ModLink+: improving fold recognition by using protein–protein interactions | Zendy

Oriol Fornés | Zendy; Ramón Aragüés | Zendy; Jordi Espadaler | Zendy; Marc A. MartíRenom | Zendy; Andrej Šali | Zendy; Baldo Oliva | Zendy

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ModLink+: improving fold recognition by using protein–protein interactions

Author(s) -

Oriol Fornés,

Ramón Aragüés,

Jordi Espadaler,

Marc A. MartíRenom,

Andrej Šali,

Baldo Oliva

Publication year - 2009

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btp238

Subject(s) - fold (higher order function) , computational biology , test set , proteome , cutoff , sequence (biology) , value (mathematics) , protein structure , biology , computer science , algorithm , pattern recognition (psychology) , bioinformatics , genetics , artificial intelligence , biochemistry , physics , machine learning , quantum mechanics , programming language

Several strategies have been developed to predict the fold of a target protein sequence, most of which are based on aligning the target sequence to other sequences of known structure. Previously, we demonstrated that the consideration of protein-protein interactions significantly increases the accuracy of fold assignment compared with PSI-BLAST sequence comparisons. A drawback of our method was the low number of proteins to which a fold could be assigned. Here, we present an improved version of the method that addresses this limitation. We also compare our method to other state-of-the-art fold assignment methodologies.

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