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Alexis BattleView profile

Associate Professor

• Genomics
• Machine Learning
• Computational Biology
• +3 more

Alexis Battle is an Associate Professor at Johns Hopkins University with appointments in Biomedical Engineering , Computer Science , and Genetic Medicine (secondary). She directs the Malone Center for Engineering in Healthcare and serves as Deputy Director of the Data Science and AI Institute . Educated at Stanford University (PhD in Computer Science, 2013), Battle transitioned to academia after leadership roles at Google. Research Focus: Battle’s work bridges genomics and machine learning , emphasizing the impact of genetic variation on human health. Her lab develops tools like Watershed to predict functional effects of rare variants, aiming to enhance rare disease diagnosis. Key themes include non-coding DNA analysis , personalized genomics , and systems biology , with applications in cardiovascular disease and neurodegenerative disorders . Publications & Awards: Over 60 peer-reviewed articles in journals like Nature , Science , and Genome Biology , with recent emphasis on single-cell transcriptomics , multiomics integration , and telomere biology . Recipient of the President’s Frontier Award (2022), Microsoft Investigator Fellowship (2019), and Searle Scholar (2016). Scientific Awards: 2022 President’s Frontier Award 2019 Microsoft Investigator Fellowship 2019 Johns Hopkins Discovery Award 2017 Johns Hopkins Catalyst Award 2016 Searle Scholar Advising & Funding: Mentors 11 PhD students, 3 undergraduates, and postdoctoral fellows. Her research is funded by NIH, Searle Scholars, and institutional grants. The Battle Lab collaborates on projects like the GTEx Consortium , focusing on gene regulation and clinical genomics .

Kristian HelinView profile

Professor

• Cancer biology
• Epigenetics
• Stem cells
• +5 more

Kristian Helin is Chief Executive and President of The Institute of Cancer Research (ICR), London, and a Professor with affiliations at the University of Copenhagen and Memorial Sloan Kettering Cancer Center. He founded/directed the Biotech Research & Innovation Centre (BRIC), Centre for Epigenetics, and Danish Stem Cell Center. His research focuses on epigenetic regulation, cancer biology, and stem cell differentiation. Education: Ph.D. Molecular Biology, University of Copenhagen (1991) M.Sc. Chemical Engineering, Technical University of Denmark (1988) Research Interests: Helin's work deciphers molecular mechanisms in cancer, emphasizing epigenetic drivers (e.g., H3K4/H3K36 methylation), transcriptional control, and therapeutic targeting. His lab identified E2F transcription factors, linked epigenetic dysregulation to leukemia/lymphoma, and develops drugs targeting kinases/epigenetic enzymes. Research spans acute myeloid leukemia, B-cell lymphoma, and solid tumors using CRISPR screens and preclinical models. Publication Trends: Recent articles (2023-2025) focus on epigenetic therapy, chromatin remodeling, and kinase signaling in cancer. Key themes include targeting NSD1/KDM5C/RIOK2 enzymes, combination therapies (EZH2/DOT1L inhibitors), and metabolic regulation in leukemia. Studies bridge basic mechanisms (enhancer regulation, insulator accessibility) with translational applications. Awards: Anders Jahre Prize (2014), ERC Advanced Grant (2011), Novo Nordisk Prize (2008) Memberships: Academia Europaea, Royal Danish Academy, EMBO Leadership: Helin co-founded EpiTherapeutics (acquired by Gilead) and leads the Epigenetics and Cancer lab at ICR. His team investigates AML pathogenesis and chromatin complexes like HUSH/NURF. Grants include ERC funding and innovation prizes.

