|
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 |