Fluorogenic Aptamers Professors and Supervisors | ApplySharif

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Yong ZengView profile

Associate Professor

University of FloridaUnited States

Yong Zeng is an Associate Professor in the Department of Chemistry at the University of Florida. He leads the Zeng Group, focusing on precision medicine through innovative micro/nanoscale technologies. His research bridges chemistry, materials science, bioengineering, and medicine to develop tools for non-invasive cancer and Alzheimer’s disease diagnosis. Key projects include lab-on-a-chip systems, exosome-based liquid biopsy platforms, and CRISPR-driven diagnostic assays. Education: Ph.D., Chemistry, University of Alberta (2007) Postdoctoral Research, University of California, Berkeley (2008-2012) Research Interests: Dr. Zeng’s work centers on creating transformative technologies for precision diagnostics, including nano-engineered microfluidic devices, smart bioanalyzers with AI integration, and exosome-based biomarker analysis. His group has pioneered methods for detecting extracellular vesicles, proteins, nucleic acids, and glycans in blood samples. Awards: 2013 Bioanalysis Young Investigator Award Grants & Collaborations: Supported by NIH grants, his lab collaborates with clinicians and biologists to translate technologies into clinical tools. Notable collaborations include exosome research for precision immunotherapy and liquid biopsy-based cancer diagnosis. Labs/Teams: The Zeng Group operates at the interface of engineering and medicine, emphasizing translational research to bridge laboratory innovations with clinical applications.

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Emil KhisamutdinovView profile

Professor

Ball State UniversityUnited States

Emil Khisamutdinov is a Professor of Chemistry at Ball State University's Department of Chemistry, part of the College of Sciences and Humanities. Prior to joining BSU in 2014, he conducted postdoctoral research at the University of Kentucky under Prof. Peixuan Guo in RNA nanotechnology. His research focuses on designing RNA-based nanoparticles for applications in nanomedicine, biosensing, and nanoelectronics, leveraging interdisciplinary techniques from chemistry, biology, and materials science. Dr. Khisamutdinov holds a Ph.D. from Bowling Green State University (2012), where he studied DNA damage mechanisms, and M.S. and B.S. degrees from the National University of Uzbekistan (2007 and 2005). He teaches Biochemistry courses and leads the BioNanoTechnology Research Laboratory, emphasizing RNA 3D design, bioconjugation, and advanced characterization techniques like AFM and TEM. His lab's current projects aim to develop programmable RNA nanoparticles with controlled immunorecognition and functional properties. Recent work includes studies on shape transitions, fluorogenic aptamer logic gates, and non-immunostimulatory nanoparticles. The lab collaborates widely, hosting students through programs like the Chemistry Research Immersion Summer Program (CRISP). Dr. Khisamutdinov has advised numerous students, many of whom present at national conferences such as the ACS National Meeting and the Indiana Academy of Science. His lab's work bridges fundamental RNA structure-function relationships with applied nanotechnology, addressing challenges in drug delivery and diagnostic systems.

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David RuedaView profile

Professor

Imperial College LondonUnited Kingdom

Professor David Rueda holds the Chair in Molecular and Cellular Biophysics at Imperial College London’s Department of Infectious Disease (Faculty of Medicine). He leads a research group developing single-molecule imaging techniques to study structural dynamics of biomolecules involved in DNA/RNA processing, chromatin remodelling, and gene editing. His work spans CRISPR/Cas9 off-target mechanisms, SMC complex dynamics, and RNA localization via fluorogenic aptamers. Affiliations: CDT in Chemical Biology (supervisor), Centre for Advanced Therapeutics, Institute of Chemical Biology, and Molecular Sciences Network Postgraduate Training: PhD (EPF Lausanne, 2001) and Postdoc (University of Michigan, 2001–05) Research focuses on: CRISPR/Cas9 off-target binding mechanisms under mechanical stress SWR1 complex-mediated histone variant incorporation Live-cell RNA imaging using Mango aptamers Cohesin’s role in DNA tethering and SMC complex dynamics His lab employs advanced microscopy (optical tweezers, super-resolution imaging) and collaborates with Prof. Dale Wigley (Imperial) and Prof. Peter Unrau (Simon Fraser) on chromatin and RNA studies. Recent work addresses DNA repair pathways and synthetic lethal targets in cancer.

