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Chest Fat Quantification via CT Based on Standardized Anatomy Space in Adult Lung Transplant Candidates.

Tong Y, Udupa JK, Torigian DA, Odhner D, Wu C, Pednekar G, Palmer S, Rozenshtein A, Shirk MA, Newell JD, Porteous M, Diamond JM, Christie JD, Lederer DJ.

PLoS One. 2017 Jan 3;12(1):e0168932. doi: 10.1371/journal.pone.0168932. eCollection 2017.


A Study of the Feasibility of FDG-PET/CT to Systematically Detect and Quantify Differential Metabolic Effects of Chronic Tobacco Use in Organs of the Whole Body-A Prospective Pilot Study.

Torigian DA, Green-McKenzie J, Liu X, Shofer FS, Werner T, Smith CE, Strasser AA, Moghbel MC, Parekh AH, Choi G, Goncalves MD, Spaccarelli N, Gholami S, Kumar PS, Tong Y, Udupa JK, Mesaros C, Alavi A.

Acad Radiol. 2017 Aug;24(8):930-940. doi: 10.1016/j.acra.2016.09.003. Epub 2016 Oct 18.


Retrospective 4D MR image construction from free-breathing slice Acquisitions: A novel graph-based approach.

Tong Y, Udupa JK, Ciesielski KC, Wu C, McDonough JM, Mong DA, Campbell RM Jr.

Med Image Anal. 2017 Jan;35:345-359. doi: 10.1016/ Epub 2016 Aug 13.


MR Image Analytics to Characterize the Upper Airway Structure in Obese Children with Obstructive Sleep Apnea Syndrome.

Tong Y, Udupa JK, Sin S, Liu Z, Wileyto EP, Torigian DA, Arens R.

PLoS One. 2016 Aug 3;11(8):e0159327. doi: 10.1371/journal.pone.0159327. eCollection 2016.


Soft Computing in Medical Image Processing.

Kobashi S, Nyúl LG, Udupa JK.

Comput Math Methods Med. 2016;2016:7358162. doi: 10.1155/2016/7358162. Epub 2016 Jul 12. No abstract available.


Minimally interactive segmentation of 4D dynamic upper airway MR images via fuzzy connectedness.

Tong Y, Udupa JK, Odhner D, Wu C, Sin S, Wagshul ME, Arens R.

Med Phys. 2016 May;43(5):2323. doi: 10.1118/1.4945698.


Quantitative normal thoracic anatomy at CT.

Matsumoto MM, Udupa JK, Tong Y, Saboury B, Torigian DA.

Comput Med Imaging Graph. 2016 Jul;51:1-10. doi: 10.1016/j.compmedimag.2016.03.005. Epub 2016 Apr 1.


Automatic thoracic anatomy segmentation on CT images using hierarchical fuzzy models and registration.

Sun K, Udupa JK, Odhner D, Tong Y, Zhao L, Torigian DA.

Med Phys. 2016 Mar;43(3):1487-500. doi: 10.1118/1.4942486.


Taste dysfunction in multiple sclerosis.

Doty RL, Tourbier IA, Pham DL, Cuzzocreo JL, Udupa JK, Karacali B, Beals E, Fabius L, Leon-Sarmiento FE, Moonis G, Kim T, Mihama T, Geckle RJ, Yousem DM.

J Neurol. 2016 Apr;263(4):677-88. doi: 10.1007/s00415-016-8030-6. Epub 2016 Jan 25.


Automatic anatomy recognition in whole-body PET/CT images.

Wang H, Udupa JK, Odhner D, Tong Y, Zhao L, Torigian DA.

Med Phys. 2016 Jan;43(1):613. doi: 10.1118/1.4939127.


Medical image segmentation via atlases and fuzzy object models: Improving efficacy through optimum object search and fewer models.

Phellan R, Falcão AX, Udupa JK.

Med Phys. 2016 Jan;43(1):401. doi: 10.1118/1.4938577.


