/publications/01_Transcriptional-regulatory-networks-in-Saccharomyces-cerevisiae/ 2026-03-09T13:34:52+00:00 /publications/02_Computational-discovery-of-gene-modules-and-regulatory-networks/ 2026-03-09T13:34:52+00:00 /publications/03_Control-of-pancreas-and-liver-gene-expression-by-HNF-transcription-factors/ 2026-03-09T13:34:52+00:00 /publications/04_Transcriptional-regulatory-code-of-a-eukaryotic-genome/ 2026-03-09T13:34:52+00:00 /publications/05_TAMO-a-flexible-object-oriented-framework-for-analyzing-transcriptional-regulation-using-DNA-sequence-motif/ 2026-03-09T13:34:52+00:00 /publications/06_Core-transcriptional-regulatory-circuitry-in-human-hepatocytes/ 2026-03-09T13:34:52+00:00 /publications/07_A-hypothesis-based-approach-for-identifying-the-binding-specificity-of-regulatory-proteins-from-chromatin-immunoprecipitation-data/ 2026-03-09T13:34:52+00:00 /publications/08_An-improved-map-of-conserved-regulatory-sites-for-Saccharomyces-cerevisiae/ 2026-03-09T13:34:52+00:00 /publications/09_Practical-strategies-for-discovering-regulatory-DNA-sequence-motifs/ 2026-03-09T13:34:52+00:00 /publications/10_High-resolution-computational-models-of-genome-binding-events/ 2026-03-09T13:34:52+00:00 /publications/11_Foxp3-occupancy-and-regulation-of-key-target-genes-during-T-cell-stimulation/ 2026-03-09T13:34:52+00:00 /publications/12_Tissue-specific-transcriptional-regulation-has-diverged-significantly-between-human-and-mouse/ 2026-03-09T13:34:52+00:00 /publications/13_WebMOTIFS-automated-discovery-filtering-and-scoring-of-DNA-sequence-motifs-using-multiple-programs-and-Bayesian-approaches/ 2026-03-09T13:34:52+00:00 /publications/14_Bridging-high-throughput-genetic-and-transcriptional-data-reveals-cellular-responses-to-alpha-synuclein-toxicity/ 2026-03-09T13:34:52+00:00 /publications/15_Integrating-proteomic-transcriptional-and-interactome-data-reveals-hidden-components-of-signaling-and-regulatory-networks/ 2026-03-09T13:34:52+00:00 /publications/16_Insights-into-GATA-1-Mediated-Gene-Activation-versus-Repression-via-Genome-wide-Chromatin-Occupancy-Analysis/ 2026-03-09T13:34:52+00:00 /publications/17_A-Quantitative-Model-of-Transcriptional-Regulation-Reveals-the-Influence-of-Binding-Location-on-Expression/ 2026-03-09T13:34:52+00:00 /publications/18_Unbiased-Genome-wide-in-vivo-Mapping-of-Transcriptional-Regulatory-Elements-Reveals-Sex-Differences-in-Chromatin-Structure-Associated-with-Sex-specific-Liver-Gene-Expression/ 2026-03-09T13:34:52+00:00 /publications/19_ResponseNet-revealing-signaling-and-regulatory-networks-linking-genetic-and-transcriptomic-screening-data/ 2026-03-09T13:34:52+00:00 /publications/20_Genome-Wide-Profiling-of-H3K56-Acetylation-and-Transcription-Factor-Binding-Sites-in-Human-Adipocytes/ 2026-03-09T13:34:52+00:00 /publications/21_Large-Scale-Discovery-of-ERK2-Substrates-Identifies-ERK-Mediated-Transcrioptional-Regulation-by-ETV3/ 2026-03-09T13:34:52+00:00 /publications/22_Direct-recruitment-of-polycomb-repressive-complex-1-to-chromatin-by-core-binding-transcription-factors/ 2026-03-09T13:34:52+00:00 /publications/23_Swimming-Upstream-Identifying-Proteomic-Signals-that-Drive-Transcriptional-Changes-using-the-Interactome-and-Multiple-Omics-Datasets/ 