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| Status |
Public on Jul 15, 2024 |
| Title |
PARG29b_r2 |
| Sample type |
SRA |
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| Source name |
testis
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| Organism |
Mus musculus |
| Characteristics |
tissue: testis
genotype: PARP1ko
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the RNeasy kit according to the manufacturer’s protocol (Qiagen).
RNA library and 150 bp paired-end sequencing were conducted by Novogene Corporation.
NEB’s Ultra II RNA library kit
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Illumina FQ sequencing files were imported into CLC Genomics Workbench version 12.0.
The reads were trimmed to remove adapters then the trimmed reads were mapped to the Mouse genome using CLC’s default parameters (mismatch cost = 2, insertion cost = 3, deletion cost = 3, length fraction = 0.8, similarity fraction = 0.8, auto-detect paired distanc-es, maximum number of hits per read = 10).
Assembly: GRCm38 - mm10
Supplementary files format and content: PARP1ko_testis_gene_counts.xlsx
Supplementary files format and content: Expression value, TPM, RPKM, reads number
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| Submission date |
Nov 21, 2023 |
| Last update date |
Jul 22, 2024 |
| Contact name |
Yaroslava Karpova |
| E-mail(s) |
karpova.ivf@gmail.com, iaroslava.karpova@und.edu
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| Organization name |
University of North Dakota
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| Department |
Biomedical Sciences
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| Street address |
501 Columbia Road
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| City |
Grand Forks |
| State/province |
ND |
| ZIP/Postal code |
58203 |
| Country |
USA |
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| Platform ID |
GPL24247 |
| Series (1) |
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| Relations |
| BioSample |
SAMN38352867 |
| SRA |
SRX22601982 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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