Publications

1. Ramesh P, Ruan D, Liu SJ, Seo Y, Braunstein S, Sheng K. Hypoxia-informed RBE-weighted beam orientation optimization for intensity modulated proton therapy.. Medical physics, 2024.
2. Ming Z, Pogosyan A, Gao C, Colbert CM, Wu HH, Finn JP, Ruan D, Hu P, Christodoulou AG, Nguyen KL. ECG-free cine MRI with data-driven clustering of cardiac motion for quantification of ventricular function.. NMR in biomedicine, 2024.
3. Pham J, Neilsen BK, Liu H, Cao M, Yang Y, Sheng K, Ma TM, Kishan AU, Ruan D. Dosimetric predictors for genitourinary toxicity in MR-guided stereotactic body radiation therapy (SBRT): Substructure with fraction-wise analysis.. Medical physics, 2023.
4. Neilsen BK, Ma TM, Akingbemi WO, Neylon J, Casado MC, Sharma S, Sheng K, Ruan D, Low DA, Yang Y, Valle LF, Steinberg ML, Lamb JM, Cao M, Kishan AU. Impact of Interfractional Bladder and Trigone Displacement and Deformation on Radiation Exposure and Subsequent Acute Genitourinary Toxicity: A Post Hoc Analysis of Patients Treated with Magnetic Resonance Imaging-Guided Prostate Stereotactic Body Radiation Therapy in a Phase 3 Randomized Trial.. International journal of radiation oncology, biology, physics, 2023.
5. Bayat F, Ruan D, Miften M, Altunbas C. A quantitative CBCT pipeline based on 2D antiscatter grid and grid-based scatter sampling for image-guided radiation therapy.. Medical physics, 2023.
6. Frank CH, Ramesh P, Lyu Q, Ruan D, Park SJ, Chang AJ, Venkat PS, Kishan AU, Sheng K. Analytical HDR prostate brachytherapy planning with automatic catheter and isotope selection.. Medical physics, 2023.
7. Mayo CS, Feng MU, Brock KK, Kudner R, Balter P, Buchsbaum JC, Caissie A, Covington E, Daugherty EC, Dekker AL, Fuller CD, Hallstrom AL, Hong DS, Hong JC, Kamran SC, Katsoulakis E, Kildea J, Krauze AV, Kruse JJ, McNutt T, Mierzwa M, Moreno A, Palta JR, Popple R, Purdie TG, Richardson S, Sharp GC, Satomi S, Tarbox LR, Venkatesan AM, Witztum A, Woods KE, Yao Y, Farahani K, Aneja S, Gabriel PE, Hadjiiski L, Ruan D, Siewerdsen JH, Bratt S, Casagni M, Chen S, Christodouleas JC, DiDonato A, Hayman J, Kapoor R, Kravitz S, Sebastian S, Von Siebenthal M, Bosch W, Hurkmans C, Yom SS, Xiao Y. Operational Ontology for Oncology (O3): A Professional Society-Based, Multistakeholder, Consensus-Driven Informatics Standard Supporting Clinical and Research Use of Real-World Data From Patients Treated for Cancer.. International journal of radiation oncology, biology, physics, 2023.
8. Sang Y, McNitt-Gray M, Yang Y, Cao M, Low D, Ruan D. Target-oriented deep learning-based image registration with individualized test-time adaptation.. Medical physics, 2023.
9. Xu D, Xu Q, Nhieu K, Ruan D, Sheng K. An Efficient and Robust Method for Chest X-ray Rib Suppression That Improves Pulmonary Abnormality Diagnosis.. Diagnostics (Basel, Switzerland), 2023.
10. Smith CP, Xiang M, Yoon SM, Lee A, Ruan D, Goldman JW, Cummings AL, Lisberg A, Garon EB, Moghanaki D. Brief Report: Severe Pneumonitis After Combined Thoracic Radiotherapy and Osimertinib.. JTO clinical and research reports, 2023.
11. Sang Y, Ruan D. A conditional registration network for continuous 4D respiratory motion synthesis.. Medical physics, 2023.
12. Zhou H, Xiao J, Ganesh S, Lerner A, Ruan D, Fan Z. VWI-APP: Vessel wall imaging-dedicated automated processing pipeline for intracranial atherosclerotic plaque quantification.. Medical physics, 2022.
13. Ramesh P, Gu W, Ruan D, Sheng K. Dose and dose rate objectives in Bragg peak and shoot-through beam orientation optimization for FLASH proton therapy.. Medical physics, 2022.
14. Liu X, Zhang J, Ruan D, Yu AS, Sehgal V, Qi XS, Barker MC, Shen ZL, Goetsch S. Radiation therapy practice changes in the COVID-19 pandemic era: A pilot study in California.. Journal of applied clinical medical physics, 2022.
15. Zhou H, Xiao J, Li D, Fan Z, Ruan D. Intracranial vessel wall segmentation with deep learning using a novel tiered loss function incorporating class inclusion.. Medical physics, 2022.
16. Sang Y, Cao M, McNitt-Gray M, Gao Y, Hu P, Yan R, Yang Y, Ruan D. Inter-Phase 4D Cardiac MRI Registration With a Motion Prior Derived From CTA.. IEEE transactions on bio-medical engineering, 2022.
