جست‌وجوی استاد و پژوهشگر

Jin Zhangمشاهده پروفایل

دانشیار

• Computational Biology
• Bioinformatics
• Cancer Genomics
• +۵ مورد دیگر

Dr. Jin Zhang is an Associate Professor of Radiation Oncology at Washington University School of Medicine, with affiliations to the Siteman Cancer Center, Institute of Clinical and Translational Sciences (ICTS), and multiple divisions within the Roy and Diana Vagelos Division of Biology & Biomedical Sciences (DBBS), including Biomedical Informatics and Data Science, Cancer Biology, and Computational and Systems Biology. PhD in Computer Science (University of Connecticut, 2012) MPHS in Population Health Sciences (Washington University, 2022) Prior postdoctoral work at McDonnell Genome Institute and Department of Medicine, Washington University His research develops deep learning/AI models and multi-omics approaches (genomics, proteomics, metabolomics, imaging) to advance translational cancer research at the intersection of genomics and radiation oncology. Recent work includes Nature studies on dietary fructose-induced tumor growth mechanisms, Patterns publications on GAN-based gene expression analysis, and Clinical Cancer Research papers on HPV+ cancer MRD detection. Scientific awards include NCI K22, ITCR R21, R37, and R01 grants totaling over $9.7 million in funding. His lab trains DBBS and MSTP rotation students, with alumni pursuing academic/research roles at institutions like University of Washington and Memorial Sloan Kettering Cancer Center.

Andrew G. Clarkمشاهده پروفایل

استاد

• Population genetics
• Genomics
• Drosophila
• +۵ مورد دیگر

Andrew G. Clark is the Jacob Gould Schurman Professor of Population Genetics at Cornell University's College of Arts and Sciences, with affiliations in Computational Biology, Ecology and Evolutionary Biology, and Molecular Biology & Genetics. His research bridges empirical and theoretical studies of genetic variation in populations. Ph.D., Stanford University (1980) B.S., Brown University (1976) Research Focus: Genetic basis of complex traits, gene regulatory networks, and genotype-phenotype modeling across human cardiovascular disease risk and Drosophila systems. Key projects include evolutionary immunity, sperm competition, genomic imprinting, and Y chromosome dynamics. Scientific Contributions: Authored over 360 peer-reviewed papers and co-wrote the textbook Principles of Population Genetics with Dan Hartl. Pioneered methods for haplotype phase inference, detection of natural selection, and demographic history reconstruction using genome-wide data. Key Collaborations: Partnerships with Charles Sing and Eric Boerwinkle (human genetics), and interdisciplinary teams across computational biology and evolutionary ecology. Notable Awards: Honorary Doctorate from Aarhus University (2018)

• Polyploid Genetics
• Botrytis Resistance in Ornamentals
• Haplotype Analysis
• +۵ مورد دیگر

Paul Arens is a Researcher at Wageningen University & Research , specializing in plant breeding and genetics. His work focuses on polyploid crop genomics, particularly in ornamental species like roses and chrysanthemums. Active in genetic mapping, haplotype resolution, and disease resistance breeding Develops advanced imaging and computational tools for phenotyping Leads projects on chrysanthemum genome diversity and Botrytis resistance His research integrates genomics with practical breeding applications, addressing challenges in allopolyploid species like Fragaria x ananassa (strawberry) and tetraploid potatoes. Recent work emphasizes automated disease scoring (Spotibot) and haplotype-specific genome assembly. Current projects include: LWV22014 : Tapping into chrysanthemum genome diversity LWV20112 : Sequence-based markers for polyploid breeding Breaking the bond with Botrytis : Genetic resistance in Rosaceae He collaborates internationally on polyploid genome sequencing and contributes to plant genotyping methodologies.

