hennegar, Karine Clement, Jean-Daniel Zucker (2003), "Improving classification of microarray data using prototype-based feature selection", SIGKDD Explorations, 5(2):23-30.
    [abstract] [PDF]

  112. Ronaldo F Hashimotoa, Edward R Dougherty, Marcel Brun, Zheng-Zheng Zhou, Michael L Bittner, Jeffrey M Trent (2003), "Efficient selection of feature sets possessing high coefficients of determination based on incremental determinations", Signal Processing, 83(4):695-697.
    [abstract]

  113. GW Hatfield, SP Hung, P Baldi (2003), "Differential analysis of DNA microarray gene expression data", Mol Microbiology, 47(4):871-877.

  114. Sampsa Hautaniemi, Henrik Edgren, Petri Vesanen, Maija Wolf, Anna-Kaarina Jarvinen, Olli Yli-Harja, Jaakko Astola, Olli Kallioniemi, Outi Monni (2003), "A novel strategy for microarray quality control using Bayesian networks", Bioinformatics, 19:2031-2038.

  115. Yudong D He, Hongyue Dai, Eric E Schadt, Guy Cavet, Stephen W Edwards, Sergey B Stepaniants, Sven Duenwald, Robert Kleinhanz, Allan R Jones, Daniel D Shoemaker, Roland B Stoughton (2003), "Microarray standard data set and figures of merit for comparing data processing methods and experiment designs", Bioinformatics, 19:956-965.
    [abstract]

  116. D Hekstra, AR Taussig, M Magnasco, F Naef (2003), "Absolute mRNA concentrations from sequence-specific calibration of oligonucleotide arrays", Nucleic Acids Research, 31(7):1962-1968.

  117. GA Held, G Grinstein, Y Tu (2003), "Modeling of DNA microarray data by using physical properties of hybridization", Proceedings of the National Academy of Sciences, 100:7575-7580.
    [abstract]

  118. database
    Thorsten Henrich, Mirana Ramialison, Rebecca Quiring, Beate Wittbrodt, Makoto Furutani-Seiki, Joachim Wittbrodt, Hisato Kondoh (2003), "MEPD: a Medaka gene expression pattern database", Nucleic Acids Research, 31:72-74.

  119. M Hergenhahn, K Mühlemann, M Hollstein, M Kenzelmann (2003), "DNA microarrays: perspectives for hypothesis-driven transcriptome research and for clinical applications", Current Genomics, 4(6):543-555.

  120. J Herrero, R Díaz-Uriarte, J Dopazo (2003), "Gene expression data preprocessing", Bioinformatics, 19:655-656.
    [abstract]

  121. database
    Javier Herrero, Fátima Al-Shahrour, Ramón Díaz-Uriarte, Álvaro Mateos, Juan M Vaquerizas, Javier Santoyo, Joaquín Dopazo (2003), "GEPAS: a web-based resource for microarray gene expression data analysis", Nucleic Acids Reseach, 31:3461-3467.
    [webpage from the authors: Gene Expression Pattern Analysis Suit (GEPAS): gepas.bioinfo.cnio.es]

  122. Martin J Hessner, Xujing Wang, Katie Hulse, Lisa Meyer, Yan Wu, Steven Nye, Sun-Wei Guo, Soumitra Ghosh (2003), "Three color cDNA microarrays: quantitative assessment through the use of fluorescein-labeled probes" Nucleic Acids Research, 31(4):e14.

  123. David Horn, Inon Axel (2003), "Novel clustering algorithm for microarray expression data in a truncated SVD space", Bioinformatics, 19:1110-1115.
    Erratum, 19:2004.

  124. Arthur L Hsu, Sen-Lin Tang, Saman K. Halgamuge (2003), "An unsupervised hierarchical dynamic self-organizing approach to cancer class discovery and marker gene identification in microarray data", Bioinformatics, 19:2131-2140.

  125. E Huang, SH Cheng, H Dressman, J Pittman, MH Tsou, CF Horng, A Bild, ES Iversen, M Liao, CM Chen, M West, JR Nevins, AT Huang (2003), "Gene expression predictors of breast cancer outcomes", Lancet, 361:1590-1596.

  126. Xiaohong Huang, Wei Pan (2003), "Linear regression and two-class classification with gene expression data", Bioinformatics, 19:2072-2078.

  127. Wolfgang Huber, Anja von Heydebreck, Holger Sueltmann, Annemarie Poustka, Martin Vingron (2003), "Parameter estimation for the calibration and variance stabilization of microarray data", Statistical Applications in Genetics and Molecular Biology, 2(1):3.

  128. Lukasz Huminiecki, Andrew T Lloyd, Kenneth H Wolfe (2003), "Congruence of tissue expression profiles from Gene Expression Atlas, SAGEmap and TissueInfo databases", BMC Genomics, 4:31.

  129. networks
    Dirk Husmeier (2003), "Sensitivity and specificity of inferring genetic regulatory interactions from microarray experiments with dynamic Bayesian networks", Bioinformatics, 19:2271-2282.
    [abstract]

  130. Torgeir R Hvidsten, Astrid Laegreid, Jan Komorowski (2003), "Learning rule-based models of biological process from gene expression time profiles using Gene Ontology", Bioinformatics, 19:1116-1123.
    [abstract]

  131. affymetrix
    Rafael A Irizarry (2003), "Measures of gene expression for Affymetrix high density oligonucleotide arrays", in Science and Statistics: A Festschrift for Terry Speed (IMS Lecture Notes, Monograph Series Vol 40), ed. D Goldstein, pp.391-402 (IMS).

  132. affymetrix
    Rafael A Irizarry, Benjamin M Bolstad, Francois Collin, Leslie M Cope, Bridget Hobbs, Terence P Speed (2003), "Summaries of Affymetrix GeneChip probe level data", Nucleic Acids Research, 31(4):e15.
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    Rafael A Irizarry, Bridget Hobbs, Francois Collin, Yasmin D Beazer-Barclay, Kristen J Antonellis, Uwe Scherf, Terence P Speed (2003), "Exploration, normalization, adn summaries of high density oligonucleotide array probe level data", Biostatistics, 4:249-264.

  134. Rafael A Irizarry, Siew Loon Ooi, Zhijin Wu, Jef D Boeke (2003), "Use of mixture models in a microarray-based screening procedure for detecting differentially represented yeast mutants", Statistical Applications in Genetics and Molecular Biology, 2(1):1.

