Computational identification of MoRFs in protein sequences

By Nawar Malhis, Jörg Gsponer. 2015

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In Molecular Biology

Citations in the corpus

IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding (2018, methodology): “MoRFchibi also employs SVMs, but uses a dual architecture to efficiently discriminate short MoRF regions from their flanking regions and to recognize similarity to already known instances (34).”
APOD: accurate sequence-based predictor of disordered flexible linkers (2020, background): “…markers of functional sites (Wang and Samudrala, 2006), including functional IDRs, such as molecular recognition features (MoRFs; Disfani et al., 2012; Hanson et al., 2019; Katuwawala et al., 2019a,b,c; Malhis and Gsponer, 2015; Malhis et al., 2016; Sharma et al., 2018a,b; Yan et al., 2016).”
DFLpred: High-throughput prediction of disordered flexible linker regions in protein sequences (2016, unknown): “For commercial re-use, please contact journals.permissions@oup.com Khan et al., 2013; Malhis and Gsponer, 2015; Meszaros et al., 2009; Peng and Kurgan, 2015; Yan et al., 2015) and RNA and DNA binding (Peng and Kurgan, 2015).”
Comprehensive review of methods for prediction of intrinsic disorder and its molecular functions (2017, methodology): “There are several predictors of MoRFs including alpha-MoRFpred [124, 125], MoRFpred [126], MFSPSSMpred [127], MoRFChiBi [128], MoRFChiBiWeb [129], fMoRFpred [130], retro-MoRF [131], and DISOPRED3 [61].”
Computational Identification of MoRFs in Protein Sequences Using Hierarchical Application of Bayes Rule (2015, methodology): “The cumulative value of the feature D score for a residue x, S (UD)x , is the probability of a residue in TRAINING to have a propensity score less than or equal to S (UD)x .”
Sequence-based determinants and prediction of fuzzy interactions in protein complexes. (2020, methodology): “…as disorder-to-order regions with at least 1 residue mediating intermolecular interactions in PDB TOT (Methods, Table S1), whereas in Anchor [24] and MoRF [25] datasets the positive set comprised disoredered sites, which fold upon binding as defined in the original references (as in Table 2).”