Jian Peng is an Assistant Professor in the Department of Computer Science at the University of Illinois at Urbana-Champaign. His research focuses on computational biology, machine learning, and their applications to protein structure prediction, drug design, and molecular modeling. He has contributed to advancements in antibody engineering, protein-ligand docking, and generative models for biological systems. Key research areas include: Machine Learning for Molecular Modeling Protein Structure Prediction Antibody and Peptide Design Genomics and Single-Cell Analysis Structure-Based Drug Discovery His work emphasizes integrating deep learning techniques with biological datasets to address challenges in precision medicine, drug development, and systems biology. Notable achievements include developing the FastFold system to accelerate AlphaFold training and pioneering flow-based methods for antibody design. Awards include the Overton Prize (2020), recognizing contributions to computational biology. His research has been published in top journals and conferences, spanning topics from protein mutation prediction to geodesic-based immune complex modeling.
Colin Cooper is a Professor of Cancer Genetics at the Norwich Medical School, University of East Anglia. He is also a member of the Metabolic Health and Cancer Studies research groups. His work focuses on genomic evolution, tumor microbiome dynamics, and biomarker development for prostate cancer and musculoskeletal health. Cooper’s recent research explores the interplay between cancer genetics and microbial communities, emphasizing their role in prognosis and treatment outcomes. He investigates clonal evolution in tumors, mutational signatures, and non-invasive diagnostic tools like urinary extracellular vesicles. His collaborations span genomics, microbiology, and clinical applications. 2025: Causes of evolutionary divergence in prostate cancer (Genomics, Precision Medicine) 2024: Applications of urinary extracellular vesicles... (Biomarker Development, Liquid Biopsy) 2023: Caution regarding pan-cancer microbial structure (Methodological Considerations, Microbiome Analysis) In 2022, Cooper received the European Urology Oncology SoMe Award for his contributions. His work is frequently cited and has been featured in media outlets globally, highlighting his impact on cancer and aging research.
Maria Chikina is an Assistant Professor at the University of Pittsburgh School of Medicine's Department of Computational and Systems Biology. She holds a PhD in Molecular Biology from Princeton University. Her research focuses on developing computational methods to analyze large-scale genomic datasets, bridging statistical rigor with biological insights to overcome experimental biases. Key research areas include latent variable modeling (e.g., PLIER, CellCODE), interpretable neural networks for sequence-to-function modeling, evolutionary rate analysis (RERconverge), and applications in tumor immunology, exercise genomics, and infectious disease (e.g., SARS-CoV-2). Her lab has developed tools like InstaPrism, NIFA, and L0 segmentation for data-driven biological discovery. Her work spans collaborations with institutions like UPMC (on tumor microenvironment) and the Molecular Transducers of Physical Activity Consortium (MoTraPAC). Notable projects include analyzing convergent evolution in marine mammals and subterranean species, and developing epigenetic biomarkers for disease states through the ECHO program. Lab members include PhD students (Rezwan Hosseini, Tugrul Balci) and postdocs (Tina Subic, Anish Sevekari). Past students Wynn Meyer now leads a group at Lehigh University. Her group emphasizes open-source tools (GitHub repository ChikinaLab) and interdisciplinary approaches to systems biology challenges.