2026-03-09T13:34:52+00:00 /publications/24_Simultaneous-reconstruction-of-multiple-signaling-pathways-via-the-prize-collecting-Steiner-forest-problem/ 2026-03-09T13:34:52+00:00 /publications/25_SteinerNet-A-Web-Server-for-Integrating-Omic-data-to-Discover-Hidden-Components-of-Response-Pathways/ 2026-03-09T13:34:52+00:00 /publications/26_Polyglutamine-Expanded-Huntingtin-Dramatically-Alters-the-Genome-Wide-Binding-of-HSF1/ 2026-03-09T13:34:52+00:00 /publications/27_HSF1-Drives-a-Transcriptional-Program-Distinct-from-Heat-Shock-to-Support-Highly-Malignant-Human-Cancers/ 2026-03-09T13:34:52+00:00 /publications/28_SAMNet-a-network-based-approach-to-integrate-multi-dimensional-high-throughput-datasets/ 2026-03-09T13:34:52+00:00 /publications/29_Extensive-changes-in-DNA-methylation-are-associated-with-expression-of-mutant-huntingtin/ 2026-03-09T13:34:52+00:00 /publications/30_Simultaneous-Reconstruction-of-Multiple-Signaling-Pathways-via-the-Prize-Collecting-Steiner-Forest-Problem/ 2026-03-09T13:34:52+00:00 /publications/31_Linking-Proteomic-and-Transcriptional-Data-through-the-Interactome-and-Epigenome-Reveals-a-Map-of-Oncogene-induced-Signaling/ 2026-03-09T13:34:52+00:00 /publications/32_SOX2-co-occupies-distal-enhancer-elements-with-distinct-POU-factors-in-ESCs-and-NPCs-to-specify-cell-state/ 2026-03-09T13:34:52+00:00 /publications/33_The-Small-Molecule-Genistein-Increases-Hepcidin-Expression-in-Human-Hepatocytes/ 2026-03-09T13:34:52+00:00 /publications/34_Integrated-network-analyses-for-functional-genomic-studies-in-cancer/ 2026-03-09T13:34:52+00:00 /publications/35_Targeting-H3K4-trimethylation-in-Huntington-disease/ 2026-03-09T13:34:52+00:00 /publications/36_Analysis-of-In-Vitro-Insulin-Resistance-Models-and-Their-Physiological-Relevance-to-In-Vivo-Diet-Induced-Adipose-Insulin-Resistance/ 2026-03-09T13:34:52+00:00 /publications/37_SAMNetWeb-Identifying-condition-specific-networks-linking-signaling-and-transcription/ 2026-03-09T13:34:52+00:00 /publications/38_Sharing-Information-to-Reconstruct-Patient-Specific-Pathways-in-Heterogeneous-Diseases/ 2026-03-09T13:34:52+00:00 /publications/39_Bmi1-promotes-erythroid-development-through-regulating-ribosome-biogenesis/ 2026-03-09T13:34:52+00:00 /publications/40_Network-Modeling-of-Heterogeneous-Diseases/ 2026-03-09T13:34:52+00:00 /publications/41_Chromatin-Landscape-and-Epigenetic-Signatures-in-Neurological-Disorders-Emerging-Perspectives-for-Biological-and-Clinical-Research/ 2026-03-09T13:34:52+00:00 /publications/42_Elucidating-MicroRNA-Regulatory-Networks-Using-Transcriptional-Post-transcriptional-and-Histone-Modification-Measurements/ 2026-03-09T13:34:52+00:00 /publications/43_Multiplexed-barcoded-CRISPR-Cas9-screening-enabled-by-CombiGEM/ 2026-03-09T13:34:52+00:00 /publications/44_DiSCoVERing-Innovative-Therapies-for-Rare-Tumors-Combining-Genetically-Accurate-Disease-Models-with-In-Silico-Analysis-to-Identify-Novel-Therapeutic-Targets/ 2026-03-09T13:34:52+00:00 /publications/45_Network-Based-Interpretation-of-Diverse-High-Throughput-Datasets-through-the-Omics-Integrator-Software-Package/ 2026-03-09T13:34:52+00:00 /publications/46_Cell-freezing-protocol-suitable-for-ATAC-Seq-on-motor-neurons-derived-from-human-induced-pluripotent-stem-cells/ 