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GenomicsHistone Modifications by ChIP-seq from ENCODE/LICR
This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Yin Shen mailto:y7shen@ucsd.edu). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). This track shows a comp...
ORGANISM(S): Mus musculus 
2011-07-30 | E-GEOD-31039 | biostudies-arrayexpress
GenomicsTranscription Factor Binding Sites by ChIP-seq from ENCODE/LICR
This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (Yin Shen mailto:y7shen@ucsd.edu). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:genome@soe.ucsc.edu). This track shows a comp...
ORGANISM(S): Mus musculus 
2012-04-19 | E-GEOD-36027 | biostudies-arrayexpress
TranscriptomicsGenomic encoding of transcriptional burst kinetics
We used single-cell RNA-sequencing to generate allele-resolution expression levels in individual cells that we used for inference of transcriptional burst kinetics.
ORGANISM(S): Mus musculus 
2018-09-30 | E-MTAB-6362 | biostudies-arrayexpress
TranscriptomicsLudwig Institute/UCSD ENCODE project June 2007 Release
The readout of genome information is controlled by transcriptional regulatory elements, but a comprehensive view of the combinatorial control by these DNA sequences, which bind regulatory protein and/or the modified histones in regulating gene transcription, is clearly preliminary. We have developed...
ORGANISM(S): Homo sapiens 
2007-06-01 | E-GEOD-7872 | biostudies-arrayexpress
GenomicsGenome-wide Analysis of Chromatin Interactions in Human Cells
Millions of cis-regulatory sequences have recently been found in the human genome, but the function of most cis-elements are not yet clear, in part due to the difficulty in determining their regulatory targets, which are often located millions of base pairs away and separated by one or more unrelate...
ORGANISM(S): Homo sapiens 
2013-10-20 | E-GEOD-43070 | biostudies-arrayexpress
TranscriptomicsWhole-genome Haplotype Reconstruction using Proximity-ligation and Shotgun Sequencing
Rapid advances in high-throughput DNA sequencing technologies are accelerating the pace of research into personalized medicine. While methods for variant discovery and genotyping from whole genome sequencing (WGS) datasets have been well established, linking variants together into a single haplotype...
ORGANISM(S): Homo sapiens 
2013-11-03 | E-GEOD-48592 | biostudies-arrayexpress
TranscriptomicsLudwig Institute/UCSD ENCODE project August 2007 Release
The readout of genome information is controlled by transcriptional regulatory elements, but a comprehensive view of the combinatorial control by these DNA sequences, which bind regulatory protein and/or the modified histones in regulating gene transcription, is clearly preliminary. We have developed...
ORGANISM(S): Homo sapiens 
2010-05-15 | E-GEOD-8887 | biostudies-arrayexpress
GenomicsGlobal Reorganization of Chromatin Architecture during Embronic Stem Cell Differentiation
The 3D organization of the genome is important for regulation of diverse nuclear processes ranging from transcription to DNA replication. Knowledge of the higher order chromatin structure is critical for understanding mechanisms of gene regulation by long-range control elements such as enhancers and...
ORGANISM(S): Homo sapiens 
2015-02-18 | E-GEOD-52457 | biostudies-arrayexpress
TranscriptomicsComplete Haplotype Phasing of the MHC and KIR Loci with Targeted HaploSeq
Rapid advances in biochemical technologies have enabled several strategies for typing candidate HLA alleles, but linking them into a single MHC haplotype structure remains challenging. Here we have developed a multi-loci haplotype phasing technique and demonstrate its utility towards phasing of MHC ...
ORGANISM(S): Homo sapiens 
2016-02-01 | E-GEOD-65726 | biostudies-arrayexpress
TranscriptomicsPU.1 and C/EBPalpha synergistically program distinct response to NF-kappaB activation through establishing monocyte specific enhancers (expression data)
Unraveling the complexity of transcriptional programs coded by different cell types has been one of the central goals of cell biology. Using genome-wide location analysis, we examined how two different cell types generate different responses to the NF-kappaB signaling pathway. We showed that, after ...
ORGANISM(S): Homo sapiens 
2011-03-15 | E-GEOD-26868 | biostudies-arrayexpress
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