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Sample GSM5107452 Query DataSets for GSM5107452
Status Public on Feb 23, 2024
Title M337V-Rep2
Sample type SRA
Source name iPS Cell Line
Organism Homo sapiens
Characteristics genotype/variation: M337V TDP-43 mutation
Treatment protocol Cells were cultured in mTeSR1 media (STEMCELL Technologies) on matrigel-coated plates.
Extracted molecule total RNA
Extraction protocol RNA was isolated from TDP-43 (WT) and TDP-43(M337V) ALS iPSCs using RNeasy mini kit (qiagen) according to manufacturer's protocol
Library was prepared using Illumina TrueSeq kit
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description Patient derived induced pluripotent Cell Line with M337V TDP-43 mutation
TDP-43(M337V) mutant cell line
Data processing Images were analyzed using OLB 1.9 and CASAVA_v1.8.2
TopHat v2.0.9 (bowtie2/2.1.0) was used to map the sequences to human genome hg19
Reads counts were processed by DEXSeq v 1.10.6
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include exon level count values for each Sample
Submission date Feb 25, 2021
Last update date Feb 23, 2024
Contact name Ashish Misra
Organization name Indian Institute of Technology Hyderabad
Department Biotechnology
Street address Kandi
City Sangareddy
State/province Telangana
ZIP/Postal code 502285
Country India
Platform ID GPL11154
Series (1)
GSE167557 Transcriptome profiling (RNA-seq) to identify aberrant splicing events in induced pluripotent stem cells derived from an ALS patient harboring a TDP-43(M337V) mutation
BioSample SAMN18059077
SRA SRX10170768

Supplementary file Size Download File type/resource
GSM5107452_292-2.nodenovo.counts.txt.gz 2.2 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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