Lista de obras - Ernest Fraenkel - Dominio Público Uruguay

A Multi-Omics Interpretable Machine Learning Model Reveals Modes of Action of Small Molecules

scientific article published on 22 January 2020

A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data.

artículo científico publicado en 2005

A multi-omic analysis of MCF10A cells provides a resource for integrative assessment of ligand-mediated molecular and phenotypic responses

artículo científico publicado en 2022

A quantitative model of transcriptional regulation reveals the influence of binding location on expression

artículo científico publicado en 2010

A small domain of CBP/p300 binds diverse proteins: solution structure and functional studies

artículo científico publicado en 2001

APOE4 is Associated with Differential Regional Vulnerability to Bioenergetic Deficits in Aged APOE Mice

artículo científico publicado en 2020

Aberrant Development Corrected in Adult-Onset Huntington's Disease iPSC-Derived Neuronal Cultures via WNT Signaling Modulation

scientific article published on 27 February 2020

An improved map of conserved regulatory sites for Saccharomyces cerevisiae

artículo científico publicado en 2006

Analysis of in vitro insulin-resistance models and their physiological relevance to in vivo diet-induced adipose insulin resistance

artículo científico publicado en 2013

Answer ALS, a large-scale resource for sporadic and familial ALS combining clinical and multi-omics data from induced pluripotent cell lines

artículo científico publicado en 2022

Aromatic-aromatic interactions in the zinc finger motif. Analysis of the two-dimensional nuclear magnetic resonance structure of a mutant domain

artículo científico publicado en 1992

Assembly of a functional beta interferon enhanceosome is dependent on ATF-2-c-jun heterodimer orientation

artículo científico publicado en 2000

Bmi1 promotes erythroid development through regulating ribosome biogenesis

artículo científico publicado en 2015

Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity

artículo científico publicado en 2009

Cell freezing protocol suitable for ATAC-Seq on motor neurons derived from human induced pluripotent stem cells.

artículo científico publicado en 2016

Comparative proteomic analysis highlights metabolic dysfunction in α-synucleinopathy

artículo científico publicado en 2020

Comparison of X-ray and NMR structures for the Antennapedia homeodomain-DNA complex

artículo científico publicado en 1998

Compounds from an unbiased chemical screen reverse both ER-to-Golgi trafficking defects and mitochondrial dysfunction in Parkinson's disease models

artículo científico publicado en 2009

Computational discovery of gene modules and regulatory networks

artículo científico publicado en 2003

Control of pancreas and liver gene expression by HNF transcription factors

artículo científico publicado en 2004

Core transcriptional regulatory circuitry in human hepatocytes

artículo científico publicado en 2006

DiSCoVERing Innovative Therapies for Rare Tumors: Combining Genetically Accurate Disease Models with In Silico Analysis to Identify Novel Therapeutic Targets

artículo científico publicado en 2016

Direct recruitment of polycomb repressive complex 1 to chromatin by core binding transcription factors.

artículo científico publicado en 2012

Discovering Altered Regulation and Signaling Through Network-based Integration of Transcriptomic, Epigenomic, and Proteomic Tumor Data.

artículo científico publicado en 2018

Elucidating MicroRNA Regulatory Networks Using Transcriptional, Post-transcriptional, and Histone Modification Measurements

artículo científico publicado en 2015

Engrailed homeodomain-DNA complex at 2.2 A resolution: a detailed view of the interface and comparison with other engrailed structures

artículo científico publicado en 1998

Extensive changes in DNA methylation are associated with expression of mutant huntingtin.

artículo científico publicado en 2013

Foxp3 occupancy and regulation of key target genes during T-cell stimulation

artículo científico publicado en 2007

Functional Genomics Approach Identifies Novel Signaling Regulators of TGFα Ectodomain Shedding

artículo científico publicado en 2017

Genome-Scale Networks Link Neurodegenerative Disease Genes to α-Synuclein through Specific Molecular Pathways

artículo científico publicado en 2017

Genome-wide Analyses Identify KIF5A as a Novel ALS Gene.

