جستجوی استاد راهنمای دانشگاهی

• 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).

Michele Klingbeilمشاهده پروفایل

استاد

• Parasitology
• Molecular Biology
• Microbiology
• +۴ مورد دیگر

Michele Klingbeil is a Professor in the Department of Microbiology at the University of Massachusetts Amherst, where she leads the Klingbeil DNA Replication Laboratory. She received her PhD in Cell and Molecular Biology from the University of Toledo in 1996 and previously worked at Johns Hopkins School of Medicine before moving to UMass in July 2007. Her educational background includes: PhD in Cell and Molecular Biology, University of Toledo, 1996 Dr. Klingbeil's research focuses on the unique biology of trypanosomatid parasites, particularly Trypanosoma brucei , the causative agent of African sleeping sickness. Her laboratory investigates two main areas: (1) replication of the unusual mitochondrial DNA network called kinetoplast DNA (kDNA), and (2) nuclear DNA replication initiation. Her work on kDNA is particularly significant as this structure is essential for parasite survival but has no counterpart in mammalian hosts, making it an attractive drug target. She employs a combination of reverse genetics (RNAi), cell biology, and biochemistry to understand the replication and repair mechanisms of kDNA, with a special focus on a family of four DNA polymerases related to bacterial Pol I. Dr. Klingbeil's recent publications reveal her laboratory's deep investigation into mitochondrial DNA polymerases in trypanosomatids, with discoveries showing multiple polymerases having specialized functions in kDNA replication and repair. Her research has established that several of these polymerases are essential for parasite viability, opening new avenues for drug development. She has also made significant contributions to understanding the simplified Origin Recognition Complex in trypanosomatids compared to other eukaryotes. Dr. Klingbeil has received the Thomas G. Lessie Distinguished Lectureship Award for her impact on teaching at the graduate level. Her research is funded by the National Institutes of Health, U.S. Department of Agriculture, the Joeph P. Healey Endowment, and the University of Massachusetts Amherst. She has mentored numerous graduate and undergraduate students, including current PhD candidates Dave Bruhn, Jeniffer Concepción, and Juemin Luo, as well as visiting scholar Eva Vidal Rico. Her former students have gone on to positions at institutions including Dana Farber/Broad Institute, Regis College, and Flagship Ventures. The laboratory regularly participates in scientific conferences including the Molecular Parasitology Meeting at Woods Hole and the Kinetoplastid Molecular Cell Biology conference. Dr. Klingbeil teaches several courses including Parasitology (MICRO 590S), Parasitology Lab (MICRO 590L), Molecular Mechanisms of Pathogenesis (MICRO 797P), Advanced Cell Biology (MCB 641), and Writing in Microbiology (MICRO 360). Her laboratory organizes regular social events including pumpkin carving parties and outings to Six Flags New England and Mt. Sugarloaf.

Amit R. Reddiمشاهده پروفایل

استاد

• Biochemistry
• Metalloproteins in biological regulation and disease
• Heme trafficking and signaling
• +۴ مورد دیگر

Amit R. Reddi is a Professor at the Department of Chemistry, Georgia Institute of Technology. His research focuses on metalloproteins, particularly the mechanisms of heme trafficking and redox signaling in relation to cancer, neurodegenerative disorders, and infectious diseases. He has received numerous awards for both research and teaching excellence. Education : B.A. from Carleton College (2003) Ph.D. from Columbia University (2008) NIH Postdoctoral Fellowship at Johns Hopkins University (2013) Research Interests : The Reddi laboratory investigates cellular mechanisms of metalloprotein activation and inter-biomolecular communication in metabolic and signaling pathways critical to human health. Key projects explore heme trafficking pathways and the role of Cu/Zn Superoxide Dismutase (SOD1) in redox signaling, with implications for cancer, neurodegenerative diseases, and microbial pathogenesis. Scientific Awards : Vasser Woolley Faculty Fellowship (2021) Student Recognition of Excellence in Teaching Class of 1934 Award (2021) CTL/BP Junior Faculty Excellence in Teaching Award (2019) Bergmann Memorial Award (2018) Blanchard Professorship (2016) NSF CAREER Award (2015) NIH NRSA Post-doctoral Fellowship (2008-2011) Grants & Fellowships : NSF CAREER Award (2015) Sigma Xi Grants-In-Aid-of-Research (2003) NIH Cancer Research Training Award Fellowship (1999-2001)

Markus Schwarzländerمشاهده پروفایل

استاد

• Plant Mitochondrial Physiology
• Redox Biology
• Biosensor Development
• +۳ مورد دیگر