Segmentation and Image Analysis of Abnormal Lungs at CT: Current Approaches, Challenges, and Future Trends.

Mansoor A, Bagci U, Foster B, Xu Z, Papadakis GZ, Folio LR, Udupa JK, Mollura DJ.

Radiographics. 2015 Jul-Aug;35(4):1056-76. doi: 10.1148/rg.2015140232. Review.


Computer-aided pulmonary image analysis in small animal models.

Xu Z, Bagci U, Mansoor A, Kramer-Marek G, Luna B, Kubler A, Dey B, Foster B, Papadakis GZ, Camp JV, Jonsson CB, Bishai WR, Jain S, Udupa JK, Mollura DJ.

Med Phys. 2015 Jul;42(7):3896-910. doi: 10.1118/1.4921618.


A hybrid method for airway segmentation and automated measurement of bronchial wall thickness on CT.

Xu Z, Bagci U, Foster B, Mansoor A, Udupa JK, Mollura DJ.

Med Image Anal. 2015 Aug;24(1):1-17. doi: 10.1016/ Epub 2015 May 14.


CIDI-lung-seg: a single-click annotation tool for automatic delineation of lungs from CT scans.

Mansoor A, Bagci U, Foster B, Xu Z, Douglas D, Solomon JM, Udupa JK, Mollura DJ.

Conf Proc IEEE Eng Med Biol Soc. 2014;2014:1087-90. doi: 10.1109/EMBC.2014.6943783.


Correction to "a generic approach to pathological lung segmentation".

Mansoor A, Bagci U, Xu Z, Foster B, Olivier KN, Elinoff JM, Suffredini AF, Udupa JK, Mollura DJ.

IEEE Trans Med Imaging. 2015 Jan;34(1):354. doi: 10.1109/TMI.2014.2384693. No abstract available.


Defect detection in slab surface: a novel dual Charge-coupled Device imaging-based fuzzy connectedness strategy.

Zhao L, Ouyang Q, Chen D, Udupa JK, Wang H, Zeng Y.

Rev Sci Instrum. 2014 Nov;85(11):115004. doi: 10.1063/1.4901222.


Differential and relaxed image foresting transform for graph-cut segmentation of multiple 3D objects.

Moya N, Falcão AX, Ciesielski KC, Udupa JK.

Med Image Comput Comput Assist Interv. 2014;17(Pt 1):690-7.


A generic approach to pathological lung segmentation.

Mansoor A, Bagci U, Xu Z, Foster B, Olivier KN, Elinoff JM, Suffredini AF, Udupa JK, Mollura DJ.

IEEE Trans Med Imaging. 2014 Dec;33(12):2293-310. doi: 10.1109/TMI.2014.2337057. Epub 2014 Jul 8. Erratum in: IEEE Trans Med Imaging. 2015 Jan;34(1):354.


Optimization of abdominal fat quantification on CT imaging through use of standardized anatomic space: a novel approach.

Tong Y, Udupa JK, Torigian DA.

Med Phys. 2014 Jun;41(6):063501. doi: 10.1118/1.4876275.


Body-wide hierarchical fuzzy modeling, recognition, and delineation of anatomy in medical images.

Udupa JK, Odhner D, Zhao L, Tong Y, Matsumoto MM, Ciesielski KC, Falcao AX, Vaideeswaran P, Ciesielski V, Saboury B, Mohammadianrasanani S, Sin S, Arens R, Torigian DA.

Med Image Anal. 2014 Jul;18(5):752-71. doi: 10.1016/ Epub 2014 Apr 24.


Computed tomography-defined abdominal adiposity is associated with acute kidney injury in critically ill trauma patients*.

Shashaty MG, Kalkan E, Bellamy SL, Reilly JP, Holena DN, Cummins K, Lanken PN, Feldman HI, Reilly MP, Udupa JK, Christie JD.

Crit Care Med. 2014 Jul;42(7):1619-28. doi: 10.1097/CCM.0000000000000306.


Kinematic magnetic resonance imaging to define the cervical facet joint space for the spine in neutral and torsion.

