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Cyanobacterial KnowledgeBase (CKB), a Compendium of Cyanobacterial Genomes and Proteomes.

Peter AP, Lakshmanan K, Mohandass S, Varadharaj S, Thilagar S, Abdul Kareem KA, Dharmar P, Gopalakrishnan S, Lakshmanan U - PLoS ONE (2015)

Bottom Line: Cyanobacterial KnowledgeBase (CKB) is a free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders.The database also includes cyanoBLAST, an advanced tool that facilitates comparative analysis, among cyanobacterial genomes and genomes of E. coli (prokaryote) and Arabidopsis (eukaryote).The database is developed and maintained by the Sub-Distributed Informatics Centre (sponsored by the Department of Biotechnology, Govt. of India) of the National Facility for Marine Cyanobacteria, a facility dedicated to marine cyanobacterial research.

View Article: PubMed Central - PubMed

Affiliation: National Facility for Marine Cyanobacteria, Sub-Distributed Bioinformatics Centre (sponsored by Department of Biotechnology, Govt. of India), Department of Marine Biotechnology, School of Marine Sciences, Bharathidasan University, Tiruchirappalli, Tamil Nadu, India.

ABSTRACT
Cyanobacterial KnowledgeBase (CKB) is a free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders. The database also contains tools for sequence analysis. The Species report and the gene report provide details about each species and gene (including sequence features and gene ontology annotations) respectively. The database also includes cyanoBLAST, an advanced tool that facilitates comparative analysis, among cyanobacterial genomes and genomes of E. coli (prokaryote) and Arabidopsis (eukaryote). The database is developed and maintained by the Sub-Distributed Informatics Centre (sponsored by the Department of Biotechnology, Govt. of India) of the National Facility for Marine Cyanobacteria, a facility dedicated to marine cyanobacterial research. CKB is freely available at http://nfmc.res.in/ckb/index.html.

No MeSH data available.


CKB BLAST tool.The BLAST analysis tool compares sequence within cyanobacterial species and with E. coli and Arabidopsis. It consists of A, B, C, D and E divisions where A: denotes different programs of BLAST tool, B: the sequence input page, C: option to select the individual or an order wise cyanobacterial dataset, D: choice to choose genomes of 74 cyanobacterial genomes fully or only chromosomes or only plasmids for analysis and E: option to choose E. coli and /or Arabidopsis.
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pone.0136262.g002: CKB BLAST tool.The BLAST analysis tool compares sequence within cyanobacterial species and with E. coli and Arabidopsis. It consists of A, B, C, D and E divisions where A: denotes different programs of BLAST tool, B: the sequence input page, C: option to select the individual or an order wise cyanobacterial dataset, D: choice to choose genomes of 74 cyanobacterial genomes fully or only chromosomes or only plasmids for analysis and E: option to choose E. coli and /or Arabidopsis.

Mentions: Users are provided with several customized databases for similarity searches within the CKB BLAST analysis tool. This includes a database with information on all cyanobacterial chromosomes and plasmids. The users have the freedom to restrict their analysis to either chromosomes or plasmids. Furthermore, CKB provides databases that allow users to compare individual organisms, multiple organisms and orders also (Fig 2).


Cyanobacterial KnowledgeBase (CKB), a Compendium of Cyanobacterial Genomes and Proteomes.

Peter AP, Lakshmanan K, Mohandass S, Varadharaj S, Thilagar S, Abdul Kareem KA, Dharmar P, Gopalakrishnan S, Lakshmanan U - PLoS ONE (2015)

CKB BLAST tool.The BLAST analysis tool compares sequence within cyanobacterial species and with E. coli and Arabidopsis. It consists of A, B, C, D and E divisions where A: denotes different programs of BLAST tool, B: the sequence input page, C: option to select the individual or an order wise cyanobacterial dataset, D: choice to choose genomes of 74 cyanobacterial genomes fully or only chromosomes or only plasmids for analysis and E: option to choose E. coli and /or Arabidopsis.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4549288&req=5

pone.0136262.g002: CKB BLAST tool.The BLAST analysis tool compares sequence within cyanobacterial species and with E. coli and Arabidopsis. It consists of A, B, C, D and E divisions where A: denotes different programs of BLAST tool, B: the sequence input page, C: option to select the individual or an order wise cyanobacterial dataset, D: choice to choose genomes of 74 cyanobacterial genomes fully or only chromosomes or only plasmids for analysis and E: option to choose E. coli and /or Arabidopsis.
Mentions: Users are provided with several customized databases for similarity searches within the CKB BLAST analysis tool. This includes a database with information on all cyanobacterial chromosomes and plasmids. The users have the freedom to restrict their analysis to either chromosomes or plasmids. Furthermore, CKB provides databases that allow users to compare individual organisms, multiple organisms and orders also (Fig 2).

Bottom Line: Cyanobacterial KnowledgeBase (CKB) is a free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders.The database also includes cyanoBLAST, an advanced tool that facilitates comparative analysis, among cyanobacterial genomes and genomes of E. coli (prokaryote) and Arabidopsis (eukaryote).The database is developed and maintained by the Sub-Distributed Informatics Centre (sponsored by the Department of Biotechnology, Govt. of India) of the National Facility for Marine Cyanobacteria, a facility dedicated to marine cyanobacterial research.

View Article: PubMed Central - PubMed

Affiliation: National Facility for Marine Cyanobacteria, Sub-Distributed Bioinformatics Centre (sponsored by Department of Biotechnology, Govt. of India), Department of Marine Biotechnology, School of Marine Sciences, Bharathidasan University, Tiruchirappalli, Tamil Nadu, India.

ABSTRACT
Cyanobacterial KnowledgeBase (CKB) is a free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders. The database also contains tools for sequence analysis. The Species report and the gene report provide details about each species and gene (including sequence features and gene ontology annotations) respectively. The database also includes cyanoBLAST, an advanced tool that facilitates comparative analysis, among cyanobacterial genomes and genomes of E. coli (prokaryote) and Arabidopsis (eukaryote). The database is developed and maintained by the Sub-Distributed Informatics Centre (sponsored by the Department of Biotechnology, Govt. of India) of the National Facility for Marine Cyanobacteria, a facility dedicated to marine cyanobacterial research. CKB is freely available at http://nfmc.res.in/ckb/index.html.

No MeSH data available.