Kara McKinley is an Assistant Professor of Stem Cell and Regenerative Biology at Harvard University , joining the department in 2021. She is a Principal Faculty member at the Harvard Stem Cell Institute , an Associate member of the Broad Institute of MIT and Harvard , and a Freeman Hrabowski Scholar at the Howard Hughes Medical Institute . Her research focuses on the regenerative capacity of the human uterus , particularly the endometrium, which undergoes ~400 cycles of tissue remodeling, shedding, and repair during the reproductive lifespan. Using rodent models , genetic, molecular, and live microscopy tools, her lab investigates cellular and molecular mechanisms of regeneration, defects leading to diseases like endometriosis, and applications in regenerative medicine . Her work also explores cell division , centromere biology , and CRISPR genome engineering . Current research trends in her publications include epithelial zonation in the small intestine , mechanisms of endometrial regeneration , macropinocytosis in Hydra , and academic mentorship strategies . Her studies span cellular biomechanics , mitotic regulation , and translational approaches for tissue repair. NIH Director’s New Innovator Award (terminated in 2025 litigation with federal government) Freeman Hrabowski Scholar (Broad Institute) Kara mentors Harvard undergraduates, graduate students, and postdoctoral fellows through rotations and research opportunities. Her lab is based at Harvard’s Bauer 306 and advocates for gender equity in life sciences faculty via the Leading Edge initiative. Funding includes a now-terminated NIH New Innovator grant aimed at menstrual health research.
David Simmons-Duffin is a Professor of Theoretical Physics at the California Institute of Technology (Caltech), where he has held positions since 2016. He is part of the Division of Physics, Mathematics and Astronomy, contributing to the Physics Department. His career progression includes roles as Visiting Associate (2016–17), Assistant Professor (2017–20), and Associate Professor (2020–21) before becoming full Professor in 2021. Education: A.B. and A.M. from Harvard University (2006), CASM from the University of Cambridge (2007), and Ph.D. from Harvard University (2012). His research focuses on conformal field theory (CFT), bootstrap methods, quantum field theory, and AdS/CFT correspondence. Key areas include precision computations in strongly coupled systems, critical phenomena, and applications to holography and quantum gravity. Research highlights include advancing the conformal bootstrap program, analyzing CFT data in 3D Ising models, and exploring connections between CFTs and gravitational theories. His work often bridges theoretical frameworks with numerical methods, yielding insights into operator product expansions (OPE), spectral gaps, and causality constraints. Affiliations include the Institute for Quantum Information and Matter (IQIM) and other Caltech research centers. His contributions have shaped modern approaches to understanding universality in critical systems and the geometric aspects of quantum field theories. Notable collaborations involve high-precision calculations, bootstrap island techniques, and studies of thermal QFT and light-ray operators. His work emphasizes interdisciplinary methods, combining analytic tools with computational advancements to tackle complex theoretical problems.
Rachel Sippy is a Research Fellow at the University of Cambridge , specializing in epidemiology and infectious disease dynamics within the Department of Psychiatry . Her work bridges public health, climate science, and computational methods.
Gary M. Shaw is the Rosemarie Hess Professor and Professor (Research) at Stanford University , with courtesy appointments in the Department of Epidemiology and Population Health and Department of Obstetrics & Gynecology - Maternal Fetal Medicine . He serves as Co-PI of the March of Dimes Prematurity Research Center at Stanford and PI of the California Center for Finding Causes and Preventives of Birth Defects . His research focuses on the Epidemiology of birth defects Gene-environment interactions in perinatal outcomes Nutritional factors in reproductive health . He has developed machine learning approaches for precision parenteral nutrition and predictive models for preterm birth, while investigating persistent metabolomic signatures following hypertensive pregnancy disorders. Shaw's recent work explores Climate change impacts on reproductive health Maternal-fetal immune interactions Epigenetic mechanisms in perinatal disease with applications of multiomics to neonatal intensive care units. As a member of Bio-X and the Maternal & Child Health Research Institute , he contributes to translational research networks while serving as Associate Editor for Birth Defects Research and American Journal of Medical Genetics . He supervises Med Scholar Project student Richard Liang Doctoral co-advisor for Saskia Comess and Richard Liang Master's advisor for Lenae Joe while leading the Division of Neonatology as Associate Chair for Clinical Research (2012-2025). His laboratory work integrates Metabolomic profiling Proteomic analysis Computational modeling Machine learning for biomedical data to advance neonatal care through precision medicine approaches.
