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GenomicsChromatin Profiling by Directly Sequencing Small Quantities of Immunoprecipitated DNA
Chromatin structure and transcription factor localization can be assayed genome-wide by sequencing genomic DNA fractionated by protein occupancy or other properties. However, current technologies involve multiple steps that introduce bias and inefficiency. Here we apply a single-molecule approach to...
ORGANISM(S): Mus musculus 
2009-11-29 | E-GEOD-18699 | biostudies-arrayexpress
GenomicsCombinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells
Hundreds of Chromatin Regulators (CRs) control chromatin structure and function by catalyzing and binding histone modifications, yet the rules governing these key processes remain obscure. Here, we present a systematic approach to infer CR function. We developed ChIP-string, a meso-scale assay that ...
ORGANISM(S): Homo sapiens 
2011-12-23 | E-GEOD-32509 | biostudies-arrayexpress
GenomicsSIRT6 suppresses pancreatic cancer through control of Lin28b [ChIP-seq]
Chromatin remodeling proteins are frequently dysregulated in human cancer, yet little is known about how they control tumorigenesis. Here, we uncover an epigenetic program mediated by the NAD+-dependent histone deacetylase Sirtuin 6 (SIRT6) that is critical for suppression of pancreatic ductal adeno...
ORGANISM(S): Mus musculus 
2016-04-01 | E-GEOD-79503 | biostudies-arrayexpress
UnknownTerminal α1,2-fucosylation of glycosphingolipids by FUT1 is a key regulator in early cell-fate decisions.
Not available
S-EPMC11467398 | biostudies-literature
TranscriptomicsChromatin immunoprecipitation of mouse tumour cell line L1210 synchronized and sampled after mitosis to map replication time zones in the mouse genome
Measuring replication time of regions in teh mouse genome, using a novel synchronization method, labeling of BrdU, immunoprecipitation and hybridization to microarrays
ORGANISM(S): Mus musculus 
2008-08-04 | E-MEXP-1022 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse lymphoblast cell line L1210 to validate replication timing experiments
In this experiment, total RNA was extracted from asynchronous population of L1210 cells and hybridized to Affymetrix 430A 2.0 arrays in order to obtain an expression profile of these cells. We have previously mapped the replication timing of the entire mouse genome in this cell line, using mouse CGH...
ORGANISM(S): Mus musculus 
2008-08-04 | E-MEXP-1681 | biostudies-arrayexpress
GenomicsPluripotency transcription factor Oct4 mediates stepwise nucleosome demethylation and depletion
The mechanisms whereby the crucial pluripotency transcription factor Oct4 regulates target gene expression are incompletely understood. Using an assay system based on partially differentiated embryonic stem cells, we show that Oct4 opposes accumulation of local H3K9me2, and subsequent Dnmt3a-mediate...
ORGANISM(S): Mus musculus 
2015-01-23 | E-GEOD-65192 | biostudies-arrayexpress
TranscriptomicsTranscription factor Oct1 and its coactivator OCA-B are selectively required for CD4 memory T cell formation and function
Epigenetic changes are crucial for the generation of immunological memory1-4. Failure to generate or maintain these changes will result in poor memory responses. Similarly, augmenting or stabilizing the correct epigenetic states offers a potential method of enhancing immune memory. Yet the transcrip...
ORGANISM(S): Mus musculus 
2015-09-17 | E-GEOD-62202 | biostudies-arrayexpress
GenomicsOct1 and OCA-B are Selectively Required for CD4 Memory T Cell Formation and Function (ChIP-seq)
Epigenetic changes are crucial for the generation of immunological memory. Failure to generate or maintain these changes will result in poor memory responses. Similarly, augmenting or stabilizing the correct epigenetic states offers a potential method of enhancing immune memory. Yet the transcriptio...
ORGANISM(S): Mus musculus 
2015-09-17 | E-GEOD-65918 | biostudies-arrayexpress
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