Jaumard NV, Udupa JK, Welch WC, Winkelstein BA.

Spine (Phila Pa 1976). 2014 Apr 15;39(8):664-72. doi: 10.1097/BRS.0000000000000206.


Fuzzy connectedness image segmentation for newborn brain extraction in MR images.

Kobashi S, Udupa JK.

Conf Proc IEEE Eng Med Biol Soc. 2013;2013:7136-9. doi: 10.1109/EMBC.2013.6611203.


Three-dimensional kinematic stress magnetic resonance image analysis shows promise for detecting altered anatomical relationships of tissues in the cervical spine associated with painful radiculopathy.

Jaumard NV, Udupa JK, Siegler S, Schuster JM, Hilibrand AS, Hirsch BE, Borthakur A, Winkelstein BA.

Med Hypotheses. 2013 Oct;81(4):738-44. doi: 10.1016/j.mehy.2013.07.043. Epub 2013 Aug 12.


Joint graph cut and relative fuzzy connectedness image segmentation algorithm.

Ciesielski KC, Miranda PA, Falcão AX, Udupa JK.

Med Image Anal. 2013 Dec;17(8):1046-57. doi: 10.1016/ Epub 2013 Jul 3.


Joint segmentation of anatomical and functional images: applications in quantification of lesions from PET, PET-CT, MRI-PET, and MRI-PET-CT images.

Bagci U, Udupa JK, Mendhiratta N, Foster B, Xu Z, Yao J, Chen X, Mollura DJ.

Med Image Anal. 2013 Dec;17(8):929-45. doi: 10.1016/ Epub 2013 May 23.


GC-ASM: Synergistic Integration of Graph-Cut and Active Shape Model Strategies for Medical Image Segmentation.

Chen X, Udupa JK, Alavi A, Torigian DA.

Comput Vis Image Underst. 2013 May;117(5):513-524.


In vivo quantification of pulmonary inflammation in relation to emphysema severity via partial volume corrected (18)F-FDG-PET using computer-assisted analysis of diagnostic chest CT.

Torigian DA, Dam V, Chen X, Saboury B, Udupa JK, Rashid A, Moghadam-Kia S, Alavi A.

Hell J Nucl Med. 2013 Jan-Apr;16(1):12-8. doi: 10.1967/s0024499100066. Epub 2013 Mar 26.


PET/MR imaging: technical aspects and potential clinical applications.

Torigian DA, Zaidi H, Kwee TC, Saboury B, Udupa JK, Cho ZH, Alavi A.

Radiology. 2013 Apr;267(1):26-44. doi: 10.1148/radiol.13121038. Review.


GPU-based relative fuzzy connectedness image segmentation.

Zhuge Y, Ciesielski KC, Udupa JK, Miller RW.

Med Phys. 2013 Jan;40(1):011903. doi: 10.1118/1.4769418.


Co-segmentation of functional and anatomical images.

Bagci U, Udupa JK, Yao J, Mollura DJ.

Med Image Comput Comput Assist Interv. 2012;15(Pt 3):459-67.


Feasibility of estimation of brain volume and 2-deoxy-2-(18)F-fluoro-D-glucose metabolism using a novel automated image analysis method: application in Alzheimer's disease.

Musiek ES, Saboury B, Mishra S, Chen Y, Reddin JS, Newberg AB, Udupa JK, Detre JA, Hofheinz F, Torigian D, Alavi A.

Hell J Nucl Med. 2012 Sep-Dec;15(3):190-6. doi: 10.1967/s002449910052. Epub 2012 Oct 25.


Medical image segmentation by combining graph cuts and oriented active appearance models.

Chen X, Udupa JK, Bagci U, Zhuge Y, Yao J.

IEEE Trans Image Process. 2012 Apr;21(4):2035-46. doi: 10.1109/TIP.2012.2186306. Epub 2012 Jan 31.


Hierarchical scale-based multiobject recognition of 3-D anatomical structures.

Bagci U, Chen X, Udupa JK.

