Find Academic Supervisors

• Computational Systems Biology
• Multi-omics Data Analysis
• Single-cell Sequencing
• +5 more

Nikolaus (Nik) Fortelny is a Group Leader in Computational Biology at the University of Salzburg, Austria, where he leads the Computational Systems Biology research group within the Department of Biological Sciences & Medical Biology. His research focuses on understanding biological systems at the molecular level through advanced computational approaches. Dr. Fortelny's research interests include: Computational Systems Biology Multi-omics data integration and analysis Single-cell and spatial biology Machine learning applications in biology Network science approaches to biological regulation Immune system modeling His recent publications demonstrate a strong focus on applying computational approaches to understand complex biological systems, particularly in immunology and cellular regulation. His work often involves collaboration with experimental biologists to generate and analyze large-scale datasets from multi-omics experiments collected at single-cell or spatial resolution. Dr. Fortelny is actively involved in research recruitment and is currently hiring for professor positions in Medical Systems Biology and Animal Physiology at the University of Salzburg, with an application deadline of April 19th, 2025. His group regularly seeks students, PhD candidates, postdocs, and staff scientists to join their team.

Kushal DeyView profile

Assistant Professor

• Statistical Genetics
• Machine Learning in Genomics
• Functional Genomics
• +5 more

Kushal Dey serves as an Assistant Professor in the Computational and Systems Biology Program at Memorial Sloan Kettering Cancer Center (MSKCC), part of the Graduate School of Medical Sciences in partnership with Weill Cornell Medicine. His research integrates statistical and machine learning approaches with genomic data to understand the regulatory architecture of complex diseases. Dr. Dey's research focuses on developing computational methods that integrate human disease genetics with functional genomics data. His work spans immune-related diseases including Alzheimer's and inflammatory bowel disease, as well as heritable cancers like breast and prostate cancer. His lab develops models to prioritize variants, genes, and cell states for disease using genetic, genomic, and perturbation data, with emphasis on causal directed graphs and benchmarking pipelines informed by disease genetics. His recent publications highlight expertise in GWAS, colocalization, spatial transcriptomics, Perturb-seq, and RNA+ATAC multiome analysis. His work frequently appears in top journals like Nature Genetics, with a focus on single-cell multi-omics approaches to understand disease mechanisms at cellular resolution. Scientific Awards: Josie Robertson Investigator (2023–2028) K99/R00 Pathway to Independence Award (NIH/NHGRI) (2022–2026) NIH/NHGRI Early Stage Investigator R01 (2025-2030) NCI P30 CCSG supplement – 'LLMs in cancer research' (2023-2024) Catalog Working Group Co-chair + Disease Focus Group Lead: IGVF consortium (2023-) Dr. Dey mentors several graduate students through the Weill Cornell Graduate School (WGS), including Thahmina Ali, Pretty Garcia, Karthik Guruvayurappan, Louis Liu, Sarthak Tiwari, Berk Turhan, and Harry Zhang. His lab has received multiple grants including the AWS IMAGINE Grant Children's Health Innovation Award 2024-2025 (as Project Co-lead) and PSRP Developmental Funds Awards (2025: Co-lead). The lab actively collaborates with consortia including ENCODE, ADSP, MorPhiC, and IGVF, maintaining strong ties with Columbia University, Stanford University, and Harvard T.H.Chan School of Public Health. The Kushal Dey Lab is part of the vibrant Tri-Institutional Research campus adjacent to Rockefeller University and Weill Cornell Medical College, offering a collaborative environment focused on computational genomics and disease mechanisms.

Marco CuturiView profile

Professor

• Machine Learning
• Optimal Transport
• Optimization
• +4 more

Marco Cuturi is a Research Scientist at Apple ML Research in Paris and Professor of Statistics at CREST-ENSAE, Institut Polytechnique de Paris. His work bridges machine learning , optimal transport , and optimization , with applications in time-series analysis , kernels , and multiresolution methods . He has held academic roles at Kyoto University and Princeton University, and previously worked in the financial industry. Research Interests: Optimal transport theory and computational methods Kernel design for structured data and histograms Time-series alignment and soft-DTW Entropic regularization in optimization Applications to computer vision and genomics Teaching: Cuturi has taught courses on linear optimization at Princeton, geometric methods in machine learning at Kyoto, and scientific English. He has also organized machine learning summer schools in Kyoto, Les Houches, and other international venues. Recent Trends: His 2024-2025 publications focus on entropic optimal transport solvers, disentangled representation learning via Gromov-Monge gaps, and applications to text-to-image diffusion models. Collaborative work with institutions like Google Research, MIT, and University of Tokyo highlights his interdisciplinary impact.

