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Sample GSM4196384 Query DataSets for GSM4196384
Status Public on Mar 06, 2020
Title OV_18h_3 [miRNA-seq]
Sample type SRA
 
Source name GSF cells infected by ORFV at 18h.p.i
Organism Capra hircus
Characteristics tissue source: skin
cell type: primary goat skin fibroblast (GSF) cells
treatment: GSF cells infected by ORFV at 18h.p.i
Extracted molecule total RNA
Extraction protocol Ambion mirVana miRNA Isolation Kit (Thermo Fisher Scientific)
TruSeq Small RNA Sample Prep Kits(Illumina, San Diego, USA)
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina HiSeq 2500
 
Data processing Single-end sequencing on Illumina HiSeq 2500
ACGT101-miR (LC Sciences, Houston, Texas, USA) to remove adapter dimers, junk, low complexity, common RNA families (rRNA, tRNA, snRNA, snoRNA) and repeats.
unique sequences with length in 18~26 nucleotide were mapped to specific species precursors in miRBase 21.0 by BLAST search to identify known miRNAs and novel 3p- and 5p- derived miRNAs.
Differential expression of miRNAs based on normalized deep-sequencing counts was analyzed by selectively using, Student t test . The significance threshold was set to be 0.01 and 0.05 in each test
Genome_build: GCF_001704415.1
 
Submission date Nov 29, 2019
Last update date Mar 06, 2020
Contact name Feng Pang
E-mail(s) 19871122asdf@163.com
Organization name Hainan University
Street address Renmin Road 58
City Haikou
ZIP/Postal code 570228
Country China
 
Platform ID GPL19149
Series (2)
GSE141162 Differentially expressed miRNAs in GSF cells infected by Orf virus at 18h.p.i (OV18h.p.i) and 30h.p.i (OV30h.p.i) compared with the mock-infected GSF cells [miRNA-seq]
GSE141164 Differentially expressed miRNAs and mRNAs in GSF cells infected by Orf virus at 18h.p.i (OV18h.p.i) and 30h.p.i (OV30h.p.i) compared with the mock-infected GSF cells
Relations
BioSample SAMN13427476
SRA SRX7241604

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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