Dario Copettiمشاهده پروفایل

پژوهشگر

• Plant Genomics
• Genome Biology
• Evolutionary Biology
• +۳ مورد دیگر

Dario Copetti is a Researcher at the University of Arizona, specializing in plant genomics and evolutionary biology. His work focuses on genome assembly, analysis of genomic datasets, and DNA sequencing technologies. He holds an MS and PhD in Plant Biothechnology and Plant Genomics, with expertise in plant genome evolution, crop improvement, and resistance gene discovery. Education: MS and PhD in Plant Biothechnology and Plant Genomics Research Interests: Plant genome biology, evolutionary genomics, genomic dataset analysis, DNA sequencing technologies His research has produced high-resolution genome assemblies for species like Italian ryegrass, perennial ryegrass, and saguaro cactus. He explores genetic resistance mechanisms against pathogens such as bacterial wilt and stem rust, leveraging nested association mapping and bulked segregant analysis. Key contributions include pan-genome studies of Asian rice and hexaploid oat, revealing insights into genetic diversity and evolutionary pathways. Publications highlight advancements in genomic tools, including low-input DNA extraction methods and phased genome assembly techniques for heterozygous genomes. His work bridges fundamental biology with applied agriculture, addressing challenges in crop improvement and ecological adaptation. Collaborative projects involve genomic resources for species like apple, peach, and grapevine, emphasizing functional variation in flowering time and disease resistance. While no formal students are listed, his research impacts global initiatives such as the 3,010 rice genomes project.

• Artificial Intelligence
• Bioinformatics
• Cyberinfrastructure
• +۱۲ مورد دیگر

Alex Feltus is a Professor in the Department of Genetics and Biochemistry at Clemson University's College of Science. He also serves as Core Faculty in the Biomedical Data Science and Informatics program and as a Faculty Member at the Clemson Center for Human Genetics. With a Ph.D. in Cell Biology from Vanderbilt University (2000) and a B.Sc. in Biochemistry from Auburn University (1992), Feltus has established himself as a leading researcher at the intersection of computational biology and genomics. His research spans artificial intelligence, bioinformatics, cyberinfrastructure, high-performance & cloud computing, systems biology, tumor genomics, medical genetics, crop genetics, genome assembly, systems genetics, and paleogenomics. His work focuses on revealing genomic mechanisms underlying phenotype expression, with particular emphasis on identifying biomarker systems that distinguish between biological states such as normal versus tumor tissues. Feltus's laboratory employs software engineering and computational biology techniques to make molecular discoveries in both human and plant biological systems. They develop elastic advanced compute systems for robust genomics workflows, enabling small labs to perform innovative petascale computational biology. His recent publications demonstrate a strong focus on gene expression analysis, genome assembly, Neanderthal DNA studies, plant genomics (particularly oak and Medicago), and AI applications in genetic research. Among his achievements are the development of open source software, completion of multiple NSF grants, and training of numerous undergraduate, master's, and doctoral students. He is also the co-founder of Praxis AI LLC, through which he extends his 27 years of bioscience research experience to scale computational biology skilling to thousands of learners worldwide via virtual courses, biohackathons, podcasts, and digital learning solutions. Feltus teaches several courses including Bioinformatics, Medical Bioinformatics, Advanced Medical Bioinformatics, Digital Biology, Computational Genomics, Biomedical Informatics, Next-Generation Sequence Analysis, and Perl for Bioinformatics.

Jonathan Terhorstمشاهده پروفایل

دانشیار

• Statistical Genetics
• Population Genetics
• Computational Biology
• +۳ مورد دیگر

Jonathan Terhorst is an Associate Professor of Statistics at the University of Michigan, affiliated with the Department of Statistics within the College of Literature, Science, and the Arts. He holds a Ph.D. in Statistics from UC Berkeley (2017) and joined the University of Michigan faculty in 2017. His research focuses on applying statistical and machine learning methods to problems in genetics and population biology, particularly in developing computational tools for analyzing genomic data. His work emphasizes demographic inference, phylogenetic modeling, and the application of advanced statistical techniques to understand human and microbial population histories. Notable contributions include methodologies for decoding coalescent models, analyzing allele frequency spectra, and detecting natural selection in ancient and modern populations. Terhorst’s research often bridges theoretical statistics with practical computational challenges in large-scale genomic datasets. He oversees a lab dedicated to advancing statistical genetics, as reflected in his Lab Web Site . While specific student advisees are not listed here, his academic role implies active mentorship in the Ph.D. and Master's programs. His work has been recognized through collaborations in high-impact studies, such as the analysis of Bronze Age British populations and African demographic histories. Terhorst’s publications span topics from coalescent theory to scalable algorithms for genomic data, reflecting a commitment to both foundational and applied research in population genetics. His research addresses questions about human migration, evolutionary processes, and the statistical underpinnings of modern genetic inference.