  135. J Jaeger, R Sengupta, WL Ruzzo (2003), "Improved gene selection for classification of microarrays", Biocomputing 2003: Proceedings of the Pacific Symposium , 8:53-64.
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  136. Nitin Jain, Jayant Thatte, Thomas Braciale, Klaus Ley, Michael O'Connell, Jae K Lee (2003), "Local-pooled-error test for identifying differentially expressed genes with a small number of replicated microarrays", Bioinformatics, 19:1945-1951.

  137. Susan Jensen (2003), "Microarray analysis as a process" in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.345-360.

  138. Daxin Jiang, Jian Pei, Aidong Zhang (2003), "Towards interactive exploration of gene expression patterns", SIGKDD Explorations, 5(2):79-90.
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  139. application
    Jose L Jimenez, Michael P Mitchell, John G Sgouros (2003), "Microarray analysis of orthologous genes: conservation of the translational machinery across species at the sequence and expression level", Genome Biology, 4(1):R4

  140. Daniel Johansson, Petter Lindgren, Anders Berglund (2003), "A multivariate approach applied to microarray data for identification of genes with cell cycle-coupled transcription", Bioinformatics, 19:467-473.
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  141. Kim Johnson, Simon Lin (2003), "QA/QC as a pressing need for microarray analysis: meeting report from CAMDA'02", Biotechniques, 34(suppl):S62-S63.

  142. Rebecka Jornsten, Bin Yu (2003), "Simultaneous gene clustering and subset selection for sample classification via MDL", Bioinformatics, 19:1100-1109.
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  144. Karen Kafadar, Tzulip Phang. "Transformations, background estimation, and process effects in the statistical analysis of microarrays", Computational Statistics and Data Analysis, 44(1-2):313-338.
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  145. AB Kahng, II Mandoiu, PA Pevzner, S Reda, AZ Zelikovsky (2003), "Engineering a scalable placement heuristic for DNA probe arrays", Proceedings of the Seventh International Conference on Research in Computational Molecular Biology , pp. 148-156.

  146. Nikola K. Kasabov, M Middlemiss, T Lane (2003), "A generic connectionist-based method for on-line feature selection and modelling with a case study of gene expression data analysis", Proceedings of the First Asia-Pacific bioinformatics conference on Bioinformatics (Australian Computer Society Inc.), pp.199-202.

  147. Jyotsna Kasturi, Raj Acharya, Murali Ramanathan (2003), "An information theoretic approach for analyzing temporal patterns of gene expression", Bioinformatics, 19:449-458.
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    Janet Kelso, Johann Visagie, Gregory Theiler, Alan Christoffels, Soraya Bardien, Damian Smedley, Darren Otgaar, Gary Greyling, C Victor Jongeneel, Mark I McCarthy, Tania Hide, Winston Hide (2003), "eVOC: a controlled vocabulary for unifying gene expression data", Genome Research, 13(6a):1222-1230.
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  152. Patrick J Killion, Gavin Sherlock, Vishwanath R Iyer (2003), "The Longhorn Array Database (LAD): An Open-Source, MIAME compliant implementation of the Stanford Microarray Database (SMD)", BMC Bioinformatics, 4:32.
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  154. networks
    SY Kim, S Imoto, S Miyano (2003), "Inferring gene networks from time series microarray data using dynamic Bayesian networks", Briefings in Bioinformatics, 4(3):228-235.

  155. application
    Ulf Klein, Yuhai Tu, Gustavo A Stolovitzky, Jeffrey L Keller, Joseph Haddad Jr., Uladan Miljkovic, Giorgio Cattoretti, Andrea Califano, Riccardo Dalla-Favera (2003), "Transcriptional analysis of the B cell germinal center reaction", Proceedings of the National Academy of Sciences, 100:2639-2544.
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  157. Yuval Kluger, Ronen Basri, Joseph T Chang, Mark Gerstein (2003), "Spectral biclustering of microarray data: coclustering genes and conditions", Genome Research, 13(4):703-716.
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  158. database
    Steen Knudsen, Christopher Workman, Thomas Sicheritz-Ponten, Carsten Friis (2003), "GenePublisher: automated analysis of DNA microarray data", Nucleic Acids Reseach, 31:3471-3476.
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    Felix Kokocinski, Gunnar Wrobel, Meinhard Hahn, Peter Lichter (2003), "QuickLIMS: facilitating the data management for DNA-microarray fabrication", Bioinformatics, 19:283-284.
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    Mathias Krull, Nico Voss, Claudia Choi, Susanne Pistor, Anatolij Potapov, Edgar Wingender (2003), "TRANSPATH®: an integrated database on signal transduction and a tool for array analysis ", Nucleic Acids Research, 31:97-100.

  162. application
    Ralf Kuppers, Ulf Klein, Ines Schwering, Verena Distler, Andreas Brauinger, Giorgio Cattoretti, Yuhai Tu, Gustavo A Stolovitzky, Andrea Califano, Martin-Leo Hansmann, Riccardo Dalla-Favera (2003), "Identification of Hodgkin and Reed-Sternberg cell-specific genes by gene expression profiling", Journal of Clinical Investigations, 111(4):529-537.

  163. Vladimir A Kuznetsov (2003), "Family of skewed distributions associated with the gene expression and proteome evolution", Signal Processing, 83(4):889-910.
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  164. Harri Lahdesmaki, Heikki Huttunen, Tommi Aho, Marja-Leena Linne, Jari Niemi, Juha Kesseli, Ron Pearson, Olli Yli-Harja (2003), "Estimation and inversion of the effects of cell population asynchrony in gene expression time-series", Signal Processing, 83(4):835-858.
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  165. Christopher James Langmead, Anthony K. Yan, C. Robertson McClung, Bruce Randall Donald (2003), "Phase-independent rhythmic analysis of genome-wide expression patterns", Journal of Computational Biology, 10(3/4):521-536.
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  166. BS Lattimore, MJC Crabbe (2003), "Expression profiles in the progression of ductal carcinoma in the breast", Computational Biology and Chemistry, 27(2):115-120.
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  167. RJ Laws, TL Bergemann, F Quiaoit, LP Zhao (2003), "SignalViewer: analyzing microarray images", Bioinformatics, 19:1716-1717.
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  168. Michael LeBlanc, Charles Kooperberg, Thomas M Grogan, Thomas P Miller (2003), "Directed indices for exploring gene expression data", Bioinformatics, 19:686-693.
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  169. JK Lee, KJ Bussey, FG Gwadry, W Reinhold, G Riddick, SL Pelletier, S Nishizuka, G Szakacs, JP Annereau, U Shankavaram, S Lababidi, LH Smith, MM Gottesman, JN Weinstein (2003), "Comparing cDNA and oligonucleotide array data: concordance of gene expression across platforms for the NCI-60 cancer cells", Genome Biology, 4(12):R82.

