جست‌وجوی استاد و پژوهشگر

• Epigenetics
• Retroelements
• Transposable elements
• +۵ مورد دیگر

Didier Trono is a Full Professor at École Polytechnique Fédérale de Lausanne (EPFL), where he leads the Laboratory of Virology and Genetics (LVG) within the School of Life Sciences. Formerly, from 2004 to 2012, he served as the founding dean of EPFL's Faculty of Life Sciences, orchestrating its development and growth during this formative period. Trono received his medical education at the University of Geneva, followed by clinical training in pathology, internal medicine, and infectious diseases in Geneva and at Massachusetts General Hospital in Boston. His scientific career began at the Whitehead Institute of MIT, and in 1990 he was recruited by the Salk Institute of San Diego to launch an AIDS research center. After seven years in the United States, he returned to Europe and eventually joined EPFL. Dr. Trono's research has evolved significantly over his career. Initially focusing on virus-host interactions, he studied pathogens like HIV and Hepatitis B virus, creating HIV-derived genetic transfer tools that are now successfully used in gene therapy. For approximately the last fifteen years, his research has centered on epigenetics, particularly exploring the impact of retroelements and their control mechanisms on development and physiology of higher organisms, including humans. His laboratory investigates how transposable elements and KRAB zinc finger proteins regulate gene expression, with important implications for understanding cancer biology and developing new diagnostic and therapeutic approaches. Analysis of his recent publications (2022-2024) reveals a strong focus on transposable elements, KRAB zinc finger proteins, and their roles in gene regulation and cancer. His work combines molecular biology, genomics, and bioinformatics approaches to understand how these ancient viral remnants have been co-opted by the host genome to regulate development and cellular functions. The research spans basic molecular mechanisms to potential clinical applications in cancer diagnosis and therapy, with some recent work also addressing SARS-CoV-2 and immune responses. Throughout his career, Professor Trono has mentored numerous PhD students, including Bojkowska Karolina, Brandão Sanches Vong Martins Filipe Amândio, Bulliard Yannick, Coluccio Andrea, Corsinotti Andrea, Coudray Alexandre, De Tribolet-Hardy Jonas Caspar, and Dorschel Iris Arianna. His laboratory has received significant funding to support research at the intersection of virology, genetics, and epigenetics, contributing to EPFL's reputation as a leading institution in life sciences research. The Trono Laboratory continues to be at the forefront of research on retroelements and their regulatory mechanisms, maintaining a vibrant research environment that bridges fundamental biological questions with potential medical applications, particularly in cancer research and precision medicine.

• Bioinformatics
• Machine Learning
• Deep Learning
• +۵ مورد دیگر

Ole Winther is Professor in High dimensional biological data analysis/Machine learning at the Department of Biology, University of Copenhagen and Professor in Data science and complexity at DTU Compute, Technical University of Denmark. He serves as CRO and co-founder of raffle.ai, CTO and co-founder of FindZebra, Head of ELLIS Unit Copenhagen, and co-PI of the Machine Learning for Life Science Center. His research spans Bioinformatics , Machine Learning , and AI for Science , focusing on applying deep learning to biological sequence analysis, latent variable models, and medical NLP. Winther's work develops predictive and generative models for bioinformatics, with significant contributions to protein localization tools (SignalP, DeepLoc, DeepTMHMM), single-cell genomics, and novel deep learning architectures like variational autoencoders and diffusion models. Analysis of Winther's recent publications (2023-2025) reveals a strong trend toward integrating protein language models with traditional bioinformatics approaches and applying diffusion models to scientific problems. His work bridges theoretical machine learning advancements with practical applications in biology and medicine, particularly in protein sequence analysis, medical search engines, and scientific simulation acceleration. Winther currently supervises a diverse research group including Panagiotis Antoniadis, Rachael M. DeVries, Jun Wang, Beatrix M. G. Nielsen, Felix G. Teufel, Irene R. Rodriguez, Anders Christensen, and Christopher Heje Grønbech. His former students have established successful careers at institutions including Google, Apple, and various startups, with notable alumni like Casper Sønderby (Google Brain) and Søren Sønderby (Apple). He leads significant research initiatives including the ELLIS Unit Copenhagen and the Machine Learning for Life Science Center, while maintaining active industry partnerships through his co-founded companies raffle.ai (enterprise search using NLP) and FindZebra (search engine for rare diseases). His teaching includes Deep Learning courses at both DTU (02456) and University of Copenhagen (NDAK24002U).

