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For: Esteban-Medina M, Peña-Chilet M, Loucera C, Dopazo J. Exploring the druggable space around the Fanconi anemia pathway using machine learning and mechanistic models. BMC Bioinformatics 2019;20:370. [PMID: 31266445 DOI: 10.1186/s12859-019-2969-0] [Cited by in Crossref: 20] [Cited by in F6Publishing: 20] [Article Influence: 5.0] [Reference Citation Analysis]
Number Citing Articles
1 Brasil S, Allocca M, Magrinho SCM, Santos I, Raposo M, Francisco R, Pascoal C, Martins T, Videira PA, Pereira F, Andreotti G, Jaeken J, Kantautas KA, Perlstein EO, Ferreira VDR. Systematic Review: Drug Repositioning for Congenital Disorders of Glycosylation (CDG). Int J Mol Sci 2022;23:8725. [PMID: 35955863 DOI: 10.3390/ijms23158725] [Reference Citation Analysis]
2 Golriz Khatami S, Mubeen S, Bharadhwaj VS, Kodamullil AT, Hofmann-Apitius M, Domingo-Fernández D. Using predictive machine learning models for drug response simulation by calibrating patient-specific pathway signatures. NPJ Syst Biol Appl 2021;7:40. [PMID: 34707117 DOI: 10.1038/s41540-021-00199-1] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.5] [Reference Citation Analysis]
3 Martorell-Marugán J, López-Domínguez R, García-Moreno A, Toro-Domínguez D, Villatoro-García JA, Barturen G, Martín-Gómez A, Troule K, Gómez-López G, Al-Shahrour F, González-Rumayor V, Peña-Chilet M, Dopazo J, Sáez-Rodríguez J, Alarcón-Riquelme ME, Carmona-Sáez P. A comprehensive database for integrated analysis of omics data in autoimmune diseases. BMC Bioinformatics 2021;22:343. [PMID: 34167460 DOI: 10.1186/s12859-021-04268-4] [Cited by in Crossref: 5] [Cited by in F6Publishing: 5] [Article Influence: 2.5] [Reference Citation Analysis]
4 Rian K, Hidalgo MR, Çubuk C, Falco MM, Loucera C, Esteban-Medina M, Alamo-Alvarez I, Peña-Chilet M, Dopazo J. Genome-scale mechanistic modeling of signaling pathways made easy: A bioconductor/cytoscape/web server framework for the analysis of omic data. Comput Struct Biotechnol J 2021;19:2968-78. [PMID: 34136096 DOI: 10.1016/j.csbj.2021.05.022] [Cited by in Crossref: 3] [Cited by in F6Publishing: 3] [Article Influence: 1.5] [Reference Citation Analysis]
5 Brasil S, Neves CJ, Rijoff T, Falcão M, Valadão G, Videira PA, Dos Reis Ferreira V. Artificial Intelligence in Epigenetic Studies: Shedding Light on Rare Diseases. Front Mol Biosci 2021;8:648012. [PMID: 34026829 DOI: 10.3389/fmolb.2021.648012] [Cited by in Crossref: 5] [Cited by in F6Publishing: 5] [Article Influence: 2.5] [Reference Citation Analysis]
6 Auslander N, Gussow AB, Koonin EV. Incorporating Machine Learning into Established Bioinformatics Frameworks. Int J Mol Sci 2021;22:2903. [PMID: 33809353 DOI: 10.3390/ijms22062903] [Cited by in Crossref: 10] [Cited by in F6Publishing: 10] [Article Influence: 5.0] [Reference Citation Analysis]
7 Garrido-Rodriguez M, Lopez-Lopez D, Ortuno FM, Peña-Chilet M, Muñoz E, Calzado MA, Dopazo J. A versatile workflow to integrate RNA-seq genomic and transcriptomic data into mechanistic models of signaling pathways. PLoS Comput Biol 2021;17:e1008748. [PMID: 33571195 DOI: 10.1371/journal.pcbi.1008748] [Cited by in Crossref: 5] [Cited by in F6Publishing: 5] [Article Influence: 2.5] [Reference Citation Analysis]
8 Rian K, Esteban-Medina M, Hidalgo MR, Çubuk C, Falco MM, Loucera C, Gunyel D, Ostaszewski M, Peña-Chilet M, Dopazo J. Mechanistic modeling of the SARS-CoV-2 disease map. BioData Min 2021;14:5. [PMID: 33478554 DOI: 10.1186/s13040-021-00234-1] [Cited by in Crossref: 5] [Cited by in F6Publishing: 5] [Article Influence: 2.5] [Reference Citation Analysis]