  170. database
    K Lee, IS Kohane, AJ Butte (2003), "PGAGENE: integrating quantitative gene-specific results from the NHLBI Programs for Genomic Applications", Bioinformatics, 19:778-779.

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  171. Kyeong Eun Lee, Naijun Sha, Edward R Dougherty, Marina Vannucci, Bani K Mallick (2003), "Gene selection: a Bayesian variable selection approach", Bioinformatics, 19:90-97.
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  172. SK Lee, YH Kim, BR Moon (2003), "Finding the optimal gene order in displaying microarray data", in Genetic and Evolutionary Computation - Gecco 2003, Pt.II, Proceedings. Lecture Notes in Computer Science 2724:2215-2226.

  173. Yoonkyung Lee, Cheol-Koo Lee (2003), "Classification of multiple cancer types by multicategory support vector machines using gene expression data", Bioinformatics, 19:1132-1139.
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  174. Jinyan Li, Huiqing Liu, James R Downing, Allen Eng-Juh Yeoh, Limsoon Wong (2003), "Simple rules underlying gene expression profiles of more than six subtypes of acute lymphoblastic leukemia (ALL) patients", Bioinformatics, 19:71-78.
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  175. Jinyan Li, Huiqing Liu, See-Kiong Ng, Limsoon Wong (2003), "Discovery of significant rules for classifying cancer diagnosis data", Bioinformatics, 19:ii93-ii102.

  176. Leping Li, Clarice R Weinberg (2003), "Gene selection and sample classification using a genetic algorithm and k-nearest neighbor method", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp. 216-229.

  177. W Li, I Grosse (2003), "Gene selection criterion for discriminant microarray data analysis based on extreme value distributions", Proceedings of the Seventh International Conference on Research in Computational Molecular Biology , pp. 217-223.

  178. Wuju Li, Ming Fan, Momiao Xiong (2003), "SamCluster: an integrated scheme for automatic discovery of sample classes using gene expression profile", Bioinformatics, 19:811-817.
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  179. S Lin, R Alexandridis (2003), "Classification of tissue samples using mixture modeling of microarray gene expression data", in Science and Statistics: A Festschrift for Terry Speed (IMS Lecture Notes, Monograph Series Vol 40), ed. D Goldstein, pp.419-435 (IMS).

  180. Simon M Lin, Kimberly F Johnson (2003), "Correlation and association analysis", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.289-305.

  181. Yan Lin, Paul Reynolds, Eleanor Feingold (2003), "An empirical Bayesian method for differential expression studies using one-channel microarray data", Statistical Applications in Genetics and Molecular Biology, 2(1):8.

  182. Jennifer Listgarten, Kathryn Graham, Sambasivarao Damaraju, Carol Cass, John Mackey, Brent Zanke (2003), "Clinically validated benchmarking of normalisation techniques for two-colour oligonucleotide spotted microarray slides", Applied Bioinformatics, 2(4):219-228.
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  183. database
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    Guoying Liu, Ann E. Loraine, Ron Shigeta, Melissa Cline, Jill Cheng, Venu Valmeekam, Shaw Sun, David Kulp, Michael A Siani-Rose (2003), "NetAffx: Affymetrix probesets and annotations", Nucleic Acids Research, 31:82-86.

  184. Xueli Liu, Hans-Georg Muller (2003), "Modes and clustering for time-warped gene expression profile data", Bioinformatics, 19:1937-1944.

  185. Ying Lu, Jiawei Han (2003), "Cancer classification using gene expression data", Information Systems, 28(4):243-268.

  186. Yihui Luan, Hongzhe Li (2003), "Clustering of time-course gene expression data using a mixed-effects model with B-splines", Bioinformatics, 19:474-482.
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  188. database
    Nicholas M Luscombe, Thomas E Royce, Paul Bertone, Nathaniel Echols, Christine E Horak, Joseph T Chang, Michael Snyder, Mark Gerstein (2003), "ExpressYourself: a modular platform for processing and visualizing microarray data", Nucleic Acids Research, 31:3477-3482.
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  189. Rachel Lyne, Gavin Burns, Juan Mata, Chris J Penkett, Gabriella Rustici, Dongrong Chen, Cordelia Langford, David Vetrie, Jürg Bähler1 (2003), "Whole-genome microarrays of fission yeast: characteristics, accuracy, reproducibility, and processing of array data", BMC Genomics, 4:27.

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  191. James Lyons-Weiler, Satish Patel, Soumyaroop Bhattacharya (2003), "A classification-based machine learning approach for the analysis of genome-wide expression data", Genome Research, 13:503-512.
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  192. Stephen F Madden, Barry O'Donovan, Simon J Furney, Hugh R Brady, Guenole Silvestre, Peter P Doran (2003), "Digital extractor: analysis of digital differential display output", Bioinformatics, 19:1594-1595.
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  193. Paul M. Magwene, Paul Lizardi, Junhyong Kim (2003), "Reconstructing the temporal ordering of biological samples using microarray data", Bioinformatics, 19:842-850.
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  194. John H Maindonald, Yvonne E Pittelkow, Susan R Wilson (2003), "Some considerations for the design of microarray experiments", in Science and Statistics: A Festschrift for Terry Speed (IMS Lecture Notes, Monograph Series Vol 40), ed. D Goldstein, pp.367-390 (IMS).

  195. Hiroshi Mamitsuka, Yasushi Okuno, Atsuko Yamaguchi (2003), "Mining biologically active patterns in metabolic pathways using microarray expression profiles", SIGKDD Explorations, 5(2):113-121.
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  196. JC Mar, GJ McLachlan (2003), "Model-based clustering in gene expression microarrays: an application to breast cancer data", Proceedings of the First Asia-Pacific bioinformatics conference on Bioinformatics (Australian Computer Society Inc.), pp.139-144.

  197. M Juanita Martinez, Anthony D Aragon, Angelina L Rodriguez, Jose M Weber, Jerilyn A Timlin, Michael B Sinclair, David M Haaland, Margaret Werner-Washburne (2003), "Identification and removal of contaminating fluorescence from commercial and in-house printed DNA microarrays", Nucleic Acids Research, 31(4):e18.

