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

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

PROVIDER: PRJNA429274 | ENA |

REPOSITORIES: ENA

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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 histone modification and chromatin remodeler binding in mouse calvaria derived stromal cell line (OP9)

Project description: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.

2020-04-28 | GSE139216 | GEO

Genome-wide maps of histone modification H3K4me3 in Daudi cells.

Project description:Genome-wide maps of histone modification H3K4me3 in Daudi cells.

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

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m6A modification maps of mRNA in colonic epithelial cells from mouse

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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

ChIP-Seq of chromatin remodeler SMARCAD1 and H3K9me3 in female mouse embryonic stem cells (PGK12.1 XX)

Project description:Investigation of the co-occurance of the ATP-dependent chromatin remodeler SMARCAD1 and the histone modification H3K9me3 in the genome of PGK12.1 XX ES cells. ChIP-seq of endogenous SMARCAD1 was carried out in control and SMARCAD1-knockdown ES cells using a double crosslinking procedure. Additionally, H3K9me3 ChIP-seq was performed in double-cross linked control PGK12.1 XX cells. Input samples and precipitates with an IgG antibody were sequenced (Illumina HiSeq1500) as controls. Antibodies used were SMARCAD1 PAB15737 (Abnova) and H3K9me3 ab8898 (abcam).

2019-02-17 | E-MTAB-7012 | biostudies-arrayexpress

Genome-wide maps of chromatin remodeler SNF5 in human pluripotent cells.

Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of SNF5 binding in human pluripotent embryonic carcinoma NCCIT and SNF5 overexpressed NCCIT cells. We generated genome-wide cSNF5 maps of NCCIT and SNF5 overexpressed NCCIT cells from chromatin immunoprecipitated DNA. SNF5 and OCT4 seem not to share their binding in OCT4 centered binding plot in control, while SNF5 overexpression directs SNF5 to OCT4 target genes. Examination of the relationship between SNF5 and OCT4 binding in control and SNF5 overexpressed cells.

2013-01-01 | E-GEOD-36134 | biostudies-arrayexpress

Blast preconditioning protects retinal ganglion cells and reveals targets for prevention of neurodegeneration following blast-mediated TBI

Project description:Purpose: The purpose of this study was to examine the effect blast preconditioning on the structure and function of retinal ganglion cells (RGC), and to identify molecular pathways that contribute to RGC loss. Methods: To examine the effect of blast-preconditioning three groups of mice were analyzed, including those 1) subjected to sham injury followed by one single 20 PSI injury one week later, 2) mice exposed to two low intensity preconditioning blast exposures separated by one week (5 PSI, 5 PSI) and 3) mice exposed to a preconditioning injury (5 PSI) followed by a single 20 PSI blast exposure one week later. RNAseq analysis was used to identify transcriptional changes between groups. Conclusions: Preconditioning protects RGC from blast injury. Protective effects appear to involve changes in kynurenine-3-monooxygenase activity, whose inhibition is also protective.

2019-09-24 | GSE133940 | GEO

ChipSeq of MLL1 in mouse leukemic blast cells

Project description:We performed a chip-seq to determine the binding of MLL1 in mouse leukemic blast cells transduces with MLL-AF9 fusion MLL1 chip-seq in mouse leukemic blast cells

2012-02-22 | E-GEOD-34261 | biostudies-arrayexpress

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