Transcriptional reprogramming by AP-1-bound cis-regulatory elements drives melanoma development
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 36 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
- MelanomaThis series is part of our curated briefing on it.
- Samples
- 36 samples: 36 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.
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 GSE326324_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 PRJNA1445106 and SRA study SRP687699. 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 36 sample titles: 36 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.
- GSM9629203 ChIPseq human melanoma Sbcl2_n1 (Input)
- GSM9629204 ChIPseq human melanoma Sbcl2_n1 (PolII ChIP)
- GSM9629205 ChIPseq human melanoma Sbcl2_n1 (H3K27ac ChIP)
- GSM9629206 ChIPseq human melanoma Sbcl2_n2 (Input)
- GSM9629207 ChIPseq human melanoma Sbcl2_n2 (PolII ChIP)
- GSM9629208 ChIPseq human melanoma Sbcl2_n2 (H3K27ac ChIP)
- GSM9629209 ChIPseq human melanoma WM3211_n1 (Input)
- GSM9629210 ChIPseq human melanoma WM3211_n1 (PolII ChIP)
- GSM9629211 ChIPseq human melanoma WM3211_n1 (H3K27ac ChIP)
- GSM9629212 ChIPseq human melanoma WM3211_n2 (Input)
- GSM9629213 ChIPseq human melanoma WM3211_n2 (PolII ChIP)
- GSM9629214 ChIPseq human melanoma WM3211_n2 (H3K27ac ChIP)
- GSM9629215 ChIPseq human melanoma WM1366_n1 (Input)
- GSM9629216 ChIPseq human melanoma WM1366_n1 (PolII ChIP)
- GSM9629217 ChIPseq human melanoma WM1366_n1 H3K27ac ChIP)
- GSM9629218 ChIPseq human melanoma WM1366_n2 (Input)
- GSM9629219 ChIPseq human melanoma WM1366_n2 (PolII ChIP)
- GSM9629220 ChIPseq human melanoma WM1366_n2 H3K27ac ChIP)
- GSM9629221 ChIPseq human melanoma WM1158_n1 (Input)
- GSM9629222 ChIPseq human melanoma WM1158_n1 (PolII ChIP)
- GSM9629223 ChIPseq human melanoma WM1158_n1 H3K27ac ChIP)
- GSM9629224 ChIPseq human melanoma WM1158_n2 (Input)
- GSM9629225 ChIPseq human melanoma WM1158_n2 (PolII ChIP)
- GSM9629226 ChIPseq human melanoma WM1158_n2 H3K27ac ChIP)
- GSM9629227 ChIPseq NHEM Thermo_n1 (Input)
- GSM9629228 ChIPseq NHEM Thermo_n1 (PolII ChIP)
- GSM9629229 ChIPseq NHEM Thermo_n1 (H3K27ac ChIP)
- GSM9629230 ChIPseq NHEM Thermo_n2 (Input)
- GSM9629231 ChIPseq NHEM Thermo_n2 (PolII ChIP)
- GSM9629232 ChIPseq NHEM Thermo_n2 (H3K27ac ChIP)
- GSM9629233 ChIPseq NHEM Promocell_n1 (Input)
- GSM9629234 ChIPseq NHEM Promocell_n1 (PolII ChIP)
- GSM9629235 ChIPseq NHEM Promocell_n1 (H3K27ac ChIP)
- GSM9629236 ChIPseq NHEM Promocell_n2 (Input)
- GSM9629237 ChIPseq NHEM Promocell_n2 (PolII ChIP)
- GSM9629238 ChIPseq NHEM Promocell_n2 (H3K27ac ChIP)
- GSE12391 Melanoma: comparison between common nevi, radial/vertical growth phase melanoma, metastases and dysplastic nevi 114 samples same disease briefing · shares melanoma
- GSE134459 Genome-wide maps of transcriptomic and epigenomic state in melanoma cell lines 73 samples same disease briefing · shares melanoma
- GSE230489 RNA-sequencing of cutaneous melanoma and non-small cell lung cancer biopsies 38 samples same disease briefing · shares melanoma
- GSE100797 Mutational and neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma 25 samples same disease briefing · shares melanoma
- GSE123728 Clinical and Immunologic Activity of a Single Dose of Neoadjuvant PD-1 Blockade and Predictors of Clinical Outcomes in Resectable Melanoma 24 samples same disease briefing · shares melanoma
- GSE130956 Investigation of ST8SIA1 expression in icaritin-treated and untreated melanoma cell lines 12 samples same disease briefing · shares melanoma
- GSE140150 A rare subpopulation of melanoma cells with low expression of metastasis suppressor NME1 has a neural crest-like phenotype and is highly metastatic in vivo 6 samples same disease briefing · shares melanoma
- GSE142751 Genome-wide maps of chromatin state in 142 cancer cell lines [cell line] 855 samples same disease briefing
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.