Challenges and applications in generative AI for clinical tabular data in physiology.

Autor: Umesh C; Institute of Computer Science, Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany. chaithra.umesh@uni-rostock.de., Mahendra M; Institute of Computer Science, Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany. manjunath.mahendra@uni-rostock.de., Bej S; School of Data Science, Indian Institute of Science Education and Research (IISER), Thiruvananthapuram, India., Wolkenhauer O; Institute of Computer Science, Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany.; Leibniz-Institute for Food Systems Biology, Technical University of Munich, Freising, Germany., Wolfien M; Faculty of Medicine Carl Gustav Carus, Institute for Medical Informatics and Biometry, TUD Dresden University of Technology, Dresden, Germany.; Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI), Dresden, Germany.

Publikováno v: Pflugers Archiv : European journal of physiology [Pflugers Arch] 2024 Oct 17. Date of Electronic Publication: 2024 Oct 17.

Bitter peptide prediction using graph neural networks.

Autor: Srivastava P; Institute of Computer Science, University of Rostock, 18051, Rostock, Germany., Steuer A; Section III In Silico Biology & Machine Learning, Leibniz Institute for Food Systems Biology at the Technical University of Munich, 85354, Freising, Germany.; Professorship for Chemoinformatics and Protein Modelling, TUM School of Life Sciences, Technical University of Munich, 85354, Freising, Germany., Ferri F; Section III In Silico Biology & Machine Learning, Leibniz Institute for Food Systems Biology at the Technical University of Munich, 85354, Freising, Germany.; Professorship for Chemoinformatics and Protein Modelling, TUM School of Life Sciences, Technical University of Munich, 85354, Freising, Germany., Nicoli A; Section III In Silico Biology & Machine Learning, Leibniz Institute for Food Systems Biology at the Technical University of Munich, 85354, Freising, Germany.; Professorship for Chemoinformatics and Protein Modelling, TUM School of Life Sciences, Technical University of Munich, 85354, Freising, Germany., Schultz K; Institute of Computer Science, University of Rostock, 18051, Rostock, Germany., Bej S; Indian Institute of Science Education and Research Thiruvananthapuram, Maruthamala P. O, Vithura, 695551, Kerala, India., Di Pizio A; Section III In Silico Biology & Machine Learning, Leibniz Institute for Food Systems Biology at the Technical University of Munich, 85354, Freising, Germany. a.dipizio.leibniz-lsb@tum.de.; Professorship for Chemoinformatics and Protein Modelling, TUM School of Life Sciences, Technical University of Munich, 85354, Freising, Germany. a.dipizio.leibniz-lsb@tum.de., Wolkenhauer O; Institute of Computer Science, University of Rostock, 18051, Rostock, Germany. olaf.wolkenhauer@uni-rostock.de.; Section III In Silico Biology & Machine Learning, Leibniz Institute for Food Systems Biology at the Technical University of Munich, 85354, Freising, Germany. olaf.wolkenhauer@uni-rostock.de.

Publikováno v: Journal of cheminformatics [J Cheminform] 2024 Oct 07; Vol. 16 (1), pp. 111. Date of Electronic Publication: 2024 Oct 07.

Sunset Yellow protects against oxidative damage and exhibits chemoprevention in chemically induced skin cancer model.