• Enhancer Evolution
• Computational Genomics
• Functional Genomics
• +۵ مورد دیگر

Dr. Severin Uebbing is an Assistant Professor at Utrecht University 's Faculty of Science , affiliated with the Genome Biology and Epigenetics division. His research focuses on enhancer evolution and gene regulation in mammals, integrating computational genomics and functional assays using induced pluripotent stem cells (iPSCs) . Education: PhD in Evolutionary Genetics (2011-2015), Uppsala University MSc in Evolutionary Biology (2009-2011), Uppsala University BSc in Biology (2005-2009), Heidelberg University Research Trends: Analysis of 15 recent publications reveals expertise in enhancer evolution , neurodevelopmental gene regulation , 3D genomic architecture , dosage compensation , and systems biology approaches to disease mechanisms. Key methods include massively parallel assays , humanized mouse models , and comparative genomics across mammals and birds. Laboratory: Leads research on enhancer evolution at Utrecht University, employing iPSC-derived models and genome-scale functional assays to investigate mammalian regulatory innovation.

Dan Levyمشاهده پروفایل

دانشیار

• Computational Biology
• Genomics
• Human Genetics
• +۶ مورد دیگر

Dan Levy is an Associate Professor at Cold Spring Harbor Laboratory (CSHL), where he leads the Levy Laboratory and is a member of the Cancer Center. His research focuses on developing computational algorithms to identify disease-causing mutations from large genomic datasets. Ph.D. in Mathematics from University of California, Berkeley (2005) Postdoctoral training at Cold Spring Harbor Laboratory (2007-2009), University of Oxford (2006-2007), and University of California, Berkeley (2005-2006) Academic career at CSHL: Associate Professor (2012-present), Assistant Professor (2012), Senior Computer Scientist (2010-2012), Research Investigator (2009-2010) Levy's research centers on identifying rare and unique mutations that play significant roles in diseases such as autism, congenital heart disease, and cancer. His group develops algorithms to analyze large, high-throughput datasets comprising thousands of nuclear families. Initially working with high-resolution CGH arrays, his team now primarily uses targeted sequence data. Key areas of algorithm development include identifying de novo mutations, detecting copy-number variants, and analyzing complex genomic rearrangements including insertions, deletions, inversions, and transpositions. Additional research projects involve single-cell RNA analysis, phylogenetic reconstruction from sparse datasets, and haplotype disentanglement from sperm and subgenomic sequence data. His publication record demonstrates consistent contributions to computational genomics and disease genetics, with particular emphasis on autism genetics, cancer genomics, and methodological innovations. Recent work has expanded into applications for cancer diagnostics and minimal residual disease detection, reflecting the translational impact of his computational approaches. Active member of the CSHL Cancer Center Part of the Quantitative Biology and Genomics research groups at CSHL Levy's work bridges computational mathematics with biological applications, developing sophisticated algorithms that enable researchers to identify previously undetectable genetic variations contributing to human disease.

Siran Liمشاهده پروفایل

عضو هیئت علمی

• Genomics
• Single-cell Analysis
• Cancer Biology
• +۳ مورد دیگر

Siran Li is a Research Assistant Professor at Cold Spring Harbor Laboratory, where she develops novel high-throughput, multi-omics methods for single-cell analysis and applies them to complex physiology and disease. She created the BAG-seq platform for single-cell sequencing, which encapsulates nucleic acids in polyacrylamide gels to prevent cross-contamination. Her current research investigates host-tumor interactions in cancer using this technology. Li holds a PhD from Princeton University (2015) and collaborates with Dr. Dan Levy on genome assembly techniques. Her research program focuses on characterizing tumor microenvironments and developing advanced genomic tools for precision medicine applications. Recent publications demonstrate innovations in magnetic hydrogel functionalization, targeted genome assembly, and mammary oncogenesis mechanisms.

• Low Carbon Solutions
• Hydrothermal Liquefaction
• Renewable Energy
• +۵ مورد دیگر

Professor David Lewis is the Executive Dean and Head of the School of Chemical Engineering and Advanced Materials at the University of Adelaide. He holds a formal academic appointment within the Faculty of Sciences, Engineering and Technology. His roles include leadership in academic administration and chemical engineering education. Research interests focus on low-carbon technologies at the energy-water-environment nexus, particularly hydrothermal liquefaction for sustainable waste management and biofuel production. His work integrates fluid mechanics, thermodynamics, and process control. Key industry collaborations include partnerships with Southern Oil Refining Pty Ltd and SQC Pty Ltd. Teaching responsibilities include subjects like CE4054 Research Project and CE3036 Unit Operations. He actively supervises postgraduate students in process technology R&D. Notable grants include a $4 million Australian Renewable Energy Agency grant (2019-2021) and a $296K+ ARC Linkage Project (2015-2017). Professional activities span leadership in academia and industry, including a 2012-2016 sabbatical managing a biofuel startup. His lab develops sub-critical water technologies for waste-to-energy solutions, addressing both national and international industry needs in petroleum and wastewater sectors.