Prof. Dr. Markus Schwarzländer leads the Arbeitsgruppe for Plant Energy Biology at the Institute for Plant Biology and Biotechnology (WWU Münster) . His research focuses on mitochondrial physiology, redox signaling, and biosensor development in Arabidopsis thaliana and other plant species, integrating molecular biology with systems-level analyses to understand energy regulation. Key Research Areas: Mitochondrial-NAD(P)H dynamics Redox-regulated signaling networks Organelle communication Stress-adaptive metabolism Recent work highlights Golgi-localized mitochondrial uncoupling proteins , chloroplast-mitochondria redox coupling , and mitochondrial calcium uniporter function . His group employs cutting-edge fluorescent biosensors and proteomic approaches to dissect energy physiology. Students benefit from hands-on training in bioimaging , metabolic modeling , and organelle biology through iMoPLANT and Life Sciences programs. Scientific Awards: DAAD Fellowship (2019) As an active member of the Faculty of Biology , he collaborates with international institutions including University of São Paulo , CEA France , and Siberian Institute of Plant Physiology , while maintaining a robust publication record in top journals like Plant Cell and Nature . His teaching emphasizes integrative plant sciences and advanced biosensing techniques for B.Sc. and M.Sc. students.

Jens S. Andersenمشاهده پروفایل

استاد

• Proteomics
• Quantitative Mass Spectrometry
• Cell Biology
• +۱۱ مورد دیگر

Jens S. Andersen is a Professor in the Department of Biochemistry and Molecular Biology at the University of Southern Denmark, where he leads research in Biomedical Mass Spectrometry and Systems Biology. His work is centered on the development and application of quantitative mass spectrometry and microscopy-based proteomics to study human cell biology, particularly the structure and function of organelles such as centrosomes, cilia, autophagosomes, and mitochondria. His research focuses on determining the protein composition and dynamic properties of cellular organelles, the roles of specific protein groups, and their contributions to biological processes and diseases. He investigates cell signaling mediated by post-translational modifications, especially within the DNA damage response, autophagy, and immune systems. His lab, the Jens S. Andersen Lab, is part of the Research Section of Biomedical Mass Spectrometry. The analysis of his recent publications reveals a strong interdisciplinary trend combining proteomics, structural biology, and cell signaling. His work spans cilia biology, RNA metabolism, DNA repair, and cancer mechanisms, with frequent use of advanced techniques like mass spectrometry, CRISPR, and live-cell imaging. The integration of systems biology approaches is evident across his research outputs. Professor, Department of Biochemistry and Molecular Biology, University of Southern Denmark Head of Research, Biomedical Mass Spectrometry and Systems Biology Principal Investigator, Jens S. Andersen Lab ORCID: 0000-0002-6091-140X While no specific scientific awards are mentioned in the provided texts, his extensive publication record in high-impact journals such as Science , Nature Communications , Molecular Cell , and EMBO Journal reflects significant scholarly contributions. He has supervised research projects and collaborated widely across Europe, though specific names of students are not listed. His research is supported by multiple ongoing projects, reflecting sustained funding and academic leadership. The Jens S. Andersen Lab operates at the intersection of proteomics and cell biology, contributing to fundamental understanding of organelle dynamics and disease mechanisms. The lab's work is highly collaborative, involving partnerships with groups in structural biology, RNA research, and cancer biology.

Jacques Archambaultمشاهده پروفایل

استاد

• Human Papillomavirus (HPV)
• Polyomavirus
• Viral DNA Replication
• +۴ مورد دیگر

Dr. Jacques Archambault is a Professor in the Department of Microbiology and Immunology at McGill University , and an associate member of the Division of Experimental Medicine since 2016. His research focuses on the molecular biology and pathogenesis of human papillomaviruses (HPVs) and polyomaviruses (HPyVs), with an emphasis on their replication mechanisms as episomes in host cells. The Archambault laboratory employs functional genomics, proteomics, and chemical biology approaches to identify cellular pathways exploited by these viruses and develop high-throughput assays for screening small molecule inhibitors of viral replication. Analysis of his recent publications reveals a strong focus on HPV and HPyV replication machinery, including studies on the E1 helicase, UAF1-USP1 interactions, and structural characterization of viral proteins involved in DNA replication. His work bridges virology, oncology, and drug discovery, particularly targeting oncogenic HPV types implicated in anogenital and oropharyngeal cancers, as well as HPyVs like BKPyV and JCPyV that cause pathologies in immunosuppressed patients. Current efforts in the lab aim to elucidate the molecular mechanisms by which HPVs and HPyVs replicate their genomes and to develop antiviral therapies targeting these processes. Techniques such as fluorescence anisotropy, NMR spectroscopy, and crystallography are frequently employed to study protein-DNA and protein-protein interactions critical to viral replication.

