Computational and Systems Biology

Research includes:

  • Systems Biology
  • Bioinformatics
  • Computational Biology
  • Computational Chemistry
  • Quantitative Biology
  • Synthetic Biology
  • Genomics
  • Quantitative Genetics and Proteomics

Training Group Mission:

The mission of the Computational and Systems Biology (CSB) group is to train a new generation of highly skilled and interdisciplinary graduate students who are competent in multiple disciplines in biology and the quantitative sciences. The objective is that students will be able to navigate between disciplines and be highly proficient scientists operating at the interface of the life sciences and quantitative sciences.


Faculty Membership

Faculty
Research Area
Neural circuitry in sensory systems, especially auditory neural circuitry Neurophysiology using multichannel recordings, brain slice recordings, auditory evoked potentials How brain circuits change in aging and development How auditory circuits adapt and recover from noise or blast injury Computational models of thalamocortical and auditory circuits.

Chemical Immunology: Cell specific chemical perturbation of immune microenvironments in cancer, neurological and immunological disorders

Neuronal circuits in visual perception and learning Optogenetics Neurotechnology Autism Alzheimer's Disease Stroke
Sensorimotor integration and neuroplasticity; neural prostheses
Chemical and systems biology as applied to drug discovery; design, synthesis, and evaluation of small molecule modulators of protein interactions; development and application of high content cell analysis screening platforms.
Genetic and genomic investigation of naturally-occurring canine diseases and traits
Environmental and molecular toxicology, genomics, and cytogenetics
Structural basis for RNA function
Macromolecular sequences and the evolution, structure and function of molecules; databases and computational tools for functional genomics
Functional genomics and systems biology

Lipid metabolism at a biochemical level and in vivo, in the context of metabolic disease, exercise, and responses to diet.

method developments and applications of cryo-EM

Our lab focuses on acquiring and utilizing high throughput sequencing data (e.g. RNA-seq, ChIP-seq, ATAC-seq) to develop new computational models and biological assays to study genome regulation and human diseases, in particular immune related disorders and cancer. We are now working on the discovery and modeling of the regulatory circuitry of the non-coding genome which is essential for maintaining normal cellular physiology.

bioinformatics, computational biology

We use translationally relevant preclinical animal models of substance use disorder to dissect how the brain responds to acute and chronic drug use. We pair behavioral models with whole-brain imaging of protein signaling and computationally based neural network analysis. These approaches can help us to better understand addiction and develop better treatment options.

Bionanotechnology and biosensors
Systems biology of host-pathogen interactions; dengue virus; malaria parasites; protein-protein interactions
Formulation, drug delivery, cancer theranostics, solid-state organic chemistry, computation and modeling.
Drug discovery for retinal degeneration Retinal degeneration is a group of inherited eye diseases including retinitis pigmentosa and age-related macular degeneration that impair our vision. Although much has been learned about the molecular basis of these diseases, they are still incurable. To expedite discovery of new drugs for these diseases, our group at Purdue University studies zebrafish retinal-degeneration models. We screen drug libraries on these models using high-throughput visual-behaviour assay. We develop novel statistical and machine-learning tools to analyze the large-scale behavioural data, and to to determine which drugs helped the retinal-degeneration models. We then study how the positive drugs work at molecular, genomics and cell-biology levels.
Computer-assisted drug design
Dietary controls on the gut microbiome, host-microbe and microbe-microbe metabolic exchange, gut inflammation and enteropathogenesis
Functional genomics; Epigenomics; Histone modification; Environmental responses; Systems Biology; Plant Genetics
System-wide Investigation of protein folding, energetics, and ligand binding

Computational systems biology and systems pharmacology focused on within-host dynamics.

Computational chemistry and biological NMR
Ecology of natural systems, ecotoxicology, animal health
Cell signaling and morphogenesis in the leaf epidermis
Defining the Molecular Basis for p68 (Dbp2) in Gene Expression and Cellular Proliferation
Evolution of eukaryotic chemodiversity using genomics, network biology, and phylogenetics
Cancer biology; Zebrafish cancer Model; Comparative oncogenomics; Evolutionary developmental biology (Evo-Devo)
Bioinformatics and Biologically Related Disciplines (genomics, nutrition, proteomics, statistical genetics)

Student Membership

Ernest C. Young Hall, Room 170 | 155  S. Grant Street, West Lafayette, IN 47907-2114 | 765-494-2600

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