JAX Study 5- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids and extra-embryonic lineages homozygous null for nine different transcription factors and one RNA splicing factor
RNA-seq (gene expression) · human · 48 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
- 48 samples
- 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.
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 GSE287844_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 PRJEB82526 and SRA study ERP166212. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 48 more — browse all 48 samples with per-sample file links →
- GSE287843 JAX Study 4- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids and extra-embryonic lineages homozygous null for six different transcription factors 28 samples shares kolf2, jax, extra-embryonic, hipsc-derived, transcription, homozygous, organoids, different
- 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, jax, hipsc-derived, transcription, homozygous, organoids, different
- GSE303918 JAX Study 9- RNA-seq of male KOLF2.2J hiPSC-derived cortical brain organoids homozygous null for eight different transcription factors. 39 samples shares kolf2, jax, hipsc-derived, transcription, homozygous, organoids, different
- GSE288286 JAX Study 6- RNA-seq of female WIBJ2 hiPSC-derived cortical brain organoids and extra-embryonic lineages homozygous null for five different transcription factors 33 samples shares jax, extra-embryonic, hipsc-derived, transcription, homozygous, organoids, different
- 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, jax, hipsc-derived, transcription, homozygous, different
- 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, jax, hipsc-derived, transcription, homozygous, different
- GSE288289 JAX Study 2- RNA-seq of male KOLF2.2J hiPSC-derived trophoblast cell lines homozygous null for seven different transcription factors 82 samples shares kolf2, jax, hipsc-derived, transcription, homozygous, different
- GSE302997 JAX Study 8- RNA-seq of male KOLF2.2J hiPSC-derived trophoblast cell lines homozygous null for nine different transcription factors. 53 samples shares kolf2, jax, hipsc-derived, transcription, homozygous, different
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.