Abstract
BackgroundHundreds of genomes and transcriptomes of fish species have been sequenced in recent years. However, fish scholarship currently lacks a comprehensive, integrated, and up-to-date collection of fish genomic data.ResultsHere we present FishDB, the first database for fish multi-level omics data, available online at http://fishdb.ihb.ac.cn. The database contains 233 fish genomes, 201 fish transcriptomes, 5841 fish mitochondrial genomes, 88 fish gene sets, 16,239 miRNAs of 65 fishes, 1,330,692 piRNAs and 4852 lncRNAs of Danio rerio, 59,040 Mb untranslated regions (UTR) of 230 fishes, and 31,918 Mb coding sequences (CDS) of 230 fishes. Among these, we newly generated a total of 11 fish genomes and 53 fish transcriptomes.ConclusionsThis release contains over 410,721.67 Mb sequences and provides search functionality, a BLAST server, JBrowse, and PrimerServer modules.
Highlights
ResultsWe present Fish Genome Database (FishDB), the first database for fish multi-level omics data, available online at http://fishdb. ihb.ac.cn
Hundreds of genomes and transcriptomes of fish species have been sequenced in recent years
Ichthyological research has been severely hampered for lack of a comprehensive, integrated, and up-to-date collection of fish omics database
Summary
We present FishDB, the first database for fish multi-level omics data, available online at http://fishdb. ihb.ac.cn. We present FishDB, the first database for fish multi-level omics data, available online at http://fishdb. The database contains 233 fish genomes, 201 fish transcriptomes, 5841 fish mitochondrial genomes, 88 fish gene sets, 16,239 miRNAs of 65 fishes, 1,330,692 piRNAs and 4852 lncRNAs of Danio rerio, 59,040 Mb untranslated regions (UTR) of 230 fishes, and 31,918 Mb coding sequences (CDS) of 230 fishes. We newly generated a total of 11 fish genomes and 53 fish transcriptomes
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