17. Ruan D, Fang J, Teng X. Efficient 18F-Fluorodeoxyglucose Positron Emission Tomography/Computed Tomography-based machine learning model for predicting epidermal growth factor receptor mutations in non-small cell lung cancer.. The quarterly journal of nuclear medicine and molecular imaging : official publication of the Italian Association of Nuclear Medicine (AIMN) [and] the International Association of Radiopharmacology (IAR), [and] Section of the Society of..., 2022.
18. Fan W, Sang Y, Zhou H, Xiao J, Fan Z, Ruan D. MRA-free intracranial vessel localization on MR vessel wall images.. Scientific reports, 2022.
19. Kundu P, Lin EY, Yoon SM, Parikh NR, Ruan D, Kishan AU, Lee A, Steinberg ML, Chang AJ. Rectal Radiation Dose and Clinical Outcomes in Prostate Cancer Patients Treated With Stereotactic Body Radiation Therapy With and Without Hydrogel.. Frontiers in oncology, 2022.
20. Ramesh P, Lyu Q, Gu W, Ruan D, Sheng K. Reformulated McNamara RBE-weighted beam orientation optimization for intensity modulated proton therapy.. Medical physics, 2022.
21. Zhou H, Cao M, Min Y, Yoon S, Kishan A, Ruan D. Ensemble learning and tensor regularization for cone-beam computed tomography-based pelvic organ segmentation.. Medical physics, 2022.
22. Zhou H, Cao M, Ma M, Yoon S, Kishan A, Ruan D. Technical note: Air bubble-induced performance degradation in automatic rectum segmentation from cone-beam CT.. Medical physics, 2022.
23. Lao Y, Ruan D, Vassantachart A, Fan Z, Ye JC, Chang EL, Chin R, Kaprealian T, Zada G, Shiroishi MS, Sheng K, Yang W. Voxelwise Prediction of Recurrent High-Grade Glioma via Proximity Estimation-Coupled Multidimensional Support Vector Machine.. International journal of radiation oncology, biology, physics, 2021.
24. Wan Y, Yang P, Xu L, Yang J, Luo C, Wang J, Chen F, Wu Y, Lu Y, Ruan D, Niu T. Radiomics analysis combining unsupervised learning and handcrafted features: A multiple-disease study.. Medical physics, 2021.
25. El Naqa I, Boone JM, Benedict SH, Goodsitt MM, Chan HP, Drukker K, Hadjiiski L, Ruan D, Sahiner B. AI in medical physics: guidelines for publication.. Medical physics, 2021.
26. McKenzie EM, Tong N, Ruan D, Cao M, Chin RK, Sheng K. Using neural networks to extend cropped medical images for deformable registration among images with differing scan extents.. Medical physics, 2021.
27. Fu J, Singhrao K, Zhong X, Gao Y, Qi SX, Yang Y, Ruan D, Lewis JH. An Automatic Deep Learning-Based Workflow for Glioblastoma Survival Prediction Using Preoperative Multimodal MR Images: A Feasibility Study.. Advances in radiation oncology, 2021.
28. Sang Y, Ruan D. Scale-adaptive deep network for deformable image registration.. Medical physics, 2021.
29. Zhou H, Xiao J, Fan Z, Ruan D. INTRACRANIAL VESSEL WALL SEGMENTATION FOR ATHEROSCLEROTIC PLAQUE QUANTIFICATION.. Proceedings. IEEE International Symposium on Biomedical Imaging, 2021.
30. Gao Y, Ghodrati V, Kalbasi A, Fu J, Ruan D, Cao M, Wang C, Eilber FC, Bernthal N, Bukata S, Dry SM, Nelson SD, Kamrava M, Lewis J, Low DA, Steinberg M, Hu P, Yang Y. Prediction of soft tissue sarcoma response to radiotherapy using longitudinal diffusion MRI and a deep neural network with generative adversarial network-based data augmentation.. Medical physics, 2021.
31. Fu J, Singhrao K, Qi XS, Yang Y, Ruan D, Lewis JH. Three-dimensional multipath DenseNet for improving automatic segmentation of glioblastoma on pre-operative multimodal MR images.. Medical physics, 2021.
32. Zhou H, Ruan D. Technical Note: An embedding-based medical note de-identification approach with sparse annotation.. Medical physics, 2021.
33. Yoon SM, Chu FI, Ruan D, Steinberg ML, Raldow A, Lee P. Assessment of Toxic Effects Associated With Dose-Fractionated Radiotherapy Among Patients With Cancer and Comorbid Collagen Vascular Disease.. JAMA network open, 2021.
34. Yu VY, Nguyen D, O'Connor D, Ruan D, Kaprealian T, Chin R, Sheng K. Treating Glioblastoma Multiforme (GBM) with super hyperfractionated radiation therapy: Implication of temporal dose fractionation optimization including cancer stem cell dynamics.. PloS one, 2021.
35. Lyu Q, Neph R, O'Connor D, Ruan D, Boucher S, Sheng K. ROAD: ROtational direct Aperture optimization with a Decoupled ring-collimator for FLASH radiotherapy.. Physics in medicine and biology, 2021.
36. Cao Y, Vassantachart A, Ye JC, Yu C, Ruan D, Sheng K, Lao Y, Shen ZL, Balik S, Bian S, Zada G, Shiu A, Chang EL, Yang W. Automatic detection and segmentation of multiple brain metastases on magnetic resonance image using asymmetric UNet architecture.. Physics in medicine and biology, 2021.
37. Sang Y, Xing X, Wu Y, Ruan D. Imposing implicit feasibility constraints on deformable image registration using a statistical generative model.. Journal of medical imaging (Bellingham, Wash.), 2020.
