Omics · study · 2026
Hp1bp3 loss links chromatin reorganization to metabolic vulnerability in glioma [ATAC-LOF]
Listed in NCBI GEO
Nuclei were isolated from freshly collected GFP+ tumor tissue and processed for transposase-accessible chromatin profiling using standard ATAC-seq protocols.
Description
Tumors were generated through in utero electroporation of triple guide casset targeting Nf1, p53, and Pten (3xCr) plus or minus a guide targeting heterochromatin protein 1 binding partner 3 (Hp1bp3) to assess differences in chromatin accessibility associated with Hp1bp3 deficiency.
Sequencing libraries were generated following Tn5 transposition and PCR amplification, then sequenced on an Illumina platform to produce paired-end reads. Raw sequencing data were quality filtered, aligned to the mouse reference genome, and analyzed to identify regions of differential chromatin accessibility between genotypes. These datasets were generated to characterize epigenetic and regulatory landscape alterations associated with Hp1bp3 loss in the context of 3xCr high-grade glioma tumors.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE331nnn/GSE331466 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE331466 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1468191 ncbi.nlm.nih.gov/bioproject/PRJNA1468191 ↗
project · from NCBI GEO
Topics
- Stated by source
- Genome binding/occupancy profiling by high throughput sequencing · Mus musculus
- From keywords
- Life Sciences
- Inferred from text
- Cancer 65% · Sequencing 75%
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE331466 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[disease].local:disease:cancer | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:genome-binding-occupancy-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[modality].local:modality:sequencing | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[organism].NCBITaxon:10090 | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /taxon |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |