Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis von Du, Pan, Zhang, Xiao, Huang, Chiang-Ching, Jafari, Nadereh, Kibbe, Warren A, Hou, Lifang, Lin, Simon M

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lumi: a pipeline for processing Illumina microarray von Du, Pan, Kibbe, Warren A., Lin, Simon M.

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ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data von Zhu, Lihua J, Gazin, Claude, Lawson, Nathan D, Pagès, Hervé, Lin, Simon M, Lapointe, David S, Green, Michael R

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Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching von Du, Pan, Kibbe, Warren A., Lin, Simon M.

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Genome-wide DNA methylation indicates silencing of tumor suppressor genes in uterine leiomyoma von Navarro, Antonia, Yin, Ping, Monsivais, Diana, Lin, Simon M, Du, Pan, Wei, Jian-Jun, Bulun, Serdar E

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Annotating the human genome with Disease Ontology von Osborne, John D, Flatow, Jared, Holko, Michelle, Lin, Simon M, Kibbe, Warren A, Zhu, Lihua Julie, Danila, Maria I, Feng, Gang, Chisholm, Rex L

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Graph embedding on biomedical networks: methods, applications and evaluations von Yue, Xiang, Wang, Zhen, Huang, Jingong, Parthasarathy, Srinivasan, Moosavinasab, Soheil, Huang, Yungui, Lin, Simon M, Zhang, Wen, Zhang, Ping, Sun, Huan

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Technical reproducibility of genotyping SNP arrays used in genome-wide association studies von Hong, Huixiao, Xu, Lei, Liu, Jie, Jones, Wendell D, Su, Zhenqiang, Ning, Baitang, Perkins, Roger, Ge, Weigong, Miclaus, Kelci, Zhang, Li, Park, Kyunghee, Green, Bridgett, Han, Tao, Fang, Hong, Lambert, Christophe G, Vega, Silvia C, Lin, Simon M, Jafari, Nadereh, Czika, Wendy, Wolfinger, Russell D, Goodsaid, Federico, Tong, Weida, Shi, Leming

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From disease ontology to disease-ontology lite: statistical methods to adapt a general-purpose ontology for the test of gene-ontology associations von Du, Pan, Feng, Gang, Flatow, Jared, Song, Jie, Holko, Michelle, Kibbe, Warren A., Lin, Simon M.

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A statistical framework for accurate taxonomic assignment of metagenomic sequencing reads von Jiang, Hongmei, An, Lingling, Lin, Simon M, Feng, Gang, Qiu, Yuqing

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Loss of patched and disruption of granule cell development in a pre-neoplastic stage of medulloblastoma von Oliver, Trudy G, Read, Tracy Ann, Kessler, Jessica D, Mehmeti, Anriada, Wells, Jonathan F, Huynh, Trang T T, Lin, Simon M, Wechsler-Reya, Robert J

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Transcriptional Profiling of the Sonic Hedgehog Response: A Critical Role for N-myc in Proliferation of Neuronal Precursors von Oliver, Trudy G., Grasfeder, Linda L., Carroll, Audra L., Kaiser, Constanze, Gillingham, Christine L., Lin, Simon M., Wickramasinghe, Rasika, Scott, Matthew P., Wechsler-Reya, Robert J.

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Windows into the past: lake sediment phosphorus trajectories act as integrated archives of watershed disturbance legacies over centennial scales von Bhattacharya, Ruchi, Lin, Simon G M, Basu, Nandita B

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Model-based variance-stabilizing transformation for Illumina microarray data von Lin, Simon M., Du, Pan, Huber, Wolfgang, Kibbe, Warren A.

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A framework for annotating human genome in disease context von Xu, Wei, Wang, Huisong, Cheng, Wenqing, Fu, Dong, Xia, Tian, Kibbe, Warren A, Lin, Simon M

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The Financial Impact of Genetic Diseases in a Pediatric Accountable Care Organization von Miller, Katherine E, Hoyt, Richard, Rust, Steve, Doerschuk, Rachel, Huang, Yungui, Lin, Simon M

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A Streamlined Model-Based Strategy for Screening Wildfire Impact Scenarios Related to Peak Flood Flows: Hazard Prevention in Data-Limited Regions von Romero-Cuellar, Jonathan, Craig, James R., Tolson, Bryan A., Aberi, Parisa, Lin, Simon G. M., Taheri, Mahkameh, Arabzadeh, Rezgar

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Opportunities for drug repositioning from phenome-wide association studies von Rastegar-Mojarad, Majid, Ye, Zhan, Kolesar, Jill M, Hebbring, Scott J, Lin, Simon M

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Heterogeneity of Flt3-Expressing Multipotent Progenitors in Mouse Bone Marrow von Lai, Anne Y, Lin, Simon M, Kondo, Motonari

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Correction: A Statistical Framework for Accurate Taxonomic Assignment of Metagenomic Sequencing Reads von Jiang, Hongmei, An, Lingling, Lin, Simon M., Feng, Gang, Qiu, Yuqing

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