Chromatin Remodeling Drives Immune-Fibroblast Cell Communication in Heart Failure
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 57 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
- 57 samples: 17 conditions, mostly in duplicateGroups 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.
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 GSE221699_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 PRJNA915384 and SRA study SRP470684. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 45 samples.
How we read this: 17 replicated groups read from 57 sample titles; they account for 45 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.
- GSM6893169 Bulk RNA-Seq Unstim-1 Bulk RNA-Seq Unstim
- GSM6893170 Bulk RNA-Seq Unstim-2 Bulk RNA-Seq Unstim
- GSM6893171 Bulk RNA-Seq Unstim-3 Bulk RNA-Seq Unstim
- GSM6893172 Bulk RNA-Seq Unstim-4 Bulk RNA-Seq Unstim
- GSM6893173 Bulk RNA-Seq IL1B-1 Bulk RNA-Seq IL1B
- GSM6893174 Bulk RNA-Seq IL1B-2 Bulk RNA-Seq IL1B
- GSM6893175 Bulk RNA-Seq IL1B-3 Bulk RNA-Seq IL1B
- GSM6893176 Bulk RNA-Seq IL1B-4 Bulk RNA-Seq IL1B
- GSM6893177 Bulk RNA-Seq TGFB-1 Bulk RNA-Seq TGFB
- GSM6893178 Bulk RNA-Seq TGFB-2 Bulk RNA-Seq TGFB
- GSM6893179 Bulk RNA-Seq TGFB-3 Bulk RNA-Seq TGFB
- GSM6893180 Bulk RNA-Seq TGFB-4 Bulk RNA-Seq TGFB
- GSM6893181 Bulk RNA-Seq TGFB+IL1B-1 Bulk RNA-Seq TGFB+IL1B
- GSM6893182 Bulk RNA-Seq TGFB+IL1B-2 Bulk RNA-Seq TGFB+IL1B
- GSM6893183 Bulk RNA-Seq TGFB+IL1B-3 Bulk RNA-Seq TGFB+IL1B
- GSM6893184 Bulk RNA-Seq TGFB+IL1B-4 Bulk RNA-Seq TGFB+IL1B
- GSM6893185 ChIP-Seq Uns_iPS-CF_input_S1_R1_001
- GSM6893186 ChIP-Seq Uns_iPS-CF_K27Ac_A_S4_R1_001
- GSM6893187 ChIP-Seq Uns_iPS-CF_K27Ac_B_S5_R1_001
- GSM6893188 ChIP-Seq Uns_iPS-CF_RELA_S10_R1_001
- GSM6893189 ChIP-Seq Inp_Uns_S1_R1_001_Nov2022
- GSM6893190 ChIP-Seq Uns_AM_RelA_S11_R1_001_Nov2022
- GSM6893191 Cut and Run Sham_CX3CR1pos_FLAG
- GSM6893192 Cut and Run TAC1_CX3CR1pos_FLAG
- GSM6893193 Cut and Run TAC2_CX3CR1pos_FLAG
- GSM6893194 Cut and Run TAC2_CX3CR1neg_IgG
- GSM6893195 scATAC-Seq TAC_WT_rep1 scATAC-Seq TAC_WT
- GSM6893196 scATAC-Seq TAC_WT_rep2 scATAC-Seq TAC_WT
- GSM6893197 scATAC-Seq TAC_BRD4KO_rep1 scATAC-Seq TAC_BRD4KO
- GSM6893198 scATAC-Seq TAC_BRD4KO_rep2 scATAC-Seq TAC_BRD4KO
- GSM6893199 scATAC-Seq CD45pos_Sham
- GSM6893200 scATAC-Seq CD45pos_TAC_WT_rep1 scATAC-Seq CD45pos_TAC_…
- GSM6893201 scATAC-Seq CD45pos_TAC_WT_rep2 scATAC-Seq CD45pos_TAC_…
- GSM6893202 scATAC-Seq CD45pos_TAC_BRD4KO_rep1 scATAC-Seq CD45pos_TAC_…
- GSM6893203 scATAC-Seq CD45pos_TAC_BRD4KO_rep2 scATAC-Seq CD45pos_TAC_…
- GSM6893256 scRNA-Seq Sham_rep1 scRNA-Seq Sham
- GSM6893257 scRNA-Seq Sham_rep2 scRNA-Seq Sham
- GSM6893258 scRNA-Seq Sham_rep3 scRNA-Seq Sham
- GSM6893259 scRNA-Seq TAC_rep1 scRNA-Seq TAC
- GSM6893260 scRNA-Seq TAC_rep2 scRNA-Seq TAC
+ 17 more — browse all 57 samples with per-sample file links →
- GSE274495 The remodeling of bivalent chromatin is essential for mouse peri-implantation embryogenesis. 421 samples shares remodeling, chromatin
- GSE312574 Unbalanced chromatin binding of Polycomb complexes drives neurodevelopmental disorders 179 samples shares chromatin, drives
- GSE290682 Nuclear class 3 PI3K co-activates fasting-specific chromatin remodeling 63 samples shares remodeling, chromatin
- GSE278946 cPRC1.2 and CTCF-Mediated Transition from Poised to Active Chromatin Loops Drives Bivalent Gene Activation 43 samples shares chromatin, drives
- GSE241338 Genome-wide interference of chromatin architecture and Mediator in transcriptional bursting and gene network regulation 250 samples shares chromatin
- GSE266349 Remodeling of Il4-Il13-Il5 locus underlies selective gene expression 138 samples shares remodeling
- GSE65360 Single-cell chromatin accessibility data using scATAC-seq 1632 samples shares chromatin
- GSE320163 Minimizing far-extending chromatin perturbation in genome editing preserves stem cell identity [ATAC-Seq] 377 samples shares chromatin
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.