38. Singhrao K, Fu J, Parikh NR, Mikaeilian AG, Ruan D, Kishan AU, Lewis JH. A generative adversarial network-based (GAN-based) architecture for automatic fiducial marker detection in prostate MRI-only radiotherapy simulation images.. Medical physics, 2020.
39. Cao M, Stiehl B, Yu VY, Sheng K, Kishan AU, Chin RK, Yang Y, Ruan D. Analysis of Geometric Performance and Dosimetric Impact of Using Automatic Contour Segmentation for Radiotherapy Planning.. Frontiers in oncology, 2020.
40. Chen Y, Ruan D, Xiao J, Wang L, Sun B, Saouaf R, Yang W, Li D, Fan Z. Fully automated multiorgan segmentation in abdominal magnetic resonance imaging with deep neural networks.. Medical physics, 2020.
41. Gao Y, Kalbasi A, Hsu W, Ruan D, Fu J, Shao J, Cao M, Wang C, Eilber FC, Bernthal N, Bukata S, Dry SM, Nelson SD, Kamrava M, Lewis J, Low DA, Steinberg M, Hu P, Yang Y. Treatment effect prediction for sarcoma patients treated with preoperative radiotherapy using radiomics features from longitudinal diffusion-weighted MRIs.. Physics in medicine and biology, 2020.
42. Gu W, O'Connor D, Ruan D, Zou W, Dong L, Sheng K. Fraction-variant beam orientation optimization for intensity-modulated proton therapy.. Medical physics, 2020.
43. Gu W, Ruan D, Zou W, Dong L, Sheng K. Linear energy transfer weighted beam orientation optimization for intensity-modulated proton therapy.. Medical physics, 2020.
44. Ginn JS, Low DA, Lamb JM, Ruan D. A motion prediction confidence estimation framework for prediction-based radiotherapy gating.. Medical physics, 2020.
45. Valle LF, Ruan D, Dang A, Levin-Epstein RG, Patel AP, Weidhaas JB, Nickols NG, Lee PP, Low DA, Qi XS, King CR, Steinberg ML, Kupelian PA, Cao M, Kishan AU. Development and Validation of a Comprehensive Multivariate Dosimetric Model for Predicting Late Genitourinary Toxicity Following Prostate Cancer Stereotactic Body Radiotherapy.. Frontiers in oncology, 2020.
46. Pan X, Levin-Epstein R, Huang J, Ruan D, King CR, Kishan AU, Steinberg ML, Qi XS. Dosimetric predictors of patient-reported toxicity after prostate stereotactic body radiotherapy: Analysis of full range of the dose-volume histogram using ensemble machine learning.. Radiotherapy and oncology : journal of the European Society for Therapeutic Radiology and Oncology, 2020.
47. Levin-Epstein R, Qiao-Guan G, Juarez JE, Shen Z, Steinberg ML, Ruan D, Valle L, Nickols NG, Kupelian PA, King CR, Cao M, Kishan AU. Clinical Assessment of Prostate Displacement and Planning Target Volume Margins for Stereotactic Body Radiotherapy of Prostate Cancer.. Frontiers in oncology, 2020.
48. Gu W, Ruan D, Lyu Q, Zou W, Dong L, Sheng K. A novel energy layer optimization framework for spot-scanning proton arc therapy.. Medical physics, 2020.
49. Kalbasi A, Kamrava M, Chu FI, Telesca D, Van Dams R, Yang Y, Ruan D, Nelson SD, Dry SM, Hernandez J, Chmielowski B, Singh AS, Bukata SV, Bernthal NM, Steinberg ML, Weidhaas JB, Eilber FC. A Phase II Trial of 5-Day Neoadjuvant Radiotherapy for Patients with High-Risk Primary Soft Tissue Sarcoma.. Clinical cancer research : an official journal of the American Association for Cancer Research, 2020.
50. Lyu Q, Neph R, Yu VY, Ruan D, Boucher S, Sheng K. Many-isocenter optimization for robotic radiotherapy.. Physics in medicine and biology, 2020.
51. Singhrao K, Ruan D, Fu J, Gao Y, Chee G, Yang Y, King C, Hu P, Kishan AU, Lewis JH. Quantification of fiducial marker visibility for MRI-only prostate radiotherapy simulation.. Physics in medicine and biology, 2020.
52. Fu J, Singhrao K, Cao M, Yu V, Santhanam AP, Yang Y, Guo M, Raldow AC, Ruan D, Lewis JH. Generation of abdominal synthetic CTs from 0.35T MR images using generative adversarial networks for MR-only liver radiotherapy.. Biomedical physics & engineering express, 2020.
53. McKenzie EM, Santhanam A, Ruan D, O'Connor D, Cao M, Sheng K. Multimodality image registration in the head-and-neck using a deep learning-derived synthetic CT as a bridge.. Medical physics, 2020.
54. Ginn JS, Ruan D, Low DA, Lamb JM. An image regression motion prediction technique for MRI-guided radiotherapy evaluated in single-plane cine imaging.. Medical physics, 2019.
55. Woods K, Nguyen D, Neph R, Ruan D, O'Connor D, Sheng K. A sparse orthogonal collimator for small animal intensity-modulated radiation therapy part I: Planning system development and commissioning.. Medical physics, 2019.
