Data · dataset · 2023
Transcriptome profiling between Carassius auratus red var. and Autotetraploid Carassius auratus
Listed in ScienceDB
Three biological replicates were used for Carassius auratus red var. and Autotetraploid Carassius auratus (4nRR, 4n = 200, RRRR) skin transcriptome analysis, and they were sourced from the same individuals previously analyzed for carotenoid composition.
Description
The concentration and quality of extracted total skin RNA were judged by NanoDrop-2000 spectrophotometer and agarose (1.0%) gel electrophoresis. The cDNA was synthesized from the high-quality RNA of each biological replicate.
Six paired-end libraries (three for RCC and three for 4nRR) were constructed using a TruSeqTM RNA library prep kit (Illumina, San Diego, CA, USA). Subsequent steps involved end-repair, 3-end adenylation, adapter ligation, and enrichment. The clean data were assessed using the FastQC v0.11.9 software (bioinformatics.babraham.ac.uk/projects/fastqc/) and then aligned to the 4nRR reference sequence (unpublished) using the STAR software.
Read the rest (1 more)
The quantified and normalized transcription levels of genes were achieved by the Stringtie software and the Deseq2 R package (version 1.26.0). Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of differentially expressed genes (DEGs) were implemented using the clusterProfiler R package (version 3.14.0).
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.j00139.00097 ↗
DOI / persistent id · from scidb cn
Catalogue records · 1
- OAI-PMH record scidb.cn/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=10.57760%2… ↗
metadata API · from scidb cn
Topics
- From keywords
- Earth & Environmental Science · Engineering · Humanities · Life Sciences · Social Science
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.j00139.00097 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:engineering | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:humanities | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:social-science | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| description | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/description |
| license | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/rights |
| publication_date | source · scidb cn | connector:scidb_cn@1.0.0 | |
| title | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/title |