Emre SeferView profile

Associate Professor

• Bioinformatics
• Machine Learning
• Financial Networks
• +3 more

Dr. Emre Sefer is an Associate Professor at the Faculty of Engineering, Özyeğin University, specializing in machine learning and bioinformatics. He holds a Ph.D. in Computational Biology from Carnegie Mellon University (2015), an M.S. in Computer Science from University of Maryland College Park (2011), and a B.S. in Computer Engineering from Boğaziçi University (2008). His research bridges graph machine learning with financial networks, bioinformatics, and data engineering. Ph.D.: Computational Biology, Carnegie Mellon University M.S.: Computer Science, University of Maryland College Park B.S.: Computer Engineering, Boğaziçi University Research focuses on applying machine learning to financial and biological networks: Bioinformatics : 3D genome modeling, protein modifications, transcriptomic analysis Graph Machine Learning : GNNs for fraud detection, drug response prediction, and network evolution Financial Networks : Cryptocurrency investment strategies, asset price prediction His lab (OzU Machine Learning in Finance and Bioinformatics Lab) develops graph-based deep learning methods for cross-domain applications, including NFT market analysis and chromatin structure prediction. He received the Best research paper award at Recomb 2016 for work on 3D genome architecture. Former postdoc at CMU Machine Learning Department Industry experience as Quantitative Strategist at Goldman Sachs and JPMorgan

Guanghao QiView profile

Assistant Professor

• Statistical Genetics
• Genomics
• Single-cell RNA Sequencing Analysis
• +3 more

Guanghao Qi is an Assistant Professor in the Department of Biostatistics at the University of Washington. His research focuses on developing statistical and machine learning methods for multi-omics approaches in genetic studies, particularly integrating single-cell RNA-seq, GWAS, and functional genomic data. Key areas include single-cell eQTL analysis, Mendelian randomization, and multi-trait genetic association analyses. Education: PhD in Biostatistics from Johns Hopkins Bloomberg School of Public Health (2020), BS in Mathematics from Fudan University (2015). Research interests emphasize high-dimensional data analysis, allele-specific expression in single cells, and causal inference using genetic variants. Notable achievements include a 2025 NIH K01 award for developing methods to integrate single-cell eQTL and GWAS data, and the development of the TWiST method for single-cell transcriptome-wide association studies. Recent work highlights advancements in computational tools like SURGE for context-specific genetic regulation analysis, and evaluations of Mendelian randomization methods in studies of type 2 diabetes and cardiovascular disease. His work often bridges computational biology and statistical theory to address challenges in interpreting large-scale genomic datasets. Awards: NIH K01 Award (2025) Key Contributions: TWiST method (2025), SURGE framework (2024), HIPO power optimization (2018) Labs/Teams: Active collaborations in genomic epidemiology and statistical genetics, with a focus on single-cell multi-omics integration and causal inference methodologies.

• Bioinformatics
• Systems Biology
• Disease Module Identification
• +6 more

Zelmina Lubovac is a Senior Lecturer in BioInformatics at the School of Bioscience, University of Skövde. She serves as both a Course Coordinator for multiple undergraduate and graduate courses in bioinformatics and a Programme Coordinator for Master's level programs. Her academic work focuses on the intersection of computational methods and biological applications, particularly in disease analysis and biomarker discovery. Dr. Lubovac's research spans several key areas in bioinformatics and systems biology: Disease module identification in complex biological networks Multi-omics integration (genomics, proteomics, metabolomics) for biomarker discovery Machine learning applications in RNA-seq and other high-throughput biological data Development of bioinformatics software tools for network analysis miRNA analysis in cancer and neurological disorders Her recent publications (2022-2024) demonstrate a strong focus on applying computational approaches to understand disease mechanisms, particularly in pancreatic cancer and multiple sclerosis. She has developed several widely-used bioinformatics tools including MODalyseR, MODifieR, and TFTenricher that facilitate disease module analysis and gene network interpretation. Her work often involves collaborative research with clinical teams to translate computational findings into potential diagnostic applications. Dr. Lubovac has been involved in significant research projects including: BIO-AID (Biomedical AI-driven data analytics): Oct 2020 - Sep 2024 Systems Biology DMDPipe: Mar 2018 - Feb 2021 She actively contributes to both undergraduate and graduate education at the University of Skövde, coordinating multiple courses and programs in bioinformatics and bioscience, with a clear emphasis on preparing students for careers at the intersection of biology and computational science.