  198. Luis A. Martinez-Cruz, Angel Rubio, Maria L. Martinez-Chantar, Alberto Labarga, Isabel Barrio, Adam Podhorski, Victor Segura, Jose L. Sevilla Campo, Matias A. Avila, Jose M. Mato (2003), "GARBAN: genomic analysis and rapid biological annotation of cDNA microarray and proteomic data", Bioinformatics, 19:2158-2160.

  199. M Masseroli, P Cerveri, PG Pelicci, M Alcalay (2003), "GAAS: Gene Array Analyzer Software for management, analysis and visualization of gene expression data", Bioinformatics, 19:774-775.
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  200. database
    Richard A McIndoe, Aaron Lanzen, Kimberly Hurtz (2003), "MADGE: scalable distributed data management software for cDNA microarrays", Bioinformatics, 19:87-89.
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  201. GJ McLachlan, SU Chang (2003), "Mixture modelling for cluster analysis", Statistical Methods in Medical Research, 12:?-?.

  202. Dennis J Michaud, Adam G Marsh, Prasad S Dhurjati (2003), "eXPatGen: generating dynamic expression patterns for the systematic evaluation of analytical methods", Bioinformatics, 19:1140-1146.
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  203. Carla S Moller-Levet, Kwang-Hyun Cho, Olaf Wolkenhauer (2003), "Microarray data clustering based on temporal variation: FCV with TSD preclustering", Applied Bioinformatics , 2(1):35-45.

  204. database
    Haiqiong Montalta-He, Heinrich Reichert (2003), "Impressive expressions: developing a systematic database of gene-expression patterns in Drosophila embryogenesis", Genome Biology, 4(2):205

  205. S Monti, P Tamayo, JP Mesirov, T Golub (2003), "Consensus clustering. A resampling-based method for class discovery and visualization of gene-expression microarray data", Machine Learning, 52:91-118.

  206. Norman Morrison, David C Hoyle (2003), "Normalization", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.76-90.

  207. Sayan Mukherjee (2003), "Classifying microarray data using support vector machines", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.166-185.

  208. SN Mukherjee, Stephen J Roberts, Peter Sykacek, Sarah J Gurr (2003), "Gene ranking using bootstrapped P-values", SIGKDD Explorations, 5(2):16-22.
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  209. Sayan Mukherjee, Pablo Tamayo, Simon Rogers, Ryan Rifkin, Anna Engle, Colin Campbell, Todd R Golub, Jill P Mesirov (2003), "Estimating dataset size requirements for classifying DNA microarray data" Journal of Computational Biology, 10(2):119-142.
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  210. TM Murali, S Kasif (2003), "Extracting conserved gene expression motifs from gene expression data", Biocomputing 2003: Proceedings of the Pacific Symposium , 8:77-88.

  211. Vinay Nadimpally, Mohammed Javeed Zaki (2003), "A novel approach to determine normal variation in gene expression data", SIGKDD Explorations, 5(2):6-15.
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  212. affymetrix
    F Naef, MO Magnasco (2003), "Solving the riddle of the bright mismatches: Labeling and effective binding in oligonucleotide arrays", Physical Review E, 68:011906.

  213. affymetrix
    Felix Naef, Nicholas D Socci, Marcelo Magnasco (2003), "A study of accuracy and precision in oligonucleotide arrays: extracting more signal at large concentrations", Bioinformatics, 19:178-184.
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  214. Hiroyuki Nakahara, Shin-ichi Nishimura, Masato Inoue, Gen Hori, Shun-ichi Amari (2003), "Gene interaction in DNA microarray data is decomposed by information geometric measure", Bioinformatics, 19:1124-1131.
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  215. See-Kiong Ng, Soon-Heng Tan, V.S. Sundararajan (2003), "On combining multiple microarray studies for improved functional classification by whole-dataset feature selection", Genome Informatics, 14:34-43.

  216. affymetrix
    Henrik Bjørn Nielsen, Rasmus Wernersson, Steen Knudsen (2003), "Design of oligonucleotides for microarrays and perspectives for design of multi-transcriptome arrays", Nucleic Acids Research, 31:3491-3496.

  217. affymetrix
    Ashish Nimgaonkar, Despina Sanoudou, Atul J Butte1, Judith N Haslett, Louis M Kunkel, Alan H Beggs, Isaac S Kohane (2003), "Reproducibility of gene expression across generations of Affymetrix microarray", BMC Bioinformatics, 4:27.
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  218. EE Ntzani, PA Loannidis (2003), "Predictive ability of DNA microarrays for cancer outcomes and correlates: an empirical assessement", Lancet, 362:1439-1444.

  219. Javier Nuñez-Garcia, Vassilios Mersinias, Kwang-Hyun Cho, Colin P Smith, Olaf Wolkenhauer (2003), "The statistical distribution of the intensity of pixels within spots of DNA microarrays: what is the appropriate single-value representative?" Applied Bioinformatics, 2(4):229-239.
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  220. CL Nutt, DR Mani, RA Betensky, P Tamayo, JG Cairncross, C Ladd, U Pohl, C Hartmann, ME McLaughlin, TT Batchelor, PM Black, A von Deimling, SL Pomeroy, TR Golub, DN Louis (2003), "Gene expression-based classification of malignant gliomas correlates better with survival than histological classification", Cancer Research, 63:1602-1607.

  221. V Nygaard, Anders Loland, Marit Holden, Mette Langaas, Havard Rue, Fang Liu, Ola Myklebost, Oystein Fodstad, Eivind Hovig, Birgitte Smith-Sorensen (2003), "Effect of mRNA amplification on gene expression ratios in cDNA experiments estimated by analysis of variance", BMC Genomics, 4:11.

  222. Shigeyuki Oba, Masa-aki Sato, Ichiro Takemasa, Morito Monden, Ken-ichi Matsubara, Shin Ishii (2003), "A Bayesian missing value estimation method for gene expression profile data", Bioinformatics, 19:2088-2096.
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  223. review
    Michael F Ochs, Andrew K Godwin (2003), "Microarrays in cancer: research and applications", Biotechniques, 34(suppl):S4-S15.

  224. Michael O'Connell (2003), "Differential expression, class discovery and class prediction using S-PLUS and S+ArrayAnalyzer", SIGKDD Explorations, 5(2):38-47.
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  225. Geraldine M O'Neill, Daniel R Catchpoole, Erica A Golemis (2003), "From correlation to causality: microarrays, cancer, and cancer treatment", Biotechniques, 34(suppl):S64-S71.

