جست‌وجوی استاد و پژوهشگر

Ilias Georgakopoulos-Soaresمشاهده پروفایل

استادیار

• Cancer genomics and transcriptomics
• Gene regulation
• DNA and RNA secondary structures
• +۵ مورد دیگر

Ilias Georgakopoulos-Soares, PhD, is an Assistant Professor at Pennsylvania State University with joint appointments in the Department of Molecular and Precision Medicine and the Department of Public Health Sciences, and is also affiliated with the One Health Microbiome Center and the Penn State Cancer Institute. Research Interests: His laboratory integrates computational biology and genomics to address fundamental and translational questions in cancer biology, gene regulation, and human disease diagnostics. Central themes include: Cancer genomics and transcriptomics, especially determinants of mutagenesis and immune microenvironment interactions. Gene regulatory mechanisms, focusing on cis-regulatory elements and the impact of DNA/RNA secondary structures such as G-quadruplexes and R-loops. Development of novel computational methods and software tools for high-throughput genomic data analysis, including nullomer-based diagnostics and massively parallel reporter assays. Scientific Output: Since 2021, Dr. Georgakopoulos-Soares has published more than 40 peer-reviewed articles spanning Nature , Nature Communications , Nature Genetics , Genome Biology , Nucleic Acids Research , and other leading journals. His work highlights converging interests in multi-omics cancer analyses, immune cell profiling, sequence-structure-function relationships, and method development for genomic sequence mining. Laboratory & Collaborations: The Georgakopoulos-Soares lab employs an interdisciplinary approach, collaborating widely across Penn State’s Cancer Institute, microbiome initiatives, and external consortia to translate genomic insights into diagnostic and therapeutic advances.

Douglas M. Rudenمشاهده پروفایل

استاد

• Environmental toxicology
• Epigenomics
• Developmental origins of health and disease (DOHaD)
• +۴ مورد دیگر

Douglas M. Ruden is a Professor and Director of Epigenomics at Wayne State University’s Institute of Environmental Health Sciences, housed within the Eugene Applebaum College of Pharmacy and Health Sciences. He holds joint appointments in IEHS and the Department of Obstetrics and Gynecology. Research Focus: Dr. Ruden’s laboratory investigates how environmental toxicant exposures during pregnancy influence long-term child health outcomes. His work integrates toxicogenomics, stem cell biology, and epigenomics to uncover the mechanisms underlying developmental programming and disease susceptibility. Current projects include NIH-funded ECHO consortium studies examining prenatal exposures to phthalates, PFAS, heavy metals, and dietary factors in relation to neurodevelopment, metabolic health, and epigenetic alterations in children. His lab also develops high-throughput screening platforms using embryonic and trophoblast stem cells to model stress responses and predict developmental toxicity. Teaching Contributions: Dr. Ruden teaches graduate-level courses including Interdisciplinary Cell and Molecular Biology (IBS7015), Introduction to Genetics (MGG7015), Bioinformatics (MGG7050), and Advanced Topics in Pharmacology (PHC7650), emphasizing interdisciplinary approaches in environmental health sciences and genomics. Laboratory and Collaborations: The Ruden lab collaborates extensively with the University of Michigan, Michigan State University, and Henry Ford Health Systems as part of the ECHO program. These partnerships enable large-scale cohort studies and translational research linking environmental exposures to pediatric health outcomes.

Hongjun Songمشاهده پروفایل

استاد

• Neural Stem Cell Regulation
• Adult Hippocampal Neurogenesis
• Neuroepigenetics
• +۵ مورد دیگر

