Barcode of Life Data System
The Barcode of Life Data System (commonly known as BOLD or BOLDSystems) is a web platform specifically devoted to DNA barcoding.[1][2] It is a cloud-based data storage and analysis platform developed at the Centre for Biodiversity Genomics in Canada. It consists of four main modules, a data portal, an educational portal, a registry of BINs (putative species), and a data collection and analysis workbench which provides an online platform for analyzing DNA sequences.[2] Since its launch in 2005, BOLD has been extended to provide a range of functionality including data organization, validation, visualization and publication. The most recent version of the system, version 4, launched in 2017, brings a set of improvements supporting data collection and analysis but also includes novel functionality improving data dissemination, citation, and annotation.[3] Before November 16, 2020, BOLD already contained barcode sequences for 318,105 formally described species covering animals, plants, fungi, protists (with ~8.9 million specimens).[4]
BOLD is freely available to any researcher with interests in DNA Barcoding. By providing specialized services, it aids in the publication of records that meet the standards needed to gain BARCODE designation in the international nucleotide sequence databases. Because of its web-based delivery and flexible data security model, it is also well positioned to support projects that involve broad research alliances.[3]
Data release of BOLD mainly originated from a project BARCODE 500K[5] executed by the International Barcode of Life (iBOL) Consortium from 2010 to 2015. It aimed for data acquisition of DNA barcode records for 5M specimens representing 500K species. All the specimens collection, sequences assignment, information sorting are contributed by great amount of scientists, collaborators and facilities from nations over the world. Data accumulation increases the accuracy of DNA barcode identification and facilitates the attainment of barcoding of life.
References
- ^ Ratnasingham, Sujeevan; Hebert, Paul D. N. (2013). "A DNA-Based Registry for All Animal Species: The Barcode Index Number (BIN) System". PLOS ONE. 8 (7): e66213. Bibcode:2013PLoSO...866213R. doi:10.1371/journal.pone.0066213. ISSN 1932-6203. PMC 3704603. PMID 23861743.
- ^ a b RATNASINGHAM, SUJEEVAN; HEBERT, PAUL D. N. (2007-01-24). "BARCODING: bold: The Barcode of Life Data System (http://www.barcodinglife.org)". Molecular Ecology Notes. 7 (3): 355–364. doi:10.1111/j.1471-8286.2007.01678.x. ISSN 1471-8278. PMC 1890991. PMID 18784790.
- ^ a b "BOLD Print Handbook for BOLD v4". www.boldsystems.org. Retrieved 2020-11-16.
- ^ "Kingdoms of Life Being Barcoded | BOLDSYSTEMS". www.boldsystems.org. Retrieved 2020-11-16.
- ^ "BARCODE 500K". ibol.org. Archived from the original on 2021-08-16. Retrieved 2020-11-16.
External links
- BOLD Systems taxon ID (P3606) (see uses)
- Official website
- v
- t
- e
- Sequence databases: GenBank, European Nucleotide Archive, DNA Data Bank of Japan and China National GeneBank
- Secondary databases: UniProt, database of protein sequences grouping together Swiss-Prot, TrEMBL and Protein Information Resource
- Other databases: BioNumbers, Protein Data Bank, Ensembl, InterPro, KEGG, and Gene Ontology
- Specialised genomic databases: BOLD, Saccharomyces Genome Database, FlyBase, VectorBase, WormBase, Rat Genome Database, PHI-base, Arabidopsis Information Resource, GISAID and Zebrafish Information Network
- Server: ExPASy
- Rosalind (education platform)
- Broad Institute
- Computational Biology Department (CBD)
- Microsoft Research - University of Trento Centre for Computational and Systems Biology (COSBI)
- Database Center for Life Science (DBCLS)
- DNA Data Bank of Japan (DDBJ)
- European Bioinformatics Institute (EMBL-EBI)
- European Molecular Biology Laboratory (EMBL)
- Flatiron Institute
- J. Craig Venter Institute (JCVI)
- Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG)
- US National Center for Biotechnology Information (NCBI)
- Japanese Institute of Genetics
- Netherlands Bioinformatics Centre (NBIC)
- Philippine Genome Center (PGC)
- Scripps Research
- Swiss Institute of Bioinformatics (SIB)
- Wellcome Sanger Institute
- Whitehead Institute
- African Society for Bioinformatics and Computational Biology (ASBCB)
- Australia Bioinformatics Resource (EMBL-AR)
- European Molecular Biology network (EMBnet)
- International Nucleotide Sequence Database Collaboration (INSDC)
- International Society for Biocuration (ISB)
- International Society for Computational Biology (ISCB)
- Student Council (ISCB-SC)
- Institute of Genomics and Integrative Biology (CSIR-IGIB)
- Japanese Society for Bioinformatics (JSBi)
- Basel Computational Biology Conference ([BC2])
- European Conference on Computational Biology (ECCB)
- Intelligent Systems for Molecular Biology (ISMB)
- International Conference on Bioinformatics (InCoB)
- International Conference on Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB)
- ISCB Africa ASBCB Conference on Bioinformatics
- Pacific Symposium on Biocomputing (PSB)
- Research in Computational Molecular Biology (RECOMB)
- CRAM format
- FASTA format
- FASTQ format
- NeXML format
- Nexus format
- Pileup format
- SAM format
- Stockholm format
- VCF format
- GFF format
- GTF format
- Category
- Commons