  226. Michael C O'Neill, Li Song (2003), "Neural network analysis of lymphoma microarray data: prognosis and diagnosis near-perfect", BMC Bioinformatics, 4:13.
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  227. CH Ooi, Patrick Tan (2003), "Genetic algorithms applied to multi-class prediction for the analysis of gene expression data", Bioinformatics, 19:37-44.
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  228. Haiyan Pan, Jun Zhu, Danfu Han (2003), "Genetic algorithm applied to multi-class clustering for gene expression data", Genomics, Proteomics & Bioinformatics, 1(4):279-287.

  229. Wei Pan (2003), "On the use of permutation in and the performance of a class of nonparametric methods to detect differential gene expression", Bioinformatics, 19:1333-1340.
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  230. Wei Pan, J Lin, C Le (2003), "A mixture model approach to detecting differentially expressed genes with microarray data", Functional & Integrative Genocsmi, 3:117-124.

  231. application
    S Panda, TK Sato, GM Hampton, JB Hogenesch (2003), "An array of insights: application of DNA chip technology in the study of cell biology", Trends in Cell Biology, 13(3):151-156.

  232. Taesung Park, Sung-Gon Yi, Sung-Hyun Kang, SeungYeoun Lee, Yong-Sung Lee, Richard Simon (2003), "Evaluation of normalization methods for microarray data", BMC Bioinformatics, 4:33.
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  233. Taesung Park, Sung-Gon Yi, Seungmook Lee, Seung Yeoun Lee, Dong-Hyun Yoo, Jun-Ik Ahn, Yong-Sung Lee (2003), "Statistical tests for identifying differentially expressed genes in time-course microarray experiments", Bioinformatics, 19:694-703.
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  234. Paul Pavlidis (2003), "Using ANOVA for gene selection from microarray studies of the nervous system", Methods, 31:282-289.

  235. Paul Pavlidis, Qinghong Li, William S Noble (2003), "The effect of replication on gene expression microarray experiments", Bioinformatics, 19:1620-1627.
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  236. Shyamal D Peddada, Edward K Lobenhofer, Leping Li, Cynthia A Afshari, Clarice R Weinberg, David M Umbach (2003), "Gene selection and clustering for time-course and dose-response microarray experiments using order-restricted inference", Bioinformatics, 19:834-841.
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  237. S Peng, Q Xu, XB Ling, X Peng, W Du, L Chen (2003), "Molecular classification of cancer types from microarray data using the combination of genetic algorithms and support vector machines", FEBS Letters, 555(2):358-362.

  238. Xuejun Peng, Constance L Wood, Eric M Blalock, Kuey Chu Chen, Philip W Landfield, Arnold J Stromberg (2003), "Statistical implications of pooling RNA samples for microarray experiments", BMC Bioinformatics, 4:26.
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  239. S Perelman, MA Mazzella, J Muschietti, T Zhu, JJ Casal (2003), "Finding unexpected patterns in microarray data", Plant Physiology, 133(4):1717-1725.

  240. C Peterson, M Ringner (2003), "Analyzing tumor gene expression profiles", Artificial Intelligence in Medicine, 28(1):59-74.

  241. Gregory Piatetsky-Shapiro, Pablo Tamayo (2003), "Microarray data mining: facing the challenges", SIGKDD Explorations, 5(2):1-5.
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  242. Yvonne E Pittelkow, Susan R Wilson (2003), "Visualisation of gene expression data -- the GE-biplot, the chip-plot and the gene-plot", Statistical Applications in Genetics and Molecular Biology, 2(1):6.

  243. Stan Pounds, Stephan W. Morris (2003), "Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values", Bioinformatics, 19:1236-1242.
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  244. J Qian, Y Kluger, H Yu, M Gerstein (2003), "Identification and correction of spurious spatial correlations in microarray data", Biotechniques, 35:42-44, 46, 48.

  245. Jie Qin, Darrin P. Lewis, William Stafford Noble (2003), "Kernel hierarchical gene clustering from microarray expression data", Bioinformatics, 19:2097-2104.

  246. Sven Rahmann (2003), "The shortest common supersequence problem in a microarray production setting", Bioinformatics, 19:ii156-ii161.

  247. affymetrix
    Dilip Rajagopalan (2003), "A comparison of statistical methods for analysis of high density oligonucleotide array data", Bioinformatics, 19: 1469-1476.

  248. A Reiner, D Yekutieli, Y Benjamini (2003), "Identifying differentially expressed genes using false discovery rate controlling procedures", Bioinformatics, 19(3):368-375.
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  249. H Ressom, D Wang and P Natarajan (2003), "Adaptive double self-organizing maps for clustering gene expression profiles", Neural Networks, 16(5-6):633-640.
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  250. R Rifkin, Sayan Mukherjee, P Tamayo, S Ramaswamy, CH Yeang, M Angelo, M Reich, T Poggio, E Lander, T Golub, J Mesirov (2003), "An analytical method for multi-class molecular cancer classification", SIAM Review, 45(4):706-723.

  251. Markus Ringner, Patrik Eden, Peter Johansson (2003), "Classification of expression patterns using artificial neural networks", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.201-215.

  252. M Ringner, C Peterson (2003), "Microarray-based cancer diagnosis with artificial neural networks", Biotechniques, 34(suppl):S30-S35.

  253. David M Rocke, Blythe Durbin (2003), "Approximate variance-stabilizing transformations for gene-expression microarray data", Bioinformatics, 19:966-972.
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  254. C Romualdi, S Campanaro, D Campagna, B Celegato, N Cannata, S Toppo, G Valle, G Lanfranchi (2003), "Pattern recognition in gene expression profiling using DNA array: a comparative study of different statistical methods applied to cancer classification", Human Molecular Genetics, 12(8):823-836.
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  255. Benjamin IP Rubinstein, Jon D McAuliffe, Simon Cawley, Marimuthu Palaniswami, Kotagiri Ramamohanarao, Terence P Speed (2003), "Machine learning in low-level microarray analysis", SIGKDD Explorations, 5(2):130-139.
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  256. Ken Rubenstein (2003), "Commercial aspects of microarray technology", Biotechniques, 34(suppl):S52-S54.

  257. database
    AI Saeed, V Sharov, J White, J Li, W Liang, N Bhagabati, J Braisted, M Klapa, T Currier, M Thiagarajan, A Sturn, M Snuffin, A Rezantsev, D Popov, A Ryltsov, E Kostukovich, I Borisovsky, Z Liu, A Vinsavich, V Trush, J Quackenbush (2003), "TM4: A free, open-source system for microarray data management and analysis", Biotechniques, 34:374-378.

