Epigenome maps of time-resolved monocyte to macrophage differentiation and innate immune memory
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 239 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
- 239 samples
- 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.
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 GSE85246_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 PRJNA343082 and SRA study SRP090298. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 239 more — browse all 239 samples with per-sample file links →
- GSE262098 Transcriptomes during monocyte-to-macrophage differentiation and BCG induced trained immunity in vitro 21 samples shares macrophage, monocyte
- GSE269009 RNA-seq of monocyte derived macrophages and dendritic cells in a Peruvian Tuberculosis cohort 227 samples shares macrophage, monocyte
- GSE272396 Endogenously produced itaconate negatively regulates innate-driven cytokine production and drives global ubiquitination in human macrophages 36 samples shares macrophage, innate
- GSE316027 β-hydroxybutyrate-driven histone lysine β-hydroxybutyrylation promotes the immunostimulatory activity of monocyte-derived macrophages in rectal cancer 32 samples shares macrophage, monocyte
- GSE294916 IFNγ-induced memory in human macrophages is not sustained by epigenetic changes but the durability of the cytokine itself [CUT&Tag] 28 samples shares macrophage, memory
- GSE300680 A streamlined and comprehensive protocol for the generation and multi-omic analysis of human monocyte-derived macrophages [bulk RNA-Seq] 20 samples shares macrophage, monocyte
- GSE279915 Complexity of synovial fluid-derived monocyte–macrophage lineage cells in knee osteoarthritis 12 samples shares macrophage, monocyte
- GSE254366 Epigenome reprogramming through H3K27 and H3K4 trimethylation as a resistance mechanism to DNA methylation inhibition in BRAFV600E-mutated CRC. 36 samples shares epigenome
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.