Research

The Center for Complex Biological Sciences (CCBS) is one of fifteen NIGMS Centers for Systems Biology. Research activities in all areas of Systems Biology – including synthetic biology, genomics and functional genomics, computational biology, mathematical biology, biophysics, and bioengineering – are encouraged within the center, although certain key areas and goals are emphasized. These include research into spatial dynamics, mathematical and computational modeling, developmental biology and monitoring molecular events in live cells with fluorescence dynamics.

Bioinformatics

 

Artificial Intelligence: Automated Reasoning / Machine Learning / Data Mining / Large-Scale Data Analysis: Information Access & Management / Computational Biology / Bioinformatics / Systems Biology

 

Single molecule dynamics, bioinformatics, functional genomics, surface plasmon resonance

 

Artificial Intelligence: Automated Reasoning / Machine Learning / Data Mining / Bio-Medical Informatics / Computational Biology / Protein Structure Prediction / Drug Discovery / Genetic Regulation
 
       Devon Lawson
       Cancer, metastasis, intratumor heterogeneity, single-cell omics, metastatic evolution

 

Artificial Intelligence: Automated Reasoning / Machine Learning / Data Mining / Bio-Medical Informatics / Computational Biology / Systems Biology / Scientific Inference Systems / Mathematical Methods

 

Applications of genomics, computation, and sequencing technologies to the analysis of transcriptional regulation in development. Emphasis on long-range protein-DNA interactions, ChIP-seq, RNA-seq, ChIA-PET, and comparative genomics

 

Computational Biology, Bioinformatics, Genomics, Neural Computation, and Machine Learning

Biological Physics

 

Mathematical modeling of cell biophysics: cell mechanics and cytoskeletal dynamics 
 
Nanomaterial Synthesis & Characterization, Nanocircuit Behaviors, Single Molecule Circuits

 

Biological physics, Langmuir monolayers, Foams

 

Design of new fluorescence instruments, protein dynamics, hydration of proteins, and I.R. spectroscopy of biological substances

 

Biophysics of molecular motors and intracellular transport

 

Bacteriorhodopsin, spectroscopy, protein crystallography

 

Theoretical Chemistry, Chemical Physics

 

Theoretical studies of ultrafast dynamics and relaxation processes of large molecules, biological complexes, and semiconductors; Nonlinear ultrafast spectroscopy
 
        Medha Pathak
        Mechanobiology of neural stem cells; How cells transduce mechanical forces; Mechanically-activated ion channels; Role of Piezo1 in neural stem cell fate; Mechanical forces in neural development.
 
Biological physics, magnetic sense of animals, quantum biology of photosynthesis
 
      
        Albert Siryaporn
        Biomechanics, Bacterial Signaling, Bacterial Pathogenesis, Biofilms

 

Experimental Biophysics, Condensed Matter Physics

 

Surface physics, sensors, high speed imaging, and fluid mechanics

 

Lasers, near infrared spectroscopy, non-invasive diagnostics, photomedicine, biomedical optics, photodynamic therapy

 

Biomedical laser applications, optical diffusion theory, photothermal and photomechanical phenomena

 

Biological physics, Intracellular transport, Disordered systems

Biomechanics

 
Cardiovascular modeling: development and function at the cellular, tissue and organ level
Bone biomechanics and structural analysis; Effects of medications, aging, tumors, radiotherapy, and spaceflight on bone; Cancer and radiotherapy; Imaging using quantitative computed tomography
 
 
Nonlinear dynamics, control and optimization

 

Biomechanics, Locomotion, Sensory Biology
 
        Medha Pathak
        Mechanobiology of neural stem cells; How cells transduce mechanical forces; Mechanically-activated ion channels; Role of Piezo1 in neural stem cell fate; Mechanical forces in neural development.

Biomedical Engineering

 

Relationship between mechanical stresses on cells and molecular signaling, or cellular mechanotransduction; investigation of the glycocalix in the transduction of fluid shear stress at the wall of blood vessels; constructing an instrument to study the scale of mechanical induction of vascular inflammation.
 
        Tim Downing
        Epigenomic control through cell-material interactions
 
Cardiovascular modeling: development and function at the cellular, tissue and organ level
 
Nanothechnology and biomarkers of cancer and atherosclerosis
 
 
Microengineered tissue models, dynamics of cell-cell signaling, soluble factor gradients

 

Bone biomechanics and structural analysis; Effects of medications, aging, tumors, radiotherapy, and spaceflight on bone; Cancer and radiotherapy; Imaging using quantitative computed tomography

 

Biomedical engineering: microfluidics, molecular diganostics and stem cell technologies
 
 
Cardiovascular engineering with emphasis on cardiac mechanics, cardiac imaging and cardiovascular devices

 

Signal and image processing for analysis of neurofunctional data (MRI, fMRI, PET, ERP, ERF), relation between structure and function in the human brain

 

Adaptive biomedical signal processing, control algorithms for biomedical devices, brain-machine interfaces, modeling and analysis of biological neural networks

 

Lasers, near infrared spectroscopy, non-invasive diagnostics, photomedicine, biomedical optics, photodynamic therapy

 

Biomedical laser applications, optical diffusion theory, photothermal and photomechanical phenomena

Cancer Biology

 

NMR spectroscopy, DNA-binding proteins, membrane proteins, cancer

 

Evolutionary genetics, host-parasite interactions, development of mathematical, computational and conceptual models to study complex phenotypes

 

Microenvironmental regulation of epithelial stem cell function in single cell resolution during normal tissue homeostasis and cancer
 
 
Mathematical biology: modeling of cancer initiation and progression, dynamics of DNA transcription and repair, modeling of learning and evolution of language
 
 
       Devon Lawson
       Cancer, metastasis, intratumor heterogeneity, single-cell omics, metastatic evolution

 

Genomics of post-transcriptional gene regulation, mRNA processing, cancer
 
        Wenqi Wang
        Hippo pathway, organ size control, cancer biology, and proteomics
 
Mathematical and Computational Biology, Theoretical Biology, infectious diseases and the immune system, carcinogenesis & cancer treatment

BMC Systems Biology

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Molecular Systems Biology

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PLOS Computational Biology

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