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/
2010

  1. Wassim Ayadi, Mourad Elloumi, Jin-Kao Hao (2010), "Iterated local search for biclustering of microarray data": Lecture Notes in Computer Science, Vol 6282/2010, pp.219-229.
    [ abstract]

  2. Stuart G Baker (2010), "Simple and flexible classification of gene expression microarrays via Swirls and Ripples", BMC Bioinformatics, 11:452.
    [abstract]

  3. Andreas S Barth, Ami Kumordzie, Carlo Colantuoni, Kenneth B Margulies, Thomas P Cappola and Gordon F Tomaselli (2010), "Reciprocal regulation of metabolic and signaling pathways", BMC Genomics, 11:197.
    [ abstract]

  4. Claude Berge, Nicolas Froloff, Ravi Kiran Reddy Kalathur, Myriam Maumy, Olivier Poch, Wolfgang Raffelsberger, Nicolas Wicker (2010), "Multidimensional fitting for multivariate data analysis", Journal of Computational Biology, 17(5): 723-732.
    [ abstract]

  5. Natalie J Blades, Scott D Grimshaw, Carly R Pendleton (2010), "A simulation-based approach for evaluating microarray analyses", Biostatistics, 11(3):533-536.
    [ abstract]

  6. C Botella, J Ferré, R Boqué (2010), "Outlier detection and ambiguity detection for microarray data in probabilistic discriminant partial least squares regression", Journal of Chemometrics, 24:434-443.
    [ abstract]

  7. Marc Buyse, Daniel J. Sargent, Axel Grothey, Alastair Matheson, Aimery de Gramont (2010), "Biomarkers and surrogate end points?the challenge of statistical validation", Nature Reviews Clinical Oncology, 7:309-317.
    [ abstract]

  8. Hyungwon Choi, Zhaohui S. Qin, Debashis Ghosh (2010), "A double-layered mixture model for the ioint analysis of DNA copy number and gene expression data", Journal of Computational Biology, 17(2):121-137.
    [ abstract]

  9. Jennifer Clarke, Pearl Seo, Bertrand Clarke (2010), "Statistical expression deconvolution from mixed tissue samples", Bioinformatics, 26(8):1043-1049.
    [ abstract]

  10. Jian Guo (2010), "Simultaneous variable selection and class fusion for high-dimensional linear discriminant analysis", Biostatistics, 11(4):599-608.
    [ abstract]

  11. Sepp Hochreiter, Ulrich Bodenhofer, Martin Heusel, Andreas Mayr, Andreas Mitterecker, Adetayo Kasim, Tatsiana Khamiakova, Suzy Van Sanden, Dan Lin, 0 Willem Talloen, Luc Bijnens, Hinrich W H Göhlmann, Ziv Shkedy, Djork-Arné Clevert, (2010), "FABIA: factor analysis for bicluster acquisition", Bioinformatics, 26(12):1520-1527.
    [ abstract]

  12. Xu Hui, Linchao Pu, Fu-lai Chung, Shitong Wang (2010), "Analyzing noisy gene experimental data using uncertainty support vector domain description", Biostatistics, Bioinformatics and Biomathematics, 1(2):3.

  13. Robert R Kitchen, Vicky S Sabine, Andrew H Sims, E Jane Macaskill, Lorna Renshaw, Jeremy S Thomas, Jano I van Hemert, J Michael Dixon, John MS Bartlett (2010), "Correcting for intra-experiment variation in Illumina BeadChip data is necessary to generate robust gene-expression profiles", BMC Genomics, 11:134.
    [ abstract]

  14. Shuo Jiao, Shunpu Zhang (2010), "Estimating the proportion of equivalently expressed genes in microarray data based on transformed test statistics", Journal of Computational Biology, 17(2):177-187.
    [ abstract]

  15. Chungyeul Kim, Soonmyung Paik (2010), "Gene-expression-based prognostic assays for breast cancer", Nature Reviews Clinical Oncology, 7:340-347.
    [ abstract]

