A Dataset of NSC34 Motor Neuron Coding and Non-coding Transcriptome Following TDP-43 Knockdown and Mutant TDP-43 M337V Expression

Mutations in the Transactive Response DNA-binding Protein 43 (TDP-43) and its loss of function in the nucleus are linked to several neurodegenerative diseases, including ALS, FTLD, and AD. TDP-43 is essential for RNA processing; therefore, TDP-43 proteinopathy can disrupt the cellular transcriptome. To investigate this, we used RNA interference to knock down TDP-43, and overexpressed the ALS-associated TDP-43 M337V mutation in mouse motor neurons cell line NSC34.RNA-seq (Illumina, total transcriptome, single end reads, 150bp, 8 replicates per sample) was conducted on all the samples: TDP-43 Knock-Down (KD), Control (NS), Overexpression of mutated TDP-43 (MVT), and Over-expression of wildtype TDP-43 (WTT). The gene expression results (raw counts, and TPMs) are presented in this repository, merged for all samples in the same flat text file.Raw reads and protocol details can be found in ArrayExpress with Accession: E-MTAB-13738Study type: Bulk RNA-seq of coding RNAOrganism: Mus musculusNote: This dataset is a companion of the figshare dataset: https://doi.org/10.6084/m9.figshare.29256263Raw data citation:Ismail Gbadamosi, Sandra Binias, Bartłomiej Gielniewski, Ramiro Magno, Isabel Duarte and Ali Jawaid. "Comprehensive Transcriptomic Analysis of NSC34 Motor Neurons following TDP43 Modulation: Knockdown vs. Control and Wild Type vs. TDP43 M337V Mutation." BioStudies, E-MTAB-13738, 2025, https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-13738.