Melania Figueroaمشاهده پروفایل

پژوهشگر

• Crop and Pasture Improvement
• Crop and Pasture Protection
• Host-Parasite Interactions
• +۶ مورد دیگر

Melania Figueroa is a Group Leader of Pests and Diseases in CSIRO's Agriculture and Food Traits Program, leading research in plant-microbe interactions and crop disease resistance. She holds a B.Sc. in Biology from the University of Costa Rica (2000) and a Ph.D. in Plant Pathology from the University of Arizona (2007). Her career includes roles at Oregon State University (2007-2011) and the University of Minnesota (2013-2019), where she became an Associate Professor with tenure. Her research focuses on rust genomics, effector biology, and developing durable crop resistance. Key contributions include pioneering haplotype-phased genome assemblies of rust pathogens and identifying molecular mechanisms of plant immunity. She has been recognized with awards such as the 2018 Syngenta Award and the 2019 Outstanding Mentor Award. Her team collaborates globally, addressing challenges in legumes and cereals through applied and basic research. Grants: Includes projects on oat crown rust resistance, genomic diagnostics, and rust pangenomics funded by GRDC, USDA, and DOE. Labs/Teams: Manages a multi-location team in Canberra and Brisbane, focusing on crop protection and genomic approaches.

• Plant Genetics
• Agricultural Biotechnology
• Genomics
• +۳ مورد دیگر

Dié TANG is a Research Fellow in the Genetics department at Yale University, affiliated with the Yale School of Medicine. His research focuses on plant genetics, particularly in improving potato breeding through haplotype design, self-compatibility mechanisms, and genomic analysis. He is part of the Jiang Lab, contributing to breakthroughs in crop improvement and genetic diversity studies. His work spans topics such as genome evolution in wild and cultivated potatoes, molecular mechanisms controlling leaf morphology, and the development of homozygous diploid potato lines. Recent studies emphasize leveraging phased pangenomes and haploid induction techniques to enhance agricultural productivity. Key research trends include addressing inbreeding depression, understanding steroidal glycoalkaloid inheritance in tubers, and utilizing nonS-locus F-box genes to overcome self-incompatibility. These efforts aim to advance sustainable agricultural practices and genetic resource management in potato cultivation. Dié TANG's contributions are centered in the Jiang Lab, where he collaborates on interdisciplinary projects bridging genomics, molecular biology, and plant breeding. His work underscores a commitment to translating genetic insights into practical solutions for crop improvement.

• Plant Genomics
• Crop Genetics
• Genome Sequencing
• +۵ مورد دیگر

Dr. Daniela Holtgräwe is a researcher in the Faculty of Biology at Bielefeld University, Germany, specializing in plant genetics and genomics. She is affiliated with the Plant Genetics and Genomics group within the Faculty of Biology and the Center for Biotechnology (CeBiTec). Holtgräwe also serves as Chair of the Equal Opportunities Commission and as Equal Opportunities Officer for the Faculty of Biology, demonstrating her commitment to diversity and inclusion in academia. Dr. Holtgräwe's research focuses on plant genomics, particularly with sugar beet (Beta vulgaris) and grapevine (Vitis vinifera). Her work encompasses genome sequencing, assembly, and annotation, as well as the analysis of repetitive DNA elements, quantitative trait loci (QTL), and disease resistance mechanisms. She has made significant contributions to understanding the genomic architecture of crops and their wild relatives, with implications for plant breeding and crop improvement. Her recent publications demonstrate expertise in creating high-quality reference genomes, analyzing genome evolution, and identifying genetic loci associated with important agronomic traits. Holtgräwe's work bridges bioinformatics and experimental plant science, contributing to both fundamental understanding of plant genome organization and practical applications in crop improvement. Faculty of Biology / Plant Genetics and Genomics Center for Biotechnology - CeBiTec / Plant Genetics and Genomics Group Faculty of Biology / Equal Opportunities Commission (Chair) Faculty of Biology / Equal Opportunities Officer Institute for Bioinformatics Infrastructure (BIBI) Center for Biotechnology - CeBiTec / Board Dr. Holtgräwe is actively involved in several research networks and collaborative projects, particularly those focused on plant genomics and bioinformatics infrastructure. Her work contributes to Bielefeld University's strategic research area in the 'Material World,' which examines structures and processes at the interfaces of biology and bioinformatics.

