IntroductionPart I: RNA-SeqThe Bench Scientist's Guide to Statistical Analysis of RNA-Seq Data; Craig R. Yendrek, Elizabeth A. Ainsworth, and Jyothi ThimmapuramAssembly of Non-Unique Insertion Content Using Next-Generation Sequencing; Nathaniel Parrish, Farhad Hormozdiari, and Eleazar EskinRSEM: Accurate Transcript Quantification from RNA-Seq Data With or Without a Reference Genome; Bo Li and Colin N. Dewey Part II: MicroarrayA Regression System for Estimation of Errors Introduced by Confocal Imaging into Gene Expression Data In Situ; Ekaterina Myasnikova, Svetlana Surkova, Grigory Stein, Andrei Pisarev, and Maria SamsonovaSPACE: An Algorithm to Predict and Quantify Alternatively Spliced Isoforms Using Microarrays; Miguel A. Anton, Dorleta Gorostiaga, Elizabeth Guruceaga, Victor Segura, Pedro Carmona-Saez, Alberto Pascual-Montano, Ruben Pio, Luis M. Montuenga, and Angel RubioLink-Based Quantitative Methods to Identify Differentially Coexpressed Genes and Gene Pairs; Hui Yu, Bao-Hong Liu, Zhi-Qiang Ye, Chun Li, Yi-Xue Li, and Yuan-Yuan LiDimension Reduction with Gene Expression Data Using Targeted Variable Importance Measurement; Hui Wang and Mark J. van der LaanPart III: GWASGenome-Wide Association Study of Stevens-Johnson Syndrome and Toxic Epidermal Necrolysis in Europe; Emmanuelle Génin, Martin Schumacher, Jean-Claude Roujeau, Luigi Naldi,Yvonne Liss, Rémi Kazma, Peggy Sekula, Alain Hovnanian, and Maja MockenhauptGenotyping Common and Rare Variation Using Overlapping Pool Sequencing; Dan He, Noah Zaitlen, Bogdan Pasaniuc, Eleazar Eskin, and Eran HalperinLearning Genetic Epistasis Using Bayesian Network Scoring Criteria; Xia Jiang, Richard E. Neapolitan, M. Michael Barmada, and Shyam VisweswaranCombined Analysis of Three Genome-Wide Association Studies on vWF and FVIII Plasma Levels; Guillemette Antoni, Tiphaine Oudot-Mellakh, Apostolos Dimitromanolakis, Marine Germain, William Cohen, Philip Wells, Mark Lathrop, France Gagnon, Pierre-Emmanuel Morange, and David-Alexandre TregouetPart IV: ProteomicsStatistical Methods for Quantitative Mass Spectrometry Proteomic Experiments with Labeling; Ann L. Oberg and Douglas W. MahoneyMRCQuant: An Accurate LC-MS Relative Isotopic Quantification Algorithm on TOF Instruments; William E. Haskins, Konstantinos Petritis, and Jianqiu ZhangIndex