Jeff S Abramson is a Professor of Physiology in the David Geffen School of Medicine at the University of California Los Angeles (UCLA). His research focuses on the structural and functional characterization of membrane transport proteins, particularly sugar transporters and mitochondrial channels. He maintains an active laboratory investigating the molecular mechanisms of cellular transport processes. Dr. Abramson's primary research interests center on membrane transport proteins, with particular emphasis on sugar symporters and voltage-dependent anion channels (VDACs). His work combines structural biology, biophysics, and biochemistry to understand the molecular mechanisms of transport, including conformational changes during transport cycles, substrate recognition, and regulation by membrane potential. His research has significant implications for understanding metabolic disorders, mitochondrial function, and potential therapeutic targets. Analysis of Dr. Abramson's publication record reveals a consistent focus on membrane protein structure-function relationships over the past two decades. His work demonstrates expertise in X-ray crystallography, cryo-electron microscopy, and functional assays to characterize transport proteins. Recent publications show increasing emphasis on mitochondrial biology, particularly VDAC structure and function, while maintaining his longstanding interest in sugar transport mechanisms. His research bridges fundamental biophysical principles with potential biomedical applications in metabolic diseases. Dr. Abramson has been awarded multiple NIH grants supporting his research, including the R35GM135175 grant titled 'Deciphering molecular details of cellular sugar transport and their roles in disease' (2020-2024), R01GM124783 'Functional and structural studies of unique pathogenic transporters involved in glycobiology' (2017-2021), and R01GM078844 'Structural and functional characterization of sugar transporters in health and disease' (2006-2020). As Principal Investigator, Dr. Abramson has mentored numerous graduate students and postdoctoral researchers. His laboratory has made significant contributions to understanding the structure-function relationships of membrane transport proteins through collaborations with researchers across multiple disciplines. The lab utilizes advanced techniques including X-ray crystallography, cryo-EM, electrophysiology, and computational modeling to address fundamental questions about membrane protein mechanisms. Dr. Abramson's laboratory is part of UCLA's broader research ecosystem focused on structural biology and membrane protein research. His work intersects with several research centers at UCLA including those focused on metabolic diseases and structural biology. The lab maintains active collaborations with researchers specializing in biophysics, computational modeling, and disease mechanisms to translate basic findings into potential biomedical applications.
Prashant Mali is a Professor in the Department of Bioengineering at the University of California, San Diego . His research bridges genome engineering, RNA biology, and biomedical applications, with a focus on CRISPR-Cas systems and ADAR-mediated RNA editing. Education : Ph.D. in Bioengineering Key Affiliations : UC San Diego, Altman Clinical and Translational Research Institute Dr. Mali's work centers on CRISPR-Cas9 technology , RNA editing , and human pluripotent stem cells . His lab develops tools for programmable gene regulation, synthetic lethal screens, and metabolic pathway analysis in disease contexts. Recent publications highlight innovations in circular RNA engineering , ADAR activity mapping , and metabolic reprogramming in cancer . His team employs multi-omics approaches and in vivo models to translate genome editing into clinical applications. Students and Collaborators Current Lab Members : Sami Nourreddine (Postdoc), Amir Dailamy (Graduate), Andrew Portell (Graduate), Michael Tong (Graduate) Alumni : Kyle Ford (PhD 2022), Nathan Palmer (PhD 2022), Udit Parekh (PhD 2021) Research Themes CRISPR Screens : Synthetic lethal interactions, oncogenic pathways, metabolic vulnerabilities RNA Editing : ADAR engineering, circular guide RNAs, clinical translation Tissue Engineering : Vascularized organoids, cardiac maturation, ex vivo models
Deqiong Ma is an Assistant Professor in the Department of Genetics at Yale University School of Medicine and Associate Director of the DNA Diagnostic Laboratory. She holds an MD from Tongji Medical University (1991), a PhD from the University of Tasmania (2003), and completed a postdoctoral fellowship at Duke University and a clinical fellowship at Albert Einstein College of Medicine. Her research focuses on genetic and genomic mechanisms underlying autism spectrum disorders, particularly copy number variants (CNVs), structural variation analysis, and clinical diagnostic methodologies. Key research interests include identifying novel genetic risk factors for autism using advanced genomic techniques, such as homozygosity mapping and fine-scale structural variation analysis. Her work bridges clinical genetics and molecular biology, with applications in diagnostic testing and understanding neurodevelopmental disorders. She collaborates extensively on studies involving autism candidate genes (e.g., MBD5, TBL1X) and genomic pathway analysis. Publications emphasize translational research, including diagnostic improvements for pediatric patients and elucidating genetic architecture in autism. She leads efforts in the DNA Diagnostic Lab to integrate genomic data into clinical practice, focusing on regions of homozygosity and uniparental disomy.