56. Chan ST, Ruan D, Shaverdian N, Raghavan G, Cao M, Lee P. Effect of Radiation Doses to the Heart on Survival for Stereotactic Ablative Radiotherapy for Early-stage Non-Small-cell Lung Cancer: An Artificial Neural Network Approach.. Clinical lung cancer, 2019.
57. Landers A, O'Connor D, Ruan D, Sheng K. Automated 4π radiotherapy treatment planning with evolving knowledge-base.. Medical physics, 2019.
58. Fu J, Yang Y, Singhrao K, Ruan D, Chu FI, Low DA, Lewis JH. Deep learning approaches using 2D and 3D convolutional neural networks for generating male pelvic synthetic computed tomography from magnetic resonance imaging.. Medical physics, 2019.
59. Zhao T, McNitt-Gray M, Ruan D. A convolutional neural network for ultra-low-dose CT denoising and emphysema screening.. Medical physics, 2019.
60. Gu W, Neph R, Ruan D, Zou W, Dong L, Sheng K. Robust beam orientation optimization for intensity-modulated proton therapy.. Medical physics, 2019.
61. Guo M, Chee G, O'Connell D, Dhou S, Fu J, Singhrao K, Ionascu D, Ruan D, Lee P, Low DA, Zhao J, Lewis JH. Reconstruction of a high-quality volumetric image and a respiratory motion model from patient CBCT projections.. Medical physics, 2019.
62. Lyu Q, Neph R, Yu VY, Ruan D, Sheng K. Single-arc VMAT optimization for dual-layer MLC.. Physics in medicine and biology, 2019.
63. Zhao N, O'Connor D, Basarab A, Ruan D, Sheng K. Motion Compensated Dynamic MRI Reconstruction With Local Affine Optical Flow Estimation.. IEEE transactions on bio-medical engineering, 2019.
64. Gu W, Ruan D, O'Connor D, Zou W, Dong L, Tsai MY, Jia X, Sheng K. Robust optimization for intensity-modulated proton therapy with soft spot sensitivity regularization.. Medical physics, 2019.
65. Ginn JS, Ruan D, Low DA, Lamb JM. Multislice motion modeling for MRI-guided radiotherapy gating.. Medical physics, 2019.
66. Tewari P, Garritano J, Bajwa N, Sung S, Huang H, Wang D, Grundfest W, Ennis DB, Ruan D, Brown E, Dutson E, Fishbein MC, Taylor Z. Methods for registering and calibrating in vivo terahertz images of cutaneous burn wounds.. Biomedical optics express, 2018.
67. Hao B, Zhao L, Luo NN, Ruan D, Pang YZ, Guo W, Fu H, Guo XY, Luo ZM, Wu J, Chen HJ, Wu H, Sun L. Is it sufficient to evaluate bone marrow involvement in newly diagnosed lymphomas using 18F-FDG PET/CT and/or routine iliac crest biopsy? A new approach of PET/CT-guided targeted bone marrow biopsy.. BMC cancer, 2018.
68. Zhao T, Hoffman J, McNitt-Gray M, Ruan D. Ultra-low-dose CT image denoising using modified BM3D scheme tailored to data statistics.. Medical physics, 2018.
69. Tong N, Gou S, Yang S, Ruan D, Sheng K. Fully automatic multi-organ segmentation for head and neck cancer radiotherapy using shape representation model constrained fully convolutional neural networks.. Medical physics, 2018.
70. Yao J, Ruan D, Raymond C, Liau LM, Salamon N, Pope WB, Nghiemphu PL, Lai A, Cloughesy TF, Ellingson BM. Improving B0 Correction for pH-Weighted Amine Proton Chemical Exchange Saturation Transfer (CEST) Imaging by Use of k-Means Clustering and Lorentzian Estimation.. Tomography (Ann Arbor, Mich.), 2018.
71. Ruffolo LI, Nessen MF, Probst CP, Jackson KM, Ruan DT, Schoeniger LO, Moalem J. Open adrenalectomy through a makuuchi incision: A single institution's experience.. Surgery, 2018.
72. El Naqa I, Ruan D, Valdes G, Dekker A, McNutt T, Ge Y, Wu QJ, Oh JH, Thor M, Smith W, Rao A, Fuller C, Xiao Y, Manion F, Schipper M, Mayo C, Moran JM, Ten Haken R. Machine learning and modeling: Data, validation, communication challenges.. Medical physics, 2018.
73. Zhou H, Wang Y, Li Y, Ruan D, Liu W. Improving EEG Source Localization with a Novel Regularization: Spatiotemporal Graph Total Variation (STGTV) Method.. Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference, 2018.
74. Lyu Q, Yu VY, Ruan D, Neph R, O'Connor D, Sheng K. A novel optimization framework for VMAT with dynamic gantry couch rotation.. Physics in medicine and biology, 2018.
75. Lyu Q, O'Connor D, Ruan D, Yu V, Nguyen D, Sheng K. VMAT optimization with dynamic collimator rotation.. Medical physics, 2018.
76. Toftegaard J, Keall PJ, O'Brien R, Ruan D, Ernst F, Homma N, Ichiji K, Poulsen PR. Potential improvements of lung and prostate MLC tracking investigated by treatment simulations.. Medical physics, 2018.
77. Gu W, O'Connor D, Nguyen D, Yu VY, Ruan D, Dong L, Sheng K. Integrated beam orientation and scanning-spot optimization in intensity-modulated proton therapy for brain and unilateral head and neck tumors.. Medical physics, 2018.
78. O'Connor D, Yu V, Nguyen D, Ruan D, Sheng K. Fraction-variant beam orientation optimization for non-coplanar IMRT.. Physics in medicine and biology, 2018.
79. Landers A, Neph R, Scalzo F, Ruan D, Sheng K. Performance Comparison of Knowledge-Based Dose Prediction Techniques Based on Limited Patient Data.. Technology in cancer research & treatment, 2018.
80. Nguyen D, O'Connor D, Ruan D, Sheng K. Deterministic direct aperture optimization using multiphase piecewise constant segmentation.. Medical physics, 2017.
81. Song H, Ruan D, Liu W, Stenger VA, Pohmann R, Fernández-Seara MA, Nair T, Jung S, Luo J, Motai Y, Ma J, Hazle JD, Gach HM. Respiratory motion prediction and prospective correction for free-breathing arterial spin-labeled perfusion MRI of the kidneys.. Medical physics, 2017.
82. Gibson WJ, Ruan DT, Paulson VA, Barletta JA, Hanna GJ, Kraft S, Calles A, Nehs MA, Moore FD, Taylor-Weiner A, Wala JA, Zack TI, Lee TC, Fennessy FM, Alexander EK, Thomas T, Janne PA, Garraway LA, Carter SL, Beroukhim R, Lorch JH, Van Allen EM. Genomic Heterogeneity and Exceptional Response to Dual Pathway Inhibition in Anaplastic Thyroid Cancer.. Clinical cancer research : an official journal of the American Association for Cancer Research, 2016.
83. Zhao T, Ruan D. A general framework to learn surrogate relevance criterion for atlas based image segmentation.. Physics in medicine and biology, 2016.
84. Nguyen D, Lyu Q, Ruan D, O'Connor D, Low DA, Sheng K. A comprehensive formulation for volumetric modulated arc therapy planning.. Medical physics, 2016.
85. Liu W, Sawant A, Ruan D. Prediction of high-dimensional states subject to respiratory motion: a manifold learning approach.. Physics in medicine and biology, 2016.
86. Zhao T, Ruan D. Learning image based surrogate relevance criterion for atlas selection in segmentation.. Physics in medicine and biology, 2016.
87. Liu W, Cheung Y, Sawant A, Ruan D. A robust real-time surface reconstruction method on point clouds captured from a 3D surface photogrammetry system.. Medical physics, 2016.
88. Zhao T, Ruan D. Image segmentation with a novel regularized composite shape prior based on surrogate study.. Medical physics, 2016.
89. Lodewijk L, Kluijfhout WP, Kist JW, Stegeman I, Plukker JT, Nieveen van Dijkum EJ, Bonjer HJ, Bouvy ND, Schepers A, de Wilt JH, Netea-Maier RT, van der Hage JA, Burger JW, Ho G, Lee WS, Shen WT, Aronova A, Zarnegar R, Benay C, Mitmaker EJ, Sywak MS, Aniss AM, Kruijff S, James B, Grogan RH, Brunaud L, Hoch G, Pandolfi C, Ruan DT, Jones MD, Guerrero MA, Valk GD, Borel Rinkes IH, Vriens MR. Characteristics of contralateral carcinomas in patients with differentiated thyroid cancer larger than 1 cm.. Langenbeck's archives of surgery, 2016.
90. Nguyen D, Ruan D, O'Connor D, Woods K, Low DA, Boucher S, Sheng K. A novel software and conceptual design of the hardware platform for intensity modulated radiation therapy.. Medical physics, 2016.
91. Pitt SC, Hernandez RA, Nehs MA, Gawande AA, Moore FD, Ruan DT, Cho NL. Identification of Novel Oncogenic Mutations in Thyroid Cancer.. Journal of the American College of Surgeons, 2016.
92. Zhao T, Ruan D. Fusion set selection with surrogate metric in multi-atlas based image segmentation.. Physics in medicine and biology, 2016.
93. Moore D, Ruan D, Sawant A. Fast leaf-fitting with generalized underdose/overdose constraints for real-time MLC tracking.. Medical physics, 2016.
