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

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.<b>Raw reads and protocol details can be found in ArrayExpress with Accession:</b> E-MTAB-13738<br><b>Study type:</b> Bulk RNA-seq of coding RNA<br><b>Organism:</b> Mus musculus<br><b>Note:</b> This dataset is a companion of the figshare dataset: https://doi.org/10.6084/m9.figshare.29256263<b>Raw data citation:</b><br>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." <i>BioStudies</i>, E-MTAB-13738, 2025, https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-13738.<br>

反式激活应答DNA结合蛋白43（Transactive Response DNA-binding Protein 43, TDP-43）的突变及其在细胞核内的功能丧失与多种神经退行性疾病相关，包括肌萎缩侧索硬化症（Amyotrophic Lateral Sclerosis, ALS）、额颞叶变性（Frontotemporal Lobar Degeneration, FTLD）及阿尔茨海默病（Alzheimer's Disease, AD）。TDP-43是RNA加工过程的关键调控因子，因此TDP-43蛋白病可破坏细胞转录组。
为探究该机制，本研究利用RNA干扰（RNA interference, RNAi）敲低TDP-43，并在小鼠运动神经元细胞系NSC34中过表达与ALS相关的TDP-43 M337V突变体。所有样本均开展了RNA测序（RNA-seq），测序平台为Illumina，检测覆盖全转录组，采用单端读长模式，读长为150bp，每个样本设置8个生物学重复。样本分组如下：TDP-43敲低组（KD）、对照组（NS）、突变型TDP-43过表达组（MVT）以及野生型TDP-43过表达组（WTT）。
本数据集仓库中提供了所有样本的基因表达结果（原始计数raw counts与转录本每百万reads计数Transcripts Per Million, TPMs），所有结果合并为单个纯文本文件。**原始测序读段及实验方案详情可在ArrayExpress数据库中获取，登录号为E-MTAB-13738**。**研究类型**：编码RNA的批量RNA测序（Bulk RNA-seq）。**实验生物**：小家鼠（Mus musculus）。**备注**：本数据集为figshare数据集https://doi.org/10.6084/m9.figshare.29256263的配套数据集。**原始数据引用**：Ismail Gbadamosi、Sandra Binias、Bartłomiej Gielniewski、Ramiro Magno、Isabel Duarte与Ali Jawaid。《NSC34运动神经元经TDP-43调控后的全面转录组分析：敲低组与对照组对比、野生型与TDP-43 M337V突变型对比》，刊载于《BioStudies》，登录号E-MTAB-13738，2025年，链接：https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-13738。

搜集汇总

背景与挑战

背景概述

该数据集提供了小鼠运动神经元细胞系NSC34在TDP-43敲除和突变表达条件下的RNA-seq转录组数据，包括原始计数和TPM值，用于研究TDP-43蛋白异常与神经退行性疾病（如ALS）的关联。数据涵盖多个实验组（敲除、对照、突变和野生型过表达），并附有原始数据访问号和引用信息，发布于2024年，属于神经病学研究领域。