Dewey G. McCaffertyView profile

Professor

• Chemical Biology
• Chromatin Modification
• Enzymology
• +3 more

Dewey G. McCafferty is Professor of Chemistry at Duke University with appointments in Biochemistry and the Duke Cancer Institute. His research focuses on chemical biology of chromatin-modifying enzymes and ubiquitin signaling pathways relevant to neurodegeneration and infection. Notable work includes discovering the lasso peptide antibiotic Arcumycin, characterizing the Nedd4 ubiquitin ligase in Parkinson's disease models, and developing chemoproteomic approaches for target identification. Key contributions include elucidation of the futalosine pathway in Chlamydia infections, mechanisms of CPAF protease in bacterial pathogenesis, and engineering of histone demethylase enzymes. McCafferty received the Eli Lilly Award in Biological Chemistry (2005) and directs NIH-funded projects on ubiquitin ligases in neurodegeneration.

Waldemar KolanusView profile

Professor

• Molecular Immunology
• Cell Signaling
• Signal Transduction Pathways
• +4 more

Prof. Waldemar Kolanus leads the Molecular Immunology and Cell Biology department at the University of Bonn's Life & Medical Sciences Institute (LIMES) . His research bridges immunoregulation , stem cell dynamics , and metabolic stress responses in immune cells. Unit 2 member at LIMES Principal investigator in SFB 704 and ImmunoSensation Cluster Leads a multidisciplinary lab with postdocs, PhD students, and technical staff His work focuses on intracellular signaling pathways connecting immune activation to tissue homeostasis, particularly through: Cytohesin proteins in integrin-mediated adhesion and migration TRIM71 in stem cell regulation and congenital hydrocephalus High-salt environments affecting macrophage function Publication trends show expertise in immune cell migration , genetic models , and chemical inhibition , with frequent use of mice and zebrafish for in vivo studies. Key articles explore: TRIM71's dual role in auditory development and germ cell maintenance Cytohesin family's Golgi regulation and insulin signaling Ruxolitinib's off-target migration inhibition of dendritic cells Contact details: Address: LIMES Institute, Carl-Troll-Straße 31, Bonn Email: kolanus.sekretariat@uni-bonn.de Phone: +49 228 73-62788

• Stem Cell Biology
• Genetic Engineering
• Epigenetics
• +5 more

Konstantinos Anastassiadis is a Professor at the Center for Molecular and Cellular Bioengineering (CMCB) of Dresden University of Technology , leading the Stem Cell Engineering group at the Biotechnology Center (BIOTEC) . His research focuses on unraveling molecular pathways regulating stem cell self-renewal and lineage commitment, with a strong emphasis on genetic engineering tool development and epigenetic mechanisms during cellular reprogramming. The lab utilizes mouse and human embryonic stem cells, neural stem cells, mesenchymal stromal cells, and induced pluripotent stem cells (iPSCs) in their investigations. Core Research Areas: Molecular regulation of stem cell fate Epigenetic mechanisms (e.g., UTX/UTY histone demethylases) Genetic engineering tool development (Flp, Dre, Vika recombinases, CRISPR protocols) Conditional immortalization systems for rare cell expansion Publications highlight his contributions to understanding: Role of histone methyltransferases (MLL1, MLL2, Setd1b) in hematopoiesis and cancer Epigenetic regulation during mouse development and spermatogenesis Genetic tools for protein tagging, transposon-mediated BAC transgenesis Interactions between stem cells and niche microenvironments Transcriptional and mechanical markers during reprogramming Collaborations span immunology , developmental biology , and bioinformatics . The lab actively participates in teaching activities at CMCB and maintains a focus on translational applications of stem cell research.

