Data · dataset · 2023
RNA sequencing data from patients with heart disease and controls
Listed in Researchdata.se
RNA sequencing analysis of atrial cardiac tissue from patients undergoing coronary artery bypass grafting (CABG) or aortic valve replacement (AVR) was performed and compared with atrial cardiac tissue from organ donors and purchased human atrial cardiac RNA.
Description
RNA sequencing analysis was performed at the Genomics Core Facility at University of Gothenburg, Sweden. All samples (ten controls, ten CABG patients and ten AVR patients) were quality checked by the RNA integrity number (RIN) using Tapestation 2200 RNA screenTape (Agilent Technologies, Santa Clara, CA) and RNA concentration was measured by NanoDrop (Thermo Fisher, Waltham, MA).
RIN values ranged between 6.6 and 9.0 for all samples. TruSeq Total Stranded RNA kit with RiboZero (Gold) Sample Preparation Guide (15,031,048 Rev. E) was used for RNA sample preparation (Illumina, San Diego, CA).
Read the rest (2 more)
A total of 10 μl (~1 μg) RNA from each sample was used for library preparation. Directly after depletion, a cleanup step was performed using 110 ul of the RNAClean XP beads (Beckman Coulter, USA) for each sample. The fragmentation step was performed for 8 min. 12 PCR cycles were run for all samples.
Libraries were quantified and normalized with Qubit DNA HS Assay kit (Life Technologies, Carlsbad, CA) and fragment size determined by Tapestation 2200 (Agilent Technologies, Santa Clara, CA). The libraries were pooled together by using the Illumina protocol for pooling and sequenced with NovaSeq 6000 S1 (Illumina, San Diego, CA) for the read length of 2 × 100 bp.
Links
Where it is published
- DOI doi.org/10.5878/e48r-gn02 ↗
DOI / persistent id · from researchdata se
Catalogue records · 1
- OAI-PMH record api.researchdata.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from researchdata se
Topics
- From keywords
- Earth & Environmental Science · Life Sciences · Medicine & Health
- Inferred from text
- Cardiovascular disease 65% · Disease 75% · Heart 75% · RNA sequencing 75% · Sequencing 75%
Provenance · 1 source records, 14 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Researchdata.se | oai:researchdata.se:2023-80-1/1 | 13 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[anatomy].local:anatomy:heart | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[disease].local:disease:cardiovascular-disease | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[disease].local:disease:disease | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].local:field:earth-environmental | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[modality].local:modality:rna-seq | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:sequencing | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/description |
| license_text | source · researchdata se | connector:researchdata_se@1.0.0 | |
| publication_date | source · researchdata se | connector:researchdata_se@1.0.0 | |
| spatial | source · researchdata se | connector:researchdata_se@1.0.0 | |
| title | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/title |