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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Apr 04, 2024 |
| Title |
Mouse, kidney, E1WT, rep3 |
| Sample type |
SRA |
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| Source name |
Kidney
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| Organism |
Mus musculus |
| Characteristics |
tissue: Kidney
genotype: Klotho E1 WT
Sex: male
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from whole mouse kidneys using PureLinkâ„¢ RNA Mini Kit (Invitrogen).
Libraries for sequencing were prepared according to the manufacturer’s instructions with TruSeq Stranded Total RNA Library Prep Kit with Ribo-Zero Gold (Illumina, RS-122-2301).Libraries were sequenced using Illumina HiSeq 3000 using standard protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
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| Data processing |
first, samples were processed with trimmomatic (Bolger et al., Bioinformatics, 2014) in order to filter low quality reads
subsequently, samples were aligned to the reference genome mm10 applying STAR RNA-seq aligner (Dobin et al., Bioinformatics, 2013).
Finally, HTSeq (Anders et al., Bioinformatics, 2015) was applied for obtain HTSeq counts.
Assembly: mm10
Supplementary files format and content: .tabular files with raw read counts
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| Submission date |
Sep 25, 2023 |
| Last update date |
Apr 04, 2024 |
| Contact name |
Jakub Jankowski |
| E-mail(s) |
jakub.jankowski@nih.gov
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| Organization name |
NIH
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| Department |
NIDDK
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| Lab |
LCMB
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| Street address |
8 Center DR.
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| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platform ID |
GPL21493 |
| Series (2) |
| GSE243945 |
Deletion of Klotho enhancer deepens sexual dimorphism of gene expression without impacting female resistance to kidney injury [RNA exp1] |
| GSE243946 |
Deletion of Klotho enhancer deepens sexual dimorphism of gene expression without impacting female resistance to kidney injury |
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| Relations |
| BioSample |
SAMN37528810 |
| SRA |
SRX21874703 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7798790_counts_E1WT_rep3.tabular.txt.gz |
134.8 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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