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openSputnik specifications

Information


Unique identifier OMICS_21338
Name openSputnik
Restrictions to use None
Database management system PostgreSQL
Community driven No
Data access Browse
User data submission Not allowed
Maintained No

Maintainer


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Publication for openSputnik

openSputnik citations

 (4)
library_books

EST2uni: an open, parallel tool for automated EST analysis and database creation, with a data mining web interface and microarray expression data integration

2008
BMC Bioinformatics
PMCID: 2258287
PMID: 18179701
DOI: 10.1186/1471-2105-9-5

[…] eristics we consider essential for the research community (Table ). First, they must be freely available for download and local installation, as is the case for EST2uni. Some other tools (ParPEST [], openSputnik [], PipeOnline []), although promising, are not available for free download and local installation, and they must be used in collaboration with their maintainers under specific agreements. […]

call_split

A wing expressed sequence tag resource for Bicyclus anynana butterflies, an evo devo model

2006
BMC Genomics
PMCID: 1534037
PMID: 16737530
DOI: 10.1186/1471-2164-7-130
call_split See protocol

[…] The cluster consensus nucleotide sequences and predicted peptide sequences were assigned likely identities within the openSputnik [] pipeline using BLASTN (fields ending in ".nuc" in Table ) and BLASTX (fields ending in ".pro" in Table ) []. Sequence comparisons between B. anynana and other insect sequence collection […]

library_books

Gene expression and metabolite profiling of Populus euphratica growing in the Negev desert

2005
Genome Biol
PMCID: 1414072
PMID: 16356264
DOI: 10.1186/gb-2005-6-12-r101

[…] LASTN and BLASTX algorithms against a non-redundant protein sequence database, the Swissprot database, the A. thaliana and O. sativa genome databases, and sequence databases containing the aggregated openSputnik consensus sequences for Asterid, Eurosid, Caryophyllid, and monocot genomes. Sequences were additionally functionally characterized in context with the MIPS Funcat and Gene Ontology GO ter […]

call_split

Éclair—a web service for unravelling species origin of sequences sampled from mixed host interfaces

2005
Nucleic Acids Res
PMCID: 1160195
PMID: 15980572
DOI: 10.1093/nar/gki434
call_split See protocol

[…] ed within the Éclair system so no new model needs to be produced. The user uploads the sequences to the Éclair server along with information on the species these sequences should be classified to. An openSputnik project is created and the sequences are imported. From each EST sequence, a CDS is predicted through the ESTScan application () using each of the species-specific ESTScan models. The resu […]

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openSputnik institution(s)
Centre for Biotechnology, Turku, Finland

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