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Sample GSM5024068 Query DataSets for GSM5024068
Status Public on Feb 24, 2021
Title ATP8 Dead - Rep 2 [X-2]
Sample type SRA
 
Source name ATP8 Dead
Organism Homo sapiens
Characteristics cell line/type: ARPE-19
treatment: Transfected - WT mtDNA
source molecule: total cellular RNA
Treatment protocol Transfection of plasmid DNA with Lipofectamine 3000 (Thermo Fischer Scientific)
Extracted molecule polyA RNA
Extraction protocol RNAeasy Mini Kit, Qiagen
NEBNext Ultra RNA Library Prep kit, New England Biolabs
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description processed data file:
DEADvsNT.xlsx
ATP8vsDEAD.xlsx
DLOOPvsDEAD.xlsx
ARPE19_mtDSB_normalizedCounts.txt
ARPE19_mtDSB_rawCounts.txt
Data processing Read quality check, FASTQC
Alignment to reference genome, STAR
Transcript quantification, HTSeq
Normalization and DE Analysis, DeSeq2
Genome_build: hg19
Supplementary_files_format_and_content: Differentially Expressed genes from DeSeq2, Excel Format. Raw reads count, normalized counts.
 
Submission date Jan 17, 2021
Last update date Feb 24, 2021
Contact name Marco Tigano
E-mail(s) marco.tigano@med.nyu.edu
Organization name NYU Grossman School of Medicine
Street address 540 First Avenue
City New York City
ZIP/Postal code 10016
Country USA
 
Platform ID GPL11154
Series (1)
GSE164979 Gene expression profile of human ARPE-19 cells subjected to mitochondrial DNA double stranded breaks through expression of mitochondrial TALENs
Relations
BioSample SAMN17367725
SRA SRX9863240

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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