94. Klionsky DJ, Abdelmohsen K, Abe A, Abedin MJ, Abeliovich H, Acevedo Arozena A, Adachi H, Adams CM, Adams PD, Adeli K, Adhihetty PJ, Adler SG, Agam G, Agarwal R, Aghi MK, Agnello M, Agostinis P, Aguilar PV, Aguirre-Ghiso J, Airoldi EM, Ait-Si-Ali S, Akematsu T, Akporiaye ET, Al-Rubeai M, Albaiceta GM, Albanese C, Albani D, Albert ML, Aldudo J, Algül H, Alirezaei M, Alloza I, Almasan A, Almonte-Beceril M, Alnemri ES, Alonso C, Altan-Bonnet N, Altieri DC, Alvarez S, Alvarez-Erviti L, Alves S, Amadoro G, Amano A, Amantini C, Ambrosio S, Amelio I, Amer AO, Amessou M, Amon A, An Z, Anania FA, Andersen SU, Andley UP, Andreadi CK, Andrieu-Abadie N, Anel A, Ann DK, Anoopkumar-Dukie S, Antonioli M, Aoki H, Apostolova N, Aquila S, Aquilano K, Araki K, Arama E, Aranda A, Araya J, Arcaro A, Arias E, Arimoto H, Ariosa AR, Armstrong JL, Arnould T, Arsov I, Asanuma K, Askanas V, Asselin E, Atarashi R, Atherton SS, Atkin JD, Attardi LD, Auberger P, Auburger G, Aurelian L, Autelli R, Avagliano L, Avantaggiati ML, Avrahami L, Awale S, Azad N, Bachetti T, Backer JM, Bae DH, Bae JS, Bae ON, Bae SH, Baehrecke EH, Baek SH, Baghdiguian S, Bagniewska-Zadworna A, Bai H, Bai J, Bai XY, Bailly Y, Balaji KN, Balduini W, Ballabio A, Balzan R, Banerjee R, Bánhegyi G, Bao H, Barbeau B, Barrachina MD, Barreiro E, Bartel B, Bartolomé A, Bassham DC, Bassi MT, Bast RC, Basu A, Batista MT, Batoko H, Battino M, Bauckman K, Baumgarner BL, Bayer KU, Beale R, Beaulieu JF, Beck GR, Becker C, Beckham JD, Bédard PA, Bednarski PJ, Begley TJ, Behl C, Behrends C, Behrens GM, Behrns KE, Bejarano E, Belaid A, Belleudi F, Bénard G, Berchem G, Bergamaschi D, Bergami M, Berkhout B, Berliocchi L, Bernard A, Bernard M, Bernassola F, Bertolotti A, Bess AS, Besteiro S, Bettuzzi S, Bhalla S, Bhattacharyya S, Bhutia SK, Biagosch C, Bianchi MW, Biard-Piechaczyk M, Billes V, Bincoletto C, Bingol B, Bird SW, Bitoun M, Bjedov I, Blackstone C, Blanc L, Blanco GA, Blomhoff HK, Boada-Romero E, Böckler S, Boes M, Boesze-Battaglia K, Boise LH, Bolino A, Boman A, Bonaldo P, Bordi M, Bosch J, Botana LM, Botti J, Bou G, Bouché M, Bouchecareilh M, Boucher MJ, Boulton ME, Bouret SG, Boya P, Boyer-Guittaut M, Bozhkov PV, Brady N, Braga VM, Brancolini C, Braus GH, Bravo-San Pedro JM, Brennan LA, Bresnick EH, Brest P, Bridges D, Bringer MA, Brini M, Brito GC, Brodin B, Brookes PS, Brown EJ, Brown K, Broxmeyer HE, Bruhat A, Brum PC, Brumell JH, Brunetti-Pierri N, Bryson-Richardson RJ, Buch S, Buchan AM, Budak H, Bulavin DV, Bultman SJ, Bultynck G, Bumbasirevic V, Burelle Y, Burke RE, Burmeister M, Bütikofer P, Caberlotto L, Cadwell K, Cahova M, Cai D, Cai J, Cai Q, Calatayud S, Camougrand N, Campanella M, Campbell GR, Campbell M, Campello S, Candau R, Caniggia I, Cantoni L, Cao L, Caplan AB, Caraglia M, Cardinali C, Cardoso SM, Carew JS, Carleton LA, Carlin CR, Carloni S, Carlsson SR, Carmona-Gutierrez D, Carneiro LA, Carnevali O, Carra S, Carrier A, Carroll B, Casas C, Casas J, Cassinelli G, Castets P, Castro-Obregon S, Cavallini G, Ceccherini I, Cecconi F, Cederbaum AI, Ceña V, Cenci S, Cerella C, Cervia D, Cetrullo S, Chaachouay H, Chae HJ, Chagin AS, Chai CY, Chakrabarti G, Chamilos G, Chan EY, Chan MT, Chandra D, Chandra P, Chang CP, Chang RC, Chang TY, Chatham JC, Chatterjee S, Chauhan S, Che Y, Cheetham ME, Cheluvappa R, Chen CJ, Chen G, Chen GC, Chen G, Chen H, Chen JW, Chen JK, Chen M, Chen M, Chen P, Chen Q, Chen Q, Chen SD, Chen S, Chen SS, Chen W, Chen WJ, Chen WQ, Chen W, Chen X, Chen YH, Chen YG, Chen Y, Chen Y, Chen Y, Chen YJ, Chen YQ, Chen Y, Chen Z, Chen Z, Cheng A, Cheng CH, Cheng H, Cheong H, Cherry S, Chesney J, Cheung CH, Chevet E, Chi HC, Chi SG, Chiacchiera F, Chiang HL, Chiarelli R, Chiariello M, Chieppa M, Chin LS, Chiong M, Chiu GN, Cho DH, Cho SG, Cho WC, Cho YY, Cho YS, Choi AM, Choi EJ, Choi EK, Choi J, Choi ME, Choi SI, Chou TF, Chouaib S, Choubey D, Choubey V, Chow KC, Chowdhury K, Chu CT, Chuang TH, Chun T, Chung H, Chung T, Chung YL, Chwae YJ, Cianfanelli V, et al. Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition).. Autophagy, 2016.
95. Liu W, Cheung Y, Sabouri P, Arai TJ, Sawant A, Ruan D. A continuous surface reconstruction method on point cloud captured from a 3D surface photogrammetry system.. Medical physics, 2015.
96. Yu VY, Tran A, Nguyen D, Cao M, Ruan D, Low DA, Sheng K. The development and verification of a highly accurate collision prediction model for automated noncoplanar plan delivery.. Medical physics, 2015.
97. Zhao T, Ruan D. Two-stage atlas subset selection in multi-atlas based image segmentation.. Medical physics, 2015.
98. Nguyen D, O'Connor D, Yu VY, Ruan D, Cao M, Low DA, Sheng K. Dose domain regularization of MLC leaf patterns for highly complex IMRT plans.. Medical physics, 2015.