  258. application
    TK Sato, S Panda, SA Kay, JB Hogenesch (2003), "DNA arrays: applications and implications for circadian biology", Journal of Biological Rhythms, 18(2):96-105.

  259. Silvia Saviozzi, Raffaele A Calogero (2003), "Microarray probe expression measures, data normalization and statistical validatio", Comparative and Functional Genomics, 4(4):442-446.
    [ abstract]

  260. Eric E Schadt, Stephanie A Monks, Thomas A Drake, Aldons J Lusis, Nam Che, Veronica Colinayo, Thomas G Ruff, Stephen B Milligan, John R Lamb, Guy Cavet, Peter S Linsley, Mao Mao, Roland B Stoughton, Stephen H Friend (2003), "Genetics of gene expression surveyed in maize, mouse and man", Nature, 422:297-302.

  261. Robert Scharpf, Elizabeth S Garrett, Jiang Hu, Giovanni Parmigiani (2003), "Statistical modeling and visualization of molecular profiles in cancer", Biotechniques, 34(suppl):S22-S29.

  262. Alexander Schliep, Alexander Schonhuth, Christine Steinhoff (2003), "Using hidden Markov models to analyze gene expression time course data", Bioinformatics, 19 (suppl 1):i255-i263.
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  263. P Sebastiani, E Gussoni, IS Kohane, M Ramoni (2003), "Statistical challenges in functional genomics", Statistical Science, 18(1):33-70.

  264. E Segal, A Battle, D Koller (2003), "Decomposing gene expression into cellular processes", Biocomputing 2003: Proceedings of the Pacific Symposium , 8:89-100.

  265. Eran Segal, Haidong Wang, Daphe Koller (2003), "Discovering molecular pathways from protein interaction and hene expression data", Bioinformatics, 19 (suppl 1):i264-i272.
    [abstract]

  266. Mark R. Segal, Kam D. Dahlquist, Bruce R. Conklin (2003), "Regression Approaches for Microarray Data Analysis", Journal of Computational Biology, 10(6):961-980.

  267. N Sha, M Vannucci, PJ Brown, MK Trower, G Amphlett, F Falciani (2003), "Gene selection in arthritis classification with large-scale microarray expression profiles", Comparative and Functional Genomics, 4(2):171-181.

  268. database
    Roded Sharan, Adi Maron-Katz, Ron Shamir (2003), "CLICK and EXPANDER: a system for clustering and visualizing gene expression data", Bioinformatics, 19:1787-1799.
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  269. KA Shedden, JMG Taylor, TJ Giordano, R Kuick, DE Misek, G Rennert, DR Schwartz, SB Gruber, C Logsdon, D Simeone, SLR Kardia, JK Greenson, KR Cho, DG Beer, ER Fearon, S Hanash (2003), "Accurate molecular classification of human cancers based on gene expression using a simple classifier with a pathological tree-based framework", American Journal of Pathology, 163(5):1985-1995.
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  270. Qizheng Sheng, Yves Moreau, and Bart De Moor (2003), "Biclustering microarray data by Gibbs sampling", Bioinformatics, 19:ii196-ii205.

  271. Gavin Sherlock, Catherine A Ball (2003), "Microarray databases: storage and retrieval of microarray data", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein and AB Khodursky (Methods in Molecular Biology Series, Vol 224) (Humana Press), pp.235-248.

  272. SK Shevade, SS Keerthi (2003), "A simple and efficient algorithm for gene selection using sparse logistic regression", Bioinformatics, 19:2246-2253.
    [abstract]

  273. affymetrix
    I Shmulevich, J Astola, D Cogdell, SR Hamilton, W Zhang (2003), "Data extraction from composite oligonucleotide microarrays", Nucleic Acids Research, 31(7):e36.

  274. networks
    I Shmulevich, H Lahdesmaki, ER Dougherty, J Astola, W Zhang (2003), "The role of certain Post classes in Boolean network models of genetic networks", Proceedings of the National Academy of Sciences, 100(19):10734-10739.
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  275. Yu Shyr, KyungMann Kim (2003), "Weighted flexible compound covariate method for classifying microarray data", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.186-200.

  276. Richard Simon (2003), "Supervised analysis when the number of candidate features (p) greatly exceeds the number of cases (n)", SIGKDD Explorations, 5(2):31-36.
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  277. Richard M Simon, Kevin Dobbin (2003), "Experimental design of DNA microarray experiments", Biotechniques, 34(suppl):S16-S21.

  278. R Simon, MD Radmacher, K Dobbin, LM McShane (2003), "Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification", Journal of the National Cancer Institute, 95(1):14-18.

  279. Marcel Smid, Lambert C.J. Dorssers, Guido Jenster (2003), "Venn Mapping: clustering of heterologous microarray data based on the number of co-occurring differentially expressed genes", Bioinformatics, 19:2065-2071.

  280. Lee Smith, Peter Underhill, Clare Pritchard, Zuzanna Tymowska-Lalanne, Saba Abdul-Hussein, Helen Hilton, Laura Winchester, Deborah Williams, Tom Freeman, Sarah Webb, Andy Greenfield (2003), "Single primer amplification (SPA) of cDNA for microarray expression analysis", Nucleic Acids Research, 31(3):e9.

  281. Mark Smolkin, Debashis Ghosh (2003), "Cluster stability scores for microarray data in cancer studies", BMC Bioinformatics, 4:36.
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  282. GK Smyth, YH Yang, T Speed (2003), "Statistical issues in cDNA microarray data analysis", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein and AB Khodursky (Methods in Molecular Biology Series, Vol 224) (Humana Press), pp.111-136.
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  283. networks
    Lev A Soinov, Maria A Krestyaninova, Alvis Brazma (2003), "Towards reconstruction of gene networks from expression data by supervised learning", Genome Biology, 4(1):R6

  284. RL Somorjai, B Dolenko, R Baumgartner (2003), "Class prediction and discovery using gene microarray and proteomics mass spectroscopy data: curses, caveats, cautions", Bioinformatics, 19:1484-1491.
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  285. T Sorlie, Robert Tibshirani, J Parker, T Hastie, JS Marron, A Nobel, S Deng, H Johnsen, R Pesich, S Geisler, J Demeter, CM Perou, PE Lonning, PO Brown, AL Borresen-Dale, D Botstein (2003), "Repeated observation of breast tumor subtypes in independent gene expression data sets", Proceedings of the National Academy of Sciences, 100(14):8418-8423.
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  286. Rainer Spang (2003), "Diagnostic signatures from microarrays: a bioinformatics concept for personalized medicine", Biosilico, 1(2):64-68.