Klaus F.X. Mayerمشاهده پروفایل

استاد

• Plant Genomics
• Bioinformatics
• Crop Science
• +۳ مورد دیگر

Prof. Dr. Klaus Mayer serves as Director of the Plant Genome and Systems Biology (PGSB) research group at Helmholtz Zentrum München and holds an Honorary Professorship at the Technical University of Munich (TUM) School of Life Sciences since 2015. His work bridges environmental health research and academic instruction, focusing on genomic solutions for global food systems under climate stress. His academic foundation includes: PhD in Plant Developmental Biology from Eberhard-Karls-Universität Tübingen (1994-1997) Postdoctoral research at Max Planck Institute for Biochemistry (1997-1999) Mayer's research decodes genomes of staple crops (wheat, rye, barley, sorghum) to develop climate-resilient varieties, enhance food security, and investigate plant allergen-human health interactions. His team employs advanced bioinformatics and big data analytics to study genetic diversity in orphan crops and plant-microbe ecosystems, prioritizing translational applications for sustainable agriculture under extreme environmental conditions. Scientific Recognition: IWGSC Outstanding Leadership Award (2015) for wheat genome sequencing leadership Leading the PGSB group, Mayer coordinates international consortia including the International Wheat Genome Sequencing Consortium. His current DFG-funded projects explore plant-microbe interaction genomics and virtual research data infrastructure, demonstrating commitment to interdisciplinary collaboration for planetary health solutions.

• Data Science
• Machine Learning
• Computational Harmonic Analysis
• +۶ مورد دیگر

Pierre Vandergheynst is a Full Professor at the Swiss Federal Institute of Technology Lausanne (EPFL) in the Department of Electrical Engineering, with a courtesy appointment in Computer and Communication Sciences. He serves as EPFL’s Vice-Provost for Education since 2015 and leads the Signal Processing Laboratory 2 (LTS2). His research spans harmonic analysis, sparse approximations, mathematical data processing, and applications in signal/image processing, computer vision, machine learning, and graph-based data analysis. PhD in Mathematical Physics (1998), Université catholique de Louvain Postdoctoral Researcher at EPFL (1998-2001) Assistant Professor at EPFL (2002-2007) His research explores geometry/symmetry in high-dimensional data, redundant dictionaries for dimensionality reduction, and computational harmonic analysis on manifolds. Recent work focuses on protein structure modeling, geometric deep learning, and graph-based signal processing. Key article trends include graph neural networks for protein analysis, geometric deep learning in neuroscience, and structured knowledge priors in neural models. His 2023-2025 publications emphasize interpretable AI, long-range dependencies in graphs, and molecular representation learning. Scientific Awards: IEEE Signal Processing Magazine Best Paper Award (2023) Signal Processing Society Best Paper Award (2022) Apple ARTS Award (2007) De Boelpaepe Prize, Royal Academy of Sciences of Belgium (2009-2010) He has supervised over 30 PhD theses and contributed to foundational work in graph signal processing, compressive sensing, and geometric deep learning. His lab develops tools for data science on non-Euclidean structures, with applications in medicine, astronomy, and wireless systems.

