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Sample GSM1954529 Query DataSets for GSM1954529
Status Public on Jun 28, 2016
Title GTPP sample 3
Sample type SRA
 
Source name HeLa cells
Organism Homo sapiens
Characteristics cell line: HeLa
Extracted molecule total RNA
Extraction protocol NucleoSpin miRNA (Macherey-Nagel)
ribosomal depletion with RiboZero, directional RNA-seq library preparation, and 12 cycle amplification using LongAmp (New England BioLabs) and indexed primers (Integrated DNA Technologies)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Processing with the RNA-seq pipeline in http://bcbio-nextgen.readthedocs.org/en/latest/
FastQC
cutadapt
alignment with STAR
FastQC/RNA-SeQC
featureCounts
Genome_build: hg19
Supplementary_files_format_and_content: BedGraph files containing coverage data across the mitochondrial genome.
 
Submission date Nov 25, 2015
Last update date May 15, 2019
Contact name Christian Munch
E-mail(s) christian_munch@hms.harvard.edu
Organization name Harvard Medical School
Department Cell Biology
Street address 240 Longwood Avenue
City Boston
ZIP/Postal code 02115
Country USA
 
Platform ID GPL11154
Series (2)
GSE75410 Mitochondrial unfolded protein response controls matrix pre-RNA processing and translation
GSE75411 Mitochondrial unfolded protein response controls matrix pre-RNA processing and translation
Relations
BioSample SAMN04296148
SRA SRX1452338

Supplementary file Size Download File type/resource
GSM1954529_T3.chrM.bedGraph.gz 79.9 Kb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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