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| Status |
Public on Sep 01, 2020 |
| Title |
KO testis, repeat 2 |
| Sample type |
SRA |
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| Source name |
testis
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| Organism |
Mus musculus |
| Characteristics |
tissue: testis
strain: C57BL/6
genotype: Rlim-KO
batch: batch2
gender: male
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| Extracted molecule |
total RNA |
| Extraction protocol |
Library was constructed as described (Vallaster et al., 2016)
Library was constructed as described (Vallaster et al., 2016)
Library was constructed as described (Vallaster et al., 2016)
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
data were processed as described previously (Wang et al., 2016)
Illumina Casava1.7 software used for basecalling.
The paired reads were aligned to the mouse genome (ensemble GRCm38) using Hisat2 (version 2.1.0) with default parameters.
featureCounts was used to generate the gene count matrix
edgeR was use for differential expression analysis.
Genome_build: GRCm38
Supplementary_files_format_and_content: tab-delimited text files include CPM values calculated by edgeR with gene annotation
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| Submission date |
May 17, 2018 |
| Last update date |
Sep 01, 2020 |
| Contact name |
Julie Zhu |
| E-mail(s) |
julie.zhu@umassmed.edu
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| Phone |
5088565377
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| Organization name |
UMass Medical School
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| Department |
Molecular Cellular and Cancer Biology
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| Street address |
364 Plantation Street
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| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605 |
| Country |
USA |
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| Platform ID |
GPL19057 |
| Series (1) |
| GSE114593 |
Analysis of functions of Rlim during reproduction in male mice |
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| Relations |
| BioSample |
SAMN09221527 |
| SRA |
SRX4096008 |
| 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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