artículo científico publicado en 2018

Genome-wide profiling of H3K56 acetylation and transcription factor binding sites in human adipocytes

artículo científico publicado en 2011

Genomic characterization of Wilms' tumor suppressor 1 targets in nephron progenitor cells during kidney development.

artículo científico publicado en 2010

HSF1 drives a transcriptional program distinct from heat shock to support highly malignant human cancers

artículo científico publicado en 2012

Hepatic Dysfunction Caused by Consumption of a High-Fat Diet.

artículo científico publicado en 2017

High-resolution computational models of genome binding events.

artículo científico

Huntington's Disease iPSC-Derived Brain Microvascular Endothelial Cells Reveal WNT-Mediated Angiogenic and Blood-Brain Barrier Deficits

artículo científico publicado en 2017

Hyper- and hypo- nutrition studies of the hepatic transcriptome and epigenome suggest that PPARα regulates anaerobic glycolysis

artículo científico publicado en 2017

Identifying patterns in amyotrophic lateral sclerosis progression from sparse longitudinal data

artículo científico publicado en 2022

Identifying therapeutic targets by combining transcriptional data with ordinal clinical measurements.

artículo científico publicado en 2017

Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis

artículo científico publicado en 2009

Integrated network analyses for functional genomic studies in cancer

artículo científico publicado en 2013

Integrating proteomic, transcriptional, and interactome data reveals hidden components of signaling and regulatory networks

artículo científico publicado en 2009

Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling

artículo científico publicado en 2013

MB-103DiSCoVERing INNOVATIVE THERAPIES: COMBINING GENETICALLY ACCURATE DISEASE MODELS OF MEDULLOBLASTOMA WITH ADVANCED IN SILICO ANALYSIS TO IDENTIFY NOVEL THERAPEUTIC TARGETS.

artículo científico publicado en 2016

Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM.

artículo científico publicado en 2016

Network Modeling Identifies Patient-specific Pathways in Glioblastoma.

artículo científico publicado en 2016

Network modeling of kinase inhibitor polypharmacology reveals pathways targeted in chemical screens.

artículo científico publicado en 2017

Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package

artículo científico publicado en 2016

PCSF: An R-package for network-based interpretation of high-throughput data.

artículo científico publicado en 2017

Pathway-based network modeling finds hidden genes in shRNA screen for regulators of acute lymphoblastic leukemia

scientific article published on 17 June 2016

Poly-glutamine expanded huntingtin dramatically alters the genome wide binding of HSF1.

artículo científico publicado en 2012

Practical strategies for discovering regulatory DNA sequence motifs

artículo científico publicado en 2006

Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups

scientific article published on 01 September 2018

ResponseNet: revealing signaling and regulatory networks linking genetic and transcriptomic screening data

artículo científico publicado en 2011

Revealing disease-associated pathways by network integration of untargeted metabolomics.

artículo científico publicado en 2016

SAMNetWeb: identifying condition-specific networks linking signaling and transcription

artículo científico publicado en 2014

SOX2 co-occupies distal enhancer elements with distinct POU factors in ESCs and NPCs to specify cell state

artículo científico publicado en 2013

Sequence analysis of chromatin immunoprecipitation data for transcription factors.

artículo científico publicado en 2010

Shallow Sparsely-Connected Autoencoders for Gene Set Projection

article

Sharing information to reconstruct patient-specific pathways in heterogeneous diseases

scientific article published on January 2014

Simultaneous reconstruction of multiple signaling pathways via the prize-collecting steiner forest problem

artículo científico publicado en 2013

SteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways.

artículo científico publicado en 2012

Structural basis of DNA recognition by the heterodimeric cell cycle transcription factor E2F-DP

artículo científico publicado en 1999

Swimming upstream: identifying proteomic signals that drive transcriptional changes using the interactome and multiple "-omics" datasets

artículo científico publicado en 2012

Synthesizing Signaling Pathways from Temporal Phosphoproteomic Data

scientific article published on 01 September 2018

TAMO: a flexible, object-oriented framework for analyzing transcriptional regulation using DNA-sequence motifs

artículo científico publicado en 2005

Targeting H3K4 trimethylation in Huntington disease

artículo científico publicado en 2013

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations

artículo científico publicado en 2017

The whole-genome landscape of medulloblastoma subtypes

artículo científico publicado en 2017

Tissue and cellular rigidity and mechanosensitive signaling activation in Alexander disease.