Hongjun Song serves as Perelman Professor of Neuroscience at the University of Pennsylvania's Perelman School of Medicine within the Department of Neuroscience. His laboratory maintains dual appointments with the Department of Neuroscience and is affiliated with multiple graduate groups including Biochemistry and Molecular Biophysics, Cell and Molecular Biology, and Neuroscience. Research Expertise: Dr. Song's laboratory investigates two core areas: (1) neural stem cell regulation and neurogenesis in developing and adult mammalian brains, and (2) epigenetic and epitranscriptomic mechanisms in the nervous system. His work explores how dysfunction in these processes contributes to brain disorders. Key methodologies include single-cell genetic approaches, high-throughput sequencing (RNA-seq, ChIP-seq, Bisulfite-seq, ATAC-seq), and single-cell RNA-seq bioinformatics pipelines. Publication Trends: Recent work (2024-2025) demonstrates expansion into organoid modeling of neurodevelopmental disorders, glioblastoma, and Alzheimer's disease, with emphasis on epitranscriptomic regulation (m6A methylation), cross-species neurogenesis comparisons, and therapeutic targeting of epigenetic mechanisms. His publications consistently bridge molecular mechanisms with circuit-level functional outcomes. Landis Award for Outstanding Mentorship (2022) - Recognized for purposeful, individualized mentoring extending beyond science to trainees' personal lives National Academy of Medicine (2020) - Elected for contributions to neuroscience AAAS Fellow (2022) - Elected alongside seven other Penn faculty Mentoring Impact: Dr. Song's laboratory has trained over 50 researchers including 30+ PhD students and postdocs, many now leading independent labs at institutions like UCSF, Mount Sinai, and KAIST. His mentoring philosophy emphasizes helping trainees develop independent research projects they can own, with lab culture fostering collaboration across diverse backgrounds while maintaining scientific rigor. Trainees credit him with supporting career paths aligned with individual interests and skills. Research Infrastructure: The lab maintains cutting-edge capabilities in single-cell analysis, neural organoid modeling, and epigenetic/epitranscriptomic profiling, with recent focus on human-specific neurogenic mechanisms and therapeutic applications for brain disorders.

Andrew Nelsonمشاهده پروفایل

استادیار مدعو

• Plant Stress Responses
• RNA Biology
• Long Non-coding RNAs
• +۴ مورد دیگر

Andrew Nelson serves as Associate Professor and Chief Scientific Officer at the Boyce Thompson Institute (BTI) with a formal academic appointment as Adjunct Assistant Professor in the Department of Plant Biology within Cornell University's School of Integrative Plant Science . His research bridges molecular biology and computational genomics to address fundamental questions in plant stress adaptation. Nelson's work focuses on RNA-mediated regulatory mechanisms in plant stress responses, particularly investigating long non-coding RNAs (lncRNAs) and RNA chemical modifications (epitranscriptome). Key research areas include: Systematic identification of lncRNAs across 15 agriculturally significant plant species Development of computational tools for epitranscriptome analysis using public RNA-seq data Comparative studies of RNA modifications in Brassicaceae under heat/salt stress Integration of phenomics and genomics through the Mechanisms of Plant Resilience (MoPR) Cluster His lab leverages NSF-funded projects (IOS PGRP 1758532, 2023310) to develop resources for the plant science community. Analysis of Nelson's recent publications reveals strong emphasis on transcriptome dynamics during abiotic stress , with growing focus on field applications for crop resilience. His work increasingly integrates multi-omics approaches (epitranscriptomics, phenomics, comparative genomics) to translate basic discoveries into agricultural solutions, particularly for drought and salinity tolerance. Nelson collaborates extensively with researchers at University of Pennsylvania (Brian Gregory), University of Arizona (Eric Lyons), and Centenary College of Louisiana (Rebecca Murphy) on epitranscriptome projects. His lab actively mentors graduate students and undergraduates through BTI's research programs. The Nelson lab operates within BTI's state-of-the-art facilities in Ithaca, NY, utilizing advanced sequencing technologies including Nanopore direct RNA sequencing. Current projects emphasize comparative analyses across stress-tolerant species like Eutrema salsugineum to identify conserved regulatory mechanisms applicable to crop improvement.

