Assessment of community efforts to advance network-based prediction of protein-protein interactions.

Autor: Wang XW; Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, 02115, USA., Madeddu L; Translational and Precision Medicine Department Sapienza University of Rome, Rome, Italy., Spirohn K; Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA, 02215, USA.; Department of Genetics, Blavatnik Institute, Harvard Medical School, Boston, MA, 02115, USA.; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, 02215, USA., Martini L; Department of Computer, Control, and Management Engineering 'Antonio Rubert', Sapienza University of Rome, Rome, Italy., Fazzone A; CENTAI Institute, Turin, Italy., Becchetti L; Department of Computer, Control, and Management Engineering 'Antonio Rubert', Sapienza University of Rome, Rome, Italy., Wytock TP; Department of Physics and Astronomy, Northwestern University, Evanston, IL, 60208, USA., Kovács IA; Department of Physics and Astronomy, Northwestern University, Evanston, IL, 60208, USA.; Northwestern Institute on Complex Systems, Northwestern University, Evanston, IL, 60208, USA., Balogh OM; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Budapest, Hungary., Benczik B; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Budapest, Hungary.; Pharmahungary Group, 6722, Szeged, Hungary., Pétervári M; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Budapest, Hungary., Ágg B; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Budapest, Hungary.; Pharmahungary Group, 6722, Szeged, Hungary., Ferdinandy P; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Budapest, Hungary.; Pharmahungary Group, 6722, Szeged, Hungary., Vulliard L; CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria.; Department of Structural and Computational Biology, Max Perutz Labs, University of Vienna, Vienna, Austria., Menche J; CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria.; Department of Structural and Computational Biology, Max Perutz Labs, University of Vienna, Vienna, Austria.; Faculty of Mathematics, University of Vienna, Vienna, Austria., Colonnese S; Department of Information Engineering, Electronics, and Telecommunications (DIET), University of Rome 'Sapienza', Rome, Italy., Petti M; Department of Computer, Control, and Management Engineering 'Antonio Rubert', Sapienza University of Rome, Rome, Italy., Scarano G; Department of Information Engineering, Electronics, and Telecommunications (DIET), University of Rome 'Sapienza', Rome, Italy., Cuomo F; Department of Information Engineering, Electronics, and Telecommunications (DIET), University of Rome 'Sapienza', Rome, Italy., Hao T; Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA, 02215, USA.; Department of Genetics, Blavatnik Institute, Harvard Medical School, Boston, MA, 02115, USA.; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, 02215, USA., Laval F; Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA, 02215, USA.; Department of Genetics, Blavatnik Institute, Harvard Medical School, Boston, MA, 02115, USA.; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, 02215, USA.; Laboratory of Molecular and Cellular Epigenetic, GIGA Institute, University of Liège, Liège, Belgium.; Laboratory of Viral Interactomes, GIGA Institute, University of Liège, Liège, Belgium.; TERRA Teaching and Research Centre, University of Liège, Gembloux, Belgium., Willems L; Laboratory of Molecular and Cellular Epigenetic, GIGA Institute, University of Liège, Liège, Belgium.; TERRA Teaching and Research Centre, University of Liège, Gembloux, Belgium., Twizere JC; Laboratory of Viral Interactomes, GIGA Institute, University of Liège, Liège, Belgium.; TERRA Teaching and Research Centre, University of Liège, Gembloux, Belgium., Vidal M; Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA, 02215, USA.; Department of Genetics, Blavatnik Institute, Harvard Medical School, Boston, MA, 02115, USA., Calderwood MA; Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA, 02215, USA.; Department of Genetics, Blavatnik Institute, Harvard Medical School, Boston, MA, 02115, USA.; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA, 02215, USA., Petrillo E; Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, 02115, USA.; Department of General Internal Medicine and Primary Care, Brigham and Women's Hospital, Boston, MA, 02115, USA., Barabási AL; Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, 02115, USA.; Network Science Institute and Department of Physics, Northeastern University, Boston, MA, 02115, USA.; Department of Network and Data Science, Central European University, Budapest, H-1051, Hungary., Silverman EK; Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, 02115, USA., Loscalzo J; Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, 02115, USA., Velardi P; Translational and Precision Medicine Department Sapienza University of Rome, Rome, Italy. velardi@di.uniroma1.it., Liu YY; Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, 02115, USA. yyl@channing.harvard.edu.; Center for Artificial Intelligence and Modeling, The Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Champaign, IL, 61801, USA. yyl@channing.harvard.edu.

Publikováno v: Nature communications [Nat Commun] 2023 Mar 22; Vol. 14 (1), pp. 1582. Date of Electronic Publication: 2023 Mar 22.

Efficient link prediction in the protein-protein interaction network using topological information in a generative adversarial network machine learning model.

Autor: Balogh OM; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Nagyvárad tér 4, Budapest, 1089, Hungary.; Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Budapest, Hungary., Benczik B; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Nagyvárad tér 4, Budapest, 1089, Hungary.; Pharmahungary Group, Szeged, Hungary., Horváth A; Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Budapest, Hungary., Pétervári M; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Nagyvárad tér 4, Budapest, 1089, Hungary., Csermely P; Department of Molecular Biology, Semmelweis University, Budapest, Hungary., Ferdinandy P; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Nagyvárad tér 4, Budapest, 1089, Hungary.; Pharmahungary Group, Szeged, Hungary., Ágg B; Cardiometabolic and MTA-SE System Pharmacology Research Group, Department of Pharmacology and Pharmacotherapy, Semmelweis University, Nagyvárad tér 4, Budapest, 1089, Hungary. agg.bence@med.semmelweis-univ.hu.; Pharmahungary Group, Szeged, Hungary. agg.bence@med.semmelweis-univ.hu.

Publikováno v: BMC bioinformatics [BMC Bioinformatics] 2022 Feb 19; Vol. 23 (1), pp. 78. Date of Electronic Publication: 2022 Feb 19.