Gunnar W. Klauمشاهده پروفایل

استاد پژوهشی

• Computational genomics
• Algorithm development
• Vaccine design
• +۵ مورد دیگر

Prof. Dr. Gunnar W. Klau is a Research Professor at the Institute of Informatics, Heinrich Heine University. His research focuses on developing algorithmic models and methods to understand cellular processes based on molecular data, with applications spanning genome analysis, vaccine development, and AI-assisted decision systems across multiple biological domains. His primary research interests include: Computational genomics and polyploid genome assembly Vaccine design through computational immunology Machine learning applications in biological data analysis Theoretical plant biology and data science integration Algorithm development for molecular data interpretation Dr. Klau's publication record shows a clear trajectory toward increasingly sophisticated computational methods for biological challenges, with recent work spanning from polyploid genome assembly to SARS-CoV-2 vaccine design and ecological conservation algorithms. His interdisciplinary approach consistently bridges theoretical computer science with practical biological applications. His contributions have appeared in high-impact journals including Genome Biology, Cell Systems, and iScience, demonstrating recognition within both computational and biological research communities. As a Research Professor, Dr. Klau leads projects in theoretical plant biology and data science, maintaining strong collaborative relationships with experimental partners to ensure his computational methods address real-world biological challenges.

Björn Usadelمشاهده پروفایل

استاد

• Plant Genomics
• Bioinformatics
• Pangenomics
• +۷ مورد دیگر

Prof. Dr. Björn Usadel serves as Head of the Institute of Biological Data Science at Heinrich Heine University Düsseldorf (HHU) and Head of the Institute of Bioinformatics at Forschungszentrum Jülich (IBG-2). His dual appointments position him at the intersection of computational biology and plant sciences, where he leads research initiatives focused on leveraging data science approaches to understand plant biology and improve crop performance. Usadel is also actively involved with CEPLAS (Cluster of Excellence on Plant Sciences), having joined in 2019. Dr. Usadel's research program centers on the development and application of computational methods for plant omics data analysis. His group specializes in comparative analyses of plant genomes, with particular focus on identifying mechanisms underlying abiotic stress tolerance and valuable compound accumulation. Key technological platforms developed under his leadership include the Mercator platform for automated protein classification and annotation, which utilizes hand-curated hidden Markov models to categorize over 6,000 functional processes, and the Plant Knowledge Hub for sustainable data management and interactive web-based analysis. His team extensively employs nanopore sequencing technology for pangenomics studies and collaborates with the German ELIXIR plant nodes to maintain comprehensive databases tracking protein annotation across more than 1,000 sequenced plant genomes. Analysis of Dr. Usadel's recent publication record reveals a consistent focus on high-quality genome assembly and comparative genomics across diverse plant species. His work spans staple crops like potato, tomato, and faba bean, as well as specialty crops like tea. A notable trend is the increasing use of long-read sequencing technologies (particularly nanopore) to achieve chromosome-scale assemblies and haplotype-resolved genomes, enabling deeper insights into structural variation and its implications for crop breeding. His research bridges computational innovation with practical agricultural applications, particularly in understanding stress tolerance mechanisms and metabolic pathways relevant to food security. Dr. Usadel has successfully mentored numerous doctoral students, with several interview excerpts highlighting how the research questions posed by early-career scientists have led to unexpectedly significant findings. His group actively participates in both fundamental plant science and agricultural applications, with an emphasis on FAIR (Findable, Accessible, Interoperable, Reusable) data management principles. The team maintains strong collaborative networks across international research institutions, as evidenced by the multi-institutional authorship on his publications. Usadel's laboratory operates cutting-edge platforms including the Plant Metabolism and Metabolomics Facility and an Imaging Platform, which support integrated multi-omics analyses. His group also contributes to the CEPLAS Data initiative and maintains public datasets and tools that serve the broader plant science community. Current research directions include optimizing plant performance by mapping interfaces between development and metabolism, studying plant microbiota metabolic networks, advancing synthetic biology approaches, and developing theoretical frameworks in plant biology through data science.