GEO series

RNA-SEQ of HRECs depleted with Norrin/beta-catenin signaling components or KIF11 or PRDX1

GSE306946 Homo sapiens (human) RNA-seq (gene expression) 27 samples Submitted 2026/02/13 Platform GPL34284Platform GPL24676

At a glance

RNA-seq (gene expression) · human · 27 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: 27 samples: 9 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: KIF11 prevents retinal endothelial ferroptosis in familial exudative vitreoretinopathy by inhibiting phosphorylation-driven PRDX1 phase separationNature communications · 2026

Summary (written by the submitters)

We performed RNA-Seq on human microvascular endothelial cells (HRECs) with lentivirus-mediated knockdown of CTNNB1, LRP5, FZD4, TSPAN12, KIF11, and PRDX1. This dataset includes the gene expression profiles that reveal the specific gene expression changes that occur in HRECs following the knockdown of these key genes implicated in FEVR.

Published in

KIF11 prevents retinal endothelial ferroptosis in familial exudative vitreoretinopathy by inhibiting phosphorylation-driven PRDX1 phase separation

Yang M, Zhao R, Peng L et al. · Nature communications 2026 · PMID 41872221 · doi:10.1038/s41467-026-71009-7

This dataset

Open GSE306946 in finder → Find more human 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 GSE306946_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 PRJNA1297355 and SRA study SRP604110. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41872221) ↗

Study design

9 conditions, mostly in triplicate

RNA-Seq of HRECs transduced with a non-target… ×3 RNA-Seq of HRECs transduced with a CTNNB1-tar… ×3 RNA-Seq of HRECs transduced with a FZD4-targe… ×3 RNA-Seq of HRECs transduced with a TSPAN12-ta… ×3 RNA-Seq of HRECs transduced with a LRP5-targe… ×3 RNA-Seq of HRECs transduced with a KIF11-targ… ×3 RNA-Seq of HRECs transduced with a non-target… ×3 RNA-Seq of HRECs transduced with a PRDX1-targ… ×3 +1 more

Supports a between-group comparison across 27 samples.

How we read this: 9 replicated groups read from 27 sample titles; they account for 27 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

GSM9212871 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for beta-catenin siganling group)-replication 1 RNA-Seq of HRECs transd…
GSM9212872 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for beta-catenin siganling group)-replication 2 RNA-Seq of HRECs transd…
GSM9212873 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for beta-catenin siganling group)-replication 3 RNA-Seq of HRECs transd…
GSM9212874 RNA-Seq of HRECs transduced with a CTNNB1-targeting shRNA lentivirus-replication 1 RNA-Seq of HRECs transd…
GSM9212875 RNA-Seq of HRECs transduced with a CTNNB1-targeting shRNA lentivirus-replication 2 RNA-Seq of HRECs transd…
GSM9212876 RNA-Seq of HRECs transduced with a CTNNB1-targeting shRNA lentivirus-replication 3 RNA-Seq of HRECs transd…
GSM9212877 RNA-Seq of HRECs transduced with a FZD4-targeting shRNA lentivirus-replication 1 RNA-Seq of HRECs transd…
GSM9212878 RNA-Seq of HRECs transduced with a FZD4-targeting shRNA lentivirus-replication 2 RNA-Seq of HRECs transd…
GSM9212879 RNA-Seq of HRECs transduced with a FZD4-targeting shRNA lentivirus-replication 3 RNA-Seq of HRECs transd…
GSM9212880 RNA-Seq of HRECs transduced with a TSPAN12-targeting shRNA lentivirus-replication 1 RNA-Seq of HRECs transd…
GSM9212881 RNA-Seq of HRECs transduced with a TSPAN12-targeting shRNA lentivirus-replication 2 RNA-Seq of HRECs transd…
GSM9212882 RNA-Seq of HRECs transduced with a TSPAN12-targeting shRNA lentivirus-replication 3 RNA-Seq of HRECs transd…
GSM9212883 RNA-Seq of HRECs transduced with a LRP5-targeting shRNA lentivirus-replication 1 RNA-Seq of HRECs transd…
GSM9212884 RNA-Seq of HRECs transduced with a LRP5-targeting shRNA lentivirus-replication 2 RNA-Seq of HRECs transd…
GSM9212885 RNA-Seq of HRECs transduced with a LRP5-targeting shRNA lentivirus-replication 3 RNA-Seq of HRECs transd…
GSM9212886 RNA-Seq of HRECs transduced with a KIF11-targeting shRNA lentivirus-replication 1 RNA-Seq of HRECs transd…
GSM9212887 RNA-Seq of HRECs transduced with a KIF11-targeting shRNA lentivirus-replication 2 RNA-Seq of HRECs transd…
GSM9212888 RNA-Seq of HRECs transduced with a KIF11-targeting shRNA lentivirus-replication 3 RNA-Seq of HRECs transd…
GSM9212889 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for KIF11)-replication 1 RNA-Seq of HRECs transd…
GSM9212890 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for KIF11)-replication 2 RNA-Seq of HRECs transd…
GSM9212891 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for KIF11)-replication 3 RNA-Seq of HRECs transd…
GSM9212892 RNA-Seq of HRECs transduced with a PRDX1-targeting shRNA lentivirus-replication 1 RNA-Seq of HRECs transd…
GSM9212893 RNA-Seq of HRECs transduced with a PRDX1-targeting shRNA lentivirus-replication 2 RNA-Seq of HRECs transd…
GSM9212894 RNA-Seq of HRECs transduced with a PRDX1-targeting shRNA lentivirus-replication 3 RNA-Seq of HRECs transd…
GSM9212895 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for PRDX1)-replication 1 RNA-Seq of HRECs transd…
GSM9212896 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for PRDX1)-replication 2 RNA-Seq of HRECs transd…
GSM9212897 RNA-Seq of HRECs transduced with a non-targeting control lentivirus (for PRDX1)-replication 3 RNA-Seq of HRECs transd…

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