Prognostic factors for worsening and improvement in multiple sclerosis using a multistate model.

Autor: Ocampo A; Novartis Pharma AG, Basel, Switzerland., Hatami F; Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, Big Data Institute, University of Oxford, Oxford, UK., Čuklina J; Novartis Pharma AG, Basel, Switzerland., Graham G; Novartis Pharma AG, Basel, Switzerland., Ganjgahi H; Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, Big Data Institute, University of Oxford, Oxford, UK.; Department of Statistics, University of Oxford, Oxford, UK., Sun Y; Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, Big Data Institute, University of Oxford, Oxford, UK., Su W; Novartis Pharmaceuticals, East Hanover, NJ, USA., Mousseau MC; Novartis Ireland Ltd, Dublin, Ireland., Gardiner S; Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, Big Data Institute, University of Oxford, Oxford, UK., Pendleton SC; Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, Big Data Institute, University of Oxford, Oxford, UK., Aarden P; Novartis Pharma AG, Basel, Switzerland., Kieseier BC; Novartis Pharma AG, Basel, Switzerland., Arnold DL; McConnell Brain Imaging Centre, Montreal Neurological Institute and Hospital, McGill University, Montréal, QC, Canada., Bermel RA; Mellen Center for Multiple Sclerosis, Department of Neurology, Cleveland Clinic, Cleveland, OH, USA., Häring DA; Novartis Pharma AG, Basel, Switzerland., Nichols TE; Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, Big Data Institute, University of Oxford, Oxford, UK., Wiendl H; Department of Neurology with Institute of Translational Neurology, University Hospital Münster, Münster, Germany.; Brain and Mind Centre, The University of Sydney, Sydney, NSW, Australia.

Publikováno v: Multiple sclerosis (Houndmills, Basingstoke, England) [Mult Scler] 2024 Oct; Vol. 30 (11-12), pp. 1455-1467. Date of Electronic Publication: 2024 Sep 28.

Multiomic profiling of the liver across diets and age in a diverse mouse population.

Autor: Williams EG; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg. Electronic address: evan.williams@uni.lu., Pfister N; Department of Mathematical Sciences, University of Copenhagen, Copenhagen, Denmark., Roy S; Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA., Statzer C; Department of Health Sciences and Technology, ETH Zürich, Zurich, Switzerland., Haverty J; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Ingels J; Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA., Bohl C; Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA., Hasan M; Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, Zurich, Switzerland., Čuklina J; Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, Zurich, Switzerland., Bühlmann P; Department of Mathematics, Seminar for Statistics, ETH Zürich, Zurich, Switzerland., Zamboni N; Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, Zurich, Switzerland., Lu L; Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA., Ewald CY; Department of Health Sciences and Technology, ETH Zürich, Zurich, Switzerland., Williams RW; Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, USA., Aebersold R; Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, Zurich, Switzerland; Faculty of Science, University of Zürich, Zurich, Switzerland.

Publikováno v: Cell systems [Cell Syst] 2022 Jan 19; Vol. 13 (1), pp. 43-57.e6. Date of Electronic Publication: 2021 Oct 18.

Diagnostics and correction of batch effects in large-scale proteomic studies: a tutorial.

Autor: Čuklina J; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.; PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland.; IBM Research Europe, Rüschlikon, Switzerland., Lee CH; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland., Williams EG; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Luxembourg, Luxembourg., Sajic T; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland., Collins BC; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.; Queen's University Belfast, Belfast, UK., Rodríguez Martínez M; IBM Research Europe, Rüschlikon, Switzerland., Sharma VS; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland., Wendt F; Department of Health Sciences and Technology, Institute of Translational Medicine, ETH Zurich, Zurich, Switzerland., Goetze S; Department of Health Sciences and Technology, Institute of Translational Medicine, ETH Zurich, Zurich, Switzerland.; ETH Zürich, PHRT-CPAC, Zürich, Switzerland.; SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland., Keele GR; The Jackson Laboratory, Bar Harbor, ME, USA., Wollscheid B; Department of Health Sciences and Technology, Institute of Translational Medicine, ETH Zurich, Zurich, Switzerland.; ETH Zürich, PHRT-CPAC, Zürich, Switzerland.; SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland., Aebersold R; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.; Faculty of Science, University of Zurich, Zurich, Switzerland., Pedrioli PGA; Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.; Department of Health Sciences and Technology, Institute of Translational Medicine, ETH Zurich, Zurich, Switzerland.; ETH Zürich, PHRT-CPAC, Zürich, Switzerland.; SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland.

Publikováno v: Molecular systems biology [Mol Syst Biol] 2021 Aug; Vol. 17 (8), pp. e10240.

STAVER: a standardized benchmark dataset-based algorithm for effective variation reduction in large-scale DIA-MS data.

Autor: Ran, Peng¹ (AUTHOR), Wang, Yunzhi¹ (AUTHOR), Li, Kai¹ (AUTHOR), He, Shiman¹ (AUTHOR), Tan, Subei¹ (AUTHOR), Lv, Jiacheng¹ (AUTHOR), Zhu, Jiajun¹ (AUTHOR), Tang, Shaoshuai¹ (AUTHOR), Feng, Jinwen¹ (AUTHOR), Qin, Zhaoyu¹ (AUTHOR), Li, Yan¹ (AUTHOR), Huang, Lin¹ (AUTHOR), Yin, Yanan¹ (AUTHOR), Zhu, Lingli¹ (AUTHOR), Yang, Wenjun² (AUTHOR) chend@fudan.edu.cn, Ding, Chen^1,3 (AUTHOR) chend@fudan.edu.cn

Publikováno v: Briefings in Bioinformatics. Nov2024, Vol. 25 Issue 6, p1-13. 13p.

Novel multi-omics deconfounding variational autoencoders can obtain meaningful disease subtyping.

Autor: Li, Zuqi^1,2,3 (AUTHOR), Katz, Sonja^4,5,6 (AUTHOR), Saccenti, Edoardo⁵ (AUTHOR), Fardo, David W^7,8 (AUTHOR), Claes, Peter^2,9,10 (AUTHOR), Santos, Vitor A P Martins dos^6,11 (AUTHOR), Steen, Kristel Van^1,3 (AUTHOR), Roshchupkin, Gennady V^2,12 (AUTHOR) g.roshchupkin@erasmusmc.nl

Publikováno v: Briefings in Bioinformatics. Nov2024, Vol. 25 Issue 6, p1-11. 11p.