Silvia SantosView profile

Researcher

• Developmental Biology
• Cell Biology
• Cell Cycle & Chromosomes
• +3 more

Silvia Santos is a Group Leader at the Francis Crick Institute, leading the Quantitative Stem Cell Biology Lab since January 2018. Her research focuses on understanding cell decision-making during transitions, specifically cell division and differentiation in early development using human embryonic stem cells. She combines experimental techniques with theoretical approaches, including advanced microscopy, genomics, and computational modeling. Education and Career: PhD in Molecular and Cell Biology from EMBL-Heidelberg (2008), followed by postdoctoral training at Stanford University (2009-2014). She held an MRC Career Development Award at Imperial College London (2014-2017) before joining the Crick. Her work emphasizes interdisciplinary methods to study cellular processes in health and disease. Research Interests: Spatial-temporal control in cell decisions, stem cell differentiation, cell cycle regulation, and modeling embryonic development. She advocates for women in science and mentorship programs for early-career researchers. Key Achievements: Recipient of Marie Curie E-Star, EMBO, and HFSP fellowships. Recognized with the BioModels’ Model of the Year 2023 for contributions to systems biology. Her lab develops models like gastruloids to study embryonic development. Grants and Mentorship: Supported by MRC and other grants. Committed to fostering excellence in training and mentorship, previously chairing mentorship initiatives at Imperial College London. Labs and Teams: Quantitative Stem Cell Biology Lab at the Crick, collaborating with interdisciplinary teams on projects involving proteomics, genomics, and high-throughput screening.

Paula Gonzalez-FigueroaView profile

Research Fellow

• Immunology
• Autoimmunity
• Allergy
• +6 more

Dr. Paula Gonzalez-Figueroa is a Research Fellow at the Clinical Hub for Interventional Research (CHOIR) in the College of Health and Medicine at The Australian National University (ANU). She holds a PhD in Medical Sciences from ANU and completed postdoctoral research at the John Curtin School of Medical Research (ANU) and the Francis Crick Institute (UK). Her research focuses on immunology, autoimmunity, allergy, and clinical translation. Education: PhD in Medical Sciences (ANU), Biotechnology degree. Research Interests: Regulatory T cells, germinal centers, B cell biology, neuritin-based therapies, preclinical drug testing, and early-phase clinical trials. Affiliations: CHOIR (Researcher), Polizzotto Group, Genome Sciences and Cancer Division. Her work includes developing a neuritin-based biotherapeutic for allergies and autoimmune diseases, and leading preclinical/Phase I clinical programs for hematological cancers. She has contributed to studies on Tfr cell regulation, IgE responses, and germinal center dynamics. Publications span immunology, molecular biology, and translational research, with notable contributions to Nature Immunology , Cell , and Journal of Experimental Medicine .

Gabriele SchweikertView profile

Senior Lecturer

• Computational Biology
• Machine Learning
• Epigenetics
• +6 more

Dr. Gabriele Schweikert is a Senior Lecturer and Principal Investigator with a joint appointment between the Division of Computational Biology in the School of Life Sciences at University of Dundee and Cyber Valley in Tuebingen. Her research focuses on applying machine learning techniques to understand epigenetic mechanisms and molecular processes in living cells. Dr. Schweikert completed her PhD at the Max Planck Institute Tuebingen working with Schoelkopf, Weigel, and Raetsch labs on machine learning for computational gene finding. She subsequently joined Adrian Bird's lab at the Wellcome Trust Center for Cell Biology in Edinburgh, a pioneer in epigenomic research. Prior to her current position, she held prestigious Marie Curie and EMBO Fellowships at the School of Informatics, University of Edinburgh. Her research interests center on using machine learning to decode epigenetic mechanisms that determine cellular identity and function. She investigates how cells with identical DNA can differentiate into specialized cell types through epigenetic regulation, with particular focus on applications in understanding tumorigenesis where epigenetic machinery malfunctions. Her work combines high-throughput epigenomic data with advanced computational approaches to address complex biological questions. Analysis of her recent publications reveals a strong focus on epigenomic data analysis, machine learning applications in biology, and computational approaches to understanding gene regulation. Her work spans from fundamental epigenetic mechanisms to practical applications in disease research, with growing emphasis on individual-specific epigenomic analysis and explainable AI in biomedical contexts. UKRI Future Leaders Fellowship (2020, £1.6 million) Marie Curie Fellowship EMBO Fellowship Dr. Schweikert actively supervises PhD students and has received significant research funding for projects including 'Machine Learning Methods to Re-Annotate Histone Modifications,' 'Unlocking The Alternative Splicing Code,' and 'GPU-Based Machine Learning System For Fundamental Biological Research.' She is involved in multiple interdisciplinary collaborations and frequently presents her work at major conferences including ELLIS Health program retreat, Epigenetics Meetings, and RECOMB workshops. She maintains active research laboratories in both Dundee and Tuebingen, fostering international collaboration between computational biologists, machine learning experts, and experimental biologists to advance our understanding of epigenetic regulation in health and disease.

