Effect of WDR34 and WDR60 loss of function on the transcriptome in IMCD3 cells
RNA-seq (gene expression) · mouse · 52 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
- 52 samples: 13 conditions, mostly with about 4 replicates eachGroups 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
- Base editing-derived models of human WDR34 and WDR60 disease alleles replicate retrograde intraflagellar transport (IFT) and hedgehog signaling defectsCommunications biology · 2026
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 GSE208712_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 PRJNA860650 and SRA study SRP387341. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 52 samples.
How we read this: 13 replicated groups read from 52 sample titles; they account for 52 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.
- GSM6364840 BE_W34_R1 BE_W34
- GSM6364841 BE_W34_R2 BE_W34
- GSM6364842 BE_W34_R3 BE_W34
- GSM6364843 BE_W34_R4 BE_W34
- GSM6364844 BE_W60_R1 BE_W60
- GSM6364845 BE_W60_R2 BE_W60
- GSM6364846 BE_W60_R3 BE_W60
- GSM6364847 BE_W60_R4 BE_W60
- GSM6364848 AB_Co_R1 AB_Co
- GSM6364849 AB_Co_R2 AB_Co
- GSM6364850 AB_Co_R3 AB_Co
- GSM6364851 AB_Co_R4 AB_Co
- GSM6364852 BE_Co1_R1 BE_Co1
- GSM6364853 BE_Co1_R2 BE_Co1
- GSM6364854 BE_Co1_R3 BE_Co1
- GSM6364855 BE_Co1_R4 BE_Co1
- GSM6364856 BE_Co2_R1 BE_Co2
- GSM6364857 BE_Co2_R2 BE_Co2
- GSM6364858 BE_Co2_R3 BE_Co2
- GSM6364859 BE_Co2_R4 BE_Co2
- GSM6364860 BE_Co3_R1 BE_Co3
- GSM6364861 BE_Co3_R2 BE_Co3
- GSM6364862 BE_Co3_R3 BE_Co3
- GSM6364863 BE_Co3_R4 BE_Co3
- GSM6364864 WDR341_1 WDR341
- GSM6364865 WDR341_2 WDR341
- GSM6364866 WDR341_3 WDR341
- GSM6364867 WDR341_4 WDR341
- GSM6364868 WDR343_1 WDR343
- GSM6364869 WDR343_2 WDR343
- GSM6364870 WDR343_3 WDR343
- GSM6364871 WDR343_4 WDR343
- GSM6364872 WDR60_1 WDR60
- GSM6364873 WDR60_2 WDR60
- GSM6364874 WDR60_3 WDR60
- GSM6364875 WDR60_4 WDR60
- GSM6364876 conD8_1 conD8
- GSM6364877 conD8_2 conD8
- GSM6364878 conD8_3 conD8
- GSM6364879 conD8_4 conD8
+ 12 more — browse all 52 samples with per-sample file links →
- GSE280783 Effects of loss and gain of KAT6B on gene expression in neural stem and progenitor cells [NSC_Kat6b_RNAseq] 15 samples shares loss
- GSE254999 Loss of Inpp5d has disease-relevant and sex-specific effects on glial transcriptomes 12 samples shares loss
- GSE278003 Single cell RNA sequencing of CD45+ immune cells from tumor and tumor-adjacent mammary adipose tissue in a postmenopausal breast cancer model of lean, obese, and weight loss Trem2+/+ and Trem2-/- mice 92 samples shares loss
- GSE273271 Cell type-specific dysregulation of gene expression due to Chd8 loss of function during mouse cortical development [scRNA-seq] 32 samples shares loss
- GSE292517 AMPK signaling is dysregulated in human tendinopathy and loss of AMPKα1 leads to cell, matrix and mechanical dysfunction in mouse Achilles tendon [RNAseq_AMPK_WheelRunning] 25 samples shares loss
- GSE292614 Loss of PTDSS1 in tumor cells improves immunogenicity and response to anti-PD-1 therapy [scRNAseq] 24 samples shares loss
- GSE292357 AMPK signaling is dysregulated in human tendinopathy and loss of AMPKα1 leads to cell, matrix and mechanical dysfunction in mouse Achilles tendon 24 samples shares loss
- GSE266539 Wars1 loss-of-function in the liver identifies a unique cytosol-to-mitochondria stress response. 24 samples shares loss
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.