Autor: Singh S; Food Toxicology Group, CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India.; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India., Yadav S; Food Toxicology Group, CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India.; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India., Cavallo C; University of Strasbourg, F-67081, Strasbourg, France.; Department of Systems Biology and Bioinformatics, University of Rostock, 18055, Rostock, Germany., Mourya D; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India.; Drug and Chemical Toxicology Group (FEST), CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India., Singh I; Food Toxicology Group, CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India.; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India., Kumar V; Food Toxicology Group, CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India.; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India., Shukla S; Food Toxicology Group, CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India.; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India., Shukla P; Division of Microbial Technology, CSIR-National Botanical Research Institute, 226001, Lucknow, India., Chaudhary R; Center for Advanced Studies, Dr APJ Abdul Kalam Technical University, 226031, Lucknow, India., Maurya GP; Center for Advanced Studies, Dr APJ Abdul Kalam Technical University, 226031, Lucknow, India., Müller RLJ; Department of Systems Biology and Bioinformatics, University of Rostock, 18055, Rostock, Germany., Rohde L; Department of Systems Biology and Bioinformatics, University of Rostock, 18055, Rostock, Germany., Mishra A; Division of Microbial Technology, CSIR-National Botanical Research Institute, 226001, Lucknow, India., Wolkenhauer O; Department of Systems Biology and Bioinformatics, University of Rostock, 18055, Rostock, Germany.; Leibniz-Institute for Food Systems Biology at the Technical University of Munich, 85354, Freising, Germany.; Chhattisgarh Swami Vivekananda Technical University, 491107, Bhilai, India., Gupta S; Department of Systems Biology and Bioinformatics, University of Rostock, 18055, Rostock, Germany. shailendra.gupta@uni-rostock.de.; Chhattisgarh Swami Vivekananda Technical University, 491107, Bhilai, India. shailendra.gupta@uni-rostock.de., Tripathi A; Food Toxicology Group, CSIR- Indian Institute of Toxicology Research, 226001, Lucknow, India. anuragtripathi@iitr.res.in.; Academy of Scientific and Innovative Research (AcSIR), 201002, Ghaziabad, India. anuragtripathi@iitr.res.in.

Publikováno v: NPJ systems biology and applications [NPJ Syst Biol Appl] 2024 Mar 02; Vol. 10 (1), pp. 23. Date of Electronic Publication: 2024 Mar 02.

Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches.