Peter A. JonesView profile

Professor

• Epigenetics
• DNA methylation
• Cancer epigenetics
• +7 more

Peter A. Jones is President and Chief Scientific Officer at the Van Andel Institute (VAI) in Grand Rapids, Michigan, where he leads the Department of Epigenetics. He previously served as Director of the USC Norris Comprehensive Cancer Center from 1993 to 2011 and has been a central figure in advancing epigenetics research, particularly in cancer. His laboratory investigates DNA methylation, chromatin dynamics, and epigenetic therapies. Research Interests: Dr. Jones's work centers on epigenetic mechanisms in cancer, including DNA methylation, histone modifications, nucleosome positioning, and the therapeutic potential of epigenetic drugs. His research has pioneered the use of DNA methylation inhibitors like 5-azacytidine and explored viral mimicry as a mechanism for immune activation in cancer. He also studies transposable elements and their role in gene regulation and immune response. Publication Trends: His recent publications (2021–2024) reveal a strong focus on the interplay between epigenetics and immunotherapy, particularly how DNA methyltransferase inhibitors (DNMTi) induce viral mimicry, enhance immune recognition, and improve responses to checkpoint blockade. Studies span hematological malignancies, solid tumors, and T cell biology, with frequent collaboration with Stephen Baylin and others. Scientific Awards: Member, National Academy of Sciences Member, National Academy of Medicine Fellow, AACR Academy Fellow, AAAS Fellow, American Academy of Arts and Sciences Kirk A. Landon Award for Basic Cancer Research (2009) Medal of Honor, American Cancer Society (2011) Outstanding Investigator Grant, NCI Harvey Prize (2024) Advising and Grants: Dr. Jones mentors multiple postdoctoral fellows, graduate students, and research scientists. His lab is supported by major grants, including the VAI-SU2C Epigenetics Dream Team, which has launched 15 clinical trials. He has received sustained funding from the National Cancer Institute and collaborates with institutions worldwide to advance epigenetic therapies. Labs and Teams: He leads the Peter Jones Laboratory at VAI, a multidisciplinary team investigating epigenetic regulation in cancer. The lab includes computational biologists, clinical researchers, and molecular biologists, working on both basic mechanisms and translational applications. The team is part of larger collaborative initiatives such as the VAI-SU2C Epigenetics Dream Team and the International Linked Clinical Trials Program.

Jacques ArchambaultView profile

Professor

• Human Papillomavirus (HPV)
• Polyomavirus
• Viral DNA Replication
• +4 more

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.

