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- person_outline Gwan-Su Yi
Publication for PKMiner
In silico methods for linking genes and secondary metabolites: The way forward
[…] ch, for deriving prediction rules based on experimentally characterized PKS and NRPS gene clusters. The tools like NRPS-PKS, SBSPKS, ASMPKS/MAPSI, ClustScan, NP.Searcher, NRPSpredictor, PKS/NRPS and PKMiner permit semi-automatic identification and annotation of PKS, NRPS or PKS-NRPS hybrid gene clusters. In addition to annotating the domains of multi-domain PKS and NRPS, most of these tools also […]
Actinomycetes from the South China Sea sponges: isolation, diversity, and potential for aromatic polyketides discovery
[…] es were translated to amino acid sequences using the web tool ORF Finder in NCBI (http://www.ncbi.nlm.nih.gov/projects/gorf/). The deduced amino acid sequences were compared with the KSα sequences in PKMiner database (http://www.webcitation.org/6C9a5WoFY) using the type II PKS domain classifiers (Kim and Yi, ). The top matches were derived from the KSα sequences associated with 42 experimentally c […]
Expanding our Understanding of Sequence Function Relationships of Type II Polyketide Biosynthetic Gene Clusters: Bioinformatics Guided Identification of Frankiamicin A from Frankia sp. EAN1pec
[…] available software packages are also unable to identify bacterial type II polyketide gene clusters, and none are able to predict which structural subclass a type II polyketide gene cluster produces. PKMiner, a database of 40 unstudied type II polyketide gene clusters from sequenced bacterial genomes, which includes structural subclass predictions, was recently reported . However, the PKMiner da […]
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