Qianwen Wangمشاهده پروفایل

استادیار

• Interactive Visualization
• Interpretable Machine Learning
• Human-AI Collaboration
• +۵ مورد دیگر

Qianwen Wang is a tenure-track Assistant Professor in the Computer Science department at the University of Minnesota, Twin Cities. Her research combines interactive visualization with interpretable machine learning to foster intuitive, efficient, and reliable Human-AI collaboration. She actively seeks motivated students, research assistants, and interns to join her dynamic research team at UMN CS. Dr. Wang's research focuses on three primary themes: Human-AI Collaboration, where she designs tools to facilitate Human-AI interaction; Automatic & Intelligent Visualization, where she develops techniques to make visualizations accurately interpreted and easily used; and VIS+(X)AI in Biomed/Healthcare, where she studies how visualization and explainable AI can promote scientific discoveries in biomedicine and healthcare. Her work has made significant contributions to visualization, human-computer interaction, and bioinformatics, with particular applications in biomedical knowledge graphs and single-cell omics analysis. Her recent publications demonstrate a strong trend toward integrating visualization with large language models and graph neural networks for biomedical applications. She has published extensively at top venues including IEEE VIS, ACM CHI, and Nature Medicine, with a focus on making AI systems more interpretable and useful for domain experts, particularly in healthcare contexts. Her work often bridges theoretical advances in visualization with practical applications in genomics and healthcare. Two IEEE VIS Honorable Mention Awards (2022, 2024) Best Paper Award from IMLH@ICML 2021 Two Best Abstract Awards from BioVis ISMB (2021, 2022) HDSI Postdoctoral Research Fund Award Research covered by MIT News and Nature Technology Features Dr. Wang actively contributes to the academic community through service roles including General Chair for ISMB BioVis, VisNotes and Poster Chair for IEEE PacificVis, and Program Committee member for IEEE VIS, ACM CHI, and ACM IUI. Her research has been supported by various grants that enable her team to develop innovative visualization techniques and explore their practical applications in biomedical domains. Her research group maintains an active presence in the visualization and HCI communities, with members participating in major conferences and workshops. The lab focuses on creating tools that bridge the gap between complex AI models and human understanding, with particular emphasis on making these technologies accessible and useful for domain experts in biomedical research.

Laura Eloمشاهده پروفایل

استاد

• Computational Biomedicine
• Medical Bioinformatics
• Data Science
• +۷ مورد دیگر

Laura Elo serves as Professor of Computational Medicine and Head of the Medical Bioinformatics Centre at the University of Turku, Finland. She concurrently holds the position of Research Director at Turku Bioscience Centre and acts as InFLAMES Flagship Contact, driving interdisciplinary biomedical research initiatives. Her academic foundation includes a PhD in Applied Mathematics (2007) and Adjunct Professorship in Biomathematics (2011), establishing her quantitative expertise before transitioning into biomedical applications. Her research program focuses on transforming molecular and clinical datasets through statistical modeling and advanced machine learning . Key thrusts include robust computational tools for proteome/epigenome analysis, AI-driven digital health diagnostics, and computational systems immunology for immune-mediated diseases. This work directly addresses challenges in reproducibility and scalability of high-throughput biotechnology data. Analysis of her recent publications reveals dominant themes in type 1 diabetes biomarker discovery , multi-omics integration , and immune system modeling , with strong emphasis on clinical translation through collaborations with experimental and medical teams. Her scientific recognition includes: JDRF Career Development Award Professor Elo actively trains MSc/PhD students and postdoctoral fellows while leading major research initiatives including ERC grants. Her teaching portfolio spans Bioinformatics Journal Club, AI in Diagnostics, and Systems Biology courses. The Elo Lab (https://elolab.utu.fi) operates as a hub for computational biomedicine, developing open-source tools like CellRomeR while maintaining close ties with Turku Bioscience Centre's experimental facilities for validating computational predictions in immunology and metabolic disease contexts.

Lyle Ungarمشاهده پروفایل

استاد

• Machine Learning
• Deep Learning
• Natural Language Processing
• +۱۵ مورد دیگر

Lyle Ungar is a Professor at the Department of Computer and Information Science at the University of Pennsylvania . He is affiliated with multiple graduate groups, including Genomics and Computational Biology in the School of Medicine , Operations, Information and Decisions in the Wharton School , and Psychology in the School of Arts and Sciences . His research focuses on explainable machine learning , deep learning , and natural language processing for psychology and medical research , analyzing social media and sensor data to understand well-being, empathy, and stress. His work spans bioinformatics , applied economics , and group decision-making . Recent publications examine LLM-based tutoring , cross-cultural translation , and AI in palliative care , showing trends in reinforcement learning , mobile health , and health data analytics . He has contributed to Google Scholar , PubMed , and DBLP with over 15 papers since 2023. Scientific Awards : 2019 Alan I. Leshner Leadership Institute Public Engagement Fellow His students include Vitoria Aquino Guardieiro , Yihao Li , and co-advised researchers like Shreya Havaldar with Eric Wong. He leads projects at interdisciplinary centers such as the Annenberg Public Policy Center , Center for Cognitive Neuroscience , and Institute for Translational Medicine .

