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| Status |
Public on Mar 15, 2016 |
| Title |
BMPR2 kinase domain mutant rep1 |
| Sample type |
SRA |
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| Source name |
H9c2
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| Organism |
Rattus norvegicus |
| Characteristics |
cell line: Hc92
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted from H9C2 cells with a Qiagen RNEasy kit
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 2500 |
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| Data processing |
quality trimming with Trimmomatic v0.33, resulting in read length of 25-51bp
alignment with STAR v 2.4.0, controlling for unannotated, non-canonical and rare junctions
read counting with HTSeq-Count v0.6.1p1, in the intersection nonempty mode, using same gtf as used in alignment step
Genome_build: Rnor_5.0
Supplementary_files_format_and_content: txt files, raw read counts output from HTSeq-Count
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| Submission date |
Feb 25, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
James West |
| E-mail(s) |
[email protected]
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| Organization name |
Vanderbilt University
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| Department |
Medicine
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| Lab |
Allergy, Pulmonary and Critical Care
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| Street address |
4200 E 9TH Ave, Box B133
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| City |
Nashville |
| State/province |
TN |
| ZIP/Postal code |
37201 |
| Country |
USA |
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| Platform ID |
GPL18694 |
| Series (1) |
| GSE78525 |
Effect of tail domain and kinase domain mutations in BMPR2 on gene expression in rat Hc92 cells studied by RNA-Seq |
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| Relations |
| BioSample |
SAMN04516917 |
| SRA |
SRX1601609 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2072296_3091-ARH-17.txt.gz |
103.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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