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Finding function: evaluation methods for functional genomic data

BMC genomics, 2006-07, Vol.7 (1), p.187-187, Article 187

2006

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Visualization of omics data for systems biology

Nature methods, 2010-03, Vol.7 (3 Suppl), p.S56-S68

2010

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Canonical A-to-I and C-to-U RNA Editing Is Enriched at 3′UTRs and microRNA Target Sites in Multiple Mouse Tissues

PloS one, 2012-03, Vol.7 (3), p.e33720

2012

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Exploring the functional landscape of gene expression: directed search of large microarray compendia

Bioinformatics, 2007-10, Vol.23 (20), p.2692-2699

2007

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Tissue-specific functional networks for prioritizing phenotype and disease genes

PLoS computational biology, 2012-09, Vol.8 (9), p.e1002694

2012

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Quantitative analysis of fitness and genetic interactions in yeast on a genome scale

Nature methods, 2010-12, Vol.7 (12), p.1017-1024

2010

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Computationally driven, quantitative experiments discover genes required for mitochondrial biogenesis

PLoS genetics, 2009-03, Vol.5 (3), p.e1000407-e1000407

2009

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Regulatory complexity revealed by integrated cytological and RNA-seq analyses of meiotic substages in mouse spermatocytes

BMC genomics, 2016-08, Vol.17 (1), p.628-628, Article 628

2016

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Exploring the human genome with functional maps

Genome Research, 2009-06, Vol.19 (6), p.1093-1106

2009

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Genome-Wide Analysis of N1ICD/RBPJ Targets In Vivo Reveals Direct Transcriptional Regulation of Wnt, SHH, and Hippo Pathway Effectors by Notch1

Stem cells (Dayton, Ohio), 2012-04, Vol.30 (4), p.741-752

2012

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RNA-Seq alignment to individualized genomes improves transcript abundance estimates in multiparent populations

Genetics (Austin), 2014-09, Vol.198 (1), p.59-73

2014

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Nearest Neighbor Networks: clustering expression data based on gene neighborhoods

BMC bioinformatics, 2007-07, Vol.8 (1), p.250-250, Article 250

2007

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GOLEM: an interactive graph-based gene-ontology navigation and analysis tool

BMC bioinformatics, 2006-10, Vol.7 (1), p.443-443, Article 443

2006

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Maternal diabetes and obesity influence the fetal epigenome in a largely Hispanic population

Clinical epigenetics, 2020-02, Vol.12 (1), p.34-34, Article 34

2020

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Visualization methods for statistical analysis of microarray clusters

BMC bioinformatics, 2005-05, Vol.6 (1), p.115-115, Article 115

2005

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Functional genomics complements quantitative genetics in identifying disease-gene associations

PLoS computational biology, 2010-11, Vol.6 (11), p.e1000991-e1000991

2010

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Affinity-seq detects genome-wide PRDM9 binding sites and reveals the impact of prior chromatin modifications on mammalian recombination hotspot usage

Epigenetics & chromatin, 2015-09, Vol.8 (1), p.31-31, Article 31

2015

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Novel Insights into Embryonic Stem Cell Self‐Renewal Revealed Through Comparative Human and Mouse Systems Biology Networks

Stem cells (Dayton, Ohio), 2014-05, Vol.32 (5), p.1161-1172

2014

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Phenotypic dissection of bone mineral density reveals skeletal site specificity and facilitates the identification of novel loci in the genetic regulation of bone mass attainment

PLoS genetics, 2014-06, Vol.10 (6), p.e1004423

2014

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Abstract 2447 A Deep Learning Approach to Gene Function Prediction

The Journal of biological chemistry, 2024-03, Vol.300 (3), p.105808, Article 105808

2024

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Cell-type-specific predictive network yields novel insights into mouse embryonic stem cell self-renewal and cell fate

PloS one, 2013-02, Vol.8 (2), p.e56810-e56810

2013

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Directing experimental biology: a case study in mitochondrial biogenesis

PLoS computational biology, 2009-03, Vol.5 (3), p.e1000322-e1000322

2009

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The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction

Bioinformatics, 2009-09, Vol.25 (18), p.2404-2410

2009

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Exploring the Ethical and Moral Implications of Requiring Informed Consent to Determine Death by Neurologic Criteria (CS326)

Journal of pain and symptom management, 2023-05, Vol.65 (5), p.e552-e553

2023

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Discovery of biological networks from diverse functional genomic data

Genome biology, 2005-01, Vol.6 (13), p.R114-R114, Article R114

2005

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Finding function: evaluation methods for functional genomic data

Visualization of omics data for systems biology

Canonical A-to-I and C-to-U RNA Editing Is Enriched at 3′UTRs and microRNA Target Sites in Multiple Mouse Tissues

Exploring the functional landscape of gene expression: directed search of large microarray compendia

Tissue-specific functional networks for prioritizing phenotype and disease genes

Quantitative analysis of fitness and genetic interactions in yeast on a genome scale

Computationally driven, quantitative experiments discover genes required for mitochondrial biogenesis

Regulatory complexity revealed by integrated cytological and RNA-seq analyses of meiotic substages in mouse spermatocytes

Exploring the human genome with functional maps

Genome-Wide Analysis of N1ICD/RBPJ Targets In Vivo Reveals Direct Transcriptional Regulation of Wnt, SHH, and Hippo Pathway Effectors by Notch1

RNA-Seq alignment to individualized genomes improves transcript abundance estimates in multiparent populations

Nearest Neighbor Networks: clustering expression data based on gene neighborhoods

GOLEM: an interactive graph-based gene-ontology navigation and analysis tool

Maternal diabetes and obesity influence the fetal epigenome in a largely Hispanic population

Visualization methods for statistical analysis of microarray clusters

Functional genomics complements quantitative genetics in identifying disease-gene associations

Affinity-seq detects genome-wide PRDM9 binding sites and reveals the impact of prior chromatin modifications on mammalian recombination hotspot usage

Novel Insights into Embryonic Stem Cell Self‐Renewal Revealed Through Comparative Human and Mouse Systems Biology Networks

Phenotypic dissection of bone mineral density reveals skeletal site specificity and facilitates the identification of novel loci in the genetic regulation of bone mass attainment

Abstract 2447 A Deep Learning Approach to Gene Function Prediction

Cell-type-specific predictive network yields novel insights into mouse embryonic stem cell self-renewal and cell fate

Directing experimental biology: a case study in mitochondrial biogenesis

The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction

Exploring the Ethical and Moral Implications of Requiring Informed Consent to Determine Death by Neurologic Criteria (CS326)

Discovery of biological networks from diverse functional genomic data

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