KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease [RNA-seq]
RNA-seq (gene expression) · human · 12 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
- Homo sapiens (human)
- Samples
- 12 samples: 12 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
- KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS diseaseiScience · 2026
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 GSE299831_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 PRJNA1276592 and SRA study SRP592028. 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 12 sample titles: 12 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.
- GSM9047379 iTF-iPSCs, untreated, rep1 (RNA-seq)
- GSM9047380 iTF-iPSCs, untreated, rep2 (RNA-seq)
- GSM9047381 iTF-iPSCs, untreated, rep3 (RNA-seq)
- GSM9047382 iTF-iPSCs, LPS 100mg/ml + IFNG 20 ng/ml, 24h, rep1 (RNA-seq)
- GSM9047383 iTF-iPSCs, LPS 100mg/ml + IFNG 20 ng/ml, 24h, rep2 (RNA-seq)
- GSM9047384 iTF-iPSCs, LPS 100mg/ml + IFNG 20 ng/ml, 24h, rep3 (RNA-seq)
- GSM9047385 iTF-Microglia Day 18, untreated, rep1 (RNA-seq)
- GSM9047386 iTF-Microglia Day 18, untreated, rep2 (RNA-seq)
- GSM9047387 iTF-Microglia Day 18, untreated, rep3 (RNA-seq)
- GSM9047388 iTF-Microglia Day 18, LPS 100mg/ml + IFNG 20 ng/ml, 24h, rep1 (RNA-seq)
- GSM9047389 iTF-Microglia Day 18, LPS 100mg/ml + IFNG 20 ng/ml, 24h, rep2 (RNA-seq)
- GSM9047390 iTF-Microglia Day 18, LPS 100mg/ml + IFNG 20 ng/ml, 24h, rep3 (RNA-seq)
- GSE299850 KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease 36 samples shares kolf2, cns, itf-microglia, standardized, microglial, regulatory, platform, networks
- GSE299829 KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease [ChIP-seq] 12 samples shares kolf2, cns, itf-microglia, standardized, microglial, regulatory, platform, networks
- GSE299828 KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease [ATAC-seq] 6 samples shares kolf2, cns, itf-microglia, standardized, microglial, regulatory, platform, networks
- GSE300985 A standardized patient-derived glioblastoma organoid platform for evaluating radiotherapy efficacy and overcoming resistance 147 samples shares standardized, platform
- GSE268458 Standardized generation of human iPSC-derived hematopoietic organoids and macrophages utilizing a benchtop bioreactor platform under fully defined conditions 3 samples shares standardized, platform
- GSE287558 JAX Study 3- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids homozygous null for six different transcription factors 174 samples shares kolf2
- GSE288317 JAX Study 1 and Study 2 - RNA-seq of male KOLF2.2J hiPSC-derived trophoblast cell lines homozygous null for 14 different transcription factors 172 samples shares kolf2
- GSE288288 JAX Study 1- RNA-seq of male KOLF2.2J hiPSC-derived trophoblast cell lines homozygous null for seven different transcription factors 90 samples shares kolf2
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.