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Janakiramanan Ramachandran (Janak) |
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Welcome! You have reached Janak’s space! I am currently employed as a fulltime researcher at Oak Ridge National Laboratory in Tennessee. I work on image analysis and biomedical imaging. I completed my Ph.D. in Computer Engineering at The University of New Mexico, Albuquerque in September 2008. I completed my M.S. in Electrical Engineering from The University of New Mexico in December 2002 and my B.S. in Electrical and Electronics Engineering from The University of Madras in May 2000. |
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I have been working at Oak Ridge since December 2005. I work on image analysis and growth models of tree ring systems, quantification of partial volume effect in micro-SPECT images and some biomedical optics projects. Los Alamos National Laboratory I worked at Los Alamos for three years from January 2003-December 2005. At Los Alamos, I developed an imaging system using polarized spectroscopic techniques for non-invasively differentiating cancerous and non- cancerous tissue. Between August-December 2002 and May-August 2001, I worked at Kestrel Corporation as a research intern. Here, I worked in collaboration with my graduate school lab ivPCL. I worked mainly on lung and inter-rib parechymal segmentation and also a little bit on retinal image segmentation. School of Medicine, University of New Mexico I worked with the Department of Radiology between May 2002-August 2002. I developed automatic segmentation methods for segmenting bronchus and trachea in Computed Tomography (CT) images for diagnosing patients suffering asthma. image video Processing and Communications Laboratory This is the home of my graduate school education where I completed my M.S. in Electrical Engineering and my Ph.D. in Computer Engineering. This lab is located in the Electrical and Computer Engineering Department at the University of New Mexico. I have worked on image digitization & enhancement, automatic segmentation & classification of radiographs, bronchus segmentation, tree ring image analysis and tree growth models. Selected peer-reviewed publications and conferences (in chronological order) 1. Soliz, P., Pattichis, M.S., Ramachandran, J., and James, D.S., “Computer-assisted diagnosis of chest radiographs for pneumoconiosis,” in Proceedings of the SPIE Medical Imaging Conference, San Diego, California, vol. 1, pp. 667-675, February 2001. 2. Pattichis, M. S., Ramachandran, J., Wilson, M., Pattichis, C.S., and Soliz, P., “ Optimal Scanning, Display, and Segmentation of the International Labor Organization (ILO) X-Ray Images Set for Pneumoconiosis,” in Proceedings of the 14th IEEE Symposium on Computer-Based Medical Systems, Bethesda, MD, pp. 511-515, July 2001. 3. Ramachandran, J., Pattichis, M.S., and Soliz, P., “Pre-Classification of Chest Radiographs for Improved Active Shape Model Segmentation of Ribs,” invited in 5th IEEE Southwest Symposium on Image Analysis and Interpretation, Santa Fe, New Mexico, pp. 188-192, April 2002. 4. Ramachandran, J., Pattichis, M.S., Soliz, P., and Wilson, M., “A Hierarchical Segmentation Model for the Lung and the Inter-costal Parenchymal Regions of Chest Radiographs,” invited in the 45th IEEE Midwest Symposium on Circuits and Systems, Tulsa, Oklahoma, August 2002. 5. Ramachandran, J., Johnson, T., Mourant, J.R., “Imaging System for Non-Invasive Cancer Diagnosis” invited in the Division Review Committee’s presentation for Bioscience Division at Los Alamos National Laboratory, Los Alamos, New Mexico, February 2003. 6. Ramachandran, J., Coburn, L., Freyer, J.P., Mourant, J.R., “Light Scattering Imaging System for Non-Invasive Cancer Diagnosis” invited in the Engineering Conferences International’s Advances In Optics For Biotechnology, Medicine and Surgery VIII, Banff, Alberta, Canada, August 2003. 