Christina LeslieView profile

Research Professor

• Computational Biology
• Systems Biology
• Machine Learning
• +7 more

Dr. Christina Leslie is a Research Professor and Member of the Computational & Systems Biology Program at Memorial Sloan Kettering Cancer Center (MSK). She leads an active research laboratory focused on developing computational approaches to understand complex biological systems. Dr. Leslie earned her PhD from the University of California, Berkeley and has established herself as a leading computational biologist in cancer research and immunology. Computational & Systems Biology Program, Memorial Sloan Kettering Cancer Center Gerstner Sloan Kettering Graduate School of Biomedical Sciences Dr. Leslie's research focuses on developing novel computational methods to study cellular biological systems from a global and data-driven perspective. Her lab exploits diverse high-throughput functional and genomic data to understand molecular networks underlying fundamental cellular processes, including transcription regulation, pre-mRNA processing, signaling, and post-transcriptional gene silencing. Her algorithmic methods draw heavily on machine learning to build accurate predictive models from noisy and high-dimensional biological data. Key areas of interest include modeling cell-type specific transcriptional programs and dissecting co- and post-transcriptional regulation, particularly microRNA-mediated gene regulation. Analysis of Dr. Leslie's publication record over the last five years reveals a strong focus on computational approaches to cancer genomics, immunology, and epigenetics. Her work bridges multiple disciplines, with a particular emphasis on developing machine learning methods to interpret complex biological data. The publications demonstrate increasing sophistication in integrating multiple data types (genomic, transcriptomic, epigenomic) to understand cancer biology and immune responses. Recent work shows a growing emphasis on single-cell technologies and spatial analysis of tumor microenvironments. Introduction of string kernel methodology for SVM classification of biological sequences Development of algorithms for predictive modeling of gene regulation First systems-level analyses of competition between microRNAs and between target transcripts Dr. Leslie actively mentors numerous graduate students and research associates, with current lab members including Vianne Gao, Alireza Karbalaghareh, Erik Ladewig, and several others. Her lab has received significant research funding to support their work on computational approaches to cancer biology and immunology. The Leslie Lab maintains close collaborations with multiple experimental groups at MSK, facilitating the translation of computational insights into biological understanding. The Leslie Lab operates within the Computational & Systems Biology Program at MSK, with strong ties to both the research and clinical missions of the institution. The lab maintains state-of-the-art computational infrastructure for analyzing large-scale genomic and proteomic datasets and collaborates extensively with wet-lab researchers to validate computational predictions experimentally.

Vadim BackmanView profile

Professor

• Physical Genomics
• Chromatin Engineering
• Nanotechnology
• +5 more

Dr. Vadim Backman is the Sachs Family Professor of Biomedical Engineering and Medicine at Northwestern University's McCormick School of Engineering and Applied Sciences and Feinberg School of Medicine. He holds additional roles as Professor of Medicine (Hematology/Oncology) and Biochemistry and Molecular Genetics, Associate Director of Research Technology and Infrastructure at the Robert H. Lurie Comprehensive Cancer Center, and Director of the Center for Physical Genomics and Engineering. He earned his Ph.D. in Medical Engineering from Harvard-MIT and M.S./B.S. in Physics from St. Petersburg Polytechnic Institute. His research focuses on physical and biological science intersections, developing nanoscale imaging and computational technologies to study chromatin dynamics and their role in disease. Key areas include cancer diagnostics/therapeutics, chromatin engineering, and genome nanoimaging. Dr. Backman has published over 230 papers, holds 20+ patents, and leads large-scale projects like NCI Bioengineering Research Partnerships. Education: Ph.D. (Harvard-MIT), M.S. (MIT), M.S./B.S. (St. Petersburg Polytechnic Institute) Affiliations: PhD Programs in Applied Physics and Interdisciplinary Biological Sciences Research emphasizes chromatin's role in disease, with clinical translation for diagnostics and therapy. His lab develops technologies like nano-CHIA and ChromSTEM, advancing understanding of genomic organization and epigenetic regulation. Awards include the Cozzarelli Prize and MIT Technology Review's Top 100 Innovators. Awards: Cozzarelli Prize (2017), AIMBE Fellowship (2009), NSF CAREER Award (2003) Grants and collaborations include managing multi-investigator projects and co-founding biotech companies. Courses taught: BME 302 (Quantitative Systems Physiology), BME 429 (Advanced Physical and Applied Optics).

