AP-1 Mediates Cellular Adaptation and Memory Formation [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 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)
- Samples
- 18 samples: 18 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 GSE311829_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 PRJNA1370971 and SRA study SRP649770. 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 18 sample titles: 18 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.
- GSM9333009 J1_3d (-)_repA
- GSM9333010 J2_14d dex -> T+jnk8_repA
- GSM9333011 J3_3d dmso_repA
- GSM9333012 J4_14d dex -> dmso_repA
- GSM9333013 J5_3d dex jnk8_repA
- GSM9333014 J6_14d dmso -> T_repA
- GSM9333015 J7_14d dex -> T_repB
- GSM9333016 J8_14d dex -> T+jnk8_repB
- GSM9333017 J9_14d dex+jnk8 -> T+jnk8_repB
- GSM9333018 J10_14d dex -> dmso_repB
- GSM9333019 J11_3d dex_repA
- GSM9333020 J12_3d dex jnk8_repB
- GSM9333021 J13_3d (-)_repB
- GSM9333022 J14_14d dmso -> T_repB
- GSM9333023 J15_3d dex_repB
- GSM9333024 J16_3d dmso_repB
- GSM9333025 J17_14d dex+jnk8 -> T+jnk8_repA
- GSM9333026 J18_14d dex -> T_repA
- GSE311827 AP-1 Mediates Cellular Adaptation and Memory Formation [Bulk RNA-seq] 192 samples shares ap-1, adaptation, formation, mediates, cellular, memory
- GSE264693 Cytokines drive the formation of memory-like NK cell subsets via epigenetic rewiring and transcriptional mechanisms [ATAC-seq] 39 samples shares formation, atac-seq, memory
- GSE267597 AP-1 Mediates Oncogenic Transcription and Predicts Fatality in Lung Squamous Cell Carcinoma Patients [ChIP-seq] 36 samples shares ap-1, mediates
- GSE243003 Metabolic adaptation pilots the differentiation of human hematopoietic cells (bulk ATAC-Seq) 41 samples shares adaptation, atac-seq
- GSE328215 NSD2 Degradation Remediates the Oncogenic Cistrome in t(4;14) Multiple Myeloma [ATAC-seq] 22 samples shares mediates, atac-seq
- GSE222946 Early activity of GATA3 mediates patterning and lineage specification in human gastrulation [ATAC-seq] 22 samples shares mediates, atac-seq
- GSE247691 Cellular adaptation to cancer therapy along a resistance continuum 93 samples shares adaptation, cellular
- GSE253091 The Small Extracellular Vesicle-Mediated Intercellular Transformation of CXCR1Low to CXCR1High Tumor Cells Promotes the Progression of Head and Neck Squamous Cell Carcinoma 36 samples shares formation, cellular
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.