NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
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
E-mail(s) ashishmisra@bt.iith.ac.in
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
Relations
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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap