GLiMMPS: robust statistical model for regulatory variation of alternative splicing using RNA-seq data
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Qing Zhou | Keyan Zhao | Qing Zhou | Zhi-xiang Lu | Yi Xing | J. Park
[1] Yves A. Lussier,et al. Variants Affecting Exon Skipping Contribute to Complex Traits , 2012, PLoS genetics.
[2] Eurie L. Hong,et al. Annotation of functional variation in personal genomes using RegulomeDB , 2012, Genome research.
[3] S. Batzoglou,et al. Linking disease associations with regulatory information in the human genome , 2012, Genome research.
[4] Zhi-xiang Lu,et al. Genetic variation of pre‐mRNA alternative splicing in human populations , 2012, Wiley interdisciplinary reviews. RNA.
[5] S. Bandinelli,et al. Integration of GWAS SNPs and tissue specific expression profiling reveal discrete eQTLs for human traits in blood and brain , 2012, Neurobiology of Disease.
[6] Alex Bateman,et al. Tissue-Specific Splicing of Disordered Segments that Embed Binding Motifs Rewires Protein Interaction Networks , 2012, Molecular cell.
[7] Xinchen Wang,et al. Tissue-specific alternative splicing remodels protein-protein interaction networks. , 2012, Molecular cell.
[8] W. Huber,et al. Detecting differential usage of exons from RNA-seq data , 2012, Genome research.
[9] Stanley F. Nelson,et al. Identification of allele-specific alternative mRNA processing via transcriptome sequencing , 2012, Nucleic acids research.
[10] Davis J. McCarthy,et al. Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation , 2012, Nucleic acids research.
[11] Juw Won Park,et al. MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data , 2012, Nucleic acids research.
[12] Reuben Thomas,et al. Post-GWAS Functional Characterization of Susceptibility Variants for Chronic Lymphocytic Leukemia , 2012, PloS one.
[13] Matthew Stephens,et al. Dissecting the regulatory architecture of gene expression QTLs , 2012, Genome Biology.
[14] C. Gieger,et al. Human metabolic individuality in biomedical and pharmaceutical research , 2011, Nature.
[15] N. Enomoto,et al. Genome-wide association study identified ITPA/DDRGK1 variants reflecting thrombocytopenia in pegylated interferon and ribavirin therapy for chronic hepatitis C. , 2011, Human molecular genetics.
[16] N. Wray,et al. Genome-wide association analysis of coffee drinking suggests association with CYP1A1/CYP1A2 and NRCAM , 2011, Molecular Psychiatry.
[17] Simon C. Potter,et al. Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis , 2011, Nature.
[18] Paul Weston,et al. Interaction between ERAP1 and HLA-B27 in ankylosing spondylitis implicates peptide handling in the mechanism for HLA-B27 in disease susceptibility , 2011, Nature Genetics.
[19] W. Guan,et al. Duffy-null-associated low neutrophil counts influence HIV-1 susceptibility in high-risk South African black women. , 2011, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.
[20] K. Hansen,et al. Sequencing technology does not eliminate biological variability , 2011, Nature Biotechnology.
[21] J. Rinn,et al. Improving RNA-Seq expression estimates by correcting for fragment bias , 2011, Genome Biology.
[22] James J. Cai,et al. Context-dependent robustness to 5' splice site polymorphisms in human populations. , 2011, Human molecular genetics.
[23] Mark I. McCarthy,et al. A genome-wide association study in Europeans and South Asians identifies five new loci for coronary artery disease , 2011, Nature Genetics.
[24] Li Yang,et al. Conservation of an RNA regulatory map between Drosophila and mammals. , 2011, Genome research.
[25] Schraga Schwartz,et al. Detection and Removal of Biases in the Analysis of Next-Generation Sequencing Reads , 2011, PloS one.
[26] Tariq Ahmad,et al. Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci , 2010, Nature Genetics.
[27] Eric T. Wang,et al. Analysis and design of RNA sequencing experiments for identifying isoform regulation , 2010, Nature Methods.