7. Mourant, J.R., Aida, T., Coburn, L., and Ramachandran, J., “ Effect of nonsphericity of scattering centers on light transport in turbid media”, in SPIE’s Proc. SPIE Vol.5326, p. 54-59, Optical Biopsy V; San Jose, California, January 2004. 8. Ramachandran, J., Johnson, T.M., Carpenter, S., Freyer, J.P., Mourant, J.R., “Imaging and fiber-optic based polarized light scattering techniques for differentiating tumorigenic and non-tumorigenic cells”, OSA’s Biomed 2004, Topical Meeting and Tabletop Exhibit, Miami, Florida, April 2004. 9. Ramachandran, J., Johnson, T.M., Carpenter, S., Freyer, J.P., Mourant, J.R., “Imaging based polarized light scattering techniques for characterizing differences between tumorigenic and non-tumorigenic cells”, Fourth Inter-Institute Workshop on Optical Diagnostic Imaging from Bench to Bedside at the National Institutes of Health, Natcher Auditorium, National Institutes of Health, Bethesda, Maryland, September 2004. 10. Ramachandran, J., Johnson, T.M., Carpenter, S., Freyer, J.P., Mourant, J.R., “Polarized light scattering techniques for non-invasive cancer diagnosis”, invited in Division Review Committee’s meeting for Bioscience Division at Los Alamos National Laboratory, Los Alamos, New Mexico, March 2005. 11. Baba, J.S., Ramachandran, J., “High-resolution WoodCAT data collection and analysis”, invited in Oak Ridge National Laboratory’s Laboratory Directed Research and Development poster session, Oak Ridge, Tennessee, November 2006. 12. Ramachandran, J., Powers, T. M., Carpenter, S., Garcia-Lopez, A., Freyer, J. P., and Mourant, J. R., "Light scattering and microarchitectural differences between tumorigenic and non-tumorigenic cell models of tissue," Opt. Express 15, 4039-4053 (2007). 13. Ramachandran, J. and Baba, J.S., “Assessment and Quantitative Analysis of WoodCAT based Characterization of Poplar Wood Samples”, in BioEnergy Science Center Annual Retreat Workshop, Chattanooga, Tennessee, December 1-3, 2008. Pending peer-reviewed publications 1. Baba, J.S. and Ramachandran, J. Semi-automated hardwood annular ring discrimination based on 1st order analysis of 2-D X-ray microCT tree core images. In the submission process to Canadian Journal of Forest Research (2008). 2. Ramachandran, J., Pattichis, M.S., and Baba, J.S. Fully automated algorithm based on 1st order analysis and AM-FM models for hard wood tree core analysis. In the submission process to Canadian Journal of Forest Research (2009). 3. Ramachandran, J., Baba, J.S., Scuderi, L.A., and Pattichis, M.S., ‘Tree image growth analysis using instantaneous phase and frequency modulation’. In the submission process to Pattern Recognition (2009). 4. Ramachandran, J., and Baba, J.S. Automated algorithm for segmentation and quantification of cellular features for Populus core samples. To be submitted to Canadian Journal of Forest Research (2009). 5. Ramachandran, J., Pattichis, M.S., Soliz, P; ‘A Hierarchical segmentation system of chest radiographs’. To be submitted to Biomedical Engineering Online (2009). Research Projects 2005-2009 Fulltime Researcher, Oak Ridge National Labs., Oak Ridge, TN 2003-2005 Fulltime Researcher, Los Alamos National Labs., Los Alamos, NM 2000-2002 Graduate Research Assistant, University of New Mexico, ECE Dept., Albuquerque, NM Oak Ridge National Labs Dec 2005 - present
Project Title : CT based Image Analysis of Wood Cells 2008 - 2009 Funding Source : ORNL bio-energy grant Goal : The goal of this project is to develop segmentation algorithms for cellular level segmentation of CT based 3D reconstructed wood samples to characterize them for bio-fuel purposes. Role : Developing novel and automated techniques for wood cell segmentation, feature extraction and classification. Image morphology based techniques and image enhancement methods are extensively used. Project Title : CT based Image Analysis of Wood Cores 2007 - 2008 Funding Source : ORNL internal funding : Seed money grant Goal : To develop automatic techniques of annular ring detection, image enhancement and segmentation in CT based 3D reconstruction of wood core samples and model their