George C TsengView profile

Professor

• Genomics
• Bioinformatics
• Statistical Learning
• +9 more

Dr. George C Tseng serves as Professor and Vice Chair for Research in the Department of Biostatistics at the University of Pittsburgh School of Public Health, with secondary appointments in Human Genetics and Computational and Systems Biology. His educational background includes a BS (1997) and MS (1999) in Mathematics from National Taiwan University and an ScD (2003) in Biostatistics from Harvard School of Public Health. Dr. Tseng's research focuses on developing statistical methodologies for genomic and bioinformatic applications to advance precision medicine. His work spans multiple high-impact areas including multi-omics data integration, machine learning for high-dimensional data, cluster analysis for disease subtyping, and statistical methods for experimental design in omics studies. His approach emphasizes close collaboration with biological and clinical researchers to ensure methodological relevance to real-world problems. His publication record demonstrates consistent contributions to top statistical and bioinformatics journals, with recent work focusing on congruence analysis between animal models and humans, outcome-guided clustering methods, and high-dimensional causal mediation analysis. Elected Fellow, American Statistical Association (2017) Statistician of the Year, ASA Pittsburgh Chapter (2017) Provost's Award for Excellence in PhD Mentoring, University of Pittsburgh (2019) Clinical Research Scholar (K12) Award, NIH (2007-2009) Elected Member, International Statistical Institute (2012) Dr. Tseng has successfully mentored over 25 PhD students who have secured positions in academia, industry, and government agencies. His laboratory has maintained continuous NIH funding as principal investigator since 2012, including current grants R01CA285337 (2025-2030) and R01LM014142 (2023-2026). The Tseng Lab operates as a collaborative research environment focused on translating statistical innovations into practical solutions for biological and medical challenges, with strong connections to multiple research centers and clinical departments at the University of Pittsburgh.

• Autism Spectrum Disorder
• Biostatistical Methods
• Chronic disease
• +4 more

Xiaoyu Che is an Assistant Professor of Biostatistics at Columbia University's Mailman School of Public Health, where he serves as the principal biostatistician in the Center for Infection and Immunity (CII) at Columbia University Irving Medical Center. His work bridges statistical methodology with biomedical research, focusing on complex disease mechanisms through advanced data analysis approaches. Dr. Che received his academic training at prestigious institutions: BS in Mathematics from Zhejiang University (2006) PhD in Mathematics from Claremont Graduate University (2013) Dr. Che's research program centers on the development and application of statistical methods for multi-omics analyses, with particular focus on understanding the pathogenesis of chronic and neurodevelopmental conditions. His work spans multiple domains including Autism Spectrum Disorder (ASD), Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS), and Gulf War Illness (GWI). He employs sophisticated biostatistical approaches to integrate diverse biological data types, revealing novel insights into disease mechanisms. His methodological expertise includes Bayesian statistics, metabolomic analysis, immune signature identification, and microbiome characterization, all aimed at translating complex biological data into meaningful clinical insights. Analysis of Dr. Che's publication record reveals a strong thematic focus on applying advanced statistical methods to understand complex disease mechanisms. His work consistently bridges biostatistical innovation with biomedical discovery, particularly in the areas of neurodevelopmental disorders and chronic fatigue conditions. The publications demonstrate progression from foundational methodological work to increasingly sophisticated multi-omics integration approaches, reflecting both technical growth and expanding research impact. His collaborative approach is evident through numerous high-impact publications with interdisciplinary teams across Columbia University and beyond. Dr. Che teaches BIST P8104: Probability in the Biostatistics MS degree program at Columbia, demonstrating his commitment to training the next generation of biostatisticians. While specific grant information isn't detailed in the provided materials, his extensive publication record across multiple high-impact journals suggests successful grant funding supporting his research program. As principal biostatistician in the Center for Infection and Immunity, Dr. Che plays a critical role in the analytical framework of the center's research initiatives. His work supports the center's mission to understand the relationship between infectious agents and human health through rigorous quantitative analysis. The collaborative nature of his research is evident in the diverse range of co-authors spanning immunology, virology, microbiology, and clinical medicine.