  16. E Laing, CP Smith (2010), "RankProdIt: a web-interactive rank products analysis tool", BMC Research Notes, 3(1):221
    [ abstract]

  17. Shili Lin (2010), "Space oriented rank-based data integration", Statistical Applications in Genetics and Molecular Biology, 9(1):20.
    [abstract]

  18. Sara López-Pintado, Juan Romo, Aurora Torrente (2010), "Robust depth-based tools for the analysis of gene expression data", Biostatistics, 11(2):254-264.
    [ abstract]

  19. Yong Lu, Roni Rosenfeld, Gerard J. Nau, Ziv Bar-Joseph (2010), "Cross species expression analysis of innate immune response", Journal of Computational Biology, 17(3):253-268.
    [abstract]

  20. S Ma, M Shi, Y Li, D Yi, BC Shia (2010), "Incorporating gene co-expression network in identification of cancer prognosis markers", BMC Bioinformatics, 11:271.
    [abstract]

  21. P Mahata (2010), "Exploratory consensus of hierarchical clusterings for melanoma and breast cancer", IEEE/ACM Transactions on Computational Biology and Bioinformatics, 7(1):138-152.
    [ abstract]

  22. Matthew N McCall, Benjamin M Bolstad, Rafael A Irizarry (2010), "Frozen robust multiarray analysis (fRMA)", Biostatistics, 11(2):242-253.
    [ abstract]

  23. Hisashi Noma, Shigeyuki Matsui, Takashi Omori, Tosiya Sato (2010), "Bayesian ranking and selection methods using hierarchical mixture models in microarray studies", Biostatistics, 11(2):281-289.
    [ abstract]

  24. Massimiliano Orsini, Enrico Capobianco (2010), "Coupling genomic expression with copy number variation in brain cancer regulation studies", Biostatistics, Bioinformatics and Biomathematics, 1(1):5.

  25. Shai S Shen-Orr, Robert Tibshirani, Purvesh Khatri, Dale L Bodian, Frank Staedtler, Nicholas M Perry, Trevor Hastie, Minnie M Sarwal, Mark M Davis, Atul J Butte (2010), "Cell type?specific gene expression differences in complex tissues", Nature Methods, 7:287-289.
    [ abstract]

  26. Oliver Stegle, Katherine J Denby, Emma J Cooke, David L Wild, Zoubin Ghahramani, Karsten M Borgwardt (2010), "A robust Bayesian two-sample test for detecting intervals of differential gene expression in microarray time series", Journal of Computational Biology, 17(3):355-367.
    [ abstract]

  27. Jyothi Subramanian, Richard Simon (2010), "What should physicians look for in evaluating prognostic gene-expression signatures?", Nature Reviews Clinical Oncology, 7:327-334.
    [ abstract]

  28. Hannah Tipney, Lawrence Hunter (2010), "An introduction to effective use of enrichment analysis software", Human Genomics, 4(3):202-206.

  29. Yipeng Wang, Xiao-Qin Xia, Zhenyu Jia, Anne Sawyers, Huazhen Yao, Jessica Wang-Rodriquez, Dan Mercola, Michael McClelland (2010), "In silico estimates of tissue components in surgical samples based on expression profiling data", Cancer Research, 70:6448.
    [ abstract]

  30. Yupeng Wang, Romdhane Rekaya (2010), "LSOSS: detection of cancer outlier differential gene expression", Biomark Insights, 5:69-78.
    [html]

  31. Gang Wu, Ying Zhang, Yimin Wei (2010), "Krylov subspace algorithms for computing GeneRank for the analysis of microarray data mining", Journal of Computational Biology, 17(4):631-646.
    [abstract]

  32. H Xiong, Y Zhang, X Chen, J Yu (2010), "Cross-platform microarray data integration using the normalized linear transform", International Journal of Data Mining an Bioinformatics, 4(2):142-157.

  33. W F Zhang, C C Liu, H Yan (2010), "Clustering of temporal gene expression data by regularized spline regression and an energy based similarity measure," Pattern Recognition, 43:3969-3976.
2010