Ly Vuمشاهده پروفایل

استادیار

• RNA Modifications
• Hematopoietic Stem Cells
• Leukemia Pathogenesis
• +۴ مورد دیگر

Dr. Ly Vu serves as an Assistant Professor at the University of British Columbia's Faculty of Pharmaceutical Sciences and as a Scientist at the Terry Fox Laboratory, BC Cancer Research Centre. Her dual appointments position her at the nexus of academic research and clinical translation within British Columbia's premier cancer research infrastructure. Dr. Vu's research program focuses on post-transcriptional and translational regulation in hematopoietic stem cells and leukemogenesis , with particular emphasis on RNA modifications (especially m6A methylation), deadenylation complexes, and RNA-binding proteins. Her laboratory employs integrated approaches spanning Human and murine disease models Global transcriptomic and epitranscriptomic profiling Functional genomics screens Translational control assays to dissect mechanisms driving leukemia stem cell maintenance. Analysis of her 15 most recent publications reveals a dominant research trajectory in RNA-centric regulation of hematopoietic malignancies , with emerging themes in immune evasion mechanisms and therapeutic targeting. Key technical innovations include Nanopore direct RNA sequencing applications and characterization of the CCR4-NOT deadenylation complex in leukemogenesis. Her scientific recognition includes: Terry Fox New Investigator Award (2022) ASH Scholar Award (2020) Leukemia & Lymphoma Society Fellowship (2018) reflecting her rising prominence in hematology research. Dr. Vu currently leads multiple major grants totaling over $2 million CAD, including CIHR Operating Grants and Terry Fox New Investigator funding, supporting her laboratory's mission to develop RNA-targeted leukemia therapies. Her research group collaborates extensively with the Terry Fox Laboratory's core facilities including Strand-seq, Flow Cytometry, and Integrated Mouse Modeling services.

• mRNA Translation
• RNA Biology
• Virology
• +۳ مورد دیگر

Dr. Evangelos D. Karousis is a Lecturer and Group Leader at the Karousis Lab within the University of Bern and associated with the Multidisciplinary Center for Infectious Diseases (MCID) . His research focuses on mRNA translation mechanisms in both health and disease contexts, particularly examining coronavirus Nsp1 interactions with host ribosomes and mRNA degradation pathways. His scientific contributions include developing cell-free translation systems from diverse human cell types, analyzing translational covariation patterns across cell lines, and investigating viral RNA structures that modulate host translation. He has received recognition through the Lecturer of the Year Award from Bern's Biology department. Dr. Karousis collaborates extensively with institutions like NCCR RNA & Disease , ETH Zurich , and Gene Center Munich . His work spans molecular virology, ribosome biology, and RNA quality control systems, with active participation in scientific events such as the Eukaryotic RNA Turnover meeting in Brighton and RNA Society conferences.

Jean-Yves Roignantمشاهده پروفایل

دانشیار

• RNA modifications
• Epitranscriptomics
• Gene expression regulation
• +۳ مورد دیگر

Dr. Jean-Yves Roignant is an Associate Professor at the Center for Integrative Genomics within the Faculty of Biology and Medicine at the University of Lausanne (UNIL). His research focuses on the role of RNA modifications in regulating gene expression during animal development and behavior. He previously led an independent group at the Institute of Molecular Biology in Mainz (2012-2019) and conducted postdoctoral work at NYU Langone Medical Center. Education: PhD in Biology (2003) from University of Paris Diderot. Research Interests: RNA modifications and epitranscriptomics are central to his work, as they explore dynamic post-transcriptional regulation mechanisms analogous to DNA epigenetics. His lab employs Drosophila melanogaster to investigate three axes: mapping RNA modifications, elucidating their functions, and understanding their evolutionary roles in disease. Publications reflect expertise in m6A methylation, RNA-binding proteins, and developmental gene regulation. Notable collaborations include work on mRNA stabilization and axonal growth.

