Genomic profiling of active vitamin D colonic responses in African- and European-Americans identifies an ancestry-related regulatory variant of POLB
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 157 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Topic
- Colorectal cancerThis series is part of our curated briefing on it.
- Samples
- 157 samples: 157 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Genomic profiling of active vitamin D colonic responses in African- and European-Americans identifies an ancestry-related regulatory variant of POLBPLoS genetics · 2026
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE295961_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1256863 and SRA study SRP582242. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 157 sample titles: 157 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8962114 SK228, EtOH-RNA
- GSM8962115 SK228, VD-RNA
- GSM8962116 SK236, EtOH-RNA
- GSM8962117 SK236, VD-RNA
- GSM8962118 SK242, EtOH-RNA
- GSM8962119 SK242, VD-RNA
- GSM8962120 SK244, EtOH-RNA
- GSM8962121 SK244, VD-RNA
- GSM8962122 SK250, EtOH-RNA
- GSM8962123 SK250, VD-RNA
- GSM8962124 SK420, EtOH-RNA
- GSM8962125 SK420, VD-RNA
- GSM8962126 SK252, EtOH-RNA
- GSM8962127 SK252, VD-RNA
- GSM8962128 SK254, EtOH-RNA
- GSM8962129 SK254, VD-RNA
- GSM8962130 SK288, EtOH-RNA
- GSM8962131 SK288, VD-RNA
- GSM8962132 SK304, EtOH-RNA
- GSM8962133 SK304, VD-RNA
- GSM8962134 SK316, EtOH-RNA
- GSM8962135 SK316, VD-RNA
- GSM8962136 SK358, EtOH-RNA
- GSM8962137 SK358, VD-RNA
- GSM8962138 SK272, EtOH-RNA
- GSM8962139 SK272, VD-RNA
- GSM8962140 SK302, EtOH-RNA
- GSM8962141 SK302, VD-RNA
- GSM8962142 SK354, EtOH-RNA
- GSM8962143 SK354, VD-RNA
- GSM8962144 SK390, EtOH-RNA
- GSM8962145 SK390, VD-RNA
- GSM8962146 SK372, EtOH-RNA
- GSM8962147 SK372, VD-RNA
- GSM8962148 SK426, EtOH-RNA
- GSM8962149 SK426, VD-RNA
- GSM8962150 SK428, EtOH-RNA
- GSM8962151 SK428, VD-RNA
- GSM8962152 SK442, EtOH-RNA
- GSM8962153 SK442, VD-RNA
+ 117 more — browse all 157 samples with per-sample file links →
- GSE12032 Inherent gene signature of stage II and III colorectal cancer leads in individual recurrence 198 samples same disease briefing
- GSE109308 Single-cell transcriptomic survey of adenomatous polyposis patients with germline APC mutations 97 samples same disease briefing
- GSE110009 Single cell transcriptome landscape of primary and metastatic tumor in colon cancer 76 samples same disease briefing
- GSE124480 Gene expression of human colon cancer HCT116 cells 5 samples same disease briefing
- GSE250000 Bulk RNA-sequencing of transduced colorectal cancer cell line HCT-116 and breast cancer cell line MCF-7 overexpressing full-lenght p53β or p53β-stop-lost. 4 samples same disease briefing
- GSE325670 Promoter mutagenesis and a massively parallel reporter screen of the MAPT locus identifies cis-regulatory elements and genetic variation effects 140 samples shares identifies, regulatory
- GSE335464 Integrative single-cell multi-omics profiling of human pancreatic islets identifies T1D-associated genes and regulatory signals [single cell] 28 samples shares identifies, regulatory
- GSE264550 Machine learning identifies activation of RUNX/AP-1 as drivers of mesenchymal and fibrotic regulatory programs in gastric cancer 25 samples shares identifies, regulatory
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.