The transcription factor NFIL3 drives innate lymphoid cell specification from lymphoid progenitors [RNA-seq - ex vivo, Nfil3]
RNA-seq (gene expression) · mouse · 27 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 27 samples: 9 conditions, mostly in triplicateGroups 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
- The transcription factor NFIL3 drives innate lymphoid cell specification from lymphoid progenitorsImmunity · 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 GSE291075_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1231513 and SRA study SRP567874. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 27 samples.
How we read this: 9 replicated groups read from 27 sample titles; they account for 27 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.
- GSM8828718 ALP, batch1, rep1 ALP, batch1,
- GSM8828719 ALP, batch1, rep2 ALP, batch1,
- GSM8828720 ALP, batch1, rep3 ALP, batch1,
- GSM8828721 sEILP, batch1, rep1 sEILP, batch1,
- GSM8828722 sEILP, batch1, rep2 sEILP, batch1,
- GSM8828723 cEILP, batch1, rep1 cEILP, batch1,
- GSM8828724 cEILP, batch1, rep2 cEILP, batch1,
- GSM8828725 cEILP, batch1, rep3 cEILP, batch1,
- GSM8828726 GFP, batch1, rep1 GFP, batch1,
- GSM8828727 GFP, batch1, rep2 GFP, batch1,
- GSM8828728 GFP, batch1, rep3 GFP, batch1,
- GSM8828729 NFIL, batch1, rep1 NFIL, batch1,
- GSM8828730 NFIL, batch1, rep2 NFIL, batch1,
- GSM8828731 NFIL, batch1, rep3 NFIL, batch1,
- GSM8828732 ALP, batch2, rep1 ALP, batch2,
- GSM8828733 ALP, batch2, rep2 ALP, batch2,
- GSM8828734 ALP, batch2, rep3 ALP, batch2,
- GSM8828735 ALP, batch2, rep4 ALP, batch2,
- GSM8828736 sEILP, batch2, rep1 sEILP, batch2,
- GSM8828737 sEILP, batch2, rep2 sEILP, batch2,
- GSM8828738 sEILP, batch2, rep3 sEILP, batch2,
- GSM8828739 cEILP, batch2, rep1 cEILP, batch2,
- GSM8828740 cEILP, batch2, rep2 cEILP, batch2,
- GSM8828741 cEILP, batch2, rep3 cEILP, batch2,
- GSM8828742 ILCP, batch2, rep1 ILCP, batch2,
- GSM8828743 ILCP, batch2, rep2 ILCP, batch2,
- GSM8828744 ILCP, batch2, rep3 ILCP, batch2,
- GSE229129 Conserved transcriptional regulation by BRN1 and BRN2 in neocortical progenitors drives mammalian neural specification and neocortical expansion 13 samples shares transcription, specification, progenitors, drives
- GSE245838 Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity [mouse scRNA-seq] 21 samples shares transcription, rna-seq, factor
- GSE296438 Transcription factor NFYA directs male meiotic entry by facilitating accessible chromatin at the promoters of genes expressed during meiosis [scRNA-seq & scATAC-seq] 10 samples shares transcription, rna-seq, factor
- GSE286046 Asymmetric Histone Inheritance Regulates Differential Transcription Re-initiation and Cell Fate Decisions in Mouse Olfactory Horizontal Basal Cells 96 samples shares transcription, factor
- GSE282096 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome (RNA-Seq) 94 samples shares transcription, rna-seq
- GSE281037 Large-scale transcriptomic analyses reveal downstream target genes of ZFY1 and ZFY2 transcription factors in male germ cells 48 samples shares transcription, factor
- GSE273878 Cancer-induced FOXP1 disrupts and reprograms skeletal muscle circadian transcription in cachexia [circadian RNA-seq] 48 samples shares transcription, rna-seq
- GSE248585 A conserved epithelial wound-like transcriptional program driven by FOSL1 underlies malignant progression of pancreatic ductal adenocarcinoma (ssRNA-Seq) 46 samples shares transcription, rna-seq
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.