Evolutionary Analysis of Transcriptional Regulation Mediated by Cdx2 in Rodents
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 30 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
- 30 samples: 11 conditions, mostly in duplicateGroups 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
- Evolutionary Analysis of Transcriptional Regulation Mediated by Cdx2 in RodentsCell proliferation · 2026
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 GSE164440_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 PRJNA690719 and SRA study SRP300889. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 11 replicated groups read from 30 sample titles; they account for 22 of them. 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.
- GSM5009623 WT mESC RNA-seq WT mESC RNA-seq
- GSM5009624 mCDX2 OE in mESC RNA-seq mCDX2 OE in mESC RNA-seq
- GSM5009625 WT mESC ATAC-seq
- GSM5009626 mCDX2 OE in mESC ATAC-seq
- GSM5009627 mCDX2 OE in mESC ChIP-seq
- GSM5009628 rCDX2 OE in mESC RNA-seq rCDX2 OE in mESC RNA-seq
- GSM5009629 rCDX2 OE in mESC ChIP-seq
- GSM5009630 rCDX2_R1 OE in mESC RNA-seq rCDX2_R1 OE in mESC RNA…
- GSM5009631 rCDX2_R2 OE in mESC RNA-seq rCDX2_R2 OE in mESC RNA…
- GSM5009632 rCDX2_R3 OE in mESC RNA-seq rCDX2_R3 OE in mESC RNA…
- GSM5009633 rCDX2_R12 OE in mESC RNA-seq rCDX2_R12 OE in mESC RN…
- GSM5009634 rCDX2_R13 OE in mESC RNA-seq rCDX2_R13 OE in mESC RN…
- GSM5009635 rCDX2_R23 OE in mESC RNA-seq rCDX2_R23 OE in mESC RN…
- GSM5009636 rCDX2_R123 OE in mESC RNA-seq rCDX2_R123 OE in mESC R…
- GSM5009637 mCDX2 OE in RMES ChIP-seq
- GSM5009638 rCDX2 OE in RMES ChIP-seq
- GSM5009639 WT RMES RNA-seq rep1 WT RMES RNA-seq
- GSM5009640 WT RMES RNA-seq rep2 WT RMES RNA-seq
- GSM5009641 mCDX2 OE in RMES RNA-seq
- GSM5009642 rCDX2 OE in RMES RNA-seq
- GSM5893280 WT mESC RNA-seq rep2 WT mESC RNA-seq
- GSM5893281 mCDX2 OE in mESC RNA-seq rep2 mCDX2 OE in mESC RNA-seq
- GSM5893282 rCDX2 OE in mESC RNA-seq rep2 rCDX2 OE in mESC RNA-seq
- GSM5893283 rCDX2_R1 OE in mESC RNA-seq rep2 rCDX2_R1 OE in mESC RNA…
- GSM5893284 rCDX2_R2 OE in mESC RNA-seq rep2 rCDX2_R2 OE in mESC RNA…
- GSM5893285 rCDX2_R3 OE in mESC RNA-seq rep2 rCDX2_R3 OE in mESC RNA…
- GSM5893286 rCDX2_R12 OE in mESC RNA-seq rep2 rCDX2_R12 OE in mESC RN…
- GSM5893287 rCDX2_R13 OE in mESC RNA-seq rep2 rCDX2_R13 OE in mESC RN…
- GSM5893288 rCDX2_R23 OE in mESC RNA-seq rep2 rCDX2_R23 OE in mESC RN…
- GSM5893289 rCDX2_R123 OE in mESC RNA-seq rep2 rCDX2_R123 OE in mESC R…
No close match found for this topic, so these are simply the most-viewed datasets of the same kind.
- GSE289002 Sex-specific Concordance of Striatal Transcriptional Signatures of Opioid Addiction in Human and Rodent Brains 251 samples
- GSE263137 The tRNA methyltransferase Mettl1 governs ketogenesis through translational regulation and drives metabolic reprogramming in cardiomyocyte maturation 18 samples
- GSE289038 Extracellular vesicles from antler blastema progenitor cells reverse bone loss and improve aging-related phenotypes in mice and macaques 111 samples
- GSE226502 Epigenetic evolution of the Ly49 gene family 65 samples
- GSE14522 Effects of BDNF in Rodent Models of Aging and Alzheimer's Disease 53 samples
- GSE277836 Effects of dexamethasone and desisobutyryl ciclesonide on gene expression 40 samples
- GSE282099 Oligodendroglial hypothesis of autism: the primary role of master regulator gene Baf155 [RNA-Seq] 36 samples
- GSE314711 Sensory nerve-derived CGRP controls osteoclastogenesis by limiting macrophage bioenergetics in bone repair 34 samples
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.