Thomas Walterمشاهده پروفایل

استاد

• Biomedical Image Analysis
• Machine Learning
• Computational Pathology
• +۴ مورد دیگر

Thomas Walter is a Professor at Mines ParisTech and Director of the Centre for Computational Biology (CBIO) , a research group affiliated with the Institut Curie and INSERM . His work focuses on applying Machine Learning and Computer Vision to biomedical image analysis, particularly in high-content screening and computational pathology . He also serves as Deputy Director of the Computational Oncology (U1331) unit and leads the Statistical Learning and Modeling of Biological Systems team. PhD in Medical Image Analysis (2003, Mines ParisTech) Postdoctoral work at EMBL (European Molecular Biology Laboratory) Director of CBIO since 2018 Holder of a PRAIRIE Chair (Paris Artificial Intelligence Research Institute) since 2019 Dr. Walter's research bridges biomedical imaging , machine learning , and cancer genomics . Key areas include: Statistical reconstruction of biological networks Prediction of tumor progression at genomic/transcriptomic levels Development of deep learning methods for cell cycle analysis Integration of multi-omics data for precision oncology Tools for spatial transcriptomics (e.g., autoFISH, RNA2seg) Recent publications highlight his work in spatial transcriptomics , immunotherapy outcome prediction , and deep learning for digital pathology . His team has developed open-source tools like FISH-quant and pyHiM for single-molecule RNA imaging analysis. Scientific Honors: PRAIRIE Chair (2019) for AI research in life sciences Dr. Walter actively contributes to teaching deep learning for image analysis in multiple graduate programs across France, including courses at Mines ParisTech , Université Paris-Saclay , and Institut Curie . His software tools (FISH-quant, pyHiM) and methodological frameworks (e.g., Cut-Detector, PointFISH) have become standard resources in bioimage informatics.

Bertrand Jean-Claudeمشاهده پروفایل

استاد

• Cancer Drug Research
• Pharmacokinetics
• Molecular Modeling
• +۳ مورد دیگر

Bertrand Jean-Claude serves as a Senior Scientist at the Research Institute of the McGill University Health Centre (RI-MUHC) at the Glen site and holds a Professorship in the Department of Medicine within McGill University's Faculty of Medicine and Health Sciences. His primary affiliation lies with the Metabolic Disorders and Complications Program under the Centre for Translational Biology. His research centers on innovative anticancer drug development, specifically focusing on the design and synthesis of multitargeted drug candidates engineered to simultaneously block multiple pathways in tumor cells. Key methodologies include kinase inhibitor development , molecular modeling , and pharmacokinetic analysis of combi-drugs—hybrid molecules designed for dual mechanisms of action such as EGFR receptor inhibition coupled with DNA damage. His publication history reveals consistent contributions to molecular oncology, with recent work emphasizing EGFR and DNA repair pathway dual targeting Fluorescence-based drug distribution tracking Overcoming P-glycoprotein-mediated drug resistance Stable combi-molecule fragmentation mechanisms His work bridges medicinal chemistry and translational cancer research, aiming to develop more effective tumor-selective therapies. Jean-Claude maintains active laboratory operations within the RI-MUHC's Centre for Translational Biology, where his team investigates combi-targeting strategies for oncology applications. His research program receives support through institutional frameworks of McGill University and the RI-MUHC, with emphasis on translating molecular discoveries into preclinical therapeutic candidates.

