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GeneMark

swMATH ID: 17182
Software Authors: Besemer, J.; Borodovsky, M.
Description: GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses. The task of gene identification frequently confronting researchers working with both novel and well studied genomes can be conveniently and reliably solved with the help of the GeneMark web software (http://opal.biology.gatech.edu/GeneMark/). The website provides interfaces to the GeneMark family of programs designed and tuned for gene prediction in prokaryotic, eukaryotic and viral genomic sequences. Currently, the server allows the analysis of nearly 200 prokaryotic and >10 eukaryotic genomes using species-specific versions of the software and pre-computed gene models. In addition, genes in prokaryotic sequences from novel genomes can be identified using models derived on the spot upon sequence submission, either by a relatively simple heuristic approach or by the full-fledged self-training program GeneMarkS. A database of reannotations of >1000 viral genomes by the GeneMarkS program is also available from the web site. The GeneMark website is frequently updated to provide the latest versions of the software and gene models.
Homepage: http://opal.biology.gatech.edu/GeneMark/
Related Software: FragGeneScan; SUMO; PSI-BLAST; GeneMarkS; Pfam; UniProt; InterProScan; BLAST; EasyGene; Prodigal; mpiBLAST; R; ClustalW; EMBOSS; SMART; DAMBE; AMADA; YACOP; GOtcha; ESTAP
Cited in: 6 Documents
Further Publications: http://opal.biology.gatech.edu/GeneMark/references.html

Standard Articles

1 Publication describing the Software, including 1 Publication in zbMATH Year
Genmark: Parallel gene recognition for both DNA strands. Zbl 0812.92008
Borodovsky, Mark; McIninch, James
1993
all top 5

Cited by 12 Authors

2 Borodovsky, Mark
1 Chen, Bo
1 Ekisheva, Svetlana
1 Floriani, Elena
1 Holste, Dirk
1 Ji, Ping
1 Li, Wentian
1 Lima, Ricardo Massa Ferreira
1 McIninch, James
1 Ourrad, Ouerdia
1 Spinelli, Lionel
1 Xia, Xuhua

Cited in 5 Serials

1 Computers and Chemistry
1 Chaos, Solitons and Fractals
1 Methodology and Computing in Applied Probability
1 Computational Biology and Chemistry
1 Journal of Theoretical Biology

Cited in 5 Fields

5 Biology and other natural sciences (92-XX)
2 Probability theory and stochastic processes (60-XX)
1 Dynamical systems and ergodic theory (37-XX)
1 Statistics (62-XX)
1 Operations research, mathematical programming (90-XX)

Citations by Year