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| Status |
Public on Jul 15, 2021 |
| Title |
Kidney IRLac rep4 |
| Sample type |
SRA |
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| Source name |
Kidney
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Kidney
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| Extracted molecule |
total RNA |
| Extraction protocol |
Kidneys were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Agilent 2100 Bioanalyzer was used.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Data processing |
cDNA quantity and labeling efficiency was checked using Agilent 2100 Bioanalyzer and ABI StepOne Plus Real-Time PCR System, and sequenced using the Illumina HiSeq platform
The filter software soapnuke (v1.5.2) was used for filtering raw reads, and the RNA seq reads gene comparison was carried out by HISAT (hierarchical indexing for shared alignment of scripts) software (v2.0.4).
Stringtie (v1.0.4) was used to reconstruct the transcripts of each sample, then cuffmerge was used to integrate the reconstruction information of all samples, and then cuffcompare was used to compare the integrated transcripts with the reference annotation information to define the new transcripts.
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
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| Submission date |
Jun 03, 2021 |
| Last update date |
Jul 15, 2021 |
| Contact name |
汉 朱 |
| E-mail(s) |
zhuhan19901007@126.com
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| Organization name |
肾
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| Street address |
1095 解放大道， 武汉 430030， 中国
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| City |
武汉 |
| State/province |
湖北 |
| ZIP/Postal code |
435000 |
| Country |
China |
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| Platform ID |
GPL21273 |
| Series (2) |
| GSE176096 |
The Probiotic L. casei Zhang Slows the Progression of Acute and Chronic Kidney Disease (RNA-Seq) |
| GSE176098 |
The Probiotic L. casei Zhang Slows the Progression of Acute and Chronic Kidney Disease |
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| Relations |
| BioSample |
SAMN19549449 |
| SRA |
SRX11053938 |
| 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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