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| Status |
Public on Oct 25, 2018 |
| Title |
OV-2 (small RNA seq) |
| Sample type |
SRA |
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| Source name |
ORFV infected GSF cells
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| Organism |
Capra hircus |
| Characteristics |
tissue: skin on the ear
cell passages: 16-20
cell type: Primary goat skin fibroblasts
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| Extracted molecule |
total RNA |
| Extraction protocol |
mirVana miRNA isolation kit
TruSeq Small RNA Sample Prep Kits(Illumina, San Diego, USA)
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| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2500 |
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| 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
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| Submission date |
Oct 24, 2018 |
| Last update date |
Oct 25, 2018 |
| Contact name |
Feng Pang |
| E-mail(s) |
19871122asdf@163.com
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| Organization name |
Hainan University
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| Street address |
Renmin Road 58
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| City |
Haikou |
| ZIP/Postal code |
570228 |
| Country |
China |
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| Platform ID |
GPL19149 |
| Series (1) |
| GSE121726 |
Alterations of miRNAs in Goat skin fibroblast cells (GSF cells) in response to Orf virus infection |
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| Relations |
| BioSample |
SAMN10286405 |
| SRA |
SRX4929144 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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