DATASET S1: Transcriptomic profile of the cockle Cerastoderma edule exposed to seasonal dinophysistoxins outbreaks.

Published: 4 October 2021| Version 1 | DOI: 10.17632/vkw2jcmmzt.1
Contributors:
Dany Domínguez-Pérez,
,

Description

Resulting .fasta and .gff files obtained from de novo transcriptome assembly and clustering analyses in the article: Transcriptomic profile of the cockle Cerastoderma edule exposed to seasonal dinophysistoxins outbreaks. Domínguez-Pérez, D. et al., 2021. Ce_assembly_unique.fasta: The de novo transcriptome assembly of C. edule before submission to NCBI, obtained with Trinity v2.10.0 by combining four samples (gills and digestive glands without DTSs and exposed) into a single transcriptome. C.edule_assembly_submitted_ncbi.fasta: The de novo transcriptome assembly submitted NCBI (registered with the BioProject ID: PRJNA739261 (http://www.ncbi.nlm.nih.gov/bioproject/739261). It is noteworthy, a total of 147 transcripts with length below 200 bp were removed during NCBI submission. Ce_assembly_unique_supertranscript.fasta: The corresponding supertranscript file constructed from the de novo transcriptome assembly of C. edule. Ce_assembly_unique.gff: The corresponding .gff file obtained from the de novo transcriptome assembly of C. edule. transcript_to_gene_map.txt: The corresponding transcripts-to-gene-mapping file obtained from the de novo transcriptome assembly of C. edule, and used for clustering analyses. rna_seq_de_novo_assembly_trinity_output.pdf: The resulting output file containing the statistics summary of the de novo transcriptome assembly of C. edule. Ce_assembly_unique_clustering.fasta: The resulting clustering .fasta file from the de novo transcriptome assembly of C.edule, using CD-HIT 4.8.1, setting 0.9 as the Sequence Identity Threshold. cluster_distribution_[assembled_transcripts].pdf: The figure shows the clusters distribution of the assembled transcripts. clustering_results_assembled_transcripts.pdf: Summary of the clustering analyses using CD-HIT 4.8.1.

Files

Categories

Transcriptomics, Differential Gene Expression, Aquatic Toxicology

License