  287. Derek C Stanford, Douglas B Clarkson, Antje Hoering (2003), "Clustering or automatic class discovery: hierarchical methods", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.246-260.

  288. C Steinhoff, T Muller, UA Nuber, M Vingron (2003), "Gaussian mixture density estimation applied to microarray data", in Advances in Intelligent Data Analysis V: Lecture Notes in Computer Science, 2810:418-429.

  289. Gustavo Stolovitzky (2003), "Gene selection in microarray data: the elephant, the blind men and our algorithms", Current Opinion in Structural Biology, 13:370-376.

  290. John D Storey (2003), "The positive false discovery rate: A Bayesian interpretation and the q-value", Annals of Statistics, 31:2013-2035.

  291. JD Storey, R Tibshirani (2003), "Statistical methods for detecting differential gene expression", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein, AB Khodursky, pp.?-? (Methods in Molecular Biology series, Humana Press, Totowa, NJ.)

  292. John D Storey, Robert Tibshirani (2003), "Statistical significance for genomewide studies", Proceedings of the National Academy of Sciences, 100:9440-9445.
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  293. John D Storey, Robert Tibshirani (2003), "Statistical methods for identifying differentially expressed genes in DNA microarrays", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein and AB Khodursky (Methods in Molecular Biology Series, Vol 224) (Humana Press), pp.149-158.

  294. Korbinian Strimmer (2003), "Modeling gene expression measurement error: a quasi-likelihood approach", BMC Bioinformatics, 4:10.
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  295. Alexander Sturn, Bernhard Mlecnik, Roland Pieler, Johannes Rainer, Thomas Truskaller, Zlatko Trajanoski (2003), "Client-Server environment for high-performance gene expression data analysis", Bioinformatics, 19:772-773.
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  296. Yang Su, TM Murali, Vladimir Pavlovic, Michael Schaffer, Simon Kasif (2003), "RankGene: identification of diagnostic genes based on expression data", Bioinformatics, 19: 1578-1579.

  297. Minghe Sun, Momiao Xiong (2003), "A mathematical programming approach for gene selection and tissue classification", Bioinformatics, 19:1243-1251.
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  298. NM Svrakic, O Nesic, MRK Dasu, D Herndon, JR Perez-Polo (2003), "Statistical approach to DNA chip analysis", Recent Progress in Hormone Research, 58:75-93.
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  299. Aniko Szabo, Kenneth Boucher, David Jones, Alexander D Tsodikov, Lev B Klebanov, Andrei Y Yakovlev (2003), "Multivariate exploratory tools for microarray data analysis", Biostatistics, 4:555-567.

  300. Lap Keung Szeto, Alan Wee-Chung Liew, Hong Yan, Sy-sen Tang (2003), "Gene expression data clustering and visualization based on a binary heirarchical clustering framework", Proceedings of the First Asia-Pacific bioinformatics conference on Bioinformatics (Australian Computer Society Inc.), pp.145-152.

  301. Ioan Tabus, Jorma Rissanen, Jaakko Astola (2003), "Classification and feature gene selection using the normalized maximum likelihood model for discrete regression", Signal Processing, 83(4):713-727.
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  302. Aik Choon Tan, David Gilbert (2003), "Ensemble machine learning on gene expression data for cancer classification", Applied Bioinformatics, 2(3 suppl):S75-S83.
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  303. Paul K Tan, Thomas J Downey, Edward L Spitznagel Jr, Pin Xu, Dadin Fu, Dimiter S Dimitrov, Richard A Lempicki, Bruce M Raaka5 and Margaret C Cam (2003), "Evaluation of gene expression measurements from commercial microarray platforms", Nucleic Acids Research, 31(91):5676-5684.
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  304. Robert Tibshirani, T Hastie, B Narasimhan, G Chu (2003), "Class prediction by nearest shrunken centroids, with application to DNA microarrays", Statistical Science, 18, 104-117.

  305. Nicholas A Tinker, Laurian S Robert, Gail Butler, Linda J Harris (2003), "Data pre-processing issues in microarray analysis", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp. 47-64.

  306. P Toronen, G Wong, E Castren (2003), "Methods for quantitation and clustering of gene expression data", Current Genomics, 4(5):445-463.

  307. Olga G Troyanskaya, David Botstein, Russ A Altman (2003), "Missing value estimation", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp. 65-75.

  308. Chen-An Tsai, Yi-Ju Chen, James J. Chen (2003), "Testing for differentially expressed genes with microarray data", Nucleic Acids Research, 31(9):e52.
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  309. CA Tsai, HM Hsueh, JJ Chen (2005), "Estimation of false discovery rates in multiple testing: application to gene microarray data", Biometrics, 59(4):1071-1081.

  310. Peter J van der Spek, Andreas Kremer, Lynn Murry, Michael G Walker (2003), "Are gene expression microarray analyese reliable? a review of studies of retinoic acid responsive genes", Genomics, Proteomics & Bioinformatics, 1(1):?-?.

  311. database
    Sacha AFT van Hijum, Jorge García de la Nava, Oswaldo Trelles, Jan Kok, Oscar P Kuipers (2003), "MicroPreP: a cDNA microarray data pre-processing framework", Applied Bioinformatics, 2(4):241-244.
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  312. Laura J van't Veer, Hongyue Dai, Marc J van de Vijver, Yudong D He, Augustinus AM Hart, Rene Bernards, Stephen H Friend (2003), "Expression profiling predicts outcome in breast cancer", Breast Cancer Research, 5(1):57-58.

  313. David Venet (2003), "MatArray: a Matlab toolbox for microarray data", Bioinformatics, 19:659-660.
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  314. H Wang, E Hubbell, JS Hu, G Mei, N Cline, G Lu, T Clark, MA Siani-Rose, M Ares, DC Kulp, D Haussler (2003), "Gene structure-based splice variant deconvolution using a microarry platform", Bioinformatics, 19(suppl 1):i315-i322.
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  315. Michael E Wall, Andreas Rechtsteiner, Luis M Rocha (2003), "Singular value decomposition and principal component analysis", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp. 91-109.