Autor: Niarakis A; Université Paris-Saclay, Laboratoire Européen de Recherche pour la Polyarthrite rhumatoïde - Genhotel, Univ Evry, Evry, France.; Lifeware Group, Inria, Saclay-île de France, Palaiseau, France., Ostaszewski M; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Mazein A; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Kuperstein I; Institut Curie, P.S.L. Research University, Paris, France.; INSERM, Paris, France.; MINES ParisTech, PSL Research University, CBIO-Centre for Computational Biology, Paris, France., Kutmon M; Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, Netherlands., Gillespie ME; Ontario Institute for Cancer Research, Toronto, ON, Canada.; St. John's University, Queens, NY, United States., Funahashi A; Department of Biosciences and Informatics, Keio University, Kanagawa, Japan., Acencio ML; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Hemedan A; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Aichem M; Department of Computer and Information Science, University of Konstanz, Konstanz, Germany., Klein K; Department of Computer and Information Science, University of Konstanz, Konstanz, Germany., Czauderna T; Faculty of Applied Computer Sciences & Biosciences, University of Applied Sciences Mittweida, Mittweida, Germany., Burtscher F; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Yamada TG; Department of Biosciences and Informatics, Keio University, Kanagawa, Japan., Hiki Y; Center for Biosciences and Informatics, Graduate School of Fundamental Science and Technology, Keio University, Kanagawa, Japan., Hiroi NF; Faculty of Creative Engineering, Kanagawa Institute of Technology, Kanagawa, Japan.; Keio University School of Medicine, Tokyo, Japan., Hu F; Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, Netherlands.; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands., Pham N; Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, Netherlands.; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands., Ehrhart F; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands., Willighagen EL; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands., Valdeolivas A; Institute for Computational Biomedicine, Heidelberg University, Faculty of Medicine, Heidelberg University Hospital, Bioquant, Heidelberg, Germany., Dugourd A; Institute for Computational Biomedicine, Heidelberg University, Faculty of Medicine, Heidelberg University Hospital, Bioquant, Heidelberg, Germany., Messina F; Department of Epidemiology, Preclinical Research and Advanced Diagnostic, National Institute for Infectious Diseases' Lazzaro Spallanzani' - IRCCS, Rome, Italy., Esteban-Medina M; Computational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.; Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocío, Sevilla, Spain., Peña-Chilet M; Computational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.; Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocío, Sevilla, Spain.; Bioinformatics in Rare Diseases (BiER), Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), FPS, Hospital Virgen del Rocio, Seville, Spain., Rian K; Computational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain., Soliman S; Lifeware Group, Inria, Saclay-île de France, Palaiseau, France., Aghamiri SS; Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, United States., Puniya BL; Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, United States., Naldi A; Lifeware Group, Inria, Saclay-île de France, Palaiseau, France., Helikar T; Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, United States., Singh V; Université Paris-Saclay, Laboratoire Européen de Recherche pour la Polyarthrite rhumatoïde - Genhotel, Univ Evry, Evry, France., Fernández MF; Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway., Bermudez V; Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway., Tsirvouli E; Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway., Montagud A; Barcelona Supercomputing Center (BSC.), Barcelona, Spain., Noël V; Institut Curie, P.S.L. Research University, Paris, France.; INSERM, Paris, France.; MINES ParisTech, PSL Research University, CBIO-Centre for Computational Biology, Paris, France., Ponce-de-Leon M; Barcelona Supercomputing Center (BSC.), Barcelona, Spain., Maier D; Labvantage-Biomax GmbH, Planegg, Germany., Bauch A; Labvantage-Biomax GmbH, Planegg, Germany., Gyori BM; Harvard Medical School, Laboratory of Systems Pharmacology, Boston, MA, United States., Bachman JA; Harvard Medical School, Laboratory of Systems Pharmacology, Boston, MA, United States., Luna A; Computational Biology Branch, National Library of Medicine, Bethesda, MD, United States.; Department of Systems Biology, Harvard Medical School, Boston, MA, United States., Piñero J; Medbioinformatics Solutions SL, Barcelona, Spain.; Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), Dept. of Medicine and Life Sciences, Universitat Pompeu Fabra (UPF), Barcelona, Spain., Furlong LI; Medbioinformatics Solutions SL, Barcelona, Spain.; Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), Dept. of Medicine and Life Sciences, Universitat Pompeu Fabra (UPF), Barcelona, Spain., Balaur I; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Rougny A; Biotechnology Research Institute for Drug Discovery, National Institute of Advanced Industrial Science and Technology (AIST), Aomi, Tokyo, Japan.; Com. Bio Big Data Open Innovation Lab. (CBBD-OIL), AIST, Aomi, Tokyo, Japan., Jarosz Y; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Overall RW; Institute for Biology, Humboldt University of Berlin, Berlin, Germany., Phair R; Integrative Bioinformatics, Inc., Mountain View, CA, United States., Perfetto L; Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome, Italy., Matthews L; Department of Biochemistry & Molecular Pharmacology, NYU. Langone Medical Center, New York, NY, United States., Rex DAB; Centre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Derlakatte, Mangalore, India., Orlic-Milacic M; Ontario Institute for Cancer Research, Toronto, ON, Canada., Gomez LCM; Institut Curie, P.S.L. Research University, Paris, France.; INSERM, Paris, France.; MINES ParisTech, PSL Research University, CBIO-Centre for Computational Biology, Paris, France., De Meulder B; Association E.I.S.B.M, Brignais, France., Ravel JM; Institut Curie, P.S.L. Research University, Paris, France.; INSERM, Paris, France.; MINES ParisTech, PSL Research University, CBIO-Centre for Computational Biology, Paris, France., Jassal B; Ontario Institute for Cancer Research, Toronto, ON, Canada., Satagopam V; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.; Frankfurt Institute for Advanced Studies, Johann Wolfgang Goethe-Universität Frankfurt, Frankfurt am Main, Germany., Wu G; Oregon Health Sciences University, Portland, OR, United States., Golebiewski M; Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Germany., Gawron P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Calzone L; Institut Curie, P.S.L. Research University, Paris, France.; INSERM, Paris, France.; MINES ParisTech, PSL Research University, CBIO-Centre for Computational Biology, Paris, France., Beckmann JS; University of Lausanne, Lausanne, Switzerland., Evelo CT; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands., D'Eustachio P; Department of Biochemistry & Molecular Pharmacology, NYU. Langone Medical Center, New York, NY, United States., Schreiber F; Department of Computer and Information Science, University of Konstanz, Konstanz, Germany.; Faculty of Information Technology, Monash University, Clayton, Victoria, VIC, Australia., Saez-Rodriguez J; Institute for Computational Biomedicine, Heidelberg University, Faculty of Medicine, Heidelberg University Hospital, Bioquant, Heidelberg, Germany., Dopazo J; Computational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.; Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocío, Sevilla, Spain.; Bioinformatics in Rare Diseases (BiER), Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), FPS, Hospital Virgen del Rocio, Seville, Spain.; FPS/ELIXIR-es, Hospital Virgen del Rocío, Sevilla, Spain., Kuiper M; Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway., Valencia A; Barcelona Supercomputing Center (BSC.), Barcelona, Spain.; I.C.R.E.A., Pg. Lluís Companys 23, Barcelona, Spain., Wolkenhauer O; Department of Systems Biology & Bioinformatics, University of Rostock, Rostock, Germany.; Leibniz Institute for Food Systems Biology, at the Technical University Munich, Munich, Germany., Kitano H; Systems Biology Institute, Tokyo, Japan., Barillot E; Institut Curie, P.S.L. Research University, Paris, France.; INSERM, Paris, France.; MINES ParisTech, PSL Research University, CBIO-Centre for Computational Biology, Paris, France., Auffray C; Association E.I.S.B.M, Brignais, France., Balling R; Institute of Molecular Psychiatry, University of Bonn, Bonn, Germany., Schneider R; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.

