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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 26, 2012 |
| Title |
lactation-miRNA |
| Sample type |
SRA |
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| Source name |
bovine
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| Organism |
Bos taurus |
| Characteristics |
tissue: mammary gland
mammary gland stage: lactation
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| Extracted molecule |
total RNA |
| Extraction protocol |
Bovine mammary gland were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq Small RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina Genome Analyzer IIx |
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| Data processing |
Small RNA reads were processed using Illumina’s Genome Analyzer and ACGT101-miR program was then used to clean the sequencing data.
the sequencing data were filtered out the sequencing data to mRNA, RFam, Repbase, and then mapped to miRbase. The mapped data were then aligned to genome and EST, databases revealing genome locations or annotations.
The rests of unmapped data were mapped to genome and EST, and secondary structure were predicted using UNAFold software
IDEG 6 was used to identify significant differentially expressed miRNAs
Genome_build: BTA 4.0
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| Submission date |
Jun 28, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Zhen Li |
| E-mail(s) |
likeyi-01@163.com
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| Organization name |
College of Animal Science, Zhejiang University
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| Street address |
866 Yuhang Tang Road
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| City |
Hangzhou |
| ZIP/Postal code |
310058 |
| Country |
China |
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| Platform ID |
GPL15750 |
| Series (1) |
| GSE39000 |
Expression profiles of microRNAs from lactating and non-lactating bovine mammary glands and identification of miRNA related to lactation. |
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| Relations |
| SRA |
SRX157554 |
| BioSample |
SAMN01085415 |
| Supplementary data files not provided |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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