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Effect of Dox-induced Cas13 expression in stable cell lines on the mouse transcriptome and co-cultured human PSCs

GSE307132 Mus musculus (mouse) RNA-seq (gene expression) 21 samples Submitted 2025/12/29 Platform GPL34284Platform GPL34290
At a glance

RNA-seq (gene expression) · mouse · 21 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
Mus musculus (mouse)
Samples
21 samples: 7 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.
Paper
Mitigating xenogeneic barriers to chimerism through Cas13-induced host attenuationDevelopmental cell · 2026
Summary (written by the submitters)
In the mouse EpiSCs-iCas13 stable cell line, addition of doxycycline induces Cas13 expression, which further triggers collateral effects and slows down cell proliferation. In co-culture of mouse and human cells, under normal conditions, mouse EpiSCs hold a proliferative advantage, whereas human PSCs are at a disadvantage and show almost no growth.
Read the full summary ↓
Upon doxycycline treatment in the co-culture, Cas13 expression in mouse cells triggers collateral effects that reduce their proliferation, thereby providing a relative advantage for human PSCs. As a result, the proliferation of human PSCs is markedly enhanced, showing a growth pattern more comparable to that observed in separate cultures of human PSCs.
Published in
Mitigating xenogeneic barriers to chimerism through Cas13-induced host attenuation
He B, Lv S, Li L et al. · Developmental cell 2026 · PMID 41616766 · doi:10.1016/j.devcel.2026.01.001
This dataset
Open GSE307132 in finder → Find more RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE307132_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1314640 and SRA study SRP617687. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41616766) ↗
Study design
7 conditions, mostly in triplicate
cc_dox_mouse ×3 cc_dox free_mouse ×3 sc_dox_mouse ×3 sc_dox free_mouse ×3 cc_dox_human ×3 cc_dox free_human ×3 sc_dox free_human ×3

Supports a between-group comparison across 21 samples.

How we read this: 7 replicated groups read from 21 sample titles; they account for 21 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.

Samples in this study
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