Wengong Jinمشاهده پروفایل

استادیار

• AI for drug discovery
• Generative AI models
• Geometric deep learning
• +۵ مورد دیگر

Wengong Jin is an Assistant Professor at the Khoury College of Computer Sciences, Northeastern University, and a visiting research scientist at the Eric and Wendy Schmidt Center at the Broad Institute. He holds a PhD from MIT CSAIL, advised by Prof. Regina Barzilay and Prof. Tommi Jaakkola. Research Interests: His work focuses on geometric and generative AI models for drug discovery, biology, and chemical engineering. Key areas include equivariant neural networks (e.g., FAFormer), diffusion models for binding energy prediction, antibody/enzyme design (RefineGNN, SurfPro), and molecular design through graph neural networks (Junction Tree VAE). He also explores domain generalization and systems for autonomous molecular discovery. Publications: His research has been published in top venues like NeurIPS, ICLR, ICML, Nature, Science, and Cell. Recent breakthroughs include discovering novel antibiotics using explainable AI and designing synergistic drug combinations for cancer treatment. Awards: He has received the BroadIgnite Award, Dimitris N. Chorafas Prize, and MIT EECS Outstanding Thesis Award for his contributions to computational biology and AI-driven drug discovery. Teaching: Currently teaches a PhD seminar on AI for Science, focusing on integrating machine learning into scientific discovery processes.

• Microbial Genomics
• Gut Microbiome
• Aging and Healthy Aging
• +۴ مورد دیگر

Paul O'Toole is a Professor of Microbial Genomics and Principal Investigator at the APC Microbiome Ireland, University College Cork. His research focuses on the gut microbiome's role in health, aging, and disease, particularly in the context of diet and probiotics. He leads projects like the ELDERMET study on elderly nutrition and the NU-AGE project exploring Mediterranean diets' anti-aging effects. He holds a BA (Mod.) from Trinity College Dublin and a PhD from Lund University, with postdoctoral training in Canada and New Zealand. Key grants include studies on dairy-derived microbiota, probiotic strain improvement, and microbiome analysis in aging populations. He has published extensively on Lactobacillus genomics, gut-brain interactions, and microbiome-driven health outcomes. His work bridges fundamental microbiology with clinical applications, emphasizing translational research. Scientific highlights include discovering microbiome links to cognitive decline, demonstrating dietary modulation of gut microbes to combat obesity, and identifying keystone species in healthy aging. He advocates for sustainability in conservation and food systems, reflecting his interdisciplinary approach to global health challenges.

• Immunology
• Genomics
• Multiomics Analysis
• +۳ مورد دیگر

Calliope Dendrou is an Associate Professor in Clinical Pathology and Inflammation at the Kennedy Institute of Rheumatology (KIR), University of Oxford, leading the Immune Disease Multiomics Laboratory. She previously held a Wellcome & Royal Society Sir Henry Dale Fellowship at the University of Oxford’s Centre for Human Genetics before joining KIR in 2023. Her research focuses on immune disease mechanisms using multiomics approaches, including genomic profiling to identify therapeutic targets across tissues and immune-mediated diseases. She co-leads large-scale projects like the Oxford-J&J Cartography Consortium and the Chan Zuckerberg Initiative’s LEGACY Network, and teaches on the MSc in Genomic Medicine program. Educational Background: BSc (Biology, Imperial College London, 2005; Forbes Memorial Medal Winner); PhD in Infection & Immunity (University of Cambridge, 2010). Postdoctoral training at the Weatherall Institute of Molecular Medicine under Prof. Lars Fugger. Research interests include immunogenetics, cytokine signaling pathways, drug repositioning, and cross-disease pathophysiology. Her work integrates single-cell and spatial transcriptomics to dissect immune-cell interactions in diseases like rheumatoid arthritis, inflammatory bowel disease, and celiac disease. Recent articles highlight her contributions to understanding vaccine adjuvant responses, Th17 cell roles in spondyloarthritis, and immune-epithelial networks in celiac disease. Collaborations emphasize multi-omic data analysis (e.g., Panpipes pipeline) and translational studies toward precision medicine. Awards: Forbes Memorial Medal (BSc), Wellcome & Royal Society Sir Henry Dale Fellowship. Leadership roles include Equality, Diversity, and Inclusion Champion and 'Single-Cell & Spatial Omics for Precision Medicine' Module Lead. Lab & Teams: Immune Disease Multiomics Lab at KIR. Active in collaborative initiatives such as the LEGACY Network, focusing on large-scale immune profiling in ancestrally diverse populations.