Monica P. ColaiacovoView profile

Professor

• Meiosis
• Chromosome dynamics
• DNA repair
• +6 more

Dr. Monica P. Colaiacovo is a Professor of Genetics at Harvard Medical School, where she leads research in the Department of Genetics within the Blavatnik Institute. Her laboratory is located in the New Research Building in Boston, Massachusetts. Dr. Colaiacovo's research focuses on the molecular mechanisms of meiosis, chromosome dynamics, and DNA repair in the Caenorhabditis elegans model system. Her work examines how environmental toxicants impact germline function and reproductive health, with particular emphasis on chromosome segregation, recombination, and the synaptonemal complex. Her publications reveal a consistent research trajectory examining critical aspects of meiotic chromosome behavior, including double-strand break formation and repair, crossover designation, and chromosome movement during prophase I. Her laboratory has made significant contributions to understanding how environmental exposures like bisphenol A and phthalates disrupt normal meiotic progression and lead to germline dysfunction. Dr. Colaiacovo's work demonstrates strong interdisciplinary connections between basic chromosome biology, environmental health sciences, and reproductive medicine. Her research group employs advanced genetic, molecular, and imaging techniques to dissect the complex mechanisms ensuring accurate chromosome segregation during gamete formation. Her laboratory actively collaborates with researchers studying aging, DNA repair pathways, and environmental toxicology, as evidenced by publications spanning multiple high-impact journals including Nature, PLoS Genetics, and Genetics.

Kumar SomyajitView profile

Associate Professor

• DNA Repair Mechanisms
• Genome Stability
• Replication Stress
• +4 more

Kumar Somyajit is Associate Professor at the University of Southern Denmark's Department of Biochemistry and Molecular Biology. He leads research on DNA replication and genome surveillance mechanisms using mammalian cell models. Research focuses on: Metabolic regulation of DNA replication Replisome plasticity under stress Homology-directed repair mechanisms Chromatin dynamics in cancer Recipient of Lundbeck Foundation Fellowship (2021). Current projects investigate metabolic coupling to genome surveillance in cancer and development. Supervises PhD students in DNA repair and replication studies.

Amy Catherine RowatView profile

Professor

• Mechanobiology
• Cancer biophysics
• Single-cell mechanics
• +6 more

Amy Catherine Rowat is a full Professor in the Department of Integrative Biology and Physiology at UCLA's College of Letters and Science. She directs an interdisciplinary research program that integrates mechanobiology, microfluidics, cancer biophysics and food engineering to understand how physical forces shape cell behavior and to develop sustainable biotechnologies. Education & Affiliations: Professor, Department of Integrative Biology and Physiology, UCLA Member, UCLA College of Letters and Science Research Interests: Rowat's group deciphers how mechanical properties of cells and their nuclei influence disease progression and therapeutic response. Using high-throughput microfluidic deformability cytometry, her team discovered that cancer cells become stiffer and more invasive upon β-adrenergic signaling, linking stress hormones to metastatic potential. Parallel efforts focus on nuclear envelope mechanics, showing that histone H1.0 and transient nuclear deformation modulate chromatin structure and cell reprogramming. Beyond biomedicine, Rowat pioneers biophysical approaches for sustainable food production. She engineers edible scaffolds and emulsion-templated microcarriers to culture meat at scale, demonstrating spontaneous fusion of adipogenic and myogenic microtissues into marbled steak-like constructs. Recent Article Trends (2020-2025): Her latest publications reveal a cohesive trajectory: coupling mechanobiology to epigenetic regulation (viscoelastic matrix enhances chromatin remodeling), advancing single-cell mechanical phenotyping (optomagnetic arrays, high-throughput screens), translating findings to cancer therapy (β-blockers to sensitize chemotherapy) and expanding engineered foods (scalable cultured-meat bioprocessing). Funding & Awards: NIH R21 CA245667 (PI) – Repurposing beta-blockers to improve chemotherapy response (2021-2023) Laboratory & Teams: Rowat leads an active research laboratory at UCLA that trains graduate students and postdocs at the intersection of physics, engineering and biology. The lab maintains collaborations across UCLA Engineering, Jonsson Comprehensive Cancer Center, and external partners in food science and biotechnology companies.