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| Status |
Public on Feb 23, 2018 |
| Title |
Pbppary5d1(PPARγ/+_5d_1) |
| Sample type |
SRA |
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| Source name |
C2C12
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| Organism |
Mus musculus |
| Characteristics |
cell line: C2C12
time point: 5 day
genotype: PPAR<gamma>/+
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent.TruSeq® RNA LT Sample Prep Kit v2 was used with total RNA for the construction of sequencing libraries.
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 |
Illumina HiSeq 3000 |
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| Description |
Pbppargy5d1
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| Data processing |
Illumina Hiseq3000 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using STAR software
Fragments Per Kilobase of exon per Megabase of library size (FPKM) were calculated. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include the expression values of this transcript for each Sample
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| Submission date |
May 30, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Kan He |
| E-mail(s) |
hekan@ahu.edu.cn
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| Organization name |
Anhui University
|
| Street address |
111 Jiulong Road
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| City |
Hefei |
| State/province |
Anhui |
| ZIP/Postal code |
230601 |
| Country |
China |
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| Platform ID |
GPL21493 |
| Series (1) |
| GSE99399 |
A transcriptomic study of myogenic differentiation under the overexpression of PPARγ by RNA-Seq |
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| Relations |
| BioSample |
SAMN07176070 |
| SRA |
SRX2867582 |
| 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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