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Bruce ArmitageView profile

Professor

Carnegie Mellon UniversityQatar

Bruce Armitage is currently a Professor and Department Head of the Department of Chemistry at Carnegie Mellon University . He also serves as Co-Director of the Center for Nucleic Acid Science and Technology and holds a courtesy appointment as Professor in the Department of Biological Sciences . Education: Ph.D., University of Arizona (1993) NIH Postdoctoral Fellow, University of Illinois (1993–1994) NIH Postdoctoral Fellow, Georgia Tech (1995–1997) NSF International Postdoctoral Fellow, University of Copenhagen (1997) His research focuses on the design and synthesis of peptide nucleic acid (PNA) oligomers for biological imaging, sensing, and probing. Key areas include fluorescent dyes , DNA nanotechnology , and molecular recognition of DNA/RNA G-quadruplexes . He has also pioneered fluoromodules —genetically encodable fluorescent labels based on dye-protein complexes. His recent work involves targeting telomeric DNA , RNA G-quadruplexes , and West Nile virus RNA using modified PNAs, with applications in cancer, malaria, and infectious disease research. Scientific Awards: William and Frances Ryan Award for Meritorious Teaching (2011) President of Inter-American Photochemical Society (2010–2012) Co-Chair of Gordon Research Conference on Photochemistry (2009) Senior Editor of Langmuir (2008–present) Elected to Phi Kappa Phi Honor Society (2007) Julius Ashkin Teaching Award (2004) Faculty and Staff Leadership Award (2003) 3M Corp. Non-tenured Faculty Award (2001) NSCS Outstanding Professor (2001) Prof. Armitage teaches the interdisciplinary course Hooked: The Molecular Basis of Addiction , integrating molecular mechanisms with societal factors. He collaborates with multiple research groups, including the Peteanu, Waggoner, Berget, Ly, McCartney, and Lopez labs.

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Yi LuView profile

Professor

University of Illinois Urbana-ChampaignUnited States

Yi Lu is a Professor in the Department of Bioengineering at the University of Illinois at Urbana-Champaign, affiliated with the Grainger College of Engineering. His research focuses on the interface between chemistry and biology, developing innovative chemical tools to understand biological systems and advance biotechnology. Key areas include biosynthetic inorganic chemistry, biocatalysis, bioanalytical chemistry, DNA nanotechnology, and gene editing. Research Interests: Engineering biocatalysts for sustainable energy and pharmaceutical synthesis. Designing DNA-based sensors for metal ions, metabolites, and glycoRNAs in diseases like Alzheimer's and cancer. Developing functional DNA nanomaterials for targeted drug delivery and diagnostics. Improving gene-editing technologies for precision medicine. Awards & Grants: Lead Detect Prize (2024) for lithium detection innovation. Welch Foundation Catalyst Grant (2024) for interdisciplinary research. CPRIT Grant (2024) for ferroptosis-based cancer therapy studies. Advising & Labs: Dr. Lu mentors a dynamic research group, including students like Casey (Indiana University), Whitney (Kymera Therapeutics), and Mandira (Princeton BioLabs). His lab collaborates on projects such as ARTNet (anti-cancer drug development) and CPRIT-funded ferroptosis research. Notable techniques include DNAzyme sensors, aptamer-based imaging, and synthetic biology.

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Jia NiuView profile

Associate Professor

Boston CollegeUnited States

Jia Niu is an Associate Professor of Chemistry at Boston College, affiliated with the Morrissey College of Arts and Sciences. He holds a Ph.D. from Harvard University and has been recognized with awards including the 2024 ACS CARB David Y. Gin New Investigator Award and the 2023 Camille Dreyfus Teacher-Scholar Award. His research focuses on biomimetic synthetic molecules, sustainable materials from renewable resources, and RNA-based synthetic biology tools. The Niu Group employs interdisciplinary approaches combining organic chemistry, polymer science, bioconjugation, molecular evolution, and synthetic biology. Education: Ph.D., Harvard University Research Interests: Engineering cell surface glycome using glycomimetic polymers Developing degradable, stimuli-responsive polymers Using molecular evolution to create gene expression regulation tools Awards: ACS CARB David Y. Gin New Investigator Award (2024) Camille Dreyfus Teacher-Scholar Award (2023) NSF CAREER Award (2020) NIH Director's New Innovator Award (2019) Beckman Young Investigator Award (2019) Thieme Chemistry Journals Award (2019) Advising & Grants: His lab receives financial support from NSF, NIH, and other organizations, focusing on training students in synthetic organic chemistry, polymer synthesis, nucleic acid chemistry, and cell biology. No explicit student names are listed in the provided texts. Labs/Teams: The Niu Research Group operates within the Chemistry Department at Boston College, emphasizing the development of sustainable polymers, glycomimetic engineering, and RNA-based synthetic biology tools. Their work integrates cutting-edge polymerization techniques and molecular evolution strategies for biomedical and environmental applications.

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Maureen McKeagueView profile

Associate Professor

McGill UniversityCanada

Maureen McKeague is an Associate Professor jointly appointed in the Department of Chemistry and Department of Pharmacology & Therapeutics at McGill University's Faculty of Science. Her research bridges genomic chemistry to clinical applications, with dual laboratory spaces in the Pulp & Paper Building and McIntyre Medical Building. She holds a Canada Research Chair Tier II in Functional Oligonucleotides and serves as Associate Editor for Molecular Therapy-Nucleic Acids. B.Sc. (Carleton University, 2007) Ph.D. (Carleton University, 2012) NSERC Postdoctoral Fellow (Stanford University, 2012-2016) Researcher/Lecturer (ETH Zürich, 2016-2018) Her research program focuses on Chemical Genomics, exploring how DNA/RNA modifications impact cellular function and developing nucleic acid-based tools for green chemistry and cancer therapeutics. Key themes include RNA switches for cellular control, aptamer biosensors for clinical diagnostics, and nucleic acid therapeutics for Acute Myeloid Leukemia. Her lab employs interdisciplinary approaches spanning chemical biology, biophysics, and translational medicine to create precision tools for disease treatment and environmental monitoring. Analysis of recent publications reveals strong emphasis on RNA therapeutics for leukemia, advanced aptamer engineering for biosensing, and genomic mapping of DNA damage. Her work frequently appears in high-impact journals like Nucleic Acids Research and Molecular Therapy, demonstrating translational potential from basic chemical principles to clinical applications. Kavli Emerging Leader in Chemistry (2021) Canada Research Chair Tier II (2019-present) Molecular Therapy-Nucleic Acids Associate Editor (2022-present) ACS Chemical Research in Toxicology Editorial Board (2021-present) Prof. McKeague actively mentors a large interdisciplinary team including 12 graduate students and numerous undergraduates. Her lab receives substantial funding from CIHR, NSERC, and the Canada Research Chairs program. Current projects include developing RNA switches for precise genetic control, aptamer biosensors for point-of-care diagnostics, and nucleic acid therapeutics targeting leukemia biomarkers. The lab maintains strong industry and clinical collaborations, particularly in advancing cancer therapeutics and diagnostic platforms.

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Xiaohong TanView profile

Assistant Professor

Bowling Green State UniversityUnited States

Xiaohong Tan serves as an Assistant Professor in the Department of Chemistry within Bowling Green State University's College of Arts and Sciences, having joined the faculty in 2019. Her research laboratory is located in the Physical Sciences Laboratory Building, and she can be contacted via email at tanx@bgsu.edu. Dr. Tan's academic foundation includes advanced degrees from prestigious institutions in Asia: Ph.D. in Chemistry from Nanyang Technological University (2008) M.S. in Chemistry from Sichuan University (2003) B.A. in Chemistry from Sichuan University (2000) Her research program integrates protein biochemistry, peptide/protein chemistry, and bioanalytical chemistry to engineer next-generation diagnostic and therapeutic platforms. By strategically manipulating Nature's molecular building blocks—peptides, proteins, DNA, and RNA—her laboratory develops innovative solutions including fluorescent hairpins, aptamer-based systems, and advanced antibody delivery mechanisms. This interdisciplinary approach bridges chemical biology and bioengineering to address critical challenges in disease detection and treatment. Analysis of her publication record (2012-2019) reveals a consistent trajectory in biomolecular engineering, with publications spanning high-impact journals like Journal of the American Chemical Society and Analytical Chemistry. Her work demonstrates particular expertise in creating peptide-nucleic acid hybrid systems for cellular delivery, developing label-free biosensors, and engineering novel fluorogenic tools for bioimaging applications. These contributions reflect a cohesive research vision centered on translating biochemical principles into practical biomedical technologies. Scientific awards and honors are not documented in the available information. While the faculty profile confirms Dr. Tan leads an active research group (referenced through her Research Group Website link), specific details regarding student mentorship or external grant funding are not provided in the current documentation. Her ongoing research activities suggest active engagement in securing research support and training the next generation of scientists. Dr. Tan directs a specialized research group focused on protein biochemistry and chemical biology, with laboratory facilities situated in BGSU's Physical Sciences Laboratory Building. The group's work centers on developing peptide and nucleic acid-based platforms for disease diagnostics and therapeutic delivery, maintaining strong connections with collaborators at institutions including Carnegie Mellon University as evidenced by co-authored publications.