Scott Garman is Professor of Biochemistry at UMass Amherst, focusing on structural biology of glycoproteins in human diseases. PhD from Harvard University. Research areas: Lysosomal enzyme mechanisms in storage diseases (Fabry, Schindler); Malaria surface protein structures; Antibody-receptor interactions. Utilizes X-ray crystallography to study enzyme mutations causing disease. Key findings: Determined structures of α-galactosidase (Fabry disease) and α-NAGAL (Schindler disease), revealing molecular bases for enzyme dysfunction. Developed models for enzyme trafficking and substrate processing. Laboratory: Investigates protein folding diseases and develops therapeutic strategies. Collaborates on malaria vaccine development and antibody engineering.
Philip Boone, MD, PhD, is an Attending Physician in the Division of Genetics and Genomics at Boston Children's Hospital and an Instructor of Pediatrics at Harvard Medical School. He specializes in medical genetics with particular expertise in rare disorders, medical mysteries, deletion and duplication syndromes, and Cornelia de Lange syndrome. Dr. Boone sees patients at Boston Children's Brookline location (2 Brookline Place, 7th Floor) and provides comprehensive genetic care including diagnostics, counseling, and individualized management. Stanford University (Undergraduate, 2006) Baylor College of Medicine (Graduate & Medical School, 2013-2014) Boston Combined Residency Program (Internship & Residency, 2016-2020) Harvard Medical School Genetics Training Program (Fellowship, 2020) Dr. Boone's research focuses on neurodevelopmental disorders, chromatin regulation, and genetic diagnostics. His work spans from fundamental genetic mechanisms to clinical applications, with particular emphasis on cohesinopathies including Cornelia de Lange syndrome. He has contributed significantly to understanding genetic variants associated with growth disorders, developmental features, and structural chromosomal abnormalities. His research combines advanced genomic technologies with clinical insights to improve diagnosis and management of rare genetic conditions. Analysis of Dr. Boone's publication record reveals a strong focus on medical genetics with emphasis on neurodevelopmental disorders, chromatin regulation, and genetic diagnostics. His work spans basic research on gene function and regulation to clinical applications in rare disease diagnosis. A notable trend is his investigation of cohesin complex disorders, particularly SMC3 variants and their relationship to Cornelia de Lange syndrome. His publications demonstrate expertise in both traditional genetic analysis and cutting-edge genomic technologies including long-read sequencing and telomere-to-telomere assembly. Dr. Boone actively contributes to medical education through publications on genetic diagnostics and distance learning resources for medical genetics. He has co-authored educational materials that help advance the field's knowledge base and training capabilities. As an attending physician in the Division of Genetics and Genomics at Boston Children's Hospital and a research fellow in the Center for Genomic Medicine at Massachusetts General Hospital, Dr. Boone works within one of the largest pediatric genetics practices in the country. The division includes over 30 board-certified clinical geneticists, genetic counselors, dieticians, and nursing staff who provide comprehensive care for patients with both common and extremely rare genetic conditions.
