CJ
Craig K. Jones
Algorithmscs.LGMagnetic Resonance Imagingdeep learningintraoperative imagingcs.CVDeep LearningImage-guided surgeryImage Processing, Computer-Assisteddeformable registration
On Valency
published · living versionsW_udehh595·v1 · currentpublished
The Astropy Project: Sustaining and Growing a Community-oriented Open-source Project and the Latest Major Release (v5.0) of the Core Package
with The Astropy Collaboration, Adrian M. Price-Whelan, Pey Lian Lim, Nicholas Earl +131
1 version
Preprints & journals
102 papers in the corpus · 1997–2026Intratumoral and Peritumoral Functional Connectivity Reveals Network-Level Signatures of Glioma.42892999 · Bao, Hongbo, Bai, Yan, Hu, Jie et al.2026 · 0 citationsMedComm. 2026;7(11):e71083
Invariant Texture Features to Gray Level Discretization.42806196 · Yan, Yukun, Lefcourt, Samuel, Vedula, S Swaroop et al.2026 · 0 citationsJournal of imaging informatics in medicine. 2026
Multi-scale Radiomic Fingerprint: Quantifying Spatial Changes in Biology.42274866 · Lefcourt, Samuel, Kim, Alan, Huang, Peng et al.2026 · 0 citationsJournal of imaging informatics in medicine. 2026
OpenMAP-BrainAge: generalizable and interpretable brain age predictor from MRI.42482983 · Kan, Pengyu, Jones, Craig, Oishi, Kenichi et al.2026 · 1 citationRadiology advances. 2026;3(4):umag025
A Machine-Based Learning Model for Recurrence Prediction and Timing After Endoscopic Eradication Therapy for Barrett's Esophagus.41956235 · Akshintala, Venkata, Han, Samuel, Yan, Yukun et al.2026 · 2 citationsClinical gastroenterology and hepatology : the official clinical practice journal of the American Gastroenterological Association. 2026;24(11):2956-2967
Emergent Language Symbolic Autoencoder (ELSA) with weak supervision to model hierarchical brain networks.41655479 · Pallikonda Latheef, Ammar Ahmed, Santamaria-Pang, Alberto, Jones, Craig K et al.2026 · 0 citationsComputers in biology and medicine. 2026;204:111533
Adaptive Label Error Detection: A Bayesian Approach to Mislabeled Data Detection2601.10084v1 · Zan Chaudhry, Noam H. Rotenberg, Brian Caffo et al.2026 · 0 citationsarXiv
Self-Supervised Feature Detection and 3D Reconstruction for Real-Time Neuroendoscopic Guidance.40031732 · Vagdargi, Prasad, Uneri, Ali, Liu, Stephen Z et al.2025 · 2 citationsIEEE transactions on bio-medical engineering. 2025;72(7):2249-2260
Predicting Imminent Conversion to Exudative Age-Related Macular Degeneration Using Multimodal Data and Ensemble Machine Learning.40502295 · Liu, T Y Alvin, Liu, Yuxuan, Gastonguay, Madeleine S et al.2025 · 5 citationsOphthalmology science. 2025;5(5):100785
Automated identification of fleck lesions in Stargardt disease using deep learning enhances lesion detection sensitivity and enables morphometric analysis of flecks.38408857 · Sabharwal, Jasdeep, Liu, Tin Yan Alvin, Antonio-Aguirre, Bani et al.2024 · 4 citationsThe British journal of ophthalmology. 2024;108(9):1226-1233
Asymmetry of the Frontal Aslant Tract Depends on Handedness.38964863 · Taghvaei, Mohammad, Jones, Craig K, Luna, Licia P et al.2024 · 5 citationsAJNR. American journal of neuroradiology. 2024;45(8):1090-1097
Atlas-Based Labeling of Resting-State fMRI.38814830 · Kambli, Hrishikesh, Santamaria-Pang, Alberto, Tarapov, Ivan et al.2024 · 2 citationsBrain connectivity. 2024;14(6):319-326
RTA-Former: Reverse Transformer Attention for Polyp Segmentation.40031481 · Li, Zhikai, Yi, Murong, Uneri, Ali et al.2025 · 4 citationsAnnual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference. 2024;2024:1-5
Active Learning in Brain Tumor Segmentation with Uncertainty Sampling and Annotation Redundancy Restriction.38514595 · Kim, Daniel D, Chandra, Rajat S, Yang, Li et al.2024 · 19 citationsJournal of imaging informatics in medicine. 2024;37(5):2099-2107
