Complex interaction of tumor-derived factors instructs the niche specific phenotypes of tumor-associated macrophages (in vitro ATAC-Seq)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 27 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
- 27 samples: 9 conditions, mostly in triplicateGroups 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
- Functional Genetic Screens Reveal Key Pathways Instructing the Molecular Phenotypes of Tumor-Associated MacrophagesCancer immunology research · 2025
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 GSE269027_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 PRJNA1119986 and SRA study SRP511628. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 3 samples read as cases, 3 as controls.
How we read this: 9 replicated groups read from 27 sample titles; they account for 27 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.
- GSM8305255 ctrl, Replicate1 ctrl,
- GSM8305256 ctrl, Replicate2 ctrl,
- GSM8305257 ctrl, Replicate3 ctrl,
- GSM8305258 L, Replicate1 L,
- GSM8305259 L, Replicate2 L,
- GSM8305260 L, Replicate3 L,
- GSM8305261 P, Replicate1 P,
- GSM8305262 P, Replicate2 P,
- GSM8305263 P, Replicate3 P,
- GSM8305264 G, Replicate1 G,
- GSM8305265 G, Replicate2 G,
- GSM8305266 G, Replicate3 G,
- GSM8305267 LP, Replicate1 LP,
- GSM8305268 LP, Replicate2 LP,
- GSM8305269 LP, Replicate3 LP,
- GSM8305270 LG, Replicate1 LG,
- GSM8305271 LG, Replicate2 LG,
- GSM8305272 LG, Replicate3 LG,
- GSM8305273 GP, Replicate1 GP,
- GSM8305274 GP, Replicate2 GP,
- GSM8305275 GP, Replicate3 GP,
- GSM8305276 LGP, Replicate1 LGP,
- GSM8305277 LGP, Replicate2 LGP,
- GSM8305278 LGP, Replicate3 LGP,
- GSM8305279 4T1 tumor conditioned medium, Replicate1 4T1 tumor conditioned m…
- GSM8305280 4T1 tumor conditioned medium, Replicate2 4T1 tumor conditioned m…
- GSM8305281 4T1 tumor conditioned medium, Replicate3 4T1 tumor conditioned m…
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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.