99. Qi XS, Ruan D, Lee SP, Pham A, Kupelian P, Low DA, Steinberg M, Demarco J. Dependence of achievable plan quality on treatment technique and planning goal refinement: a head-and-neck intensity modulated radiation therapy application.. International journal of radiation oncology, biology, physics, 2015.
100. Ruan D, Thomas D, Low DA. Objective function to obtain multiple representative waveforms for a novel helical CT scan protocol.. Medical physics, 2015.
101. Liu W, Ruan D. A unified variational segmentation framework with a level-set based sparse composite shape prior.. Physics in medicine and biology, 2015.
102. Liu W, Sung K, Ruan D. Shape-based motion correction in dynamic contrast-enhanced MRI for quantitative assessment of renal function.. Medical physics, 2014.
103. Chen Y, Hodin RA, Pandolfi C, Ruan DT, McKenzie TJ. Hypoglycemia after resection of pheochromocytoma.. Surgery, 2014.
104. Iannuzzi JC, Fleming FJ, Kelly KN, Ruan DT, Monson JR, Moalem J. Risk scoring can predict readmission after endocrine surgery.. Surgery, 2014.
105. Kishan AU, Wang PC, Sheng K, Yu V, Ruan D, Cao M, Tenn S, Low DA, Lee P. Correlation of Clinical and Dosimetric Parameters With Radiographic Lung Injury Following Stereotactic Body Radiotherapy.. Technology in cancer research & treatment, 2014.
106. Giles WH, Maclellan RA, Gawande AA, Ruan DT, Alexander EK, Moore FD, Cho NL. False negative cytology in large thyroid nodules.. Annals of surgical oncology, 2014.
107. Xia H, Ruan D, Cohen MS. Removing ballistocardiogram (BCG) artifact from full-scalp EEG acquired inside the MR scanner with Orthogonal Matching Pursuit (OMP).. Frontiers in neuroscience, 2014.
108. Xia H, Ruan D, Cohen MS. Separation and reconstruction of BCG and EEG signals during continuous EEG and fMRI recordings.. Frontiers in neuroscience, 2014.
109. Xie Q, Ruan D. Low-complexity atlas-based prostate segmentation by combining global, regional, and local metrics.. Medical physics, 2014.
110. Thomas D, Lamb J, White B, Jani S, Gaudio S, Lee P, Ruan D, McNitt-Gray M, Low D. A novel fast helical 4D-CT acquisition technique to generate low-noise sorting artifact-free images at user-selected breathing phases.. International journal of radiation oncology, biology, physics, 2014.
111. Yu V, Kishan AU, Cao M, Low D, Lee P, Ruan D. Dose impact in radiographic lung injury following lung SBRT: Statistical analysis and geometric interpretation.. Medical physics, 2014.
112. Nguyen D, Dong P, Long T, Ruan D, Low DA, Romeijn E, Sheng K. Integral dose investigation of non-coplanar treatment beam geometries in radiotherapy.. Medical physics, 2014.
113. Dong P, Nguyen D, Ruan D, King C, Long T, Romeijn E, Low DA, Kupelian P, Steinberg M, Yang Y, Sheng K. Feasibility of prostate robotic radiation therapy on conventional C-arm linacs.. Practical radiation oncology, 2013.
114. Liu W, Ruan D. Estimating nonrigid motion from inconsistent intensity with robust shape features.. Medical physics, 2013.
115. McMillan K, McNitt-Gray M, Ruan D. Development and validation of a measurement-based source model for kilovoltage cone-beam CT Monte Carlo dosimetry simulations.. Medical physics, 2013.
116. Campbell MJ, McCoy KL, Shen WT, Carty SE, Lubitz CC, Moalem J, Nehs M, Holm T, Greenblatt DY, Press D, Feng X, Siperstein AE, Mitmaker E, Benay C, Tabah R, Oltmann SC, Chen H, Sippel RS, Brekke A, Vriens MR, Lodewijk L, Stephen AE, Nagar S, Angelos P, Ghanem M, Prescott JD, Zeiger MA, Aragon Han P, Sturgeon C, Elaraj DM, Nixon IJ, Patel SG, Bayles SW, Heneghan R, Ochieng P, Guerrero MA, Ruan DT. A multi-institutional international study of risk factors for hematoma after thyroidectomy.. Surgery, 2013.
117. Nehs MA, Ruan DT, Gawande AA, Moore FD, Cho NL. Bilateral neck exploration decreases operative time compared to minimally invasive parathyroidectomy in patients with discordant imaging.. World journal of surgery, 2013.
118. Sayre GA, Ruan D. Dose-shaping using targeted sparse optimization.. Medical physics, 2013.
119. Xia H, Ruan D, Cohen MS. BCG Artifact Removal for Reconstructing Full-scalp EEG inside the MR Scanner.. ... International Workshop on Pattern Recognition in NeuroImaging. International Workshop on Pattern Recognition in NeuroImaging, 2013.
120. Dong P, Lee P, Ruan D, Long T, Romeijn E, Low DA, Kupelian P, Abraham J, Yang Y, Sheng K. 4π noncoplanar stereotactic body radiation therapy for centrally located or larger lung tumors.. International journal of radiation oncology, biology, physics, 2013.
121. Dong P, Lee P, Ruan D, Long T, Romeijn E, Yang Y, Low D, Kupelian P, Sheng K. 4π non-coplanar liver SBRT: a novel delivery technique.. International journal of radiation oncology, biology, physics, 2012.