Muhammad Abdul-Mageedمشاهده پروفایل

دانشیار

• Natural Language Processing
• Deep Learning
• Socio-Pragmatics
• +۵ مورد دیگر

Dr. Muhammad Abdul-Mageed is an Associate Professor in the School of Information at The University of British Columbia, with joint appointments in Linguistics and an associate membership in Computer Science. He holds the Canada Research Chair in Natural Language Processing and Machine Learning. His research focuses on deep learning, socio-pragmatics, and speech/language technologies, particularly for Arabic and African languages. He leads the UBC Deep Learning & NLP Group and co-directs SSHRC-funded grants like I Trust AI and Ensuring Full Literacy. He is a founding member of the Center for Artificial Intelligence Decision making and Action and a member of the Institute for Computing, Information, and Cognitive Systems. His work spans automatic speech recognition, machine translation, computational socio-pragmatics, and low-resource language technologies. Notable projects include developing Arabic speech recognition systems, multidialectal Arabic benchmarks, and tools for African language processing. He has authored over 100 peer-reviewed papers and leads initiatives like the NADI Arabic Dialect Identification shared task and the NileChat project for culturally-aware LLMs. His research aims to create equitable, socially-aware AI systems for health, social media, and information management.

David R. Koesمشاهده پروفایل

دانشیار

• Computational Drug Discovery
• Machine Learning in Biology
• Open Source Software
• +۳ مورد دیگر

David R. Koes is an Associate Professor in the Department of Computational and Systems Biology at the University of Pittsburgh, affiliated with the School of Medicine. He holds roles such as Associate Director of the Joint CMU-Pitt Computational Biology PhD Program (CPCB) and is involved in multiple graduate programs including Intelligent Systems and Computational Biomedicine. His research focuses on developing computational algorithms and systems for drug discovery, emphasizing open-source software and machine learning applications in biomedical data. Koes teaches courses like MSCBIO2025 (Bioinformatics Programming in Python) and MSCBIO2065 (Scalable Machine Learning for Big Data Biology). He has secured NIH funding (R35GM140753) and collaborated on projects with institutions like NVIDIA and Google Cloud. His lab develops tools such as GNINA, Pharmit, and 3Dmol.js, and actively contributes to open drug discovery initiatives. Education: PhD in Computer Science from Carnegie Mellon University (CMU). Research Interests: Leveraging computation and AI for drug design, molecular docking, pharmacophore modeling, and open science. Specific areas include developing scalable machine learning pipelines, virtual screening systems, and tools for 3D molecular analysis. Grants and Funding: Current NIH R35 grant and prior support from NSF, Relay Therapeutics, and others. His work emphasizes translating computational methods into practical drug discovery solutions. Lab and Teams: Directs a lab focused on computational drug discovery, collaborating with multiple academic and industry partners. Supervises graduate students and postdocs in projects spanning AI-driven drug design, molecular modeling, and software development.

