Histological Signatures Reveal Anti-Fibrotic Factors in Mouse and Human Lungs
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 14 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
- Mus musculus (mouse)
- Samples
- 14 samples: 14 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
- Histological signatures map anti-fibrotic factors in mouse and human lungsNature · 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 GSE250398_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 PRJNA1053808 and SRA study SRP478525. 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 14 sample titles: 14 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.
- GSM7978617 Mouse lungs, post-injury day 14, replicate 1, Visium
- GSM7978618 Mouse lungs, post-injury day 35, replicate 1, Visium
- GSM7978619 Mouse lungs, post-injury day 14, replicate 2, Visium
- GSM7978620 Mouse lungs, post-injury day 35, replicate 2, Visium
- GSM7978621 Mouse lungs, post-injury day 0, replicate 1, Visium
- GSM7978622 Mouse lungs, post-injury day 35, replicate 3, Visium
- GSM7978623 Mouse lungs, post-injury day 14, replicate 3, Visium
- GSM7978624 Mouse lungs, post-injury day 0, replicate 2, Visium
- GSM7978625 Mouse lungs, post-injury day 0, scRNA-seq
- GSM7978626 Mouse lungs, post-injury day 14, scRNA-seq
- GSM7978627 Mouse lungs, post-injury day 35, scRNA-seq
- GSM7978628 Mouse lungs, post-injury day 0, scATAC-seq
- GSM7978629 Mouse lungs, post-injury day 14, scATAC-seq
- GSM7978630 Mouse lungs, post-injury day 35, scATAC-seq
- GSE301216 Distinct lung functional, histological and cell senescence signatures in the single vs repetitive bleomycin mouse model of idiopathic pulmonary fibrosis 53 samples shares histological, signatures
- GSE239477 Single-cell genomics of the mouse olfactory cortex reveals contrasts with neocortex and ancestral signatures of cell type evolution 72 samples shares signatures
- GSE234246 Multiomic Profile Integration Reveals Early Signatures of Amyotrophic Lateral Sclerosis and Suggests the MAPK Pathway as a Therapeutic Target 158 samples shares signatures
- GSE255212 Transcriptomic Signatures of WNT-Driven Pathways and Granulosa Cell-Oocyte Interaction during Primordial Follicle Activation 762 samples shares signatures
- GSE262157 Comparative analysis of mouse strains for in vivo induction of reprogramming factors 96 samples shares factors
- GSE234245 Multiomic Profile Integration Reveals Early Signatures of Amyotrophic Lateral Sclerosis and Suggests the MAPK Pathway as a Therapeutic Target [RNA-Seq] 79 samples shares signatures
- GSE301751 Therapeutic Efficacy, Biomarker Signatures and Translatability of Semaglutide in the Liver Biopsy-Confirmed GAN DIO-MASH Mouse Model (study 7/9) 53 samples shares signatures
- GSE281037 Large-scale transcriptomic analyses reveal downstream target genes of ZFY1 and ZFY2 transcription factors in male germ cells 48 samples shares factors
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.