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Andrey KlymchenkoView profile

Research Professor

Graz University of TechnologyAustria

Andrey Klymchenko is a CNRS Research Director of the 1st class (DR1) at the Laboratory of Bioimaging and Pathologies, UMR 7021 CNRS, University of Strasbourg, where he leads the Nanochemistry and Bioimaging research group. His position represents one of the highest research ranks within the French National Center for Scientific Research (CNRS) system, equivalent to a full professorship with primary research focus. Dr. Klymchenko received his PhD in chemistry from Kyiv National University in 2003. His academic journey includes postdoctoral research at Université Louis Pasteur in Strasbourg (2003-2005), followed by a postdoctoral fellowship at Katholieke Universiteit Leuven in Belgium (2005-2006). He joined CNRS in 2006, was promoted to CNRS Research Director 2nd class (DR2) in 2014, and subsequently to Research Director 1st class (DR1) in 2019. His research primarily focuses on developing functional fluorescent molecules and nanomaterials for biosensing, imaging and theranostics. Klymchenko has pioneered the development of solvatochromic dyes, fluorescent nanoparticles based on synthetic polymers and lipids, and light-harvesting nanoantennas. His work bridges chemistry, nanotechnology, and biomedical applications, with particular emphasis on cancer diagnostics, molecular imaging, and nucleic acid detection. Many of his fluorescent probes have been commercialized and are used in hundreds of research laboratories worldwide. Analysis of his publication record reveals a consistent focus on developing increasingly sophisticated fluorescent tools with enhanced sensitivity and specificity. His research has evolved from fundamental dye chemistry to complex nanoparticle systems capable of single-molecule detection and RNA imaging in live cells. The trajectory shows increasing translational potential, with several patented technologies moving toward clinical applications and commercialization through planned startup companies. His honors include the prestigious ERC Consolidator grant (BrightSens, 2015) and ERC Proof-of-Concept grant (ApliFISH, 2020), the CNRS Bronze medal (2010), and the CNRS Award for scientific excellence. With 224 peer-reviewed articles, 10 patents, and citation metrics showing 11,192 citations with an H-index of 57 (Google Scholar, 2021), his work has had significant impact in the field. As head of the Nanochemistry and Bioimaging group, Klymchenko leads a multidisciplinary team developing ultrabright dye-loaded nanoparticles for cancer diagnostics based on RNA analysis. His laboratory has pioneered concepts for polymer- and lipid-based fluorescent nanoparticles that dramatically enhance sensitivity in biomolecular detection, enabling new approaches in biosensing and molecular diagnostics.

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Anastasia CallaghanView profile