Meni Wanunuمشاهده پروفایل

استاد

• Single-Molecule Biophysics
• Nanotechnology
• Biomolecular Engineering
• +۳ مورد دیگر

Meni Wanunu is a Professor of Physics and Bioengineering at Northeastern University, with an affiliation in the Department of Chemical Engineering. His research focuses on developing nanotechnology-based methods for studying biomolecules at the single-molecule level, including nanopore sensors for RNA sequencing and proteomics. His lab bridges fundamental research with translational tools using micro/nanolithography and microfluidic devices. Education: PhD in Chemistry/Materials and Interfaces from the Weizmann Institute of Science (2005). Research Interests: Single-molecule analysis, nanopore technology, electro-optical zero-mode waveguides, and engineered biomolecular sensors. His work integrates computational tools for big data analysis alongside experimental methods. Grants & Awards: NIH grants (e.g., $4.2M for RNA sequencing tools), Northeastern NAI Innovator of the Year Award (2024), and multiple patents (e.g., lipid-free nanopore anchoring). He has been cited in the top 2% of global scientists by Stanford University (2023-2024). Labs/Teams: Wanunu Lab, collaborating with Yale University and industry partners like Oxford Nanopore Technologies.

Shobbir Hussainمشاهده پروفایل

دانشیار

• Human Genetics
• Molecular Biology
• Neurodevelopmental Disorders
• +۳ مورد دیگر

Shobbir Hussain is an Associate Professor and Senior Lecturer in the Department of Life Sciences at the University of Bath. He holds a PhD in Human Genetics from King’s College London and completed postdoctoral training at the University of Cambridge. His research focuses on understanding how mRNA transcriptome plasticity influences neurodevelopmental disorders and learning difficulties, employing next-generation sequencing and transgenic models for in vivo studies. Education: PhD in Human Genetics, King’s College London Postdoctoral training at the University of Cambridge Research Interests: Dr. Hussain’s work centers on molecular investigations of mRNA transcriptome dynamics, particularly in neurodevelopmental disorders. His laboratory develops and applies advanced sequencing techniques, such as Nanopore sequencing, and utilizes genome-edited models to study biological outcomes. Key areas include RNA methylation mechanisms, epitranscriptomics, and the functional implications of transcriptomic variations. His research has been supported by grants from the Biotechnology and Biological Sciences Research Council, The Wellcome Trust, and The Royal Society. Notable projects include studies on the functions of extra-nuclear splicing regulators, epitranscriptome characterization using catalysis-dependent RIPseq, and the development of FICC-Seq for methyl-5-uridine profiling. Advising and Grants: Dr. Hussain has supervised one documented research student. His grants span from 2015 to 2025, addressing topics such as neuronal connectivity and mRNA methylation patterns. Labs and Teams: His laboratory at the University of Bath specializes in cutting-edge sequencing technologies and in vivo model systems to explore transcriptomic and epigenetic mechanisms underlying neurological conditions.

Nikolay Shirokikhمشاهده پروفایل

پژوهشگر ارشد

• RNA Biology
• Translational Control
• Protein Biosynthesis
• +۲ مورد دیگر

Dr. Nikolay Shirokikh is a Research Fellow at the Australian National University's John Curtin School of Medical Research, where he leads the Shirokikh Group focusing on Protein Biosynthesis and Homeostatic Control. His research examines rapid cellular responses through gene-specific translation analysis using high-throughput RNA/protein methods and computational biology. Research interests include: RNA biology and translational control mechanisms Stress response pathways in cancer and neurological disorders Computational modeling of protein biosynthesis Recent publications (2022-2024) demonstrate a focus on RNA modifications, nanopore sequencing, and machine learning applications in transcriptome analysis. Major themes include RNA modification mapping, translational dynamics under stress, and evolutionary conservation of RNA machinery. Awards: The Gordon Ada Early Career Researcher Award (2016) Supervises PhD students including Shafi Mahmud, Mohammed Muntasir, Agin Ravindran, and Katrina Woodward. Collaborates with the Hannan Group on cancer therapeutics and contributes to the Shine-Dalgarno Centre for RNA Innovation.

