|
| Status |
Public on Mar 18, 2015 |
| Title |
NG-6435_A26268_L2_lib18503_1362_3_1.fastq.bz2 Biological replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
Granulosa cells from dominant follices (DF) collected at day 3 oestrous cycle
|
| Organism |
Bos taurus |
| Characteristics |
cell type: Granulosa cells from dominant follices collected at day 3 oestrous cycle
|
| Extracted molecule |
total RNA |
| Extraction protocol |
MiRNA enriched total RNA was extracted using miRNeasy Mini Kit (Qiagen GmbH, Hilden, Germany
MiRNA library preparation and sequencing of the samples was performed by GATC BioTech AG (Konstanc, Germany) using the Illumina® TruSeq™ Small RNA sample preparation protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Biological replicate 2
|
| Data processing |
Base calling, data filtering and index sorting was performed by the CASAVA Pipeline version 1.8.0
The basic statistics including the sequence quality, quality score, sequence content and GC content were analysed using FASTQC programm
Adapters and PCR primers were trimmed using cutadapt software
Mapper.pl script of miRDeep 2 was used to allign the read sequence to the bovine reference genome
Detection and quantification of miRNAs were perfomed using miRDeep software
Genome_build: Bos_taurus_UMD_3.1
Supplementary_files_format_and_content: miRNAs with their read counts
|
| |
|
| Submission date |
Mar 18, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Dessie Salilew-Wondim |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Bonn
|
| Department |
Animal breeding and husbandry group
|
| Street address |
Endenicher Allee 15
|
| City |
Bonn |
| State/province |
NRW |
| ZIP/Postal code |
D-53115 |
| Country |
Germany |
| |
|
| Platform ID |
GPL15749 |
| Series (1) |
| GSE55987 |
The expression pattern of microRNAs in granulosa cells of subordinate and dominant follicles during the early luteal phase of bovine estrous cycle |
|
| Relations |
| BioSample |
SAMN02690822 |
| SRA |
SRX494571 |
