Identification of Ephrin type-B receptor 4 (EphB4) as a critical mediator of tissue fibrosis [RNA-seq]
Single-nucleus RNA-seq · human · 16 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 16 samples: 16 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
- Identification of Ephrin type-B receptor 4 as a critical mediator of tissue fibrosisJCI insight · 2025
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 GSE205613_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA846711 and SRA study SRP378906. 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 16 sample titles: 16 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.
- GSM6215506 IPF1C
- GSM6215507 IPF1I
- GSM6215508 IPF2C
- GSM6215509 IPF2I
- GSM6215510 IPF3C
- GSM6215511 IPF3I
- GSM6215512 IPF4C
- GSM6215513 IPF4I
- GSM8427019 HLF1_Vehicle
- GSM8427020 HLF2_Vehicle
- GSM8427021 HLF3_Vehicle
- GSM8427022 HLF5_Vehicle
- GSM8427023 HLF1_NVP-BHG712
- GSM8427024 HLF2_NVP-BHG712
- GSM8427025 HLF3_NVP-BHG712
- GSM8427026 HLF5_NVP-BHG712
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- GSE238112 ABI1 regulates transcriptional activity of Androgen Receptor by novel DNA and AR binding mechanism [RNA-seq] 18 samples shares receptor, rna-seq
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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.