GEO series

PARK7-Mediated Delactylation of SF3B Reprograms RNA Splicing to Attenuate Fibrosis and Promote Anti-Tumor Immunity

GSE333386 Mus musculus (mouse) RNA-seq (gene expression) 9 samples Submitted 2026/05/28 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 9 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: 9 samples: 3 × RNA-Seq of Hepa1-6-GFP vs 3 × RNA-Seq of Hepa1-6-PARK7 vs 3 × RNA-Seq of Hepa1-6-Sh3Groups 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.

Summary (written by the submitters)

Lactylation, an emerging post-translational modification, plays a crucial role in epigenetic regulation and tumorigenesis. However, the key enzymes governing lactylation, including writer, eraser and reader, and their effects on tumors remain poorly characterized. Here, using lactylome analysis and immunoprecipitation-Mass Spectrometry (IP-MS), we identified Parkinsonism-associated Protein (PARK7) as a novel delactylase.

Read the full summary ↓

PARK7 catalyzes the delactylation of RNA splicing-related protein SF3B2 at lysine 280 (K280), limiting tumor growth in an immunity-dependent manner. RNA immunoprecipitation sequencing (RIP-seq) revealed that lactylation modification of SF3B drives abnormal splicing of Serpin family RNA, resulting in excessive Serpin secretion into the extracellular matrix and subsequent tumor fibrosis. Clinically, elevated PARK7 expression correlates with longer survival among cancer patients. Our findings not only identify a delactylation modification enzyme, PARK7, with tumor-suppressive effects, but also reveal a previously unrecognized connection between lactylation and RNA splicing regulation in cancer biology.

This dataset

Open GSE333386 in finder → Find more mouse 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 GSE333386_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 PRJNA1469813 and SRA study SRP703187. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

3 × RNA-Seq of Hepa1-6-GFP vs 3 × RNA-Seq of Hepa1-6-PARK7 vs 3 × RNA-Seq of Hepa1-6-Sh3

Supports a between-group comparison across 9 samples.

How we read this: 3 replicated groups read from 9 sample titles; they account for 9 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

GSM9761963 RNA-Seq of Hepa1-6-GFP-1 RNA-Seq of Hepa1-6-GFP
GSM9761964 RNA-Seq of Hepa1-6-GFP-2 RNA-Seq of Hepa1-6-GFP
GSM9761965 RNA-Seq of Hepa1-6-GFP-3 RNA-Seq of Hepa1-6-GFP
GSM9761966 RNA-Seq of Hepa1-6-PARK7-1 RNA-Seq of Hepa1-6-PAR…
GSM9761967 RNA-Seq of Hepa1-6-PARK7-2 RNA-Seq of Hepa1-6-PAR…
GSM9761968 RNA-Seq of Hepa1-6-PARK7-3 RNA-Seq of Hepa1-6-PAR…
GSM9761969 RNA-Seq of Hepa1-6-Sh3-1 RNA-Seq of Hepa1-6-Sh3
GSM9761970 RNA-Seq of Hepa1-6-Sh3-2 RNA-Seq of Hepa1-6-Sh3
GSM9761971 RNA-Seq of Hepa1-6-Sh3-3 RNA-Seq of Hepa1-6-Sh3

Datasets on a similar topic

GSE244066 Argonaute3-SF3B3 complex controls pre-mRNA splicing to restrain Type-2 immunity [RNA-seq: dissected tissues] 78 samples shares sf3b, splicing
GSE243700 Argonaute3-SF3B3 complex controls pre-mRNA splicing to restrain Type-2 immunity [RNA-seq: cultured cells] 14 samples shares sf3b, splicing
GSE267436 Cancer-associated SF3B1-K700E mutation controls immune responses by regulating Treg function via aberrant Anapc13 splicing 6 samples shares sf3b, splicing
GSE309158 FXR splicing by SF3B3 promotes MYC-driven hepatocarcinogenesis 6 samples shares sf3b, splicing
GSE243918 Argonaute3-SF3B3 complex controls pre-mRNA splicing to restrain Type-2 immunity 128 samples shares sf3b, splicing
GSE240383 Targeting IRE1α reprograms the tumor microenvironment and enhances anti-tumor immunity in prostate cancer 27 samples shares reprograms, anti-tumor
GSE240371 Targeting IRE1α reprograms the tumor microenvironment and enhances anti-tumor immunity in prostate cancer [RNA-Seq] 21 samples shares reprograms, anti-tumor
GSE292618 SIRT1-FOXO3 Pathway reprograms fatty acid metabolism to Mitigate Ferroptosis and Fibrosis 8 samples shares reprograms, fibrosis

Search all mouse RNA-seq datasets in GEO →

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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.