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Rule Mining Techniques to Predict Prokaryotic Metabolic Pathways.
Methods Mol Biol. 2017;1613:311-331. doi: 10.1007/978-1-4939-7027-8_12.
Methods Mol Biol. 2017.
PMID: 28849566
Prediction of Metabolic Pathway Involvement in Prokaryotic UniProtKB Data by Association Rule Mining.
Boudellioua I, Saidi R, Hoehndorf R, Martin MJ, Solovyev V.
Boudellioua I, et al.
PLoS One. 2016 Jul 8;11(7):e0158896. doi: 10.1371/journal.pone.0158896. eCollection 2016.
PLoS One. 2016.
PMID: 27390860
Free PMC article.
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The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.
Zhou N, Jiang Y, Bergquist TR, Lee AJ, Kacsoh BZ, Crocker AW, Lewis KA, Georghiou G, Nguyen HN, Hamid MN, Davis L, Dogan T, Atalay V, Rifaioglu AS, Dalkıran A, Cetin Atalay R, Zhang C, Hurto RL, Freddolino PL, Zhang Y, Bhat P, Supek F, Fernández JM, Gemovic B, Perovic VR, Davidović RS, Sumonja N, Veljkovic N, Asgari E, Mofrad MRK, Profiti G, Savojardo C, Martelli PL, Casadio R, Boecker F, Schoof H, Kahanda I, Thurlby N, McHardy AC, Renaux A, Saidi R, Gough J, Freitas AA, Antczak M, Fabris F, Wass MN, Hou J, Cheng J, Wang Z, Romero AE, Paccanaro A, Yang H, Goldberg T, Zhao C, Holm L, Törönen P, Medlar AJ, Zosa E, Borukhov I, Novikov I, Wilkins A, Lichtarge O, Chi PH, Tseng WC, Linial M, Rose PW, Dessimoz C, Vidulin V, Dzeroski S, Sillitoe I, Das S, Lees JG, Jones DT, Wan C, Cozzetto D, Fa R, Torres M, Warwick Vesztrocy A, Rodriguez JM, Tress ML, Frasca M, Notaro M, Grossi G, Petrini A, Re M, Valentini G, Mesiti M, Roche DB, Reeb J, Ritchie DW, Aridhi S, Alborzi SZ, Devignes MD, Koo DCE, Bonneau R, Gligorijević V, Barot M, Fang H, Toppo S, Lavezzo E, Falda M, Berselli M, Tosatto SCE, Carraro M, Piovesan D, Ur Rehman H, Mao Q, Zhang S, Vucetic S, Black GS, Jo D, Suh E, Dayton JB, Lar…
See abstract for full author list ➔
Zhou N, et al. Among authors: boudellioua i.
Genome Biol. 2019 Nov 19;20(1):244. doi: 10.1186/s13059-019-1835-8.
Genome Biol. 2019.
PMID: 31744546
Free PMC article.
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Semantic prioritization of novel causative genomic variants.
Boudellioua I, Mahamad Razali RB, Kulmanov M, Hashish Y, Bajic VB, Goncalves-Serra E, Schoenmakers N, Gkoutos GV, Schofield PN, Hoehndorf R.
Boudellioua I, et al.
PLoS Comput Biol. 2017 Apr 17;13(4):e1005500. doi: 10.1371/journal.pcbi.1005500. eCollection 2017 Apr.
PLoS Comput Biol. 2017.
PMID: 28414800
Free PMC article.
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DeepPVP: phenotype-based prioritization of causative variants using deep learning.
Boudellioua I, Kulmanov M, Schofield PN, Gkoutos GV, Hoehndorf R.
Boudellioua I, et al.
BMC Bioinformatics. 2019 Feb 6;20(1):65. doi: 10.1186/s12859-019-2633-8.
BMC Bioinformatics. 2019.
PMID: 30727941
Free PMC article.
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OligoPVP: Phenotype-driven analysis of individual genomic information to prioritize oligogenic disease variants.
Boudellioua I, Kulmanov M, Schofield PN, Gkoutos GV, Hoehndorf R.
Boudellioua I, et al.
Sci Rep. 2018 Oct 2;8(1):14681. doi: 10.1038/s41598-018-32876-3.
Sci Rep. 2018.
PMID: 30279426
Free PMC article.
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hCoronavirusesDB: an integrated bioinformatics resource for human coronaviruses.
Almansour I, Boudellioua I.
Almansour I, et al. Among authors: boudellioua i.
Database (Oxford). 2022 Mar 26;2022:baac017. doi: 10.1093/database/baac017.
Database (Oxford). 2022.
PMID: 35348639
Free PMC article.
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Metagenome analyses of microbial population in geotextile fabrics used in permeable reactor barriers for toluene biodegradation.
Tombuloglu H, Yaman C, Boudellioua I, Cevik E, Anil I, Aga O, Yaman AB, Qureshi A, Gunday ST.
Tombuloglu H, et al. Among authors: boudellioua i.
3 Biotech. 2023 Feb;13(2):40. doi: 10.1007/s13205-023-03460-y. Epub 2023 Jan 10.
3 Biotech. 2023.
PMID: 36636577
Free PMC article.
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