Papers
2014
- Ruida Cheng, Sheng Xu, Alexandra Bokinsky, Evan McCreedy, Bradford J. Wood, Matthew McAuliffe, "GPU-based Multi-histogram Volume Navigation for Virtual Bronchoscopy," IEEE EMBC, Aug 2014. PDF
- Ruida Cheng, Baris Turkbey, William Gandler, Harsh K. Agarwal, Vijay P. Shah, Alexandra Bokinsky, Evan McCreedy, Shijun Wang, Sandeep Sankineni, Marcelino Bernardo, Thomas Pohida, Peter Choyke, Matthew McAuliffe, "Atlas Based AAM and SVM Model for Fully Automatic MRI Prostate Segmentation", IEEE EMBC, Aug 2014. PDF
2013
- Ruida Cheng, Marcelino Bernardo, Justin Senseney, Alexandra Bokinsky, William Gandler, Baris Turkbey, Thomas Pohida, Peter Choyke, Matthew McAuliffe, "Segmentation and Surface Reconstruction Model of Prostate MRI to Improve Prostate Cancer Diagnosis," IEEE ISBI, April 2013. PDF
- Ruida Cheng, Baris Turkbey, Justin Senseney, Alexandra Bokinsky, William Gandler, Evan McCreedy, Thomas Pohida, Peter Choyke, Matthew McAuliffe, "2D Registration Guided Models for Semi-automatic MRI Prostate Segmentation," SPIE Medical Imaging, Feb 2013. PDF
- Justin Senseney, Alexandra Bokinsky, Ruida Cheng, Evan McCreedy, Matthew McAuliffe, "Java Multi-histogram Volume Rendering Framework for Medical Images," SPIE Medical Imaging, Feb 2013. PDF
2012
- Ruida Cheng, Alexandra Bokinsky, Justin Senseney, Nish Pandya, Evan McCreedy, Matthew McAuliffe, "A flexible Java GPU-enhanced visualization framework and its applications," IEEE CBMS 2012, June 2012. PDF
- Choo A L, Chang S E, Zengin-Bolatkale H, Ambrose N G, Loucks T M, Corpus callosum morphology in children who stutter, J Commun Disord. 2012 Apr 4. [Epub], PUBMED
We have a number of interesting papers in submission, please check back in October 2012. (For a hint on our work, take a look at the NIH research festival posters below).
2011
- P. Maggi, E. Sweeney, M. Gaitan, J. Wohler, J. Liu, J. Senseney, C. Shea, L. Massacesi, S. Jacobson, A. Silva, D. Reich. "Early blood-brain barrier permeability changes in the normal-appearing white matter of a marmoset model of MS," in 27th Congress of the European Committee for Treatment and Research in Multiple Sclerosis, 2011, Abstract
- Cavallari M, Falco T, Frontali M, Romano S, Bagnato F, Orzi F., Fractal analysis reveals reduced complexity of retinal vessels in CADASIL, PLoS One. 2011 Apr 27;6(4):e19150, PUBMED
2010
- Kelsie Covington, Evan S. McCreedy, Min Chen, Aaron Carass, Member, IEEE, Nicole Aucoin, Member, IEEE, and Bennett A. Landman, Member, IEEE, Interfaces and Integration of Medical Image Analysis Frameworks: Challenges and Opportunities, Annu ORNL Biomed Sci Eng Cent Conf. 2010 May 25; 2010: 1–4, PMCID: PMC2998761, doi: 10.1109/BSEC.2010.5510850, HTML
2009
- Giesel FL, Mehndiratta A, Locklin J, McAuliffe MJ, White S, Choyke PL, Knopp MV, Wood BJ, Haberkorn U, von Tengg-Kobligk H., Image fusion using CT, MRI and PET for treatment planning, navigation and follow up in percutaneous RFA, Exp Oncol. 2009 Jun;31(2):106-14, PUBMED
- J. Senseney, P. F. Hemler, and M. J. McAuliffe, "Automated segmentation of computed tomography images," in Computer-Based Medical Systems, 2009. CBMS 2009. 22nd IEEE International Symposium on, 2009, pp. 1-7, PDF
- D Yanga, J Zheng, A Nofal, JO Deasy, IM El Naqa, Techniques and software tool for 3D multimodality medical image segmentation, 2009, PDF
2008
