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| Status |
Public on Sep 11, 2018 |
| Title |
CT_RV_1_S1 |
| Sample type |
SRA |
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| Source name |
Right Ventricle_vehicle
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| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague Dawley
tissue: Right Ventricle
treatment: Vehicle
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| Extracted molecule |
total RNA |
| Extraction protocol |
Right ventricles were dissected free from the LV and vasculature and ground with a mortar and pestle in liquid nitrogen. total RNA was extracted in TrIzol using Zymo DirectZol columns (Zymotech Inc., Austin, TX, USA). Libraries were generated using an Illumina RiboGold ribodepletion and Truseq stranded LT library generation kit (Illumina Inc., San Diego, CA, USA), and sequenced using the Illumina NextSeq550 Sequencer (Illumina).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
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| Description |
ct_rv
CT_RV_1_S1
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| Data processing |
Bcl2Fastq
Fastqc - to perfom quality control
Cutadapt - to remove adapter sequences and trim low quality reads
HISAT2 to align reads
StringTie to assemble reads
Genome_build: Rn6
Supplementary_files_format_and_content: condition_res_ct_rv-mct_rv.csv: Differentially regulated genes file
Supplementary_files_format_and_content: all_counts.csv: All counts file
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| Submission date |
Sep 10, 2018 |
| Last update date |
Sep 11, 2018 |
| Contact name |
Stephen Archer |
| E-mail(s) |
[email protected]
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| Organization name |
Queen's University
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| Department |
Medicine
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| Street address |
94 Stuart Street
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| City |
Kingston |
| State/province |
Ontario |
| ZIP/Postal code |
K7L3N6 |
| Country |
Canada |
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| Platform ID |
GPL25029 |
| Series (1) |
| GSE119754 |
Transcriptomic Signature of Right Ventricular Failure in Experimental Pulmonary Arterial Hypertension: Deep Sequencing Demonstrates Mitochondrial, Fibrotic, Inflammatory and Angiogenic Abnormalities |
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| Relations |
| BioSample |
SAMN10026832 |
| SRA |
SRX4666687 |
| 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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