[28] D. Altshuler,et al. A map of human genome variation from population-scale sequencing , 2010, Nature.
[29] Yi Xing,et al. An ESRP‐regulated splicing programme is abrogated during the epithelial–mesenchymal transition , 2010, The EMBO journal.
[30] Yusuke Nakamura,et al. ITPA polymorphism affects ribavirin-induced anemia and outcomes of therapy--a genome-wide study of Japanese HCV virus patients. , 2010, Gastroenterology.
[31] Warren W. Kretzschmar,et al. Balancing Selection Maintains a Form of ERAP2 that Undergoes Nonsense-Mediated Decay and Affects Antigen Presentation , 2010, PLoS genetics.
[32] Ayellet V. Segrè,et al. Hundreds of variants clustered in genomic loci and biological pathways affect human height , 2010, Nature.
[33] Joshua M. Korn,et al. Integrating common and rare genetic variation in diverse human populations , 2010, Nature.
[34] R. Spielman,et al. Polymorphic Cis- and Trans-Regulation of Human Gene Expression , 2010, PLoS biology.
[35] John R. Rice,et al. SPOT: a web-based tool for using biological databases to prioritize SNPs after a genome-wide association study , 2010, Nucleic Acids Res..
[36] L. Liang,et al. An Integration of Genome-Wide Association Study and Gene Expression Profiling to Prioritize the Discovery of Novel Susceptibility Loci for Osteoporosis-Related Traits , 2010, PLoS genetics.
[37] W. Wong,et al. Modeling non-uniformity in short-read rates in RNA-Seq data , 2010, Genome Biology.
[38] Brendan J. Frey,et al. Deciphering the splicing code , 2010, Nature.
[39] K. Hansen,et al. Biases in Illumina transcriptome sequencing caused by random hexamer priming , 2010, Nucleic acids research.
[40] Joseph K. Pickrell,et al. Understanding mechanisms underlying human gene expression variation with RNA sequencing , 2010, Nature.
[41] R. Guigó,et al. Transcriptome genetics using second generation sequencing in a Caucasian population , 2010, Nature.
[42] N. Cox,et al. Trait-Associated SNPs Are More Likely to Be eQTLs: Annotation to Enhance Discovery from GWAS , 2010, PLoS genetics.
[43] Laura J. Bierut,et al. A genome-wide association study of alcohol dependence , 2010, Proceedings of the National Academy of Sciences.
[44] T. Nilsen,et al. Expansion of the eukaryotic proteome by alternative splicing , 2010, Nature.
[45] Jacek Majewski,et al. Fine-Scale Variation and Genetic Determinants of Alternative Splicing across Individuals , 2009, PLoS genetics.
[46] Davis J. McCarthy,et al. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..
[47] M. Stephens,et al. Bayesian statistical methods for genetic association studies , 2009, Nature Reviews Genetics.
[48] G. Borgstahl,et al. Functional study of the P32T ITPA variant associated with drug sensitivity in humans. , 2009, Journal of molecular biology.
[49] S. Cichon,et al. Genome-wide association study of alcohol dependence. , 2009, Archives of general psychiatry.
[50] F. Collins,et al. Potential etiologic and functional implications of genome-wide association loci for human diseases and traits , 2009, Proceedings of the National Academy of Sciences.
[51] Jack A. Taylor,et al. SNPinfo: integrating GWAS and candidate gene information into functional SNP selection for genetic association studies , 2009, Nucleic Acids Res..
[52] John P. A. Ioannidis,et al. Validating, augmenting and refining genome-wide association signals , 2009, Nature Reviews Genetics.
[53] Hunter B. Fraser,et al. Common polymorphic transcript variation in human disease. , 2009, Genome research.
[54] B. Browning,et al. A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals. , 2009, American journal of human genetics.
[55] Gene W. Yeo,et al. An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells , 2009, Nature Structural &Molecular Biology.
[56] David B. Goldstein,et al. A Genome-Wide Investigation of SNPs and CNVs in Schizophrenia , 2009, PLoS genetics.
[57] K. Shianna,et al. Tissue-Specific Genetic Control of Splicing: Implications for the Study of Complex Traits , 2008, PLoS biology.
[58] B. Frey,et al. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing , 2008, Nature Genetics.
[59] Eric T. Wang,et al. Alternative Isoform Regulation in Human Tissue Transcriptomes , 2008, Nature.
[60] Guy Pratt,et al. A genome-wide association study identifies six susceptibility loci for chronic lymphocytic leukemia , 2008, Nature Genetics.
[61] M. Stephens,et al. High-Resolution Mapping of Expression-QTLs Yields Insight into Human Gene Regulation , 2008, PLoS genetics.
[62] Jacek Majewski,et al. Effect of polymorphisms within probe–target sequences on olignonucleotide microarray experiments , 2008, Nucleic acids research.
[63] John D. Storey,et al. Mapping the Genetic Architecture of Gene Expression in Human Liver , 2008, PLoS biology.
[64] C. Burge,et al. Splicing regulation: from a parts list of regulatory elements to an integrated splicing code. , 2008, RNA.
[65] H. Stefánsson,et al. Genetics of gene expression and its effect on disease , 2008, Nature.
[66] Jacek Majewski,et al. Genome-wide analysis of transcript isoform variation in humans , 2008, Nature Genetics.
[67] Guey-Shin Wang,et al. Splicing in disease: disruption of the splicing code and the decoding machinery , 2007, Nature Reviews Genetics.
[68] M. Robinson,et al. Small-sample estimation of negative binomial dispersion, with applications to SAGE data. , 2007, Biostatistics.
[69] D. Goldstein,et al. Nova2 interacts with a cis-acting polymorphism to influence the proportions of drug-responsive splice variants of SCN1A. , 2007, American journal of human genetics.
[70] T. Cooper,et al. Minigene reporter for identification and analysis of cis elements and trans factors affecting pre-mRNA splicing. , 2006, BioTechniques.
[71] P. Nordlund,et al. Crystal Structure Of Human Inosine Triphosphatase , 2006 .
[72] P. Tompa,et al. IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content , 2005, Bioinform..
[73] H. Togari,et al. Genetic basis of inosine triphosphate pyrophosphohydrolase deficiency in the Japanese population. , 2005, Molecular genetics and metabolism.
[74] H. Goldstein,et al. Variance partitioning in multilevel logistic models that exhibit overdispersion , 2005 .
[75] Christopher B. Burge,et al. Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals , 2003, RECOMB '03.
[76] T. Cooper,et al. Pre-mRNA splicing and human disease. , 2003, Genes & development.
[77] J. Sanderson,et al. Genetic basis of inosine triphosphate pyrophosphohydrolase deficiency , 2002, Human Genetics.
[78] S. M. de la Monte,et al. Identification and Characterization of a Leukocyte-specific Component of the Nuclear Body* , 1996, The Journal of Biological Chemistry.
[79] L. Staudt,et al. LYSP100-associated nuclear domains (LANDs): description of a new class of subnuclear structures and their relationship to PML nuclear bodies. , 1996, Blood.
[80] R Core Team,et al. R: A language and environment for statistical computing. , 2014 .
[81] N. Enomoto,et al. Genome-wide association study identified ITPA / DDRGK 1 variants reflecting thrombocytopenia in pegylated interferon and ribavirin therapy for chronic hepatitis C , 2011 .
[82] J. Sanderson,et al. The ITPA c.94C>A and g.IVS2+21A>C sequence variants contribute to missplicing of the ITPA gene. , 2007, Biochimica et biophysica acta.
[83] 前田 徹. Genetic basis of inosine triphosphate pyrophosphohydrolase deficiency in the Japanese population , 2007 .
[84] Edinburgh Research Explorer Identification of common genetic variation that modulates alternative splicing , 2022 .