- Ruida Cheng, Alexandra Bokinsky, Paul Hemler, Evan McCreedy, Matthew McAuliffe, "Java based volume rendering frameworks" (Conference Proceedings Paper), SPIE Medical Imaging 2008: Visualization, Image-guided Procedures, and Modeling, March 2008, Media:RuidaChengSPIE2008Final.pdf
2007
- Pierre-Louis Bazin, Jennifer L. Cuzzocreo, Michael A. Yassa, William Gandler, Matthew J. McAuliffe, Susan S. Bassett, Dzung L. Phama, Volumetric neuroimage analysis extensions for the MIPAV software package, Journal of Neuroscience Methods 165 (2007) 111–121, PDF, HTML
- Bazin P L, Pham D L, Topology correction of segmented medical images using a fast marching algorithm,Comput Methods Programs Biomed. 2007 Nov;88(2):182-90. Epub 2007 Oct 17, PUBMED
- Wood BJ, Locklin JK, Viswanathan A, Kruecker J, Haemmerich D, Cebral J, Sofer A, Cheng R, McCreedy E, Cleary K, McAuliffe MJ, Glossop N, Yanof J, Technologies for guidance of radiofrequency ablation in the multimodality interventional suite of the future, J Vasc Interv Radiol. 2007 Jan;18(1 Pt 1):9-24, PUBMED
2006
- McCreedy ES, Cheng R, Hemler PF, Viswanathan A, Wood BJ, McAuliffe MJ, Radio frequency ablation registration, segmentation, and fusion tool, IEEE Trans Inf Technol Biomed. 2006 Jul;10(3):490-6, PUBMED
- Griffith C, Bagnato F, Gupta S, Calabrese A, Oh U, Chiu A, Ohayon JM, McAuliffe MJ, Tasciyan TA, Jacobson S., Brain volume measurements in patients with human T-cell lymphotropic virus-1-associated tropical spastic paraparesis,J Neurovirol. 2006 Oct;12(5):349-55, PUBMED
Posters
NIH Research Festival
2012 - October 9 - 12, 2012, NIH Research Festival, Natcher Conference Center (Building 45). Program in PDF
2012 - August 9, NIH’s Summer Research Program Poster Day, Natcher Conference Center (Building 45)
2012 - April 25 - 26, NIH Spring Research Festival
2011 - October 26 - 28, Program in PDF
2010 - October 5 - 8, NIH Poster Session Program
2012 - Fall
- Tumor treatment response identification using combination post-treatment mapping simulation to quantify voxel-wise multiparameter MRI biomarker changes, by Justin Senseney, Moira Schieke, M.D., Katherine Zukotynski, M.D., Jyothi Jagannathan, M.D., David Thomasson, Ph.D., presented on NIH’s Fall Research Festival, 2012
- Diffusion tensor imaging analysis using MIPAV, by Justin Senseney, Elizabeth Tyrie, Alexandra Bokinsky PhD, Julie McEntee, Nishith Pandya, Dzung Pham PhD, Matthew McAuliffe PhD, presented on NIH’s Fall Research Festival, 2012, Media:NIHFall2012ResearchFestivalPosterJS.pdf
2012 - Summer
- Enhancing user feedback to iteratively improve image processing in MIPAV" Sara Shen, University of Maryland, College Park (Maryland); Preceptors: Mr. Justin Senseney, Dr. Matthew McAuliffe, Presented on NIH’s Summer Research Program Poster Day (Aug 09, 2012), Media:SarahShenPosterAugust2012.pdf
- A Streamlined Pipeline Utility for Analyzing Universal DTI Data in MIPAV, Authors: Elizabeth Tyrie, Alexandra Bokinsky PhD, Nishith Pandya, Julie McEntee, Dzung Pham PhD, Matthew McAuliffe PhD, NIH Spring Research Festival, April 25-26, 2012, Media:TyrieMIPAVDTIPipelinePoster.pdf
2011
- A MIPAV plugin for the visual and quantitative comparison of FreeSurfer subcortical segmentation results, Authors: F. Lalonde, R. Cheng, J. Senseney, M. McAuliffe, 2011, Abstract, Media:FreeSurferMIpavPlugIn2011.pdf
- Single-, bi- and multi-exponential fitting of quantitative T2 MR images, Authors: J. Senseney, A. Gilbert, I. Evangelou, M. McAuliffe, 2011, Abstract