Publikováno v: Frontiers in immunology [Front Immunol] 2024 Feb 13; Vol. 14, pp. 1282859. Date of Electronic Publication: 2024 Feb 13 (Print Publication: 2023).

Exploring Thiazolopyridine AV25R: Unraveling of Biological Activities, Selective Anti-Cancer Properties and In Silico Target and Binding Prediction in Hematological Neoplasms.

Autor: Ladwig A; Department of Medicine, Clinic III-Hematology, Oncology and Palliative Care, Rostock University Medical Center, 18057 Rostock, Germany., Gupta S; Department of Systems Biology and Bioinformatics, University of Rostock, 18057 Rostock, Germany., Ehlers P; Institute of Chemistry, University of Rostock, 18057 Rostock, Germany., Sekora A; Department of Medicine, Clinic III-Hematology, Oncology and Palliative Care, Rostock University Medical Center, 18057 Rostock, Germany., Alammar M; Department of Medicine, Clinic III-Hematology, Oncology and Palliative Care, Rostock University Medical Center, 18057 Rostock, Germany., Koczan D; Core Facility Genomics, Rostock University Medical Center, 18057 Rostock, Germany., Wolkenhauer O; Department of Systems Biology and Bioinformatics, University of Rostock, 18057 Rostock, Germany., Junghanss C; Department of Medicine, Clinic III-Hematology, Oncology and Palliative Care, Rostock University Medical Center, 18057 Rostock, Germany., Langer P; Institute of Chemistry, University of Rostock, 18057 Rostock, Germany., Murua Escobar H; Department of Medicine, Clinic III-Hematology, Oncology and Palliative Care, Rostock University Medical Center, 18057 Rostock, Germany.

Publikováno v: Molecules (Basel, Switzerland) [Molecules] 2023 Dec 15; Vol. 28 (24). Date of Electronic Publication: 2023 Dec 15.