Dr. Arvind Rao
Regular Member
The University of Texas MD Anderson Cancer Center
Department of Bioinformatics and Computational Biology
Research Interests:
- Image analysis
- Data mining
- Machine learning
- Image informatics
- High content screening
- Bioimaging
- Genomics
- Bioinformatics
Our group is interested in the application and development of machine learning and image processing methods to:
- Analyze image data across biological scale (across single cells, histopathology, and radiology images) and
- Derive predictive models to relate imaging and genomic features with clinical outcome data across multiple cancer types
Students training in our laboratory will be exposed to techniques in image processing and data mining (for radiology, single cell, cryo-EM) applications. We also build techniques to fuse imaging and genomics to generate novel hypotheses for clinical and basic research (such as gene function). Though our lab is mainly computational, we collaborate with other labs to design experiments to validate hypotheses.
Our group is interested in both Masters and Ph.D. students who would like to pursue bioinformatics projects in image analysis as well as its integration with genomic data. Our image analysis projects go across scale, encompassing subcellular to organ scale data.
Projects/Techniques: machine learning, image processing (single cell, high content, histopathology and radiology), data mining, processing genomics (expression, copy number and methylation data) data
- Systematically quantitate differences in cellular morphologies under various conditions. We are currently adapting these frameworks to single-cell and cryo-EM images
- Combine gene expression with image information to find pathways altered in disease
Selected Publications:
Y Huang, A Zaas, A Rao, N Dobigeon, P Woolf, T Veldman, N Oien, L Carin, S Kingsmore, C Woods, GS Ginsburg, AO Hero. Temporal dynamics of host molecular responses differentiate symptomatic and asymptomatic influenza A infection, PLoS Genetics, 7(8):e10002234.
Y Huang, A Zaas, A Rao, N Dobigeon, P Woolf, T Veldman, N Oien, L Carin, S Kingsmore, C Woods, GS Ginsburg, AO Hero. Temporal dynamics of host molecular responses differentiate symptomatic and asymptomatic influenza A infection, PLoS Genetics, 7(8):e10002234.
A Rao, AO Hero, DJ States, JD Engel. Understanding Transcriptional Regulation Using a Combination of Sequence, Expression and Interactome Data (selected to special issue, from submissions of CSB 2009). J Bioinformatics Computational Bio, 23(4):10-22, 2010.
A Rao, AO Hero. Biological Pathway Inference Using Manifold Embedding. 2011 IEEE Intl Conf on Acoustics, Speech, and Signal Processing (ICASSP), Prague, Czech Republic, May 2011.
A Rao, RF Murphy. Determination of Protein Location Diversity via Analysis of Immunohistochemical Images from the Human Protein Atlas, IEEE Intl Symposium in Biological Imaging (ISBI), Chicago, March 2011.
JY Newberg, J Li, A Rao, E Lundberg, F Ponten, M Uhlen, RF Murphy. Automated Analysis of Human Protein Atlas Immunofluorescence Images. 2009 IEEE Intl Symposium in Biological Imaging (ISBI), pp:1023-1026, Boston, July 2009.
Additional Publications
Program Affiliation:
Program in Biomathematics and Biostatistics
Contact Information
Phone: 713.794.1394
Email: aruppore@mdanderson.org
Office: MDA FCT4.6096 (Unit 1410)
Title: Assistant Professor
Education:
Ph.D. - University of Michigan - 2008