- Early blood-brain-barrier permeability changes in the normal-appearing white matter of a marmoset model of MS, Authors: P. Maggi, M.I. Gaitán, E.M. Sweeney, J. Senseney, C. Shea, L. Massacesi, S. Jacobson, A. Silva, D.S. Reich, Abstract
- Java GPU-based multi-histogram volume rendering framework, Authors: R. Cheng, A. Bokinsky, J. Senseney, M. McAuliffe, Abstract, Media:MultiHistogramVolumeRenderingMipav2011.pdf
2010
- A Novel Combination of Algorithms to Register Drosophila Optic Lobe Neurons to an Atlas, Authors: N. Pandya, C. Ting, C. Lee, M. McAuliffe, 2010
- DCE-MRI processing framework, Authors: J. Senseney, W. Gandler, I. Evangelou, D. Reich, M. McAuliffe, 2010
- Patient-Specific MRI-based Molds for Correlating in vivo Prostate MRI and Histopathology with Mold-Guided Tissue Biopsies, Authors: Vijay Shah, Thomas Pohida, Baris Turkbey, Haresh Mani, Maria Merino, Peter Pinto, Ruida Cheng, Matthew McAuliffe, Peter Choyke, Marcelino Bernardo, NIH Research Festival, Bethesda, MD, 2010
2009
- Enhanced medical image analysis workflow integration using JIST and MIPAV, 2009
- Methods for Surface Reconstruction Using MIPAV, Authors: Ruida Cheng, Vijay Shah, Alexandra Bokinsky, Baris Turkbey, Paul Hemler, Marcelino Bernardo, Peter Choyke, Thomas Pohida, Matthew McAuliffe, NIH Research Festival, Bethesda, MD, 2009
2007
- Java Based Volume Rendering, Authors: Ruida Cheng, Alexandra Bokinsky, Paul Hemler, Evan McCreedy, Matthew McAuliffe, NIH Research Festival, Bethesda, MD, 2007, Media:JavaBasedVolumeRendering2007poster.pdf
2006
- RFA Simulation and Treatment Planning with a Haptic Device, Authors: Ruida Cheng, Evan S. McCreedy, Alfred Luk, Brad J. Wood, Matthew J. McAuliffe, NIH Research Festival, Bethesda, MD, Media:RfaSimulationHapticDevice2006.pdf
2005
- Radio Frequency Ablation Segmentation Tool (RFAST), Authors: Ruida Cheng, Evan S. McCreedy, Paul F. Hemler, Anand Viswanathan, Brad J. Wood, Matthew J. McAuliffe, NIH Research Festival, Bethesda, MD, 2005, Media:RfastPoster2005.pdf
Other posters
2012
- Tumor Treatment Response Identification Using Combination Post-Treatment Mapping to Quantify Voxel-Wise Multiparameter MRI Biomarker Changes: A Simulation Study, Author: Senseney Justin, presented on 2IEEE International Symposium on Biomedical Imaging (ISBI), May 2-5, 2012
2009
- DTI Processing and Visualization Prototype in MIPAV, Authors: Nishith Pandya, Alexandra Bokinsky, Ruida Cheng, Lindsay Walker, Carlo Pierpaoli, Matthew McAuliffe, International Society for Magnetic Resonance in Medicine (ISMRM), 2009, Media:DtiPosterISMRM2009.pdf
Presentations
- Introduction to Medical Image Processing in MIPAV
- Segmentation and Annotation of Medical Images in MIPAV
- Medical Image Visualization in MIPAV
- Medical Image Processing and Registration in MIPAV
- The Java Image Science Toolkit and Scripting in MIPAV
- Developing Java Plugins in MIPAV, I
- Developing Java Plugins in MIPAV, II
- Creating a Streamlined Pipeline Utility for the Analysis of Universal Diffusion Tensor Imaging Data, by Beth Tyrie, October 20, 2011, Media:TyrieDTIPostbacPresentation10-20PDF.pdf
- STREAMLINING THE ANALYSIS OF DIFFUSION TENSOR IMAGING FILES THROUGH THE CREATION OF A MASS IMAGE EDITOR by Sara Shen, (Sara.Shen@NIH.gov) - the presentation given on August 07, 2013 on the summer students talk event at NIH/CIT/DCB, Media:SarahShenPresentation2013.pdf, Media:SarahShenPresentation2013.pptx