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Sample GSM2330145 Query DataSets for GSM2330145
Status Public on Oct 28, 2016
Title Control 1
Sample type SRA
 
Source name monocytes
Organism Mus musculus
Characteristics strain: C57BL/6
cells: bone marrow monocytes
agent: Control
genotype/variation: wild type
Treatment protocol Cultured monocytes were treated with or without 5 pg/ml LPS
Growth protocol Murine bone marrow monocytes were cultured in complete DMEM medium
Extracted molecule total RNA
Extraction protocol microRNAs were extracted with the miRNAeasy extraction kit following the manufacture's protocol.
Small RNA-seq libraries were prepared using Illumina TruSeq Small kit with standard Illumina protocol.
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina HiSeq 1000
 
Data processing Sequences were assayed to ensure high quality for all samples using a custom R script.
Reads were first trimmed for adaptor and quality using a combination of custom perl scripts and Btrim64
Trimmed fastq sequences were imported into mirAnalyzer for mapping with mouse genome build MM9, miRNA assembly, and quantitation.
Genome_build: mm9
Supplementary_files_format_and_content: txt files reporting mirAnalyzer quantitation results
 
Submission date Sep 27, 2016
Last update date May 15, 2019
Contact name Liwu Li
Organization name Virginia Tech
Street address 970 Washington Street
City Blacksburg
State/province VA
ZIP/Postal code 24061-0910
Country USA
 
Platform ID GPL15103
Series (1)
GSE87396 Re-programming of low-grade inflammatory monocytes
Relations
BioSample SAMN05829400
SRA SRX2193286

Supplementary file Size Download File type/resource
GSM2330145_complete_processed_mirRNA_data_set-control-1.txt.gz 1.5 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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