• Virology
• Molecular Pathology
• Host-Pathogen Interactions
• +۵ مورد دیگر

Dr. Richard Y. Zhao is a tenured Professor in the Department of Pathology and Microbiology-Immunology at the University of Maryland School of Medicine. His research combines molecular biology, fission yeast genetics, mammalian biology, and virology to study virus-host interactions, particularly for HIV and Zika virus. He previously held academic positions at Northwestern University and Columbia University and has contributed to over 120 peer-reviewed articles. B.S., China Oceanography University (1981) M.S., Oregon State University (1995) Ph.D., Oregon State University (1991) Postdoctoral Training, Columbia University (1991-1992) Dr. Zhao's research focuses on: Virus-host interactions and pathogenicity High-throughput drug screening for antivirals Role of viral proteins in neuroinflammation and cancer Translational genomics in precision medicine His recent publications highlight SARS-CoV-2 ORF3a, Zika envelope proteins, and HIV protease inhibitors, emphasizing host-pathogen mechanisms across species. He has served on NIH panels and editorial boards for journals like Cell Research and Retrovirology . Scientific awards include: Fellow, American Academy of Microbiology (2019) Bernard L Mirkin Endowed Chair (2001-2004) Honorary Director, Shandong Gallo Institute (2009) Distinguished Service from SCBA (2015) Outstanding Service from CBA-USA (2016) Dr. Zhao also contributes to clinical diagnostics and personalized medicine through molecular testing and pharmacogenetics programs.

• Organoid Engineering
• Systems Biology
• Developmental Biology
• +۳ مورد دیگر

Keisuke Ishihara is an Assistant Professor in the Department of Computational and Systems Biology at the University of Pittsburgh School of Medicine. His research focuses on engineering human brain and cardiac organoids using genetic, chemical, and computational approaches to uncover novel regulatory mechanisms and physical principles underlying tissue development. His lab is located at Biomedical Science Tower 3, with an office in room 10020A. Dr. Ishihara holds a PhD in Systems Biology from Harvard University. His work bridges synthetic biology, developmental biology, and biophysics to address fundamental questions in organogenesis and cellular morphogenesis. Recent research highlights include studies on BMP-mediated neural tube patterning in organoids and the biophysical dynamics of microtubule assemblies in large cells. Publications from his lab emphasize interdisciplinary approaches to understand cell size scaling, mitotic spindle dynamics, and self-organization in synthetic tissues. His team has contributed to advancements in organoid technology, uncovering dormant genetic programs and physical principles governing tissue architecture. Laboratory activities are centered at the University of Pittsburgh, collaborating with the School of Medicine's computational and systems biology initiatives. For more details, visit his lab website linked below.

• Biomedical Imaging
• X-ray Computed Tomography
• Phase-Contrast Imaging
• +۶ مورد دیگر

Prof. Julia Herzen holds the Associate Professorship of Physics in Biomedical Imaging at the Department of Physics , TUM School of Natural Sciences , Technical University of Munich . Her research focuses on advancing X-ray imaging techniques using synchrotron radiation and laboratory sources, with applications in medical diagnostics and tissue analysis. Position: Associate Professor Department: Physics School: TUM School of Natural Sciences University: Technical University of Munich Contact: julia.herzen@tum.de Her core research interests include: Quantitative multi-modal X-ray imaging (spectral & phase-contrast) 3D virtual histology of human tissue Breast cancer detection improvement Lung disease imaging (emphysema, pneumonia) X-ray phase-contrast tomography Dark-field imaging material decomposition Recent publications demonstrate expertise in dark-field imaging for lung pathology , phase-contrast CT for organoid visualization , and spectral X-ray applications in multi-material differentiation . Her team explores clinical translation of X-ray techniques for non-invasive diagnostics . She supervises PhD students and teaches Biomedical Engineering courses, including: Quantitative X-Ray Imaging (3 VI) Image Processing in Physics (2 VO) Biostatistics (2 VO) Advanced Lab Courses in X-ray Micro-CT

Miler T. Leeمشاهده پروفایل

دانشیار

• Gene Regulation
• Developmental Biology
• Computational Genomics
• +۹ مورد دیگر

Miler T. Lee is an Associate Professor at the University of Pittsburgh , focusing on gene regulation during early embryonic development through high-throughput experimental and computational genomics. He earned his Ph.D. in Genomics and Computational Biology in 2009 from the University of Pennsylvania under Dr. Junhyong Kim, followed by postdoctoral work with Dr. Antonio Giraldez at Yale University. Joining the university in 2016, his research spans maternal-to-zygotic transition (MZT), RNA stability, pluripotency networks, and evolutionary developmental biology, utilizing model organisms like zebrafish, Xenopus, and Hydractinia symbiolongicarpus. Key Research Themes: Maternally inherited RNA dynamics during embryogenesis Mechanisms of RNA degradation and transcriptome remodeling Evolution of pluripotency networks in hybrid species Role of zinc signaling in fertilization barriers Computational tools for RNA regulation and sensing Scientific Awards: Pan-American Society for Evolutionary Developmental Biology Junior Faculty Award (2024) Outstanding New Investigator – International Xenopus Board (2023) Basil O'Connor Scholar – March of Dimes (2017-2019) Recent publications highlight his work on enhancer classification, RNA degradation mechanisms, and cross-species MZT comparisons. His lab develops innovative methods like RESA for regulatory sequence analysis and studies evolutionary divergence in RNA localization patterns. While the articles span computational and experimental approaches, they consistently address RNA's role in cellular identity, developmental timing, and evolutionary adaptation. Applications include understanding pluripotency, designing RNA biosensors, and elucidating fertilization barriers. Prospective Ph.D. students are encouraged to contact him for opportunities in gene regulation, development, evo-devo, and computational genomics.

