Canonical Hedgehog Signaling Controls Astral Microtubules and Mitotic Spindle Orientation in Neural Progenitors and iPSCs
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: 4 × DMSO vs 4 × SAG vs 4 × SAG + ForskolinGroups 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
- Hedgehog signaling controls astral microtubules and mitotic spindle orientation in neural progenitors and iPSCsFrontiers in cell and developmental biology · 2025
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 GSE296672_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 PRJNA1260493 and SRA study SRP583922. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 3 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.
- GSM8974484 DMSO replicate 1 DMSO
- GSM8974485 DMSO replicate 2 DMSO
- GSM8974486 DMSO replicate 3 DMSO
- GSM8974487 SAG replicate 1 SAG
- GSM8974488 DMSO replicate 4 DMSO
- GSM8974489 SAG replicate 2 SAG
- GSM8974490 SAG replicate 3 SAG
- GSM8974491 SAG replicate 4 SAG
- GSM8974492 SAG + Forskolin replicate 1 SAG + Forskolin
- GSM8974493 SAG + Forskolin replicate 2 SAG + Forskolin
- GSM8974494 SAG + Forskolin replicate 3 SAG + Forskolin
- GSM8974495 SAG + Forskolin replicate 4 SAG + Forskolin
- GSE315664 Gene expression profile of antisense oligonucleotide-treated Neural Progenitors from controls and Schinzel-Giedion Syndrome cases 60 samples shares progenitors, controls
- GSE289360 PYM1 controls non-canonical EJC occupancy and maintains homeostatic expression of membrance targeted transcripts 29 samples shares canonical, controls
- GSE328357 Canonical and isomiR products of miR-142 enhance dendritic cell reprogramming [lenti_hairpins] 114 samples shares canonical
- GSE137614 Transcriptomic profiling of Neural Progenitors Cell and Neural Crest Cell Differentiation of Wild-Type and TSC2-Knockout Cultures from the Pluripotent State 96 samples shares progenitors
- GSE285497 Transcriptomics Unveil Canonical and Non-Canonical Heat Shock-Induced Pathways in Human Cell Lines 79 samples shares canonical
- GSE298239 Effect of canonical aryl hydrocarbon receptor pathway inhibitor on human endothelial cells 72 samples shares canonical
- GSE288966 Multi-omics analysis identifies progenitors of CD4-CTLs [bulk RNA-seq] 70 samples shares progenitors
- 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
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.