Trinity contigs of dwarf embryo (264,349)
BRANCH contigs of dwarf embryo (20,847)
Trinity contigs of dwarf endosperm (185,242)
BRANCH contigs of dwarf endosperm (29,122)
Trinity contigs of dwarf leaf (88,707)
BRANCH contigs of dwarf leaf (27,625)
Trinity contigs of tall (89,133)
BRANCH contigs of tall (23,283)
Coconut contigs Trinity+BRANCH (591,511)
Polypeptides of coconut contigs (439,300)
Proteins product PP of methodology (29,366)
Functional annotation of coconut contigs
Description of the identifiers used for coconut sequences
Scripts scaffolding and reduction of redundancy
The applied methodology in our paper [1] used coconut transcriptomic data recovered from NCBI [2]. The first dataset [3] corresponds to a transcriptomic analysis of endosperm, embryo and leaf of a dwarf variety (SRA submissionaccession number SRX518095, SRX534380 and SRX534428), while the second [4] represents transcriptome data from a mix of tissues from Hainan tall cultivar (accession number SRX198908).
[1] Armero A, Baudouin B, Bocs S, This, D. Improving transcriptome de novo assembly by using a reference genome of a related species: translational genomics from oil palm to coconut. 2017 (PONE-D-16-34907R1).
2] NCBI: National center for biothechnology information [Internet]. https://www.ncbi.nlm.nih.gov/
[3] Huang Y-Y, Lee C-P, Fu JL, Chang BC-H, Matzke AJM, Matzke M. De Novo Transcriptome Sequence Assembly from Coconut Leaves and Seeds with a Focus on Factors Involved in RNA-Directed DNA Methylation. G3: Genes|Genomes|Genetics. 2014 Nov;4(11):2147–57.
[4] Fan H, Xiao Y, Yang Y, Xia W, Mason AS, Xia Z, et al. RNA-Seq Analysis of Cocos nucifera: Transcriptome Sequencing and De Novo Assembly for Subsequent Functional Genomics Approaches. PLoS ONE. 2013 Mar 29;8(3):e59997.
