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Optimized reporters for multiplexed detection of transcription factor activity

GSE267969 Homo sapiens; Mus musculus Expression profiling by high throughput sequencing 14 samples Submitted 2024/05/26 Platform GPL24676Platform GPL24247
Summary
A library of 35,500 reporters was designed for 86 TFs in order to identify optimized TF reporters. The library was transfected into diverse cell types and probed upon almost 100 TF perturbations. To compare TF activities with TF abundances, RNA-seq data was used. For mNPCs, mESCs and HepG2 cells, RNA-seq data was generated in house. For thee TF knockdowns in HepG2 cells, RNA-seq data was generated to validate the experimental design.
Published in
Optimized reporters for multiplexed detection of transcription factor activity
Trauernicht M, Filipovska T, Rastogi C et al. · bioRxiv : the preprint server for biology 2024 · PMID 39091757 · doi:10.1101/2024.07.26.605239
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Direct links to NCBI, no account and no request form: the whole study as GSE267969_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 14 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA1112759 and SRA study SRP508325. Searching any of these in the dataset finder brings you back here.

Study design
6 conditions, mostly in duplicate
mES-E14TG2a, ×3 HepG2, ×3 mNPCs derived from mES-E14TG2a, ×2 HepG2 MTF1 KD, ×2 HepG2 NRF1 KD, ×2 HepG2 HNF1A KD, ×2

Supports a between-group comparison across 14 samples.

6 replicated groups read from 14 sample titles; they account for 14 of them. Check it against the sample list below before relying on it.

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