FishDB: an integrated functional genomics database for fishes
| Autor: | Liandong Yang, Baosheng Wu, Lin Li, Zetan Xu, H.R. Zeng, Cheng Wang, Shunping He, Jing Bo, Ning Sun, Yang Dong |
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| Rok vydání: | 2020 |
| Předmět: |
Untranslated region
lcsh:QH426-470 Evolution lcsh:Biotechnology Danio Biology Proteomics computer.software_genre Genome Database 03 medical and health sciences lcsh:TP248.13-248.65 Genetics Animals Adaptation Phylogeny 030304 developmental biology 0303 health sciences 030302 biochemistry & molecular biology Fishes Genomics biology.organism_classification lcsh:Genetics Fish Genome Mitochondrial Fish DNA microarray Transcriptome computer Functional genomics Biotechnology |
| Zdroj: | BMC Genomics BMC Genomics, Vol 21, Iss 1, Pp 1-5 (2020) |
| ISSN: | 1471-2164 |
| DOI: | 10.1186/s12864-020-07159-9 |
| Popis: | Background Hundreds 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. Results Here 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. Conclusions This release contains over 410,721.67 Mb sequences and provides search functionality, a BLAST server, JBrowse, and PrimerServer modules. |
| Databáze: | OpenAIRE |
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