122. Cho B, Poulsen P, Ruan D, Sawant A, Keall PJ. Experimental investigation of a general real-time 3D target localization method using sequential kV imaging combined with respiratory monitoring.. Physics in medicine and biology, 2012.
123. Ruan D, Shao W, Demarco J, Tenn S, King C, Low D, Kupelian P, Steinberg M. Evolving treatment plan quality criteria from institution-specific experience.. Medical physics, 2012.
124. Kauweloa KI, Ruan D, Park JC, Sandhu A, Kim GY, Pawlicki T, Watkins WT, Song B, Song WY. GateCT™ surface tracking system for respiratory signal reconstruction in 4DCT imaging.. Medical physics, 2012.
125. Yip DT, Hassan M, Pazaitou-Panayiotou K, Ruan DT, Gawande AA, Gaz RD, Moore FD, Hodin RA, Stephen AE, Sadow PM, Daniels GH, Randolph GW, Parangi S, Lubitz CC. Preoperative basal calcitonin and tumor stage correlate with postoperative calcitonin normalization in patients undergoing initial surgical management of medullary thyroid carcinoma.. Surgery, 2011.
126. Wu J, Ruan D, Cho B, Sawant A, Petersen J, Newell LJ, Cattell H, Keall PJ. Electromagnetic detection and real-time DMLC adaptation to target rotation during radiotherapy.. International journal of radiation oncology, biology, physics, 2011.
127. Poulsen PR, Carl J, Nielsen J, Nielsen MS, Thomsen JB, Jensen HK, Kjærgaard B, Zepernick PR, Worm E, Fledelius W, Cho B, Sawant A, Ruan D, Keall PJ. Megavoltage image-based dynamic multileaf collimator tracking of a NiTi stent in porcine lungs on a linear accelerator.. International journal of radiation oncology, biology, physics, 2011.
128. Ruan D, Kupelian P, Low DA. Image-guided positioning and tracking.. Cancer journal (Sudbury, Mass.), 2011.
129. Moalem J, Choi DX, Khanafshar E, Ruan DT, Woeber KA, Clark OH, Kebebew E. Metastatic papillary thyroid cancer misdiagnosed as non-small [corrected] cell lung cancer.. Thyroid : official journal of the American Thyroid Association, 2011.
130. Poulsen PR, Cho B, Sawant A, Ruan D, Keall PJ. Dynamic MLC tracking of moving targets with a single kV imager for 3D conformal and IMRT treatments.. Acta oncologica (Stockholm, Sweden), 2010.
131. Poulsen PR, Cho B, Sawant A, Ruan D, Keall PJ. Detailed analysis of latencies in image-based dynamic MLC tracking.. Medical physics, 2010.
132. Keall PJ, Sawant A, Cho B, Ruan D, Wu J, Poulsen P, Petersen J, Newell LJ, Cattell H, Korreman S. Electromagnetic-guided dynamic multileaf collimator tracking enables motion management for intensity-modulated arc therapy.. International journal of radiation oncology, biology, physics, 2010.
133. Ruan D. Prospective detection of large prediction errors: a hypothesis testing approach.. Physics in medicine and biology, 2010.
134. Cho B, Poulsen PR, Sawant A, Ruan D, Keall PJ. Real-time target position estimation using stereoscopic kilovoltage/megavoltage imaging and external respiratory monitoring for dynamic multileaf collimator tracking.. International journal of radiation oncology, biology, physics, 2010.
135. Ruan D, Keall P. Online prediction of respiratory motion: multidimensional processing with low-dimensional feature learning.. Physics in medicine and biology, 2010.
136. Ito H, Abramson M, Ito K, Swanson E, Cho N, Ruan DT, Swanson RS, Whang EE. Surgery and staging of pancreatic neuroendocrine tumors: a 14-year experience.. Journal of gastrointestinal surgery : official journal of the Society for Surgery of the Alimentary Tract, 2010.
137. Ruan D. Kernel density estimation-based real-time prediction for respiratory motion.. Physics in medicine and biology, 2010.
138. Poulsen PR, Cho B, Ruan D, Sawant A, Keall PJ. Dynamic multileaf collimator tracking of respiratory target motion based on a single kilovoltage imager during arc radiotherapy.. International journal of radiation oncology, biology, physics, 2010.
139. Ruan DT, Warren RS, Moalem J, Chung KW, Griffin AC, Shen W, Duh QY, Nakakura E, Donner DB, Khanafshar E, Weng J, Clark OH, Kebebew E. Mitogen-inducible gene-6 expression correlates with survival and is an independent predictor of recurrence in BRAF(V600E) positive papillary thyroid cancers.. Surgery, 2008.
140. Ruan D, Fessler JA, Balter JM. Mean position tracking of respiratory motion.. Medical physics, 2008.
141. Ruan D, Fessler JA, Balter JM, Sonke JJ. Exploring breathing pattern irregularity with projection-based method.. Medical physics, 2006.
142. Mehta KR, Nakao K, Zuraek MB, Ruan DT, Bergsland EK, Venook AP, Moore DH, Tokuyasu TA, Jain AN, Warren RS, Terdiman JP, Waldman FM. Fractional genomic alteration detected by array-based comparative genomic hybridization independently predicts survival after hepatic resection for metastatic colorectal cancer.. Clinical cancer research : an official journal of the American Association for Cancer Research, 2005.