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Promoter-enhancer interactions identified from Hi-C data using probabilistic models and hierarchical topological domains

Nature communications, 2017-12, Vol.8 (1), p.2237-2237, Article 2237

2017

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Disease-associated astrocytes in Alzheimer's disease and aging

Nature neuroscience, 2020-06, Vol.23 (6), p.701-706

2020

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Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease

Nature communications, 2018-11, Vol.9 (1), p.5068-12, Article 5068

2018

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Predicting gene knockout effects from expression data

BMC medical genomics, 2023-02, Vol.16 (1), p.26-26, Article 26

2023

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Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo

Genome research, 2015-11, Vol.25 (11), p.1715-1726

2015

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Zelda binding in the early Drosophila melanogaster embryo marks regions subsequently activated at the maternal-to-zygotic transition

PLoS genetics, 2011-10, Vol.7 (10), p.e1002266-e1002266

2011

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Dynamics of Replication-Independent Histone Turnover in Budding Yeast

Science (American Association for the Advancement of Science), 2007-03, Vol.315 (5817), p.1405-1408

2007

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Post-transcriptional 3´-UTR cleavage of mRNA transcripts generates thousands of stable uncapped autonomous RNA fragments

Nature communications, 2017-12, Vol.8 (1), p.2029-11, Article 2029

2017

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Direct Induction of the Three Pre-implantation Blastocyst Cell Types from Fibroblasts

Cell stem cell, 2019-06, Vol.24 (6), p.983-994.e7

2019

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Genome-wide search for Zelda-like chromatin signatures identifies GAF as a pioneer factor in early fly development

Epigenetics & chromatin, 2017-07, Vol.10 (1), p.33-33, Article 33

2017

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Establishment of regions of genomic activity during the Drosophila maternal to zygotic transition

eLife, 2014-10, Vol.3

2014

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Large-scale discovery of enhancers from human heart tissue

Nature genetics, 2012-01, Vol.44 (1), p.89-93

2012

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A High-Resolution Enhancer Atlas of the Developing Telencephalon

Cell, 2013-02, Vol.152 (4), p.895-908

2013

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Identification of novel toxins associated with the extracellular contractile injection system using machine learning

Molecular systems biology, 2024-07, Vol.20 (8), p.859-879

2024

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Structure and function of a transcriptional network activated by the MAPK Hog1

Nature genetics, 2008-11, Vol.40 (11), p.1300-1306

2008

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Toxinome-the bacterial protein toxin database

mBio, 2024-01, Vol.15 (1), p.e0191123-e0191123

2024

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Comparative parallel multi-omics analysis during the induction of pluripotent and trophectoderm states

Nature communications, 2022-06, Vol.13 (1), p.3475-3475, Article 3475

2022

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Taf7l cooperates with Trf2 to regulate spermiogenesis

Proceedings of the National Academy of Sciences - PNAS, 2013-10, Vol.110 (42), p.16886-16891

2013

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Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

PLoS genetics, 2011-02, Vol.7 (2), p.e1001290-e1001290

2011

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Unraveling the transcriptional regulation of TWIST1 in limb development

PLoS genetics, 2018-10, Vol.14 (10), p.e1007738-e1007738

2018

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Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing

Proceedings of the National Academy of Sciences - PNAS, 2009-03, Vol.106 (9), p.3264-3269

2009

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Single-nucleosome mapping of histone modifications in S. cerevisiae

PLoS biology, 2005-10, Vol.3 (10), p.e328-e328

2005

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Extensive divergence of transcription factor binding in Drosophila embryos with highly conserved gene expression

PLoS genetics, 2013-09, Vol.9 (9), p.e1003748-e1003748

2013

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Detection of Cell Types Contributing to Cancer From Circulating, Cell-Free Methylated DNA

Frontiers in genetics, 2021-07, Vol.12, p.671057-671057

2021

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Remote immune processes revealed by immune-derived circulating cell-free DNA

eLife, 2021-11, Vol.10

2021

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Promoter-enhancer interactions identified from Hi-C data using probabilistic models and hierarchical topological domains

Disease-associated astrocytes in Alzheimer's disease and aging

Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease

Predicting gene knockout effects from expression data

Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo

Zelda binding in the early Drosophila melanogaster embryo marks regions subsequently activated at the maternal-to-zygotic transition

Dynamics of Replication-Independent Histone Turnover in Budding Yeast

Post-transcriptional 3´-UTR cleavage of mRNA transcripts generates thousands of stable uncapped autonomous RNA fragments

Direct Induction of the Three Pre-implantation Blastocyst Cell Types from Fibroblasts

Genome-wide search for Zelda-like chromatin signatures identifies GAF as a pioneer factor in early fly development

Establishment of regions of genomic activity during the Drosophila maternal to zygotic transition

Large-scale discovery of enhancers from human heart tissue

A High-Resolution Enhancer Atlas of the Developing Telencephalon

Identification of novel toxins associated with the extracellular contractile injection system using machine learning

Structure and function of a transcriptional network activated by the MAPK Hog1

Toxinome-the bacterial protein toxin database

Comparative parallel multi-omics analysis during the induction of pluripotent and trophectoderm states

Taf7l cooperates with Trf2 to regulate spermiogenesis

Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

Unraveling the transcriptional regulation of TWIST1 in limb development

Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing

Single-nucleosome mapping of histone modifications in S. cerevisiae

Extensive divergence of transcription factor binding in Drosophila embryos with highly conserved gene expression

Detection of Cell Types Contributing to Cancer From Circulating, Cell-Free Methylated DNA

Remote immune processes revealed by immune-derived circulating cell-free DNA

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