Yuri PritykinView profile

Assistant Professor

• Computational Biology
• Genomics
• Machine Learning
• +5 more

Yuri Pritykin is an Assistant Professor at Princeton University, affiliated with the Lewis-Sigler Institute for Integrative Genomics and the Department of Computer Science. He also holds cross-appointments in Molecular Biology, the Omenn-Darling Bioengineering Institute, and the Center for Statistics and Machine Learning. Pritykin earned his Ph.D. in Computer Science from Princeton University (2014), alongside MSc and Ph.D. in Mathematics from Lomonosov Moscow State University. His research lies at the intersection of applied statistics, machine learning, and functional genomics, focusing on integrative analysis of multi-dimensional biological data. Research Interests: Decoding regulatory genomics in immune cells, CRISPR tool development (GuideScan2), single-cell and spatial multi-omics for immunology and cancer, post-transcriptional regulation, and cell-cell interaction profiling (uLIPSTIC technology). Awards: NSF CAREER Award (2023) NIH New Innovator Award (2022) Recognized by Princeton Ludwig Institute, Rutgers Cancer Institute, and AACR Teaching: Courses in computational biology, genomics, and machine learning applications in life sciences. His lab actively collaborates with immunologists and genomicists, seeking interdisciplinary scientists at all career stages.

Jonathan WeissmanView profile

Professor

• Protein Folding
• Systems Biology
• Genomics
• +6 more

Jonathan Weissman is a Professor of Biology at the Massachusetts Institute of Technology (MIT) and a Member of the Whitehead Institute. He is also an Investigator of the Howard Hughes Medical Institute and the Landon T. Clay Professor of Biology. His research spans protein folding mechanisms, ribosome profiling, CRISPR-based tools (CRISPRi/a), and genetic interaction mapping. Whitehead Institute Member MIT Professor HHMI Investigator Co-founder, Maze Therapeutics & KSQ Therapeutics Research Interests focus on: Protein folding in cellular contexts Endoplasmic reticulum (ER) function and stress responses Genome-wide CRISPR screening for gene regulation High-density genetic interaction maps in mammals Mitochondrial protein targeting and quality control Epigenomic engineering with synthetic tools Scientific Awards include: Protein Society Irving Sigal Young Investigator Award (2004) Raymond & Beverly Sackler Prize (2008) National Academy of Sciences election (2009) NAS Award for Scientific Discovery (2015) Genetics Society of America Ira Herskowitz Award (2020) Labs & Collaborations : Leads the Weissman Lab at MIT/Whitehead Institute, co-leads the Laboratory for Genomic Research with GlaxoSmithKline, and chairs the Stowers Institute Scientific Advisory Board.

• Computational Biology
• Single-Cell Genomics
• Machine Learning
• +6 more

Dana Pe'er is Chair of the Computational and Systems Biology Program at the Sloan Kettering Institute (SKI) and an Investigator at the Howard Hughes Medical Institute (HHMI). She holds the Alan and Sandra Gerry Endowed Chair and leads an interdisciplinary lab combining single-cell genomics, machine learning, and computational modeling to study cancer biology, immunity, and development. Pe'er earned her PhD at the Hebrew University in Jerusalem and focuses on cellular plasticity, epigenetic regulation, and tumor-immune interactions. Her lab develops tools like CellRank , Wishbone , and SEACells to analyze single-cell data and uncover mechanisms in cancer progression and immunotherapy. Key research areas: Computational Biology, Single-Cell Genomics, Cancer Systems Biology, Epigenetics, Immunotherapy Recent trends: Articles from 2025-2024 emphasize spatial transcriptomics, tumor microenvironment mapping, and regulatory network inference using machine learning. Scientific honors include the NIH Director’s Pioneer Award , AACR Academy Induction , and Packard Fellowship . Her work has direct clinical implications for precision medicine and cancer immunotherapy. Labs & Teams: Leads the Dana Pe'er Lab at SKI, directs the Single Cell Research Initiative (SCRI), and collaborates with the SAIL program.