9 Loucera C, Esteban-Medina M, Rian K, Falco MM, Dopazo J, Peña-Chilet M. Drug repurposing for COVID-19 using machine learning and mechanistic models of signal transduction circuits related to SARS-CoV-2 infection. Signal Transduct Target Ther 2020;5:290. [PMID: 33311438 DOI: 10.1038/s41392-020-00417-y] [Cited by in Crossref: 23] [Cited by in F6Publishing: 23] [Article Influence: 7.7] [Reference Citation Analysis]
10 Khatami SG, Mubeen S, Bharadhwaj VS, Kodamullil AT, Hofmann-apitius M, Domingo-fernández D. Using predictive machine learning models for drug response simulation by calibrating patient-specific pathway signatures.. [DOI: 10.1101/2020.12.06.413435] [Reference Citation Analysis]
11 Smaïl-Tabbone M, Rance B; Section Editors for the IMIA Yearbook Section on Bioinformatics and Translational Informatics. Contributions from the 2019 Literature on Bioinformatics and Translational Informatics. Yearb Med Inform 2020;29:188-92. [PMID: 32823315 DOI: 10.1055/s-0040-1702002] [Cited by in Crossref: 1] [Cited by in F6Publishing: 2] [Article Influence: 0.3] [Reference Citation Analysis]
12 Çubuk C, Can FE, Peña-Chilet M, Dopazo J. Mechanistic Models of Signaling Pathways Reveal the Drug Action Mechanisms behind Gender-Specific Gene Expression for Cancer Treatments. Cells 2020;9:E1579. [PMID: 32610626 DOI: 10.3390/cells9071579] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 0.7] [Reference Citation Analysis]
13 Falco MM, Peña-Chilet M, Loucera C, Hidalgo MR, Dopazo J. Mechanistic models of signaling pathways deconvolute the glioblastoma single-cell functional landscape. NAR Cancer 2020;2:zcaa011. [PMID: 34316686 DOI: 10.1093/narcan/zcaa011] [Cited by in Crossref: 8] [Cited by in F6Publishing: 8] [Article Influence: 2.7] [Reference Citation Analysis]
14 Martorell-marugán J, Lopez-dominguez R, Garcia-moreno A, Toro-dominguez D, Villatoro-garcia JA, Barturen G, Martin-gomez A, Troule K, Gomez-lopez G, Al-shahrour F, Gonzalez-rumayor V, Peña-chilet M, Dopazo J, Saez-rodriguez J, Alarcon-riquelme ME, Carmona-saez P. A comprehensive and centralized database for exploring omics data in Autoimmune Diseases.. [DOI: 10.1101/2020.06.10.144972] [Reference Citation Analysis]
15 Rian K, Esteban-medina M, Hidalgo MR, Çubuk C, Falco MM, Loucera C, Gunyel D, Ostaszewski M, Peña-chilet M, Dopazo J. Mechanistic modeling of the SARS-CoV-2 disease map.. [DOI: 10.1101/2020.04.12.025577] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.3] [Reference Citation Analysis]
16 Humayun F, Domingo-Fernández D, Paul George AA, Hopp MT, Syllwasschy BF, Detzel MS, Hoyt CT, Hofmann-Apitius M, Imhof D. A Computational Approach for Mapping Heme Biology in the Context of Hemolytic Disorders. Front Bioeng Biotechnol 2020;8:74. [PMID: 32211383 DOI: 10.3389/fbioe.2020.00074] [Cited by in Crossref: 11] [Cited by in F6Publishing: 10] [Article Influence: 3.7] [Reference Citation Analysis]
17 Peña-Chilet M, Esteban-Medina M, Falco MM, Rian K, Hidalgo MR, Loucera C, Dopazo J. Using mechanistic models for the clinical interpretation of complex genomic variation. Sci Rep 2019;9:18937. [PMID: 31831811 DOI: 10.1038/s41598-019-55454-7] [Cited by in Crossref: 11] [Cited by in F6Publishing: 11] [Article Influence: 2.8] [Reference Citation Analysis]
18 Falco MM, Peña-chilet M, Loucera C, Hidalgo MR, Dopazo J. Mechanistic models of signaling pathways deconvolute the functional landscape of glioblastoma at single cell resolution.. [DOI: 10.1101/858811] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.3] [Reference Citation Analysis]
19 Humayun F, Domingo-fernández D, George AAP, Hopp M, Syllwasschy BF, Detzel MS, Hoyt CT, Hofmann-apitius M, Imhof D. A computational approach for mapping heme biology in the context of hemolytic disorders.. [DOI: 10.1101/804906] [Cited by in Crossref: 1] [Cited by in F6Publishing: 1] [Article Influence: 0.3] [Reference Citation Analysis]