Female iPSC X-chromosome inactivation (XCI) erosion and its transcriptomic effects during CRISPR gene editing and neural differentiation
Single-cell RNA-seq · human · 228 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 228 samples: 227 × VGroups 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
- Female iPSC X-chromosome inactivation (XCI) erosion and its transcriptomic effects during CRISPR gene editing and neural differentiationbioRxiv : the preprint server for biology · 2026
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 GSE322198_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 PRJNA1429369 and SRA study SRP679854. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 227 samples.
How we read this: 1 replicated groups read from 228 sample titles; they account for 227 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.
- GSM9551546 V3035 V
- GSM9551547 V3036 V
- GSM9551548 V3042 V
- GSM9551549 V3048 V
- GSM9551550 V3049 V
- GSM9551551 V3051 V
- GSM9551552 V3056 V
- GSM9551553 V3071 V
- GSM9551554 V3073 V
- GSM9551555 V3085 V
- GSM9551556 V3086 V
- GSM9551557 V3087 V
- GSM9551558 V3088 V
- GSM9551559 V3089 V
- GSM9551560 V3090 V
- GSM9551561 V3091 V
- GSM9551562 V3093 V
- GSM9551563 V3095 V
- GSM9551564 V3098 V
- GSM9551565 V3100 V
- GSM9551566 V3101 V
- GSM9551568 V3107 V
- GSM9551569 V3116 V
- GSM9551570 V3121 V
- GSM9551571 V3123 V
- GSM9551572 V3126 V
- GSM9551573 V3127 V
- GSM9551574 V3128 V
- GSM9551575 V3132 V
- GSM9551576 V3134 V
- GSM9551577 V3137 V
- GSM9551578 V3143 V
- GSM9551579 V3145 V
- GSM9551580 V3155 V
- GSM9551581 V3159 V
- GSM9551582 V3163 V
- GSM9551583 V3168 V
- GSM9551584 V3175 V
- GSM9551585 V3178 V
- GSM9551586 V3179 V
+ 188 more — browse all 228 samples with per-sample file links →
- GSE330047 CRISPR/Cas9-MEDIATED PHOX2B FUNCTIONAL KNOCK-OUT IN IMR32 NEUROBLASTOMA CELLS IMPAIRS NEURONAL EXCITABILITY THROUGH DYSREGULATION OF ION CHANNELS GENES 13 samples shares crispr, xci
- GSE337839 CRISPR activation of DLX5 drives neural progenitors to the GnRH cell fate 29 samples shares crispr, neural
- GSE333489 Integrative multiomic analysis reveals how non-viral delivery system selection shapes CRISPR gene editing outcomes in stem cells. 27 samples shares crispr, editing
- GSE243185 Activation of the imprinted Prader-Willi Syndrome locus by CRISPR-based epigenome editing [RNA-seq] 18 samples shares crispr, editing
- GSE244257 Senescence and inflammation are unintended adverse consequences of CRISPR-Cas9/AAV6 mediated gene editing in hematopoietic stem cells 83 samples shares crispr, editing
- GSE292753 Analysis of chromatin occupancy in erythroid cells by CUT&RUN following CRISPR editing of BCL11A enhancer 33 samples shares crispr, editing
- GSE317890 Transcriptomic profiling of interferon responses induced by IVT sgRNAs in CRISPRi HEK293T cells 360 samples shares crispr
- GSE271359 Identifying modulators of inflammation in an in vitro airway epithelial inflammation model using an arrayed CRISPRi screen 186 samples shares crispr
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.