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Pregled bibliografske jedinice broj: 373872

ClustScan : An integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures


Starčević, Antonio; Žučko, Jurica; Šimunković, Jurica; Long, Paul F.; Cullum, John; Hranueli, Daslav
ClustScan : An integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures // Nucleic acids research, 36 (2008), 21; 6882-6892 doi:10.1093/nar/gkn685 (međunarodna recenzija, članak, znanstveni)


Naslov
ClustScan : An integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures

Autori
Starčević, Antonio ; Žučko, Jurica ; Šimunković, Jurica ; Long, Paul F. ; Cullum, John ; Hranueli, Daslav

Izvornik
Nucleic acids research (0305-1048) 36 (2008), 21; 6882-6892

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Polyketides; non-ribosomal peptides; Actinobacteria; metagenomes; genomes; gene clusters

Sažetak
The program package ClustScan is designed for rapid, semi-automatic, annotation of DNA sequences encoding modular biosynthetic enzymes including polyketide synthases (PKS), non-ribosomal peptide synthetases (NRPS) and hybrid (PKS/NRPS) enzymes. The program displays the predicted chemical structures of products as well as allowing export of the structures in a standard format for analyses with other programs. Recent advances in understanding of enzyme function are incorporated to make knowledge-based predictions about the stereochemistry of products. The program structure allows easy incorporation of additional knowledge about domain specificities and function. The results of analyses are presented to the user in a graphical interface, which also allows easy editing of the predictions to incorporate user experience. The versatility of this program package has been demonstrated by annotating biochemical pathways in microbial, invertebrate animal and metagenomic datasets. The speed and convenience of the package allows the annotation of all PKS and NRPS clusters in a complete Actinobacteria genome in 2-3 man hours. The open architecture of ClustScan allows easy integration with other programs, facilitating further analyses of results, which is useful for a broad range of researchers in the chemical and biological sciences.

Izvorni jezik
Engleski

Znanstvena područja
Biologija, Računarstvo, Biotehnologija



POVEZANOST RADA


Projekt / tema
058-0000000-3475 - Generiranje potencijalnih lijekova u uvjetima in silico (Daslav Hranueli, )

Ustanove
Prehrambeno-biotehnološki fakultet, Zagreb

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


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