  316. Junbai Wang, Ola Myklebost, Eivind Hovig (2003), "MGraph: graphical models for microarray data analysis", Bioinformatics, 19:2210-2211.
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  317. Xujing Wang, Martin J Hessner, Yan Wu, Nirupma Pati, Soumitra Ghosh (2003), "Quantitative quality control in microarray experiments and the application in data filtering, normalization and false positive rate prediction", Bioinformatics, 19:1341-1347.
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  318. Lorenz Wernisch, Sharon L Kendall, Shamit Soneji, Andreas Wietzorrek, Tanya Parish, Jason Hinds, Philip D Butcher, Neil G Stoker (2003), "Analysis of whole-genome microarray replicates using mixed models", Bioinformatics, 19:53-61.
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  319. AR Whitney, M Diehn, SJ Popper, AA Alizadeh, JC Boldrick, DA Relman, PO Brown (2003), "Individuality and variation in gene expression patterns in human blood. Proceedings of the National Academy of Sciences, 100(4):1896-1901.
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  320. DL Wilson, MJ Buckley, CA Helliwell, IW Wilson (2003), "New normalization methods for cDNA microarray data", Bioinformatics, 19:1325-1332.
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  321. Ernst Wit, John McClure (2003), "Statistical adjustment of signal censoring in gene expression experiments", Bioinformatics, 19:1055-1060.
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  322. George W Wright, Richard M Simon (2003), "A random variance model for detection of differential gene expression in small microarray experiments", Bioinformatics, 19:2448-2455.
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  323. Shuanhu Wu, Hong Yan (2003), "Microarray image processing based on clustering and morphological analysis", Proceedings of the First Asia-Pacific bioinformatics conference on Bioinformatics (Australian Computer Society Inc.), pp.111-118.

  324. Xintao Wu, Yong Ye, Liying Zhang (2003), "Graphical modeling based gene interaction analysis for microarray data", SIGKDD Explorations, 5(2):91-100.
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  325. Xiwei Wu and T. Gregory Dewey (2003), "Cluster analysis of dynamic parameters of gene expression", Journal of Bioinformatics and Computational Biology, 1(3):447-458.
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  326. review
    Zhaoying Xiang, Yaning Yang, Xiaojing Ma, Wei Ding (2003), "Microarray expression profiling: analysis and applications", Current Opinion in Drug Discovery & Development, 6(3):384-395.
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  327. Eric P Xing (2003), "Feature selection in microarray analysis", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.110-165.

  328. Ronghui Xu, Xiaochun Li (2003), "A comparison of parametric versus permutation methods with applications to general and temporal microarray gene expression data" Bioinformatics, 19:1284-1289.
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  329. Y Yang, J Hoh , C Broger, M Neeb, J Edington, K Lindpaintner, J Ott (2003), "Statistical methods for analyzing microarray feature data with replications", Journal of Computational Biology, 10(2):157-169.
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  330. Yee Hwa Yang, Natalie P Thorne (2003), "Normalization for two-color cDNA microarray data", in Science and Statistics: A Festschrift for Terry Speed (IMS Lecture Notes, Monograph Series Vol 40), ed. D Goldstein, pp.403-418 (IMS).

  331. protein
    Yutaka Yasui, Margaret Pepe, Mary Lou Thompson, Bao-Ling Adam, George L. Wright, Jr., Yinsheng Qu, John D. Potter, Marcy Winget, Mark Thornquist, and Ziding Feng (2003), "A data-analytic strategy for protein biomarker discovery: profiling of high-dimensional proteomic data for cancer detection", Biostatistics, 4:449-463.

  332. Ka Yee Yeung (2003), "Clustering or automatic class discovery: non-hierarchical, no-SOM", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.274-288.

  333. KY Yeung, RE Bumgarner (2003), "Multiclass classification of microarray data with repeated measurements: application to cancer", Genome Biology, 4(12):R83. Correction 6(13):405.

  334. Yuk Fai Leung, Dennis Shun Chiu Lam, Chi Pui Pang (2003), "Microarray software review", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.326-344.

  335. Sang-Heon Yoon, Je-Suk Kim, Hae-Hiang Song (2003), "Statistical inference methods for detecting altered gene associations", Genome Informatics, 14:54-63.

  336. Byoung-Tak Zhang, Kyu-Boek Hwang (2003), "Bayesian network classifiers for gene expression analysis", in A Practical Approach to Microarray Analysis , eds. DP Berrar, W Dubitzky, M Granzow (Kluwer Academic), pp.150-165.

  337. BT Zhang, J Yang, SW Chi (2003), "Self-organizing latent lattice models for temporal gene expression profiling", Machine Learning, 52(1-2):67-89.

  338. Heping Zhang, Chang-Yung Yu, Burton Singer (2003), "Cell and tumor classification using gene expression data: Construction of forests", Proceedings of the National Academy of Sciences, 100(7):4168-4172.
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  339. Li Zhang, Chun Tang, Yuqing Song, Aidong Zhang, Murali Ramanathan (2003), "VizCluster and its application on classifying gene expression data", Distributed and Parallel Databases, 13(1):73-97.

  340. Yanli Zhao, Wei Pan (2003), "Modified nonparametric approaches to detecting differentially expressed genes in replicated microarray experiments", Bioinformatics, 19:1046-1054.
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  341. Ying Zhao, George Karypis (2003), "Clustering in life sciences", in Functional Genomics: Methods and Protocols, eds. MJ Brownstein and AB Khodursky (Methods in Molecular Biology Series, Vol 224) (Humana Press), pp.183-218.

  342. database
    Sheng Zhong, Cheng Li, Wing Hung Wong (2003), "ChipInfo: software for extracting gene annotation and gene ontology information for microarray analysis", Nucleic Acids Research, 31: 3483-3486.
    [webpage from the authors: ChipInfo: biosun1.harvard.edu/complab/chipinfo/ ]

  343. Y Zhou, R Abagyan (2003), "Algorithms for high-density oligonucleotide array", Current Opinion in Drug Discovery & Development, 6(3):339-345.

  344. database
    Yihua Zhou, Jingdong Liu (2003), "AVA: visual analysis of gene expression microarray data", Bioinformatics, 19:293-294.
    [abstract]

  345. Xiaobo Zhou, Xiaodong Wang, Edward R. Dougherty (2003), "Missing-value estimation using linear and non-linear regression with Bayesian gene selection", Bioinformatics, 19:2302-2307.
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  346. X Zhou, X Wang, ER Dougherty (2003), "Binarization of microarray data on the basis of a mixture model", Molecular Cancer Therapeutics, 2:679-684.
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  347. Alexander Zien, Juliane Fluck, Ralf Zimmer, Thomas Lengauer (2003), "Microarrays: how many do you need?", Journal of Computational Biology, 10(3/4):653-667.
    [abstract]
2003