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| Status |
Public on Jul 17, 2024 |
| Title |
TAF7L Knockout 2 |
| Sample type |
SRA |
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| Source name |
Testis
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| Organism |
Rattus norvegicus |
| Characteristics |
strain: Holtzman Sprague-Dawley
age: Post natal day 60
genotype: TAF7L Null
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Testes were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent according to the manufacturer's recommendations.
Libraries were prepared from poly-A containing RNAs according to protocols provided by the TruSeq RNA sample preparation kits (Illumina).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
Testis from TAF7L Knockout rat at postnatal day 60
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| Data processing |
Following generation of sequencing images, the pixel-level raw darta collection, image analysis, and base-calling were performed by Real Time Analysis software (Illumina)
Base call files were converted to qseq files by BCL converter (Illumina), and qseq files were converted to fastq files for downstream analysis.
Reads from fastq files were mapped to the rat reference genome (Rnor_5.0.7) using CLC Bio Genomics Workbench 7.0 (CLC Bio, Aarhus, Denmark)
Assembly: Rnor5
Supplementary files format and content: excel file containing reads per kilobase per million reads (RPKM).
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| Submission date |
Aug 29, 2023 |
| Last update date |
Jul 17, 2024 |
| Contact name |
Ayelen Moreno-Irusta |
| E-mail(s) |
amoreno2@kumc.edu
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| Organization name |
University of Kansas Medical Center
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| Street address |
3901 Rainbow Blvd., 3050
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| City |
Kansas City |
| State/province |
Kansas |
| ZIP/Postal code |
66160 |
| Country |
USA |
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| Platform ID |
GPL25947 |
| Series (1) |
| GSE241840 |
TAF7L REGULATES EARLY STAGES OF MALE GERM CELL DEVELOPMENT |
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| Relations |
| BioSample |
SAMN37184313 |
| SRA |
SRX21501711 |
| 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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