Telomeric Chromosomal Instability Fosters Paracrine Mediated Cell Competition to Initiate Intestinal Cancer
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 10 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
- Mus musculus (mouse)
- Samples
- 10 samples: 8 distinct titles, 2 of them repeatedGroups 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
- Telomere dysfunction alters intestinal stem cell dynamics to promote cancerDevelopmental cell · 2024
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 GSE234033_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 PRJNA979210 and SRA study SRP440874. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 10 sample titles: 8 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.
- GSM7441402 75 G0 Apcmin H3K27me3 CUT&RUN
- GSM7441403 75 G0 Apcmin EZH2 CUT&RUN
- GSM7441404 236 G0 Apcmin H3K27me3 CUT&RUN
- GSM7441405 236 G0 Apcmin EZH2 CUT&RUN
- GSM7441406 SC286_1_G0+T_APCmin
- GSM7441407 SC286_2_G4+T_APCmin
- GSM7441408 G0_1
- GSM7441409 G0_2
- GSM7441410 G2_1
- GSM7441411 G2_2
- GSE318069 eIF4G2-mediated Translation Initiation of Histone Modifiers is Essential for Intestinal Stem Cell Maintenance and Differentiation 145 samples shares intestinal, mediated
- GSE254328 Epigenetic regulation of chromosomal instability by EZH2 methyltransferase 26 samples shares chromosomal, instability
- GSE294512 eIF4G2-mediated Translation Initiation of Histone Modifiers is Essential for Intestinal Stem Cell Maintenance and Differentiation [RNA-seq] 92 samples shares intestinal, mediated
- GSE306673 Akkermansia muciniphila contributes to fasting-mediated radioprotection by inducing epigenetic and transcriptional changes in small intestinal epithelial cells 32 samples shares intestinal, mediated
- GSE318068 eIF4G2-mediated Translation Initiation of Histone Modifiers is Essential for Intestinal Stem Cell Maintenance and Differentiation [Multiome] 16 samples shares intestinal, mediated
- GSE254324 Epigenetic regulation of chromosomal instability by EZH2 methyltransferase [CUT&RUN] 14 samples shares chromosomal, instability
- GSE291179 MyD88-mediated signaling in intestinal fibroblasts regulates macrophage antimicrobial defense and prevents dysbiosis in the gut I 10 samples shares intestinal, mediated
- GSE237806 Competition for H2A.Z Between IAP Elements and Gene Promoters is Governed by ANP32E 53 samples shares competition
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.