Tommy LöfstedtView profile

Associate Professor

• Machine Learning
• Computer Vision
• Medical Image Analysis
• +4 more

Tommy Löfstedt is an Associate Professor at Umeå University , affiliated with the Department of Computing Science and the Department of Mathematics and Mathematical Statistics. His research focuses on machine learning , computer vision , and medical image analysis , with applications in life sciences, radiation therapy, and biomedical imaging. He leads multiple research projects, including AI-driven delineation in radiation therapy, quantitative MRI for radiotherapy, and machine learning for plant nutrient uptake. Current research emphasizes structured regularization methods to improve model interpretability and robustness. Key applications include medical image segmentation , Alzheimer's classification , and uncertainty estimation in MRI . Recent publications highlight his work on morphological regularization , adversarial attack mitigation , and multi-task learning in medical imaging contexts. His projects span 2022–2026 with funding for pediatric oncology automation and gynecological cancer staging. Affiliated with both computing and mathematical departments, he bridges algorithm development with applied mathematical frameworks in medical and life science domains.

Andreas BeyerView profile

Professor

• Aging Research
• Proteomics
• Systems Biology
• +5 more

Prof. Dr. Andreas Beyer holds a faculty position at the University of Cologne, affiliated with the Cluster of Excellence Cellular Stress Responses in Aging-Associated Diseases (CECAD) and the Cologne Excellence Cluster for Cellular Mechanisms in Cancer (CMMC). His research focuses on systems-level analysis of aging processes in humans and model organisms, integrating genomic, proteomic, and computational approaches. Key interests include understanding how genetic variation influences protein networks, developing algorithms for big data analysis, and exploring epigenetic mechanisms related to longevity. Research projects include studying age-associated changes in transcriptional elongation, molecular networks in kidney disease, and the impact of dietary restriction on aging. His group develops tools for proteomics and systems biology, such as methods for analyzing limited proteolysis data and single-cell resolution imaging. Collaborative efforts emphasize translational research in aging-related diseases and drug discovery. Prof. Beyer’s work spans computational biology, molecular genetics, and translational medicine. Notable contributions include identifying epigenetic changes linked to longevity and developing predictive models for age-related disease progression. His lab’s projects often involve multi-omics integration and network-based analyses to uncover disease mechanisms. His research has implications for personalized medicine, cancer biology, and interventions to extend healthspan. Current efforts include optimizing drug combinations targeting aging processes and advancing proteomic technologies for clinical applications.

Kushal DeyView profile

Assistant Professor

• Computational Biology
• Genomics
• Machine Learning
• +5 more

Kushal Dey, PhD, is an Assistant Professor in the Computational and Systems Biology Program at Memorial Sloan Kettering Cancer Center (MSKCC). His research develops machine learning models that integrate genetic, genomic, and epigenomic data (e.g., RNA-seq, ChIP-seq, Perturb-seq, spatial transcriptomics) to decode the causal functional architecture of heritable complex diseases, including immune-related disorders like Alzheimer’s and inflammatory bowel disease, as well as heritable cancers such as breast and prostate cancer.

Boyu ZhangView profile

Assistant Professor

• Medical Image Analysis
• Machine Learning
• Deep Learning
• +4 more

Boyu Zhang is an Assistant Professor in the Department of Computer Science at the University of Idaho, part of the College of Engineering. He holds a Ph.D. in Computer Science & Technology from Harbin Institute of Technology (2016), an M.S. from the same institution (2009), and a B.S. from Jilin University (2005). His research focuses on medical image analysis, deep learning, and AI applications in healthcare. Key areas include breast cancer detection via ultrasound imaging, explainable AI, graph neural networks for multi-omics data integration, and materials science predictions using machine learning. His work emphasizes interpretability in AI systems, such as the Bi-RADS-Net series for breast cancer diagnosis and the development of sharpness-aware optimizers for medical imaging tasks. He also explores multi-task learning frameworks and novel neural network architectures like SepNet for directional data analysis. His contributions span medical imaging benchmarks (e.g., BUSIS dataset) and computational methods for materials property prediction.