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Sample GSM4210699 Query DataSets for GSM4210699
Status Public on May 31, 2020
Title NEXTflex RA 1
Sample type SRA
Source name Lymphocytes
Organism Homo sapiens
Characteristics library prep kit: NEXTflex
mix type/state: Disease state: rheumatoid arthritis
replicate: 1
Extracted molecule total RNA
Extraction protocol Synthetic miRNA samples: no RNA extraction needed, human samples: RNA/DNA/Protein Purification Kit (Norgen Biotek Corp)
NEBNext, NEXTflex
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina HiSeq 2500
Description total RNA
Data processing Primary base calling and quality scoring was performed using RTA v1.18.66.4 (Illumina)
demultiplexing and processing with Bcl2fastq v2.18.0.12 (Illumina)
3' adapter were trimmed using cutadapt v1.15 with parameter -m 10
Remaining reads were mapped to the synthetic miRNA reference or customized miRNA reference based on miRBase v21 using Bowtie v1.1.2 with parameter -a and --norc, no mismatches allowed
Reads were counted a custom python script
Genome_build: synthetic miRNA reference and customized miRNA reference based on miRBase v21
Submission date Dec 09, 2019
Last update date May 31, 2020
Contact name Fatima Heinicke
Organization name Oslo University Hospital
Department Department of Medical Genetics
Street address Kirkeveien 166
City Oslo
ZIP/Postal code 0450
Country Norway
Platform ID GPL16791
Series (1)
GSE141658 An extension to: Systematic assessment of commercially available low-input miRNA library preparation kits
BioSample SAMN13512570
SRA SRX7290805

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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