Wilmer Bioinformatics has been mainly focused on ocular informatics. Specifically, the group develops and applies bioinformatics approaches to study gene regulation and signaling networks, with particular but not exclusive attention to the mammalian retina. Understanding the molecular basis of tissue specific gene regulation and signaling will contribute to better prevention, diagnosis and treatment of retinal disease.

The In-vivo Cellular and Molecular Imaging Center conducts multidisciplinary research on cellular and molecular imaging related to cancer. We provide resources, such as consultation on biostatistics and bioinformatics and optical imaging and probe development, to understand and effectively treat cancer. Our molecular oncology experts consult on preclinical studies, use of human tissues, interpretation of data and molecular characterization of cells and tumor tissue.

The Tom Woolf Lab studies the quarter of the genome devoted to membrane proteins. This rapidly growing branch of bioinformatics, which includes computational biophysics, represents the main research direction of our group. We aim to provide insight into critical issues for membrane systems. In pursuit of these goals, we use extensive computer calculations to build an understanding of the relations between microscopic motions and the world of experimental measurements. Our calculations use our own Beowulf computer cluster as well as national supercomputer centers. An especially strong focus has been on the computed motions of proteins and all-atom models of the lipid bilayers that mediate their influence. To compute these motions, we use the molecular dynamics program CHARMM. We hope to use our understanding of the molecular motions for the prediction of membrane protein structures using new computational methods.

The Systems Biology Lab applies methods of multiscale modeling to problems of cancer and cardiovascular disease, and examines the systems biology of angiogenesis, breast cancer and peripheral artery disease (PAD). Using coordinated computational and experimental approaches, the lab studies the mechanisms of breast cancer tumor growth and metastasis to find ways to inhibit those processes. We use bioinformatics to discover novel agents that affect angiogenesis and perform in vitro and in vivo experiments to test these predictions. In addition we study protein networks that determine processes of angiogenesis, arteriogenesis and inflammation in PAD. The lab also investigates drug repurposing for potential applications as stimulators of therapeutic angiogenesis, examines signal transduction pathways and builds 3D models of angiogenesis. The lab has discovered over a hundred novel anti-angiogenic peptides, and has undertaken in vitro and in vivo studies testing their activity under different conditions. We have investigated structure-activity relationship (SAR) doing point mutations and amino acid substitutions and constructed biomimetic peptides derived from their endogenous progenitors. They have demonstrated the efficacy of selected peptides in mouse models of breast, lung and brain cancers, and in age-related macular degeneration.

The GI Biomarkers Laboratory studies gastrointestinal cancer and pre-cancer biogenesis and biomarkers. The lab is led by Dr. Stephen Meltzer, who is known for his research in the molecular pathobiology of gastrointestinal malignancy and premalignancy. Research in the lab has led to several groundbreaking genomic, epigenomic and bioinformatic studies of esophageal and colonic neoplasms, shifting the gastrointestinal research paradaigm toward genome-wide approaches.

Work in the Christopher Chute Lab involves the management of clinical data to enable effective evidence-based clinical practice and translational research. Recently, we developed an EHR-based genetic testing knowledge base to be integrated into the genetic testing ontology (GTO) and identified potential barriers to pharmacogenomics clinical decision support (CDS) implementation.

Research in the Casey Overby Lab focuses on the intersection of public health genomics and biomedical informatics. We’re currently developing applications to support the translation of genomic research to clinical and population-based health care settings. We’re also working to develop knowledge-based ways to use big data — including electronic health records — to improve population health.

Research in the Liliana Florea Lab applies computational techniques toward modeling and problem solving in biology and genetic medicine. We work to develop computational methods for analyzing large-scale sequencing data to help characterize molecular mechanisms of diseases. The specific application areas of our research include genome analysis and comparison, cDNA-to-genome alignment, gene and alternative splicing annotation, RNA editing, microbial comparative genomics, miRNA genomics and computational vaccine design. Our most recent studies seek to achieve accurate and efficient RNA-seq correction and explore the role of HCV viral miRNA in hepatocellular carcinoma.

The mission the Translational Informatics Research and Innovation (TIRI) Lab is to understand and create advanced technology and digital device solutions that address challenges to the translation of biomedical data science-informed guidance into clinical use to improve the health of individuals, especially for people that are often underrepresented in research.

The Abadir Lab focuses on uncovering the molecular mechanisms underlying frailty, resilience, and age-related diseases to bridge the gap between basic science and clinical applications. Grounded in translational research, the lab investigates the intricate interplay between mitochondrial biology, the renin-angiotensin system (RAS), and chronic inflammation, with an emphasis on their roles in physical and cognitive decline.

Key Areas of Research

1. Mitochondrial and Angiotensin Biology
   • Discovery and exploration of the mitochondrial angiotensin system (MAS) as a critical regulator of cellular energy, inflammation, and resilience.
   • Investigating age-related mitochondrial dysfunction and its contribution to frailty, chronic inflammation, and neurodegeneration.
2. Biomarker Development
   • Identification of novel biomarkers for aging-related frailty and resilience, including cell-free DNA fragments and kynurenine metabolites.
   • Development of diagnostic tools for early detection of physical and cognitive decline.
3. Innovative Therapeutics and Bioengineering
   • Designing nano-delivery systems for targeted drug delivery to mitochondria, enhancing wound healing and reversing cellular senescence.
   • Integration of artificial intelligence and engineering to create advanced diagnostic tools for assessing frailty and aging-related conditions.
4. AI and Technology in Aging
   • Leveraging artificial intelligence and bioengineering to address challenges in geriatric medicine through collaborations with the Johns Hopkins AI & Technology Collaboratory for Aging Research (AITC) and the Gerotech Incubator Program.

Our Approach

The Abadir Lab employs a multidisciplinary methodology, combining molecular biology, bioinformatics, and engineering to tackle the pressing health challenges of aging populations. By fostering collaboration between clinicians, scientists, and engineers, the lab ensures that discoveries translate into tangible benefits for older adults.

Translational Impact

With a focus on frailty, inflammation, and cognitive decline, the Abadir Lab contributes to the development of personalized interventions and precision medicine approaches. Our work has laid the foundation for:

• Repurposing drugs like losartan and valsartan for treating aging-related chronic wounds.
• Unveiling the role of mitochondrial dysregulation in Alzheimer’s disease and frailty.
• Innovating tools for clinical assessments of resilience and functional decline.

Collaborations and Mentorship

The Abadir Lab is committed to training the next generation of scientists, fostering an interdisciplinary environment where students and postdocs explore cutting-edge aging science. Collaborations with the Johns Hopkins GeroTech Incubator Program and the Translational Aging Research Training Program (T32) further enrich this ecosystem of innovation.

Join Us

Whether you're a researcher, student, or collaborator, the Abadir Lab welcomes individuals passionate about transforming aging research into clinical practice.