Matthew Stephenson is a Lecturer at Flinders University's College of Science and Engineering, specializing in Artificial Intelligence applications for games. He leads the Data for Decisions initiative within the Factory of the Future Transdisciplinary Hub, focusing on AI-powered scenario generation for smart digital twins. Additionally, he is a member of IRL CROSSING, an international lab studying human-autonomous agent teaming dynamics. PhD in Computer Science (Australian National University, 2019) B.Sc.(Hons) in Computer Science (University of Canterbury, 2015) His research applies AI, Machine Learning, and Data Science to game domains, including intelligent agent development for physics-based environments, procedural content generation, and game analytics. He also investigates deceptive behaviors in multi-agent systems and leverages games as testbeds for real-world AI solutions. Recent publications focus on large language models for game benchmarking, physical reasoning challenges, and evolutionary game generation. Scientific awards include an honourable mention at Foundations of Digital Games (FDG'18). He supervises students in procedural generation, game AI, and physics-based task creation, with teaching roles in computational intelligence and neural networks courses.
Professor David Ackerley (Victoria University of Wellington) is a leading microbiologist and enzyme engineer specializing in directed evolution of bacterial enzymes for biotechnological applications. As Biotechnology Programme Director since 2006, he lectures in foundational courses like BTEC101 and BTEC201. Academic rank: Professor of Biotechnology Institutional affiliation: Victoria University of Wellington Research focus areas: Microbial Biotechnology, Drug Discovery, Synthetic Biology His research employs Darwinian evolutionary principles to engineer enzymes with enhanced activities, particularly targeting non-ribosomal peptide synthetases and nitroreductases for antibiotic development and cancer therapy. Recent work explores metagenomic domain substitution in pyoverdine biosynthesis and Purpuramine R from marine sponges. Key publications demonstrate innovations in metagenomic library construction , CRISPR screening for regeneration genes, and structural characterization of engineered enzymes. His team has developed NTR 2.0 , a high-efficacy nitroreductase for targeted cell ablation. Current research projects include: Clean solutions from dirty genes: Plastic-degrading enzyme discovery Engineering enzymes for CAR T-cell-chemotherapy synergy Repurposing niclosamide against Gram-negative superbugs Grants from the Health Research Council of New Zealand, Royal Society of New Zealand, and Cancer Society of NZ support his work. Collaborations span biomedical research, synthetic biology, and environmental applications.
Ueli Grossniklaus is an Ordinary Professor at the University of Zurich within the Faculty of Mathematical and Natural Sciences , affiliated with the Department of Plant and Microbiology . His work focuses on plant developmental biology, particularly epigenetic and genetic mechanisms governing reproduction and adaptation. Key Courses: Epigenetics, Plant Biology Workshop, Group Seminars on Current Research Laboratory Techniques: Advanced methods in plant cell mechanics, transcriptomics, and genome editing Research Interests span plant epigenetics, reproductive biology, and the interplay between environmental stress and genetic regulation. He investigates: Mechanistic control of gametogenesis and fertilization Epigenetic contributions to plant adaptation Evolutionary implications of asexual reproduction Biophysical forces in plant cell growth Publication Trends (2025–2018) reveal expertise in: Arabidopsis and fern model systems Epigenetic regulation (DNA methylation, histone dynamics) Apomixis and hybrid seed failure mechanisms Biomechanics of pollen tubes and carnivorous plants Genome editing tools (CRISPR) and long-read sequencing Scientific Collaborations include interdisciplinary projects on: Microfluidic devices for plant cell analysis Gene drive ecology and ethics 3D imaging of plant reproductive structures Advising and Grants focus on mentoring through research internships in developmental biology, genetics, and systems biology. His lab engages in: Epigenetic response to environmental stress Cell wall mechanics in reproduction Computational modeling of plant growth Laboratory Teams integrate plant biologists, bioengineers, and computational scientists to study: Mechanistic gene regulation Evolutionary developmental biology Microrobotics for cellular force measurement
