Starvation activates ECM-remodeling gene transcription and putative enhancers in fibroblasts despite inducing quiescence
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.
- Paper
- Starvation activates ECM-remodeling gene transcription and putative enhancers in fibroblasts despite inducing quiescenceCell reports · 2025
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 GSE297107_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 PRJNA1262532 and SRA study SRP520620. 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.
- GSM8403713 KI658_Bru_proliferation_GM07492
- GSM8403714 KI659_Bru_starvation_GM07492
- GSM8403715 KI661_Bru_recovery_GM07492
- GSM8403716 KI662_Bru_proliferation_GM07492
- GSM8403717 KI663_Bru_starvation_GM07492
- GSM8403718 KI665_Bru_recovery_GM07492
- GSM8403719 KI396_Input_starvation_GM07492
- GSM8403720 KI397_Input_recovery_GM07492
- GSM8403721 KI374_K27ac_starvation_GM07492
- GSM8403722 KI401_K27ac_starvation_GM07492
- GSM8403723 KI379_K27ac_recovery_GM07492
- GSM8403724 KI402_K27ac_recovery_GM07492
- GSM8403725 KI353_K4me3_proliferation_GM07492
- GSM8403726 KI403_K4me3_proliferation_GM07492
- GSM8403727 KI376_K4me3_starvation_GM07492
- GSM8403728 KI404_K4me3_starvation_GM07492
- GSM8403729 KI381_K4me3_recovery_GM07492
- GSM8403730 KI405_K4me3_recovery_GM07492
- GSE171817 SUMOylation Regulates Super-Enhancers Through Transcription Factor TFAP2C Binding on Chromatin 30 samples shares transcription, enhancers
- GSE331144 Transcriptional and spatial profiling of fibroblasts from human lungs highlights CTHRC1+ cells as fibrogenic signaling hubs in fibrosis 9 samples shares transcription, fibroblasts
- GSE314310 Cardiopedia-Ligand: a Ligand Stimulation Atlas for Cardiac Function and Transcriptional Response 468 samples shares transcription
- GSE303576 Rb-driven transcription limits its tumour suppressive effects in breast cancer 279 samples shares transcription
- GSE22098 Whole blood transcriptional profiles of patients with active tuberculosis (TB) and other inflammatory and infectious diseases 274 samples shares transcription
- GSE303478 Systematic investigation reveals extensive Epstein-Barr virus transcriptional regulation of the human genome 217 samples shares transcription
- GSE275647 Role of Cancer-Associated Fibroblasts in Prognostic Stratification of Advanced-Stage Gastric Cancer through Interacting with Endothelial and Malignant Epithelial Cells [AGC RNA-seq] 216 samples shares fibroblasts
- GSE271676 Spatial Transcriptional Landscape of Human Heart Failure 178 samples shares transcription
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.