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Genome-wide maps of histone modification and chromatin remodeler binding in mouse calvaria derived stromal cell line (OP9)

ABSTRACT: We have used chromatin immunoprecipitation followed by high throughput sequencing to map regions of chromatin remodeler and histone modification state. We have used this data to understand the global distribution in stromal cell and probable mechanism of transcriptional regulation.

ORGANISM(S): Mus musculus

PROVIDER: GSE139216 | GEO | 2020/04/28

REPOSITORIES: GEO

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Genome-wide maps of histone modification and chromatin remodeler binding in mouse calvaria derived stromal cell line (OP9)

Project description:Genome-wide maps of histone modification and chromatin remodeler binding in mouse calvaria derived stromal cell line (OP9)

| PRJNA578755 | ENA

Genome-wide maps of histone modification and chromatin remodeler binding in acute myeloid leukemia blast cells and normal hematopoietic cells

Project description:We have used chromatin immunoprecipitation followed by high throughput sequencing to map regions of chromatin remodeler binding accompanied by histone modification state. We have used this data to distinguish between the transcriptional state of regulatory genes in leukemic and normal hematopoietic cells, and thus understand contribution of the chromatin remodeler towards leukemogenesis.

2018-01-10 | GSE108976 | GEO

Genome-wide maps of chromatin remodeler binding in acute myeloid leukemia cell line.

Project description:We have used chromatin immunoprecipitation followed by high throughput sequencing to map regions of chromatin remodeler binding in Control and KDM6A knock down AML cells. We have used this data to determine KDM6A contribution to chromatin remodeler binding and thus understand its role in leukemogenesis.

2019-01-19 | GSE125310 | GEO

Nucleosome recognition and DNA distortion by the Chd1 remodeler revealed at 2.6 Å resolution

Project description:Chromatin remodelers are ATP-dependent enzymes that reorganize nucleosomes within all eukaryotic genomes. The Chd1 remodeler specializes in shifting nucleosomes into evenly spaced arrays, a defining characteristic of chromatin in gene bodies that blocks spurious transcription initiation. Linked to some forms of autism and commonly mutated in prostate cancer, Chd1 is essential for maintaining pluripotency in stem cells. Here we report a complex of yeast Chd1 bound to a nucleosome in a nucleotide-free state, determined by cryo-electron microscopy (cryo-EM) to 2.6 Å resolution. The structure shows a bulge of the DNA tracking strand where the ATPase motor engages the nucleosome, consistent with an initial stage in DNA translocation. Unlike other remodeler-nucleosome complexes, nucleosomal DNA compensates for the remodeler-induced bulge with a bulge of the complementary DNA strand one helical turn downstream from the ATPase motor. Unexpectedly, the structure also reveals an N-terminal binding motif, called ChEx, which binds on the exit-side acidic patch of the nucleosome. The ChEx motif can displace a LANA-based peptide from the acidic patch, which suggests a means by which Chd1 remodelers may block competing chromatin remodelers from acting on the opposite side of the nucleosome.

2022-02-23 | PXD025287 | Pride

Affinity Purification of ISWI chromatin remodeler in Trypanosoma cruzi

Project description:Chromatin remodeling is a general mechanism involved in DNA-dependent processes, including gene expression regulation. ISWI ATPase is the catalytic subunit in diverse chromatin remodeling complexes that changing histone–DNA interactions and therefore play a pivotal role in different nuclear processes. Here, the ISWI remodeler was fused to GFP (NH and CO fusions) and its partners were determined by affinity purification-mass spectrometry (MS) assay. This approach identified known ISWI partners (NLP, RCCP and FYRP), previously characterized in T. brucei, and new components of TcISWI complex (DRBD2, DHH1 and proteins containing SMC domains).

2020-05-22 | PXD017869 | Pride

Chromatin remodeler CHD8 in CNS myelination and remyelination

Project description:Chromatin remodeler CHD8 in CNS myelination and remyelination

| PRJNA421937 | ENA

Genome-wide maps of chromatin remodeler binding in acute myeloid leukemia cell line.

Project description:Genome-wide maps of chromatin remodeler binding in acute myeloid leukemia cell line.

| PRJNA515835 | ENA

Surgical Modification of the Murine Calvaria Osteolysis Model.

Project description: Not available

| S-EPMC4681799 | biostudies-literature

INO80C chromatin remodeler prevents promiscuous transcription at replication origins

Project description:INO80C chromatin remodeler colocalizes to yeast replication origins together with the transcription factors Mot1 and NC2. INO80C maintains genome stability by preventing noncoding transcription around origins both in yeast and mammals.

2020-09-07 | GSE144072 | GEO

The FUN30 Chromatin Remodeler Fft3 Protects Centromeric and Subtelomeric Domains from Euchromatin Formation

Project description:The chromosomes of eukaryotes are organized into structurally and functionally discrete domains. This implies the presence of insulator elements that separate adjacent domains, allowing them to maintain different chromatin structures. We show that the Fun30 chromatin remodeler, Fft3, is essential for maintaining a proper chromatin structure at centromeres and subtelomeres. Fft3 is localized to insulator elements and inhibits euchromatin assembly in silent chromatin domains. In its absence, euchromatic histone modifications and histone variants invade centromeres and subtelomeres, causing a mis-regulation of gene expression and severe chromosome segregation defects. Our data strongly suggest that Fft3 controls the identity of chromatin domains by protecting these regions from euchromatin assembly.

2011-04-02 | E-MEXP-3044 | biostudies-arrayexpress

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