• Transposable Elements
• Genome Plasticity
• Epigenetics
• +۵ مورد دیگر

Dr Jungnam Cho is an Associate Professor in the Department of Biosciences at Durham University, UK. Prior to this role, he served as a Group Leader at the CAS-JIC Centre of Excellence for Plant and Microbial Sciences (2018–2023), jointly affiliated with the John Innes Centre and the Chinese Academy of Sciences. His academic background includes a BSc (2007) and PhD (2013) from Seoul National University, followed by post-doctoral research at the University of Cambridge (2013–2018). Education: Bachelor of Science in Biology, Seoul National University (2007) Doctor of Philosophy in Plant Molecular Biology, Seoul National University (2013) Post-doctoral training at University of Cambridge (2013–2018) Research Interests: Dr Cho’s lab focuses on understanding the biological functions of transposable elements (TEs) in plants, particularly their roles in genome plasticity, epigenetics, and epitranscriptomics. His work challenges the notion of TEs as 'junk DNA' by exploring their contributions to genetic diversity and genome evolution. Using Arabidopsis and rice as primary models, his lab employs a multidisciplinary approach combining genetics, biochemistry, molecular biology, and computational methods to dissect TE regulation mechanisms. Recent studies highlight the lab’s focus on m6A RNA methylation, transposon mobilization under environmental stresses, and leveraging TEs for crop improvement. Articles Trends: His recent publications emphasize the interplay between RNA modifications (e.g., m6A methylation/demethylation) and transposon activity, with a strong focus on plant-specific mechanisms. Collaborations with institutions like Zhejiang University and Fudan University underscore his work’s global impact. Key themes include TE-driven epigenetic reprogramming in bamboo, synthetic retroelement integration, and the role of transposon-derived non-coding RNAs in developmental processes. Scientific Awards: CAS PIFI visiting scholar award (2025) Advising & Grants: Dr Cho currently advises two PhD students: Ben Shone and Seunghui Mun. His lab has secured notable grants including a BBSRC standard research grant and The Great Britain Sasakawa Foundation Grant. Previous notable work includes identifying TEs as microRNA sponges in rice root development and elucidating light-induced histone demethylation in seed germination. Labs & Teams: As head of the Plant Genome Dynamics Lab , Dr Cho leads a team focused on unraveling transposon regulation through innovative techniques like ALE-seq and integrates computational biology with experimental genetics. Collaborators include Professors Chanhong Kim (epigenetic signaling) and Yijing Zhang (rice genomics).

Helen Piontkivskaمشاهده پروفایل

دانشیار

• Comparative Genomics
• Evolutionary Genomics
• Bioinformatics
• +۴ مورد دیگر

Helen Piontkivska is an Associate Professor at Kent State University , actively contributing to the fields of Comparative Genomics, Evolutionary Biology, and Bioinformatics. Her research focuses on RNA editing dynamics, host-pathogen interactions, and stress-induced transcriptomic changes across diverse biological systems. Key research themes include: ADAR editing mechanisms in neurodegenerative diseases Transcriptomic responses to hypoxia and viral infections Computational approaches to disease modeling and misinformation analysis Evolutionary patterns in mitochondrial DNA and xenobiotic enzymes Her recent publications highlight applications of machine learning in health research, molecular biomarkers in marine organisms, and hormonal regulation of Alzheimer's pathology. Affiliated with the Healthy Communities Research Institute, she integrates interdisciplinary approaches to genomic and proteomic challenges.

Samie Jaffreyمشاهده پروفایل

استاد

• Chemical Biology
• RNA Biology
• Molecular Pharmacology
• +۳ مورد دیگر

Samie Jaffrey, MD, PhD, is the Greenberg-Starr Professor and Professor of Pharmacology at Weill Cornell Medical College. His research focuses on RNA modifications, chemical biology, and imaging techniques. He earned his MD and PhD from Johns Hopkins University and a BS from MIT. Research Interests: Dr. Jaffrey’s lab explores RNA modifications like m6A and their roles in gene regulation. They develop tools such as fluorogenic RNA aptamers (e.g., Spinach, Broccoli) for live-cell imaging and RNA therapeutics. Their work spans chemical biology, molecular pharmacology, and translational applications in cancer and neuroscience. Key Themes in Articles: Recent studies highlight m6A’s role in mRNA degradation, viral-host interactions, and epitranscriptomic profiling. His lab also advances methods for RNA imaging and synthetic biology-based therapies. Grants & Collaborations: He leads NIH-funded projects on epitranscriptomics, cancer biology, and RNA-based technologies. External collaborations include roles in startups like Gotham Therapeutics and Lucerna, Inc.