Deformable registration of preoperative MR and intraoperative long-length tomosynthesis images for guidance of spine surgery via image synthesis.38471330 · Huang, Yixuan, Zhang, Xiaoxuan, Hu, Yicheng et al.2024 · 8 citationsComputerized medical imaging and graphics : the official journal of the Computerized Medical Imaging Society. 2024;114:102365
Self-Supervised Deep Learning-The Next Frontier.38329770 · Liu, T Y Alvin, Koseoglu, Neslihan Dilruba, Jones, Craig2024 · 4 citationsJAMA ophthalmology. 2024;142(3):234
Whole-lesion assessment of volume and signal changes after sclerotherapy of extremity venous malformations.38452733 · Khalil, Adham, Laguna, Amanda, I Mehta, Tej et al.2024 · 5 citationsEuropean journal of radiology. 2024;174:111397
Rigid alignment method for secondary analyses of optical coherence tomography volumes.38404338 · Cornelio, Andrew, Collazo Martinez, Ana, Lu, Hanzhang et al.2024 · 2 citationsBiomedical optics express. 2024;15(2):938-952
Magnetic Resonance Imaging-Based Assessment of Pancreatic Fat Strongly Correlates With Histology-Based Assessment of Pancreas Composition.38194643 · Kiemen, Ashley L, Dbouk, Mohamad, Diwan, Elizabeth Abou et al.2024 · 18 citationsPancreas. 2024;53(2):e180-e186
Evidential Uncertainty Quantification: A Variance-Based Perspective2311.11367v1 · Ruxiao Duan, Brian Caffo, Harrison X. Bai et al.2023 · 19 citationsarXiv
Comparative analysis of alignment algorithms for macular optical coherence tomography imaging.37784169 · Jones, Craig K, Li, Bochong, Wu, Jo-Hsuan et al.2023 · 5 citationsInternational journal of retina and vitreous. 2023;9(1):60
Applications of Sequential Learning for Medical Image Classification2309.14591v1 · Sohaib Naim, Brian Caffo, Haris I Sair et al.2023 · 0 citationsarXiv
Vision transformers: The next frontier for deep learning-based ophthalmic image analysis.38074310 · Wu, Jo-Hsuan, Koseoglu, Neslihan D, Jones, Craig et al.2023 · 22 citationsSaudi journal of ophthalmology : official journal of the Saudi Ophthalmological Society. 2023;37(3):173-178
Automated Artifact Detection in Ultra-widefield Fundus Photography of Patients with Sickle Cell Disease2307.05780v1 · Anqi Feng, Dimitri Johnson, Grace R. Reilly et al.2023 · 0 citationsarXiv
Real-Time 3-D Video Reconstruction for Guidance of Transventricular Neurosurgery.41356123 · Vagdargi, Prasad, Uneri, Ali, Zhang, Xiaoxuan et al.2026 · 11 citationsIEEE transactions on medical robotics and bionics. 2023;5(3):669-682
Optical Coherence Tomography Angiography, Artificial Intelligence, and the Missing Capillaries.37227709 · Kashani, Amir H, Liu, T Y Alvin, Jones, Craig2023 · 4 citationsJAMA ophthalmology. 2023;141(7):649-650
Brain Tumor Segmentation for Multi-Modal MRI with Missing Information.37340197 · Feng, Xue, Ghimire, Kanchan, Kim, Daniel D et al.2023 · 26 citationsJournal of digital imaging. 2023;36(5):2075-2087
Deep Labeling of fMRI Brain Networks2305.03814v1 · Ammar Ahmed Pallikonda Latheef, Sejal Ghate, Zhipeng Hui et al.2023 · 0 citationsarXiv
Interrater Reliability of Cervical Neural Foraminal Stenosis Using Traditional and Splayed Reconstructions: Analysis of One Hundred Scans.36966908 · Hersh, Andrew M, Zahoor, Anika, Livingston, Danielle et al.2023 · 3 citationsWorld neurosurgery. 2023;175:e314-e319
Combining physics-based models with deep learning image synthesis and uncertainty in intraoperative cone-beam CT of the brain.36906915 · Zhang, Xiaoxuan, Sisniega, Alejandro, Zbijewski, Wojciech B et al.2023 · 20 citationsMedical physics. 2023;50(5):2607-2624
Active Learning in Brain Tumor Segmentation with Uncertainty Sampling, Annotation Redundancy Restriction, and Data Initialization2302.10185v1 · Daniel D Kim, Rajat S Chandra, Jian Peng et al.2023 · 1 citationarXiv