artículo científico publicado en 2018

Tissue-specific transcriptional regulation has diverged significantly between human and mouse

artículo científico publicado en 2007

Transcriptional regulatory code of a eukaryotic genome

artículo científico publicado en 2004

Transcriptional regulatory networks in Saccharomyces cerevisiae

artículo científico publicado en 2002

Treatment with JQ1, a BET bromodomain inhibitor, is selectively detrimental to R6/2 Huntington's disease mice

artículo científico publicado en 2020

Turning omics data into therapeutic insights

artículo científico publicado en 2018

Unbiased, Genome-Wide In Vivo Mapping of Transcriptional Regulatory Elements Reveals Sex Differences in Chromatin Structure Associated with Sex-Specific Liver Gene Expression

article

Unbiased, genome-wide in vivo mapping of transcriptional regulatory elements reveals sex differences in chromatin structure associated with sex-specific liver gene expression

artículo científico publicado en 2010

Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism

artículo científico publicado en 2018

WebMOTIFS: automated discovery, filtering and scoring of DNA sequence motifs using multiple programs and Bayesian approaches

artículo científico

Zfp281 (ZBP-99) plays a functionally redundant role with Zfp148 (ZBP-89) during erythroid development

artículo científico publicado en 2019

Lista de obras de Ernest Fraenkel

A Multi-Omics Interpretable Machine Learning Model Reveals Modes of Action of Small Molecules

A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data.

A multi-omic analysis of MCF10A cells provides a resource for integrative assessment of ligand-mediated molecular and phenotypic responses

A quantitative model of transcriptional regulation reveals the influence of binding location on expression

A small domain of CBP/p300 binds diverse proteins: solution structure and functional studies

APOE4 is Associated with Differential Regional Vulnerability to Bioenergetic Deficits in Aged APOE Mice

Aberrant Development Corrected in Adult-Onset Huntington's Disease iPSC-Derived Neuronal Cultures via WNT Signaling Modulation

An improved map of conserved regulatory sites for Saccharomyces cerevisiae

Analysis of in vitro insulin-resistance models and their physiological relevance to in vivo diet-induced adipose insulin resistance

Answer ALS, a large-scale resource for sporadic and familial ALS combining clinical and multi-omics data from induced pluripotent cell lines

Aromatic-aromatic interactions in the zinc finger motif. Analysis of the two-dimensional nuclear magnetic resonance structure of a mutant domain

Assembly of a functional beta interferon enhanceosome is dependent on ATF-2-c-jun heterodimer orientation

Bmi1 promotes erythroid development through regulating ribosome biogenesis

Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity

Cell freezing protocol suitable for ATAC-Seq on motor neurons derived from human induced pluripotent stem cells.

Comparative proteomic analysis highlights metabolic dysfunction in α-synucleinopathy

Comparison of X-ray and NMR structures for the Antennapedia homeodomain-DNA complex

Compounds from an unbiased chemical screen reverse both ER-to-Golgi trafficking defects and mitochondrial dysfunction in Parkinson's disease models

Computational discovery of gene modules and regulatory networks

Control of pancreas and liver gene expression by HNF transcription factors

Core transcriptional regulatory circuitry in human hepatocytes

DiSCoVERing Innovative Therapies for Rare Tumors: Combining Genetically Accurate Disease Models with In Silico Analysis to Identify Novel Therapeutic Targets

Direct recruitment of polycomb repressive complex 1 to chromatin by core binding transcription factors.

Discovering Altered Regulation and Signaling Through Network-based Integration of Transcriptomic, Epigenomic, and Proteomic Tumor Data.

Elucidating MicroRNA Regulatory Networks Using Transcriptional, Post-transcriptional, and Histone Modification Measurements

Engrailed homeodomain-DNA complex at 2.2 A resolution: a detailed view of the interface and comparison with other engrailed structures

Extensive changes in DNA methylation are associated with expression of mutant huntingtin.