2026-03-09T13:34:52+00:00 /publications/47_Pathway-based-network-modeling-finds-hidden-genes-in-shRNA-screen-for-regulators-of-acute-lymphoblastic-leukemia/ 2026-03-09T13:34:52+00:00 /publications/48_Network-Modeling-Identifies-Patient-specific-Pathways-in-Glioblastoma/ 2026-03-09T13:34:52+00:00 /publications/49_Revealing-disease-associated-pathways-by-network-integration-of-untargeted-metabolomics/ 2026-03-09T13:34:52+00:00 /publications/51_Hyper-_and_hypo-_nutrition_studies_of_the_hepatic_transcriptome_and_epigenome_suggest_that_PPARa_regulates_anaerobic_glycolysis/ 2026-03-09T13:34:52+00:00 /publications/52_Genome-Scale_Networks_Link_Neurodegenerative_Disease_Genes_to_%CE%B1-Synuclein_through_Specific_Molecular_Pathways/ 2026-03-09T13:34:52+00:00 /publications/53_Developmental_alterations_in_Huntington's_disease_neural_cells_and_pharmacological_rescue_in_cells_and_mice/ 2026-03-09T13:34:52+00:00 /publications/54_Huntingtons_Disease_iPSC-Derived_Brain_Microvascular_Endothelial_Cells_Reveal_WNT-Mediated_Angiogenic_and_Blood-Brain_Barrier_Deficits/ 2026-03-09T13:34:52+00:00 /publications/55_The_whole-genome_landscape_of_medulloblastoma_subtypes/ 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/publications/62_The-Library-of-Integrated-Network-Based-Cellular-Signatures-NIH-Program--System-Level-Cataloging-of-Human-Cells-Response-to-Perturbations/ 2026-03-09T13:34:52+00:00 /publications/63_Genome-wide-Analyses-Identify-KIF5A-as-a-Novel-ALS-Gene/ 2026-03-09T13:34:52+00:00 /publications/64_Tissue-and-cellular-rigidity-and-mechanosensitive-signaling-activation-in-Alexander-disease/ 2026-03-09T13:34:52+00:00 /publications/65_Proteomics-Post-translational-Modifications-and-Integrative-Analyses-Reveal-Molecular-Heterogeneity-within-Medulloblastoma-Subgroups/ 2026-03-09T13:34:52+00:00 /publications/66_Unexpected-similarities-between-C9ORF72-and-sporadic-forms-of-ALS-FTD-suggest-a-common-disease-mechanism/ 2026-03-09T13:34:52+00:00 /publications/67_Turning-omics-data-into-therapeutic-insights/ 2026-03-09T13:34:52+00:00 /publications/68_Synthesizing-Signaling-Pathways-from-Temporal-Phosphoproteomic-Data/ 2026-03-09T13:34:52+00:00 /publications/69_Shallow-Sparsely-Connected-Autoencoders-for-Gene-Set-Projection/ 2026-03-09T13:34:52+00:00 /publications/70_Characteristics-of-myeloproliferative-neoplasms-in-patients-exposed-to-ionizing-radiation-following-the-Chernobyl-nuclear-accident/ 2026-03-09T13:34:52+00:00 /publications/71_Postmortem-Complex-Subtypes-ALS/ 2026-03-09T13:34:52+00:00 /publications/72_Zfp281/ 2026-03-09T13:34:52+00:00 /publications/73_ELK1-HD/ 2026-03-09T13:34:52+00:00 /publications/74_Bioenergetic-deficits-HD/ 2026-03-09T13:34:52+00:00 /publications/75_JQ1-HD/ 2026-03-09T13:34:52+00:00 /publications/76_Multi-Omics-ML/ 2026-03-09T13:34:52+00:00 /publications/77_APOE4/ 2026-03-09T13:34:52+00:00 /publications/78_WNT-Signalling/ 2026-03-09T13:34:52+00:00 /publications/79_a-syneucliopathy_proteomics/ 2026-03-09T13:34:52+00:00 /publications/80_phenotyping_neurodegeneration_in_ipscs/ 2026-03-09T13:34:52+00:00 /publications/81_factors_regulating_tumor_response_to_killer_cells/ 2026-03-09T13:34:52+00:00 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