growth. Role : Developed fully automatic techniques based on image processing techniques like image enhancement, segmentation and frequency modulation techniques for annular ring detection and CT based wood density characterization. A complex combination of techniques which comprised of derivative based methods, thresholding techniques, smoothing filters, 2D separable bandpass filters, 2D adaptive filterbanks, frequency & wavelength modulation, instantaneous frequency and phase modeling were designed and applied. Project Title : Restraint free Laboratory Animal Imaging 2005 - 2006 Funding Source : DOE-OBER Goal : This project develops a restraint-free, non-anesthetized laboratory animal imaging system for pre-clinical research applications. Role : Evaluated a method of quantification of partial volume effect in SPECT imaging based on mathematical methods. Project Title : Optical Properties Measurement System 2005 - 2006 Funding Source : DOE Goal: To determine the optical properties of biological samples at multiple wavelengths by means of a spectrophotometric integrating sphere approach. Role : Determined specific optical properties of biological samples at multiple wavelengths. Los Alamos National Labs Jan 2003 - Dec 2005
Project Title : Light scattering in tumor and normal tissue models 2003 – 2005 Funding Source : National Institutes of Health Goal : To develop a methodology which differentiates normal and tumorigenic cells using light scattering. Role : Designed a non-invasive imaging system which differentiates normal versus tumorigenic cells using rat fibroblast cells. Project Title : Monte Carlo simulations of tissue models 2004 – 2005 Funding Source : National Institutes of Health Goal : To develop advanced Monte Carlo based simulations to simulate cell/tissue scattering models. Role : Developed Monte Carlo code in C to simulate cell scattering models for rat fibroblast cells. University of New Mexico Aug 2000 – Dec 2002
Project Title : Automated Segmentation of bronchi and trachea in CT images 05/2002 -08/2002 Funding Source : University of New Mexico Health Sciences Center Goal : To develop automatic algorithms for segmentation of bronchus and trachea in Computed Tomography (CT) images for diagnosing patients suffering asthma. Role : Developed automatic segmentation and classification algorithms for bronchus and trachea segmentation in CT lung images using active shape modeling techniques in MATLAB. Project Title : Computer Assisted Chest Radiograph Reading System 2000 - 2002 Funding Source : National Institutes of Health Goal : To develop a fully Computer Assisted Chest Radiograph Reading System for diagnosing pneumoconiosis patients. Role : Developed MATLAB and C based image analysis algorithms for image enhancement, segmentation and classification of lung rib parenchyma using active shape modeling on digitized chest radiographs. Honors Professional Memberships 1996-2002, Member, Institute for Electrical and Electronic Engineers (IEEE). 2003-2005, Member, Optical Society of America (OSA) Invited Talks Ramachandran, J., “A Hierarchical Segmentation System of Chest Radiographs”, invited in the Graduate level course, ECE 595, “Advanced Image Processing”, Electrical and Computer Engineering Department, University of New Mexico, Spring 2003. Professional Activities Reviewer; Journal of Applied Optics; Optical Society of America, 2003-2004. Conferences Organized International Conference ECCAP, 2000 in Madras (now Chennai), India. National Symposium CYGNUS, 1998 and 1999, Madras, India. Awards Undergraduate Academic Proficiency award (1997, 1998, 1999). My Passion I pursue amateur astronomy during my leisure time. I serve as the meeting coordinator of the astronomy club in Knoxville, Tennessee (Knoxville Observers). Recently, we got featured in a small article in Knoxville’s local newspaper Knoxville News Sentinel. I have taken a few snapshots of the moon and you can find it on the Celestron website. |
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