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GenomicsGlobal epigenomic analysis of primary human pancreatic islets provides insights into type 2 diabetes susceptibility loci
Identifying cis-regulatory elements is important to understand how human pancreatic islets modulate gene expression in physiologic or pathophysiologic (e.g., diabetic) conditions. We conducted genome-wide analysis of DNase I hypersensitive sites, histone H3 lysine methylation marks (K4me1, K4me3, K7...
ORGANISM(S): Homo sapiens 
2010-11-02 | E-GEOD-23784 | biostudies-arrayexpress
GenomicsGenome-Wide Specificity of DNA-Binding, Gene Regulation, and Chromatin Remodeling by TALE- and CRISPR/Cas9-Based Transcription Factors
Use DNase-seq to assess genome-wide chromation remodeling which occurred in CRISPR/Cas9 and TALE genome engineering systems Determining chromatin structural changes in transfected cells vs. the parent HEK293T cells
ORGANISM(S): Homo sapiens 
2015-05-28 | E-GEOD-67007 | biostudies-arrayexpress
GenomicsA genome-wide analysis of open chromatin in human epididymis epithelial cells reveals novel candidate regulatory elements for male infertility [DNase-Seq]
The epithelium lining the epididymis has a pivotal role in ensuring a luminal environment that can support normal sperm maturation. Many of the individual genes that encode proteins involved in establishing the epididymal luminal fluid are well characterized. They include ion channels, ion exchanger...
ORGANISM(S): Homo sapiens 
2013-09-19 | E-GEOD-51002 | biostudies-arrayexpress
TranscriptomicsGenome-Wide Specificity of DNA-Binding, Gene Regulation, and Chromatin Remodeling by TALE- and CRISPR/Cas9-Based Transcription Factors
Synthetic DNA-binding proteins have found broad application in gene therapies and as tools for interrogating biology. Engineered proteins based on the CRISPR/Cas9 and TALE systems have been used to alter genomic DNA sequences, control transcription of endogenous genes, and modify epigenetic states. ...
ORGANISM(S): Homo sapiens 
2015-05-27 | E-GEOD-68341 | biostudies-arrayexpress
GenomicsRisk Variants for Exfoliation Syndrome Modulate Antisense Promoter Activity Within the LOXL1 Locus
The goal of this study was to identify functional variants that play a role in exfoliation syndrome (XFS) pathogenesis. We sequenced the entire LOXL1 locus in 50 South African XFS cases and 50 matched controls. The most strongly associated variants in this dataset were found in a ~7kb region spannin...
ORGANISM(S): Homo sapiens 
2015-07-22 | E-GEOD-66877 | biostudies-arrayexpress
GenomicsOpen Chromatin by DNaseI HS from ENCODE/OpenChrom(Duke University)
This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Terry Furey mailto:tsfurey@duke.edu). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). These tracks displa...
ORGANISM(S): Homo sapiens 
2011-10-14 | E-GEOD-32970 | biostudies-arrayexpress
TranscriptomicsGenomic distribution of CHD7 on chromatin tracks H3K4 methylation patterns
CHD7 is a member of the chromodomain helicase DNA binding domain family of ATP-dependent chromatin remodeling enzymes. De novo mutation of the CHD7 gene is a major cause of CHARGE syndrome, a genetic disease characterized by a complex constellation of birth defects. To gain insight to the function...
ORGANISM(S): Mus musculus 
2009-01-22 | E-GEOD-14460 | biostudies-arrayexpress
GenomicsDNaseI/FAIRE/ChIP Synthesis from ENCODE/OpenChrom(Duke/UNC/UTA)
These tracks display a synthesis of evidence from different assays as part of the four Open Chromatin track sets. This track displays open chromatin regions and/or transcription factor binding sites identified in multiple cell types by one or more complementary methodologies, DNaseI hypersensitivity...
ORGANISM(S): Homo sapiens 
2012-09-12 | E-GEOD-40833 | biostudies-arrayexpress
TranscriptomicsA genome-wide analysis of open chromatin in human epididymis epithelial cells reveals novel candidate regulatory elements for male infertility [Transcriptome data]
The epithelium lining the epididymis has a pivotal role in ensuring a luminal environment that can support normal sperm maturation. Many of the individual genes that encode proteins involved in establishing the epididymal luminal fluid are well characterized. They include ion channels, ion exchanger...
ORGANISM(S): Homo sapiens 
2013-09-06 | E-GEOD-50605 | biostudies-arrayexpress
GenomicsOpen Chromatin TFBS by ChIP-seq from ENCODE/Open Chrom(UT Austin)
This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Terry Furey mailto:tsfurey@duke.edu). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). These tracks displa...
ORGANISM(S): Homo sapiens 
2011-10-25 | E-GEOD-33213 | biostudies-arrayexpress
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