Niall Barronمشاهده پروفایل

استاد

• Biomedical Engineering
• Biochemical Engineering
• Cellular and Molecular Biology
• +۵ مورد دیگر

Professor Niall Barron is a Professor of Biochemical Engineering at the School of Chemical and Bioprocess Engineering, University College Dublin (UCD), and a Principal Investigator at the National Institute for Bioprocessing Research and Training (NIBRT). He holds a BA (Mod) in Microbiology from Trinity College Dublin and a PhD in Applied Microbiology/Biochemistry from the University of Ulster (1997). His postdoctoral research at Baylor College of Medicine focused on nuclear steroid receptor function via genome engineering. He has held academic and research roles at Dublin City University (DCU), including Director of the National Institute for Cellular Biotechnology (NICB) from 2015–2017. His research focuses on genetic engineering strategies to improve recombinant protein production in CHO cells, AAV/LV vector manufacturing, and epigenetic regulation of bioprocess performance. He leads projects funded by industry and EU grants, including initiatives to enhance gene therapy vector production and mRNA methylation control. Education: BA (Mod) in Microbiology, Trinity College Dublin PhD in Applied Microbiology/Biochemistry, University of Ulster (1997) Research Interests: Targeted genome editing in CHO cells for improved biopharmaceutical production Optimization of AAV and LV vector systems for gene therapy miRNA and epitranscriptomic regulation of cellular processes Single-cell analysis to understand clonal variability and production instability Grants & Collaborations: Lead on grants from GSK, Enterprise Ireland, and Horizon 2020 (e.g., STACCATO, GeneClick) Focus on advancing bioprocess technologies and cell line engineering Teaching: Coordinates modules in biopharmaceutical manufacturing, biotechnology principles, and gene therapy processes Program Director for the MEngSc in Biopharmaceutical Manufacturing (Part-Time) Labs & Teams: Leads a multidisciplinary team at UCD and NIBRT focusing on biopharmaceutical engineering and cell line optimization

Zhang Xiurenمشاهده پروفایل

استاد

• RNA silencing
• RNA structure and remodeling
• ribonucleoprotein complexes
• +۵ مورد دیگر

Zi Zhang Xiuren is the Christine Richardson Endowed Professor of Agricultural Biology and holds the rank of Professor in the Department of Biochemistry & Biophysics at Texas A&M University's College of Agriculture & Life Sciences. He is also an EDGES Fellow, Presidential Impact Fellow, and AgriLife Faculty Fellow. His research focuses on RNA silencing pathways, RNA structure remodeling, and host-virus interactions in plants. He employs genetic, molecular, and biochemical approaches to study miRNA and siRNA-mediated regulation, epigenetic mechanisms, and viral defense strategies. Key contributions include identifying components of RNA silencing pathways and elucidating the roles of RNA structure and epigenetic modifications in plant development and immunity. Education: B.S. from Hefei College of Economy and Technology (1989), Ph.D. in Molecular Genetics from Cornell University (2003), and postdoctoral training at Rockefeller University (2008). Research Interests: RNA silencing mechanisms and their roles in plant growth and antiviral defense RNA secondary structure (RSS) and epi-modifications (REM) in gene expression regulation Host-virus interactions, particularly with Geminivirus and Cucumber Mosaic Virus Epigenetic suppression by viral proteins like TrAP Awards & Fellowships: Christine Richardson Endowed Professorship Presidential Impact Fellow EDGES Fellow AgriLife Faculty Fellow Grants & Advising: Active in securing research grants and mentoring students in molecular genetics and plant biology. His lab collaborates on projects involving miRNA biogenesis, viral suppression mechanisms, and epigenetic regulation. Labs & Teams: Leads a research group focused on RNA biology at Texas A&M, contributing to initiatives like the Texas A&M AgriLife Research program.