Ahmet Acarمشاهده پروفایل

دانشیار

• Cancer Biology
• Precision Medicine
• Drug Resistance Mechanisms
• +۳ مورد دیگر

Dr. Ahmet Acar is an Associate Professor at the Department of Biological Sciences, Middle East Technical University (METU), Ankara, Turkey. He leads the Cancer Precision Medicine and Drug Resistance Laboratory, focusing on understanding mechanisms of drug resistance in cancer. His research integrates experimental models, next-generation sequencing, and deep learning to address clinical challenges in cancer therapy. Dr. Acar holds a B.Sc. from METU's Biological Sciences department and a Ph.D. from the Cancer Research UK Manchester Institute. He completed postdoctoral training at the Institute of Cancer Research, London, and the University of Manchester. Research Interests: Drug resistance mechanisms, precision oncology, tumor microenvironment modeling, patient-derived organoids, computational pathology, and evolutionary cancer biology. His lab develops 2D/3D co-culture systems, PDO biobanks, and AI-driven histopathology tools to improve treatment strategies. Recent Work Trends: Recent publications emphasize tumor evolution modeling, matrix mechanics in drug resistance, and AI applications in histopathology. Collaborations with hospitals in Turkey and Europe support PDO biobank initiatives. His team explores evolutionary steering strategies to exploit collateral drug sensitivities. Labs/Teams: Precision Medicine and Drug Resistance Lab at METU focuses on interdisciplinary approaches combining wet-lab experiments with computational methods. Current projects include ex vivo tumor modeling and AI-driven diagnostic tools for oncology.

Kelly Arnoldمشاهده پروفایل

دانشیار

• Biomedical Computation and Modeling
• Drug Delivery and Therapeutics
• Systems Immunology
• +۵ مورد دیگر

Kelly Arnold is an Associate Professor in the Department of Biomedical Engineering at the University of Michigan. Her research integrates systems engineering principles with immunology to investigate variability in immune responses across infection, vaccination, and injury, with a focus on computational modeling and clinical translation. Research Focus Systems-level immune response modeling Vaccination and antibody functionality Vaginal microbiome-host interactions Chronic lung disease progression Computational serology and proteomics Recent Work Her 2025 studies examine SARS-CoV-2 vaccination responses in cancer patients and computational frameworks for vaginal probiotics. Earlier works (2024-2007) span COPD progression, lupus fibrosis, HIV susceptibility, and tissue engineering for fertility preservation. Methodologies include proteomic profiling, network modeling, and microfluidic systems.

Xiaoxiao Liمشاهده پروفایل

استادیار

• Federated Learning
• Medical Imaging Analysis
• AI Fairness and Trustworthiness
• +۷ مورد دیگر

Dr. Xiaoxiao Li is an Assistant Professor in the Electrical and Computer Engineering Department at the University of British Columbia (UBC), with joint appointments in Computer Science (Associate Member) and the School of Medicine at Yale University (Adjunct Assistant Professor). She is also a Canada CIFAR AI Chair and Canada Research Chair (Tier II) in Responsible AI. Her research focuses on enhancing trustworthiness, fairness, and efficiency in AI algorithms and foundation models, particularly in healthcare applications. Education: B.S. (Honors) in Zhejiang University (2015), Ph.D. in Biomedical Engineering from Yale University (2020), Postdoc at Princeton University (2020-2021). She leads the Trusted and Efficient AI (TEA) Lab at UBC, which develops algorithms for federated learning, medical imaging analysis, and interpretable AI systems. Research interests include federated learning, generative models, medical image analysis, AI fairness, and graph-based methods for neuroimaging. Recent projects include GMValuator (data valuation for generative models), FairMedFM (fairness benchmarking in medical AI), and FedTextGrad (textual gradient-based FL optimization). Grants: Canada Foundation for Innovation Grant (2023), UBC Green Lab Fund (2023), Vector Institute funding Teaching: Courses on machine learning, federated learning, and AI ethics at UBC Awards & Recognition: Best Paper Award at FL@FM WWW 2024, Editorial Board Member of Medical Image Analysis , multiple top-tier conference acceptances (NeurIPS, ICLR, CVPR, MICCAI). Lab & Teams: TEA Lab collaborates with industry and hospitals to translate AI research into clinical tools. Current projects address AI fairness in healthcare, federated learning for medical data, and multimodal medical analytics.