Summary
Name
Ginkgo biloba - Transcriptome Assembly
Resource Type
Transcriptome Assembly
Organism
Data Source
Date Performed
Monday, September 30, 2019 - 15:48
Program, Pipeline, Workflow or Method Name
De novo assembly
Program Version
2.4 (G.biloba)
Publication
Wang, Li & Lu, Zhaogeng & Li, Weixing & Xu, Jing & Luo, Kaige & Lu, Weichao & Zhang, Li & Jin, Biao. (2016). Global comparative analysis of expressed genes in ovules and leaves of Ginkgo biloba L.. Tree Genetics & Genomes. 12. 10.1007/s11295-016-0989-8.
Description and Download
Description: 
Ginkgo biloba's transcriptome was assembled from 2 biosamples located on NCBI using bioproject PRJNA271136. FastQC was used to determine overall read quality, detect Illumina primer sequences, and identify any regions that look incorrect. Trimmomatic was then used to remove any Illumina primer sequences, after which RCorrector was used to remove any minor errors that Illumina may have caused. After all the files are cleaned, Trinity was used to assemble the transcriptome, Skewer and STAR were used for refinement and alignment of the transcriptome.

Downloads:

Cds (fasta format)
Peptides (fasta format)
gff3 file
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