Effect of IVNS1ABP mutation, knockout on gene expression during iPSCs differentiation to Neural Progenitors
RNA-seq (gene expression) · human · 18 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
- 18 samples: 6 conditions, mostly in triplicateGroups 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 GSE270946_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 PRJNA1129086 and SRA study SRP516566. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8365514 MT ips cells, bio rep1 MT ips cells,
- GSM8365515 MT ips cells, bio rep2 MT ips cells,
- GSM8365516 MT ips cells, bio rep3 MT ips cells,
- GSM8365517 Correctted ips cells, bio rep1 Correctted ips cells,
- GSM8365518 Correctted ips cells, bio rep2 Correctted ips cells,
- GSM8365519 Correctted ips cells, rep3 Correctted ips cells,
- GSM8365520 KO ips cells, bio rep1 KO ips cells,
- GSM8365521 KO ips cells, bio rep2 KO ips cells,
- GSM8365522 KO ips cells, bio rep3 KO ips cells,
- GSM8365523 MT iPSCs derived NPCs, bio rep1 MT iPSCs derived NPCs,
- GSM8365524 MT iPSCs derived NPCs, bio rep2 MT iPSCs derived NPCs,
- GSM8365525 MT iPSCs derived NPCs, bio rep3 MT iPSCs derived NPCs,
- GSM8365526 Correctted iPSCs derived NPCs, bio rep1 Correctted iPSCs derive…
- GSM8365527 Correctted iPSCs derived NPCs, bio rep2 Correctted iPSCs derive…
- GSM8365528 Correctted iPSCs derived NPCs, bio rep3 Correctted iPSCs derive…
- GSM8365529 KO iPSCs derived NPCs, bio rep1 KO iPSCs derived NPCs,
- GSM8365530 KO iPSCs derived NPCs, bio rep2 KO iPSCs derived NPCs,
- GSM8365531 KO iPSCs derived NPCs, bio rep3 KO iPSCs derived NPCs,
- GSE315664 Gene expression profile of antisense oligonucleotide-treated Neural Progenitors from controls and Schinzel-Giedion Syndrome cases 60 samples shares progenitors, neural
- 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, neural
- GSE337839 CRISPR activation of DLX5 drives neural progenitors to the GnRH cell fate 29 samples shares progenitors, neural
- GSE331395 Replicative senescence in neural progenitors induces senescence-associated markers in midbrain organoids 24 samples shares progenitors, neural
- GSE302350 KMT2D-deficiency destabilizes lineage progression in immature neural progenitors 16 samples shares progenitors, neural
- GSE304598 Bulk RNA-seq time-course of human iPSc differentiation to thymic epithelial progenitors 33 samples shares progenitors
- GSE226482 Single cell RNA sequencing of spinal motor neurons and interneurons differentiated from isogenic FUS and TARDBP human induced pluripotent stem cell lines harbouring ALS-causative mutations 1415 samples shares mutation
- GSE279322 Development of MAPT S305 mutation models exhibiting elevated 4R tau expression, resulting in altered neuronal and astrocytic function 156 samples shares mutation
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.