Roderick Limمشاهده پروفایل

دانشیار

• Nuclear Pore Complex Transport
• Mechanobiology of Cells and Tissues
• Biomimetic Molecular Transport Systems
• +۵ مورد دیگر

Prof. Dr. Roderick Lim is an Associate Professor at the Biozentrum, University of Basel , where he leads a research group since 2014. His work bridges biophysics, nanotechnology, and molecular biology , focusing on the nuclear pore complex (NPC) and mechanobiology of cells . He develops biomimetic systems for selective molecular transport and ARTIDIS , a nanomechanical tissue diagnostic platform commercialized for breast cancer prognosis . Education : BSc (UNC Chapel Hill), PhD (NUS/IMRE Singapore), Postdoc (Swiss Nanoscience Institute) Positions : Argovia Professor (2014–present), Tenure Track Asst. Prof. (2009–2013), Postdoc (2004–2008) His research on NPC transport selectivity reveals how karyopherins modulate the FG Nup barrier via multivalent interactions, with implications for viral entry and Alzheimer’s disease . His ARTIDIS platform uses atomic force microscopy to detect cancer via tissue softness, linking hypoxia to metastasis . Recent 2025 publications explore bacterial nanoharpoon defense mechanisms and DNA origami-based NPC mimics . Scientific Awards : Pierre-Gilles de Gennes Prize (2008), A*STAR Fellowship (2004) Collaborations : NCCR Molecular Systems Engineering, NanoTera, KTI He mentors PhD students in institutions across Switzerland, Singapore, Sweden, and the UK , with alumni working on polymersome delivery, mechanotransduction, and pathogen transport . His lab pioneered high-speed atomic force microscopy for real-time NPC dynamics and plasmonic nanopores for synthetic biology applications.

Susan Brooksمشاهده پروفایل

استاد

• Cancer Biology
• Glycobiology
• Cell Signaling
• +۴ مورد دیگر

Professor Susan Brooks is a faculty member at Oxford Brookes University in the School of Biological and Medical Sciences . Her research focuses on glycobiology , cancer progression , and the role of extracellular vesicles in metastasis. Professor of Cell Biology Director of Researcher Development Focus on breast and ovarian cancer Specialized in glycosylation mechanisms Research Interests : Dr. Brooks' work explores how aberrant glycosylation of proteins and glycans influences cancer cell behavior, including metastasis and drug resistance . Her recent studies examine extracellular vesicles as diagnostic tools and therapeutic targets. Article Trends : Over 25 years, Dr. Brooks has published 15+ articles on glycosylation patterns in breast and ovarian cancer. Key areas include lectin binding , miRNA regulation , and radiation-induced metastatic changes . Her work bridges cell biology and clinical applications .

• Water Quality
• Microbial Source Tracking
• Waterborne Pathogens
• +۳ مورد دیگر

Marc Habash is an Associate Professor at the School of Environmental Sciences, University of Guelph. His work focuses on microbial interactions in environmental systems, particularly pathogen detection, microbial biofilms, and water quality. He holds a BSc in Cellular and Molecular Biology from the University of Toronto, an MSc in Microbiology and Immunology from the University of Western Ontario, and a PhD in Environmental Biology from the University of Guelph. Research interests include molecular and culture-based detection of waterborne pathogens, microbial source tracking using Bacteroidales spp., and biofilm formation studies involving probiotics. Collaborative efforts examine proteomic analysis via mass spectrometry techniques. His lab is located in the Edmund C. Bovey Building (Room 3238). Publications emphasize environmental microbiology applications: from yeast tolerance mechanisms to advanced PCR methods for microbial viability quantification. Recent work explores bacterial surface dynamics, insect pest diapause induction, and enzymatic dehalogenation processes. Research consistently bridges fundamental microbiology with practical environmental monitoring solutions. No scientific awards are listed. Advising and grants sections remain unpopulated in available records. His interdisciplinary approach connects environmental engineering, molecular biology, and ecological systems analysis.