Professor

University of PortsmouthUnited Kingdom

Anastasia Callaghan is a Professor of Biochemistry and Molecular Biophysics at the University of Portsmouth, affiliated with the Faculty of Science & Health and the School of the Environment and Life Sciences. She is also associated with the Centre for Enzyme Innovation, the Institute of Life Sciences and Healthcare, and the Future of Law, Innovation and Technology Research Centre. She is an active PhD supervisor and leads a research group focused on RNA biology and molecular biophysics. Her research expertise lies in RNA biology, particularly post-transcriptional gene regulation, RNA degradation mechanisms involving ribonucleases like RNase E, and the role of RNA chaperones such as Hfq in bacterial virulence. She also investigates the communication between RNA degradation machinery and central metabolism, and develops novel technologies like RNA arrays for studying RNA interactions. Her work has significant implications for antibacterial drug discovery and biosensor development. Her recent publications demonstrate a strong focus on RNA-based molecular tools, antibacterial targeting, and environmental biosensing. Trends include the development of RNA array technologies, investigation of RNase E and Hfq in pathogenic bacteria, and application of biosensors for public health surveillance, including wastewater monitoring for SARS-CoV-2. Her work bridges fundamental molecular mechanisms with translational applications in health and environmental sustainability. She has received research funding and support from prominent organizations including the Biotechnology and Biological Sciences Research Council (BBSRC) and the Defence Science and Technology Laboratory (DSTL). She is a Principal Investigator (PI) on projects such as 'RNA Array Technology: Developing a High Throughput RNA Epigenetics Tool' and 'A wastewater biosensor enabling detailed COVID-19 population surveillance,' and a Co-Investigator on the Centre for Enzyme Innovation and the Preventing Plastic Pollution with Engineering Biology (P3EB) Mission Hub. She leads a laboratory within the Molecular Biophysics Research Group at the University of Portsmouth, collaborating with researchers such as Andy Pickford and Darren Gowers. Her lab combines biophysical, biochemical, structural, and molecular techniques to study post-transcriptional gene regulation and develop innovative RNA technologies.

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Claudia HöbartnerView profile

Professor

Julius-Maximilians-Universität WürzburgGermany

Claudia Höbartner is a Professor at the University of Würzburg in the Faculty of Chemistry and Pharmacy , leading the Institute of Organic Chemistry and Center for Nanosystems Chemistry . Her research focuses on the chemistry of nucleic acids, including ribozymes, deoxyribozymes, RNA modifications, and fluorogenic aptamers. Developing catalytic RNA/DNA systems for site-specific RNA labeling and methylation Creating high-throughput methods (DZ-seq) for detecting RNA modifications Exploring DNAzyme structure-function relationships Her recent work includes the discovery of methyltransferase ribozymes ( Nature , 2020) and SAM-utilizing ribozymes ( Nature Chemical Biology , 2025), with applications in antiviral nucleoside engineering and RNA imaging. Awards include mentorship recognition for Martin Volek (Sanofi Award in Pharmacy, 2025). Current students: Arpan Banerjee and Dominik Rappert. Collaborations span structural biology and chemical biology, with grants supporting RNAmed retreats and PhD programs.

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Tim YehView profile

Professor

University of Texas at AustinUnited States

Tim Yeh is a Professor in the Department of Biomedical Engineering at The University of Texas at Austin, holding the David & Doris Lybarger Endowed Faculty Fellowship in Engineering. His research focuses on nanobiosensor development, single-molecule spectroscopy, and advanced imaging techniques to elucidate biological processes at the molecular and cellular levels. His work integrates nanotechnology and quantitative biology to address challenges in disease diagnosis and treatment. Key areas include the creation of novel nanomaterial-based probes (e.g., fluorescent gold/silver nanoclusters) and high-resolution imaging systems like 3D molecular tracking microscopes and super-resolution STED microscopy. These tools are applied to study cancer biomarkers, cellular signaling networks, and metabolic pathways in live cells and tissues. Notable projects include developing nanopore sensing platforms for protein detection, optimizing fluorogenic aptamers using high-throughput sequencing, and enhancing fluorescence lifetime imaging (FLIM) for real-time metabolic monitoring in cancer cells. His lab, the NanoBiosensors and Molecular Tracking Laboratory, emphasizes interdisciplinary approaches to bridge gaps between nanotechnology and biomedical applications. Recent publications highlight innovations in multiphoton imaging, deep learning-driven resolution enhancement, and systems biology modeling of neural dynamics. These advancements aim to improve diagnostic precision and enable deeper insights into cellular heterogeneity and stochastic molecular processes.