Foxp3 occupancy and regulation of key target genes during T-cell stimulation

Functional Genomics Approach Identifies Novel Signaling Regulators of TGFα Ectodomain Shedding

Genome-Scale Networks Link Neurodegenerative Disease Genes to α-Synuclein through Specific Molecular Pathways

Genome-wide Analyses Identify KIF5A as a Novel ALS Gene.

Genome-wide profiling of H3K56 acetylation and transcription factor binding sites in human adipocytes

Genomic characterization of Wilms' tumor suppressor 1 targets in nephron progenitor cells during kidney development.

HSF1 drives a transcriptional program distinct from heat shock to support highly malignant human cancers

Hepatic Dysfunction Caused by Consumption of a High-Fat Diet.

High-resolution computational models of genome binding events.

Huntington's Disease iPSC-Derived Brain Microvascular Endothelial Cells Reveal WNT-Mediated Angiogenic and Blood-Brain Barrier Deficits

Hyper- and hypo- nutrition studies of the hepatic transcriptome and epigenome suggest that PPARα regulates anaerobic glycolysis

Identifying patterns in amyotrophic lateral sclerosis progression from sparse longitudinal data

Identifying therapeutic targets by combining transcriptional data with ordinal clinical measurements.

Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis

Integrated network analyses for functional genomic studies in cancer

Integrating proteomic, transcriptional, and interactome data reveals hidden components of signaling and regulatory networks

Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling

MB-103DiSCoVERing INNOVATIVE THERAPIES: COMBINING GENETICALLY ACCURATE DISEASE MODELS OF MEDULLOBLASTOMA WITH ADVANCED IN SILICO ANALYSIS TO IDENTIFY NOVEL THERAPEUTIC TARGETS.

Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM.

Network Modeling Identifies Patient-specific Pathways in Glioblastoma.

Network modeling of kinase inhibitor polypharmacology reveals pathways targeted in chemical screens.

Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package

PCSF: An R-package for network-based interpretation of high-throughput data.

Pathway-based network modeling finds hidden genes in shRNA screen for regulators of acute lymphoblastic leukemia

Poly-glutamine expanded huntingtin dramatically alters the genome wide binding of HSF1.

Practical strategies for discovering regulatory DNA sequence motifs

Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups

ResponseNet: revealing signaling and regulatory networks linking genetic and transcriptomic screening data

Revealing disease-associated pathways by network integration of untargeted metabolomics.

SAMNetWeb: identifying condition-specific networks linking signaling and transcription

SOX2 co-occupies distal enhancer elements with distinct POU factors in ESCs and NPCs to specify cell state

Sequence analysis of chromatin immunoprecipitation data for transcription factors.

Shallow Sparsely-Connected Autoencoders for Gene Set Projection

Sharing information to reconstruct patient-specific pathways in heterogeneous diseases

Simultaneous reconstruction of multiple signaling pathways via the prize-collecting steiner forest problem

SteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways.

Structural basis of DNA recognition by the heterodimeric cell cycle transcription factor E2F-DP

Swimming upstream: identifying proteomic signals that drive transcriptional changes using the interactome and multiple "-omics" datasets

Synthesizing Signaling Pathways from Temporal Phosphoproteomic Data

TAMO: a flexible, object-oriented framework for analyzing transcriptional regulation using DNA-sequence motifs

Targeting H3K4 trimethylation in Huntington disease

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations

The whole-genome landscape of medulloblastoma subtypes

Tissue and cellular rigidity and mechanosensitive signaling activation in Alexander disease.

Tissue-specific transcriptional regulation has diverged significantly between human and mouse

Transcriptional regulatory code of a eukaryotic genome

Transcriptional regulatory networks in Saccharomyces cerevisiae

Treatment with JQ1, a BET bromodomain inhibitor, is selectively detrimental to R6/2 Huntington's disease mice

Turning omics data into therapeutic insights

Unbiased, Genome-Wide In Vivo Mapping of Transcriptional Regulatory Elements Reveals Sex Differences in Chromatin Structure Associated with Sex-Specific Liver Gene Expression

Unbiased, genome-wide in vivo mapping of transcriptional regulatory elements reveals sex differences in chromatin structure associated with sex-specific liver gene expression

Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism