Efficient inference for sparse latent variable models of transcriptional regulation
暂无分享,去创建一个
Neil D. Lawrence | Magnus Rattray | Zhenwen Dai | Mudassar Iqbal | Neil D. Lawrence | M. Rattray | Zhenwen Dai | M. Iqbal
[1] Fabio Rinaldi,et al. RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond , 2015, Nucleic Acids Res..
[2] Neil D. Lawrence,et al. Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities , 2006, Bioinform..
[3] Kenta Nakai,et al. DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information , 2007, Nucleic Acids Res..
[4] M. West,et al. High-Dimensional Sparse Factor Modeling: Applications in Gene Expression Genomics , 2008, Journal of the American Statistical Association.
[5] Mario L. Arrieta-Ortiz,et al. An experimentally supported model of the Bacillus subtilis global transcriptional regulatory network , 2015, Molecular systems biology.
[6] Guido Sanguinetti,et al. Large-scale learning of combinatorial transcriptional dynamics from gene expression , 2011, Bioinform..
[7] Chiara Sabatti,et al. Bayesian sparse hidden components analysis for transcription regulation networks , 2005, Bioinform..
[8] Neil D. Lawrence,et al. Probabilistic Non-linear Principal Component Analysis with Gaussian Process Latent Variable Models , 2005, J. Mach. Learn. Res..
[9] Oliver Stegle,et al. Scalable latent-factor models applied to single-cell RNA-seq data separate biological drivers from confounding effects , 2016, bioRxiv.
[10] Kyle J. Minch,et al. A comprehensive map of genome-wide gene regulation in Mycobacterium tuberculosis , 2015, Scientific Data.
[11] Martin Tompa,et al. Rv3133c/dosR is a transcription factor that mediates the hypoxic response of Mycobacterium tuberculosis , 2003, Molecular microbiology.
[12] Nathan D. Price,et al. The DNA-binding network of Mycobacterium tuberculosis , 2015, Nature Communications.
[13] Lorenz Wernisch,et al. Factor analysis for gene regulatory networks and transcription factor activity profiles , 2007, BMC Bioinformatics.
[14] Chiara Sabatti,et al. Network component analysis: Reconstruction of regulatory signals in biological systems , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[15] David J Studholme,et al. Bmc Microbiology Bioinformatic Identification of Novel Regulatory Dna Sequence Motifs in Streptomyces Coelicolor , 2004 .
[16] Diogo M. Camacho,et al. Wisdom of crowds for robust gene network inference , 2012, Nature Methods.
[17] Eric D Siggia,et al. Identification of the binding sites of regulatory proteins in bacterial genomes , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[18] Kyle J. Minch,et al. Mapping and manipulating the Mycobacterium tuberculosis transcriptome using a transcription factor overexpression-derived regulatory network , 2014, Genome Biology.
[19] Yves Van de Peer,et al. The Mycobacterium tuberculosis regulatory network and hypoxia , 2013, Nature.
[20] Neil D. Lawrence,et al. Bayesian Gaussian Process Latent Variable Model , 2010, AISTATS.
[21] David A. Hodgson,et al. Extracting regulator activity profiles by integration of de novo motifs and expression data: characterizing key regulators of nutrient depletion responses in Streptomyces coelicolor , 2012, Nucleic acids research.
[22] James E. Galagan,et al. Genomic insights into tuberculosis , 2014, Nature Reviews Genetics.
[23] Michalis K. Titsias,et al. Variational Learning of Inducing Variables in Sparse Gaussian Processes , 2009, AISTATS.
[24] D. Floreano,et al. Revealing strengths and weaknesses of methods for gene network inference , 2010, Proceedings of the National Academy of Sciences.
[25] Fabian J Theis,et al. Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells , 2015, Nature Biotechnology.
[26] Kay Nieselt,et al. The dynamic architecture of the metabolic switch in Streptomyces coelicolor , 2010, BMC Genomics.