TGF-β and RAS jointly unmask primed enhancers to drive metastasis (ChIP-Seq)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 43 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
- 43 samples: 43 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
- TGF-β and RAS jointly unmask primed enhancers to drive metastasisCell · 2024
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 GSE256015_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 PRJNA1077390 and SRA study SRP490116. 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 43 sample titles: 43 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.
- GSM8084178 Input-SB
- GSM8084179 Input-TGFb
- GSM8084180 Input-WT_SB
- GSM8084181 Input-WT_TGFb
- GSM8084182 Input_Rreb1KO_SB
- GSM8084183 Input_Rreb1KO_TGFb
- GSM8084184 ChIP-RREB1_SB
- GSM8084185 ChIP-RREB1_TGFb
- GSM8084186 ChIP-SMAD2/3_SB
- GSM8084187 ChIP-SMAD2/3_TGFb
- GSM8084188 ChIP-H2AZ_SB
- GSM8084189 ChIP-H2AZ_TGFb
- GSM8084190 ChIP-IgG_SB
- GSM8084191 ChIP-H4K16ac_SB
- GSM8084192 ChIP-SMAD4_WT_SB
- GSM8084193 ChIP-SMAD4_WT_TGFb
- GSM8084194 ChIP-SMAD4_Rreb1KO_SB
- GSM8084195 ChIP-SMAD4_Rreb1KO_TGFb
- GSM8084196 ChIP-INO80_WT_SB
- GSM8084197 ChIP-INO80_WT_TGFb
- GSM8084198 ChIP-INO80_Rreb1KO_SB
- GSM8084199 ChIP-INO80_Rreb1KO_TGFb
- GSM8084200 ChIP-DHX9_WT_SB
- GSM8084201 ChIP-DHX9_WT_TGFb
- GSM8084202 ChIP-DHX9_Rreb1KO_SB
- GSM8084203 ChIP-DHX9_Rreb1KO_TGFb
- GSM8084204 CnR-H3K4me1_SB
- GSM8084205 CnR-H3K4me1_TGFb
- GSM8084206 CnR-H3K4me3_SB
- GSM8084207 CnR-H3K4me3_TGFb
- GSM8084208 CnR-H3K27ac_SB
- GSM8084209 CnR-H3K27ac_TGFb
- GSM8084210 CnR-H3K27me3_SB
- GSM8084211 CnR-H3K27me3_TGFb
- GSM8084212 CnR-RNAPII_WT_SB
- GSM8084213 CnR-RNAPII_WT_TGFb
- GSM8084214 CnR-RNAPII_Rreb1KO_SB
- GSM8084215 CnR-RNAPII_Rreb1KO_TGFb
- GSM8084216 CnR-RNAPII_Ino80KO_SB
- GSM8084217 CnR-RNAPII_Ino80KO_TGFb
+ 3 more — browse all 43 samples with per-sample file links →
- GSE329244 Polycomb erasers BAP1 and UTX are dispensable for rapid bivalent gene activation but essential for enhancer establishment [ChIP-seq] 64 samples shares ras, chip-seq
- GSE268146 Integrator complex bridges TFIID and RNA polymerase II to maintain pluripotency during development (ChIP-Seq) 38 samples shares ras, chip-seq
- GSE324933 DGCR8 promotes RNA polymerase II pause release independently of DROSHA [ChIP-seq] 32 samples shares ras, chip-seq
- GSE299381 KAT6A Chimeras Forms a Self-Reinforcing Epigenetic Module with NURF and MLL/COMPASS in AML [ChIP-Seq] 13 samples shares ras, chip-seq
- GSE237390 Loss of Kmt2c or Kmt2d drives brain metastasis via KDM6A-dependent upregulation of MMP3 [ChIP-seq] 54 samples shares metastasis, chip-seq
- GSE339012 Mega-Enhancers Compartmentalize Transcriptionally Active Long Genes in the Brain [ChIP-Seq] 22 samples shares enhancers, chip-seq
- GSE279088 Molecular dynamics driving phenotypic divergence among KRAS mutants in pancreatic tumorigenesis [ATAC-Seq] 74 samples shares ras
- GSE233039 The H3K9me3 heterochromatin integrity and function are sustained by H3K9me3 methyltransferases-HP1 dependencies [ATAC-Seq] 18 samples shares ras
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.