Effect of depletion of SPAST exon17 on gene expression in human embryonic stem cells (hESC) and cortical organoids (COs)
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
- 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 GSE224414_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 PRJNA930894 and SRA study SRP420738. 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.
+ 12 more — browse all 12 samples with per-sample file links →
- 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 embryonic, organoids, cortical
- 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 embryonic, organoids, cortical
- GSE254260 Single cell RNA-sequencing of H9 human embryonic stem cell-derived cortical organoid slice cultures (ALI-COs) at various timepoints 10 samples shares embryonic, cortical, stem
- GSE239888 ChIP-seq of human embryonic stem cells (hESCs) overexpressed with Monkeypox viral proteins H3L and A29L 19 samples shares embryonic, stem, hesc
- GSE249035 Sex-biased Gene Expression During Neural Differentiation of Human Embryonic Stem Cells 72 samples shares embryonic, stem
- GSE245986 Profiling circular RNAs across human embryonic stem cell differentiation identifies the role of circACVR2A(4-6) in neuroectoderm lineage differentiation. 54 samples shares embryonic, stem
- GSE310465 Embryonic lineage-specific iPSC-derived mesenchymal stem/stromal cells exhibit different morphology and intrinsic functions 40 samples shares embryonic, stem
- GSE328189 Multiomic profiling of vascular endothelial cell differentiation from human embryonic stem cells [EC diff RNA-Seq] 36 samples shares embryonic, stem
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.