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Heterogeneous data integration methods for patient similarity networks.
Gliozzo J, Mesiti M, Notaro M, Petrini A, Patak A, Puertas-Gallardo A, Paccanaro A, Valentini G, Casiraghi E. Gliozzo J, et al. Among authors: valentini g. Brief Bioinform. 2022 Jul 18;23(4):bbac207. doi: 10.1093/bib/bbac207. Brief Bioinform. 2022. PMID: 35679533 Free PMC article. Review.
XML-based approaches for the integration of heterogeneous bio-molecular data.
Mesiti M, Jiménez-Ruiz E, Sanz I, Berlanga-Llavori R, Perlasca P, Valentini G, Manset D. Mesiti M, et al. Among authors: valentini g. BMC Bioinformatics. 2009 Oct 15;10 Suppl 12(Suppl 12):S7. doi: 10.1186/1471-2105-10-S12-S7. BMC Bioinformatics. 2009. PMID: 19828083 Free PMC article.
RANKS: a flexible tool for node label ranking and classification in biological networks.
Valentini G, Armano G, Frasca M, Lin J, Mesiti M, Re M. Valentini G, et al. Bioinformatics. 2016 Sep 15;32(18):2872-4. doi: 10.1093/bioinformatics/btw235. Epub 2016 Jun 2. Bioinformatics. 2016. PMID: 27256314 Free article.
To facilitate comparative assessment, baseline network-based methods, e.g. label propagation and random walk algorithms, have also been implemented. AVAILABILITY AND IMPLEMENTATION: The package is available from CRAN: https://cran.r-project.org/ The package is written in R …
To facilitate comparative assessment, baseline network-based methods, e.g. label propagation and random walk algorithms, have also be …
An expanded evaluation of protein function prediction methods shows an improvement in accuracy.
Jiang Y, Oron TR, Clark WT, Bankapur AR, D'Andrea D, Lepore R, Funk CS, Kahanda I, Verspoor KM, Ben-Hur A, Koo da CE, Penfold-Brown D, Shasha D, Youngs N, Bonneau R, Lin A, Sahraeian SM, Martelli PL, Profiti G, Casadio R, Cao R, Zhong Z, Cheng J, Altenhoff A, Skunca N, Dessimoz C, Dogan T, Hakala K, Kaewphan S, Mehryary F, Salakoski T, Ginter F, Fang H, Smithers B, Oates M, Gough J, Törönen P, Koskinen P, Holm L, Chen CT, Hsu WL, Bryson K, Cozzetto D, Minneci F, Jones DT, Chapman S, Bkc D, Khan IK, Kihara D, Ofer D, Rappoport N, Stern A, Cibrian-Uhalte E, Denny P, Foulger RE, Hieta R, Legge D, Lovering RC, Magrane M, Melidoni AN, Mutowo-Meullenet P, Pichler K, Shypitsyna A, Li B, Zakeri P, ElShal S, Tranchevent LC, Das S, Dawson NL, Lee D, Lees JG, Sillitoe I, Bhat P, Nepusz T, Romero AE, Sasidharan R, Yang H, Paccanaro A, Gillis J, Sedeño-Cortés AE, Pavlidis P, Feng S, Cejuela JM, Goldberg T, Hamp T, Richter L, Salamov A, Gabaldon T, Marcet-Houben M, Supek F, Gong Q, Ning W, Zhou Y, Tian W, Falda M, Fontana P, Lavezzo E, Toppo S, Ferrari C, Giollo M, Piovesan D, Tosatto SC, Del Pozo A, Fernández JM, Maietta P, Valencia A, Tress ML, Benso A, Di Carlo S, Politano G, Savino A, Rehma… See abstract for full author list ➔ Jiang Y, et al. Among authors: valentini g. Genome Biol. 2016 Sep 7;17(1):184. doi: 10.1186/s13059-016-1037-6. Genome Biol. 2016. PMID: 27604469 Free PMC article.
643 results