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Luiz PassalacquaView profile

Assistant Professor

University of FloridaUnited States

Luiz Passalacqua is an Assistant Professor in the Department of Microbiology and Cell Science at the University of Florida. He leads the Passalacqua Lab (Laboratory of Nucleic Acids) , focusing on structural and functional studies of nucleic acids. His research integrates bioinformatics, biochemistry, and structural biology to understand non-coding RNA functions, RNA thermometers, and DNA/RNA aptamers. Key areas include host-pathogen interactions, genome stability, and astrobiology-driven nucleic acid evolution. Education & Career: Ph.D. in Biochemistry from UC Irvine (2017), Postdoc at NIH (2020-2023), joined UF in August 2024. Lab location: Microbiology Building 981, Room 1147. Research Highlights: Pioneered Robo-Therm pipeline for RNA thermometer discovery, developed novel RNA aptamers with ultra-bright fluorophores, and characterized riboswitches in bacterial gene regulation. Current projects include astrobiology applications of nucleic acids and R-loop impact on genome stability. Lab Values: Emphasizes inclusive mentorship, scientific rigor, and community-building. Accepts graduate students from Microbiology & Cell Science and Genetics & Genomics programs. Grants: Active funding for RNA thermometer studies and synthetic biology tools. Awards: Featured Nature paper (2023) highlighted in 21 media outlets and F1000 recommended. Contact: Email lmoreirapassalac@ufl.edu for collaborations or joining the lab.

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Andrej LuptakView profile

Professor

University of California, IrvineUnited States

Andrej Luptak is a Professor in the Department of Chemistry at the University of California, Irvine (UCI). His research focuses on the discovery, evolution, and application of functional nucleic acids, particularly exploring RNA’s dual roles as an information carrier and functional macromolecule. His lab investigates RNA’s role in cellular processes, including catalytic activities (ribozymes) and gene regulation via riboswitches. Research emphasizes in vitro selection techniques to identify novel aptamers and ribozymes with biomedical applications, such as drug delivery and live-cell imaging. The lab also develops fluorescence-based methods to study RNA dynamics with high spatiotemporal resolution. Education and affiliations: While specific educational details are not provided here, his joint appointments and leadership roles within the department highlight his stature. Research collaborations include interdisciplinary projects in chemical biology and origins-of-life studies. Key interests include genomic RNA discovery, synthetic library design for aptamer selection, and fluorogenic nucleic acid engineering. The Lupták Lab is located in Natural Sciences II Building at UCI, with active projects advancing RNA-based technologies and fundamental understanding of RNA’s functional diversity.

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Mingxu YouView profile

Associate Professor

University of Massachusetts AmherstUnited States

Mingxu You is an Associate Professor in the Department of Chemistry at the University of Massachusetts Amherst with additional faculty appointments in the Graduate Program in Molecular & Cellular Biology, Center for Bioactive Delivery, Models to Medicine, and Materials Science and Engineering Interdisciplinary Graduate Program at the Institute for Applied Life Sciences. His educational background includes: Postdoctoral Fellow, Cornell University (2014–2016) Ph.D., University of Florida (2012) B.S., Peking University (2008) Dr. You's research pioneers DNA/RNA nanotechnology for biomedical applications, developing synthetic nucleic acid tools to understand life fundamentals and construct artificial genetic devices. His group focuses on genetically encoded fluorescent RNA sensors for cellular metabolite imaging, single-molecule force transduction at cell junctions, high-throughput evolution of functional aptamers in living cells, and novel mechanisms for conditional nucleic acid nanostructure self-assembly. This work bridges molecular engineering, biophysics, and medicine to create advanced diagnostic and therapeutic platforms. Recent publications (2024-2025) reveal dominant trends in DNA-based force measurement technologies for cancer therapy, including Cas12a-assisted molecular probes, mechanical nanovehicles for drug delivery, and multiplexed fluorogenic RNA imaging systems. His group demonstrates leadership in high-throughput aptamer engineering, electrochemical force sensors, and force-responsive therapeutic systems that translate nanomechanical principles into biomedical solutions. Scientific Awards: No specific awards were listed in the provided text. Advising and Grants: Dr. You leads the You Research Group and advises graduate students across Chemistry and affiliated programs. The text does not specify grant details or student names, though his extensive publication record indicates active research funding. Laboratory and Teams: His laboratory operates from Lederle Graduate Research Tower Room 820 at UMass Amherst, collaborating with the Institute for Applied Life Sciences and Materials Science program to develop nucleic acid-based biomedical tools with clinical translation potential.

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