GPL7098[RGSE] - GEO DataSets

Select item 2000316021.

Tissue-specific nuclei purification from animal models for genome-wide expression and chromatin profiling.

(Submitter supplied) Here we describe a method for purifying nuclei from specific tissues of animal models that allows simultaneous analysis of both expression and chromatin profiles. The method is based on in vivo labeling of the nuclear envelope and subsequent affinity purification. We describe the use of the method to isolate nuclei from muscle.

Organism:: Caenorhabditis elegans

Type:: Expression profiling by genome tiling array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL7098 GPL13657
18 Samples

Download data: BAM, BEDGRAPH, GFF, PAIR, PDF, TXT, WIG

Series

Accession:: GSE31602

ID:: 200031602

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2000253912.

N2_Worm_Embryo_mRNA_Expression

(Submitter supplied) modENCODE_submission_2762 This submission comes from a modENCODE project of Steven Henikoff. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: poly A+ RNA was isolated and used to synthesize single-stranded cDNA probes. Labeled cDNA and labeled genomic DNA were hybridized to NimbleGen microarrays (2-color hybridizations). These experiments are used as controls for nucleosome salt fractionations. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by genome tiling array

Platform:: GPL7098
2 Samples

Download data: BEDGRAPH, PAIR

Series

Accession:: GSE25391

ID:: 200025391

modENCODE

Select item 2000188983.

A native chromatin purification system for epigenomic profiling in C. elegans

(Submitter supplied) We describe an in vivo chromatin purification system for genome-wide epigenetic profiling in C. elegans. In this system, we coexpressed the E. coli biotin ligase enzyme (BirA), together with the C. elegans H3.3 gene fused to BioTag, a 23-amino acid peptide serving as a biotinylation substrate for BirA, in vivo in worms. We developed methods to isolate chromatin under different salt extraction conditions, followed by affinity purification of biotinylated chromatin with streptavidin and genome-wide profiling with microarrays. more...

Organism:: Caenorhabditis elegans

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL7098
18 Samples

Download data: BEDGRAPH, GFF, PAIR, TXT

Series

Accession:: GSE18898

ID:: 200018898

PubMed Full text in PMC Similar studies modENCODE Analyze with GEO2R

Select item 2000146514.

DCC binding and function (ChIP-chip: DPY-27)

(Submitter supplied) In many species, a dosage compensation complex (DCC) is targeted to X chromosomes of one sex to equalize levels of X gene products between males (1X) and females (2X). Here we identify cis-acting regulatory elements that target the C. elegans X chromosome for repression by the DCC. The DCC binds to discrete, dispersed sites on X of two types. rex sites recruit the DCC in an autonomous, DNA sequence-dependent manner using a 12 bp consensus motif that is enriched on X. more...