Single cell gene expression analysis of hESCs undergoing neuronal differentiation
Single-cell RNA-seq · human · 16 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 16 samples: 16 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
- Citalopram exposure of hESCs during neuronal differentiation identifies dysregulated genes involved in neurodevelopment and depressionFrontiers in cell and developmental biology · 2024
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 GSE260889_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1083922. 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 16 sample titles: 16 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.
- GSM8127527 HS360-Day6-scRNA-seq
- GSM8127528 HS360-Day6-CIT50-scRNA-seq
- GSM8127529 HS360-Day6-CIT100-scRNA-seq
- GSM8127530 HS360-Day6-CIT200-scRNA-seq
- GSM8127531 HS360-Day6-CIT400-scRNA-seq
- GSM8127532 HS360-Day10-scRNA-seq
- GSM8127533 HS360-Day10-CIT50-scRNA-seq
- GSM8127534 HS360-Day10-CIT100-scRNA-seq
- GSM8127535 HS360-Day10-CIT200-scRNA-seq
- GSM8127536 HS360-Day10-CIT400-scRNA-seq
- GSM8127537 HS360-Day13-scRNA-seq
- GSM8127538 HS360-Day13-CIT50-scRNA-seq
- GSM8127539 HS360-Day13-CIT100-scRNA-seq
- GSM8127540 HS360-Day13-CIT200-scRNA-seq
- GSM8127541 HS360-Day13-CIT400-scRNA-seq
- GSM8127542 HS360-Day0-scRNA-seq
- GSE260888 Gene expression analysis of hESCs undergoing neuronal differentiation exposed to citalopram 89 samples shares undergoing, neuronal, hescs
- GSE260892 Gene expression and Epigenome analysis of hESCs undergoing neuronal differentiation 194 samples shares undergoing, neuronal, hescs
- GSE217469 Dysregulation of global mRNA splicing in a Huntington’s disease neuronal differentiation cell line model 27 samples shares neuronal
- GSE301239 SETBP1 variants outside the degron disrupt DNA-binding, transcription and neuronal differentiation capacity to cause a heterogeneous neurodevelopmental disorder [induced neurons] 51 samples shares neuronal
- GSE244435 Engrailed 1 deficiency induces changes in ciliogenesis during human neuronal differentiation 48 samples shares neuronal
- GSE245323 Dynamics and consequences of widespread transcript isoform changes during neuronal differentiation [RNA-Seq] 24 samples shares neuronal
- GSE307922 Destabilization of the noncanonical PRC1.1 complex via USP7 inhibition induces neuronal differentiation in neuroblastoma [RNA-Seq] 18 samples shares neuronal
- GSE310131 Long-read proteogenomic atlas of human neuronal differentiation reveals isoform diversity informing neurodevelopmental risk mechanisms 15 samples shares neuronal
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.