IEEE Trans Med Imaging. 2012 Mar;31(3):777-89. doi: 10.1109/TMI.2011.2180920. Epub 2011 Dec 23.


Parallel fuzzy connected image segmentation on GPU.

Zhuge Y, Cao Y, Udupa JK, Miller RW.

Med Phys. 2011 Jul;38(7):4365-71.


Efficient computation of enclosed volume and surface area from the same triangulated surface representation.

Nyström I, Grevera GJ, Hirsch BE, Udupa JK.

Comput Med Imaging Graph. 2011 Sep;35(6):460-71. doi: 10.1016/j.compmedimag.2010.11.001. Epub 2011 Apr 22.


Automatic anatomy recognition via multiobject oriented active shape models.

Chen X, Udupa JK, Alavi A, Torigian DA.

Med Phys. 2010 Dec;37(12):6390-401.


Intensity Standardization Simplifies Brain MR Image Segmentation.

Zhuge Y, Udupa JK.

Comput Vis Image Underst. 2009 Oct;113(10):1095-1103.


The treatment of multiple sclerosis with inosine.

Markowitz CE, Spitsin S, Zimmerman V, Jacobs D, Udupa JK, Hooper DC, Koprowski H.

J Altern Complement Med. 2009 Jun;15(6):619-25. doi: 10.1089/acm.2008.0513.


Oriented active shape models.

Liu J, Udupa JK.

IEEE Trans Med Imaging. 2009 Apr;28(4):571-84. doi: 10.1109/TMI.2008.2007820.


Image background inhomogeneity correction in MRI via intensity standardization.

Zhuge Y, Udupa JK, Liu J, Saha PK.

Comput Med Imaging Graph. 2009 Jan;33(1):7-16. doi: 10.1016/j.compmedimag.2008.09.004. Epub 2008 Nov 11.


Reliability of tumor volume estimation from MR images in patients with malignant glioma. Results from the American College of Radiology Imaging Network (ACRIN) 6662 Trial.

Ertl-Wagner BB, Blume JD, Peck D, Udupa JK, Herman B, Levering A, Schmalfuss IM; Members of the American College of Radiology Imaging Network 6662 Study Group.

Eur Radiol. 2009 Mar;19(3):599-609. doi: 10.1007/s00330-008-1191-7. Epub 2008 Oct 17.


Rigid model-based 3D segmentation of the bones of joints in MR and CT images for motion analysis.

Liu J, Udupa JK, Saha PK, Odhner D, Hirsch BE, Siegler S, Simon S, Winkelstein BA.

Med Phys. 2008 Aug;35(8):3637-49.


Iterative Relative Fuzzy Connectedness for Multiple Objects with Multiple Seeds.

Ciesielski KC, Udupa JK, Saha PK, Zhuge Y.

Comput Vis Image Underst. 2007 Sep;107(3):160-182.


Subject-specific models of the hindfoot reveal a relationship between morphology and passive mechanical properties.

Imhauser CW, Siegler S, Udupa JK, Toy JR.

J Biomech. 2008;41(6):1341-9. doi: 10.1016/j.jbiomech.2007.12.017. Epub 2008 Mar 7.


Performance evaluation of finite normal mixture model-based image segmentation techniques.

Lei T, Udupa JK.

IEEE Trans Image Process. 2003;12(10):1153-69. doi: 10.1109/TIP.2003.817251.


Relation of vision to global and regional brain MRI in multiple sclerosis.

Wu GF, Schwartz ED, Lei T, Souza A, Mishra S, Jacobs DA, Markowitz CE, Galetta SL, Nano-Schiavi ML, Desiderio LM, Cutter GR, Calabresi PA, Udupa JK, Balcer LJ.

Neurology. 2007 Dec 4;69(23):2128-35. Epub 2007 Sep 19.


Image filtering via generalized scale.

Souza A, Udupa JK, Madabhushi A.

Med Image Anal. 2008 Apr;12(2):87-98. Epub 2007 Aug 9.

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