RNA-seq of SOX5 overexpressing primary human neuronal progenitors
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: 6 × Control vs 6 × SOX5 OverExpGroups 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.
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 GSE89057_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 PRJNA350168 and SRA study SRP091936. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 replicated groups read from 12 sample titles; they account for 12 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.
- GSM2358062 Control 1 Control
- GSM2358063 Control 2 Control
- GSM2358064 Control 3 Control
- GSM2358065 Control 4 Control
- GSM2358066 Control 5 Control
- GSM2358067 Control 6 Control
- GSM2358068 SOX5 OverExp 1 SOX5 OverExp
- GSM2358069 SOX5 OverExp 2 SOX5 OverExp
- GSM2358070 SOX5 OverExp 3 SOX5 OverExp
- GSM2358071 SOX5 OverExp 4 SOX5 OverExp
- GSM2358072 SOX5 OverExp 5 SOX5 OverExp
- GSM2358073 SOX5 OverExp 6 SOX5 OverExp
- GSE232879 Serine/Threonine Phosphorylation of RUNX1 Promotes Megakaryocytic Fate in Megakaryocyte-Erythroid Progenitors (Primary Human Bulk mRNA-seq) 22 samples shares progenitors, rna-seq, primary
- GSE305132 Single-Cell Multiomic Atlas of Human Cortical Development in Down Syndrome - Neural Progenitors in vitro - Treatment with Antisense Oligonucleotides for PKNOX1, BACH1 and GABPA (Bulk RNA-seq Dataset) 68 samples shares progenitors, rna-seq
- GSE285570 Transcriptional regulation of temporal dynamics in human neurogenesis and neuronal maturation [RNA-seq] 50 samples shares neuronal, rna-seq
- GSE286357 Transcriptional regulation of temporal dynamics in human neurogenesis and neuronal maturation [scRNA-seq] 35 samples shares neuronal, rna-seq
- GSE304598 Bulk RNA-seq time-course of human iPSc differentiation to thymic epithelial progenitors 33 samples shares progenitors, rna-seq
- GSE286949 Neuronal hyperactivity becomes mTORC1 independent due to epigenetic changes in Tuberous Sclerosis Complex [RNA-seq] 96 samples shares neuronal, rna-seq
- GSE203568 m6a methylation drives IMP1 regulation during human neuronal differentiation [RNA-seq] 12 samples shares neuronal, rna-seq
- GSE288966 Multi-omics analysis identifies progenitors of CD4-CTLs [bulk RNA-seq] 70 samples shares progenitors, 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.