Author Correction: Federated learning enables big data for rare cancer boundary detection.36702828 · Pati, Sarthak, Baid, Ujjwal, Edwards, Brandon et al.2025 · 5 citationsNature communications. 2023;14(1):436
Federated learning enables big data for rare cancer boundary detection.36470898 · Pati, Sarthak, Baid, Ujjwal, Edwards, Brandon et al.2022 · 390 citationsNature communications. 2022;13(1):7346
Active shape model registration of ocular structures in computed tomography images.36240761 · Liu, Yuxuan, Ota, Mitsuki, Han, Runze et al.2022 · 3 citationsPhysics in medicine and biology. 2022;67(22)
Multi-perspective region-based CNNs for vertebrae labeling in intraoperative long-length images.36370597 · Huang, Y, Jones, C K, Zhang, X et al.2022 · 8 citationsComputer methods and programs in biomedicine. 2022;227:107222
Deep Labeling of fMRI Brain Networks Using Cloud Based Processing2209.08200v2 · Sejal Ghate, Alberto Santamaria-Pang, Ivan Tarapov et al.2022 · 1 citationarXiv
Arterial Spin Labeling Imaging Characteristics of Anti-leucine-rich Glioma-Inactivated 1 Encephalitis: A Qualitative and Quantitative Analysis.35979060 · Yedavalli, Vivek Srikar, Hamam, Omar, Bahouth, Mona et al.2022 · 6 citationsFrontiers in neurology. 2022;13:850029
Prediction of visual impairment in retinitis pigmentosa using deep learning and multimodal fundus images.35896367 · Liu, Tin Yan Alvin, Ling, Carlthan, Hahn, Leo et al.2023 · 44 citationsThe British journal of ophthalmology. 2023;107(10):1484-1489
Deformable 3D-2D image registration and analysis of global spinal alignment in long-length intraoperative spine imaging.35762028 · Zhang, Xiaoxuan, Uneri, Ali, Huang, Yixuan et al.2022 · 10 citationsMedical physics. 2022;49(9):5715-5727
The Astropy Project: Sustaining and Growing a Community-oriented Open-source Project and the Latest Major Release (v5.0) of the Core Package2206.14220v1 · Adrian M. Price-Whelan, Pey Lian Lim, Nicholas Earl et al.2022 · 5,054 citationsarXivon Valency
Joint synthesis and registration network for deformable MR-CBCT image registration for neurosurgical guidance.35609586 · Han, R, Jones, C K, Lee, J et al.2022 · 27 citationsPhysics in medicine and biology. 2022;67(12)
Machine Learning for Hepatocellular Carcinoma Segmentation at MRI: Radiology In Training.35536132 · Raman, Alex G, Jones, Craig, Weiss, Clifford R2022 · 12 citationsRadiology. 2022;304(3):509-515
Direct quantification of epistemic and aleatoric uncertainty in 3D U-net segmentation.35692283 · Jones, Craig K, Wang, Guoqing, Yedavalli, Vivek et al.2023 · 18 citationsJournal of medical imaging (Bellingham, Wash.). 2022;9(3):034002
Automated prediction of the Thoracolumbar Injury Classification and Severity Score from CT using a novel deep learning algorithm.35364582 · Doerr, Sophia A, Weber-Levine, Carly, Hersh, Andrew M et al.2022 · 35 citationsNeurosurgical focus. 2022;52(4):E5
Pre-Clinical Development of Robot-Assisted Ventriculoscopy for 3D Image Reconstruction and Guidance of Deep Brain Neurosurgery.35368731 · Vagdargi, Prasad, Uneri, Ali, Jones, Craig K et al.2023 · 12 citationsIEEE transactions on medical robotics and bionics. 2022;4(1):28-37
Deformable 3D-2D registration for high-precision guidance and verification of neuroelectrode placement.34644684 · Uneri, A, Wu, P, Jones, C K et al.2022 · 6 citationsPhysics in medicine and biology. 2021;66(21)
Deformable MR-CT image registration using an unsupervised, dual-channel network for neurosurgical guidance.34784539 · Han, R, Jones, C K, Lee, J et al.2023 · 66 citationsMedical image analysis. 2022;75:102292
Intraoperative cone-beam and slot-beam CT: 3D image quality and dose with a slot collimator on the O-arm imaging system.34519364 · Zhang, Xiaoxuan, Zbijewski, Wojciech, Huang, Yixuan et al.2021 · 4 citationsMedical physics. 2021;48(11):6800-6809
Using Uncertainty in Deep Learning Reconstruction for Cone-Beam CT of the Brain2108.09229v1 · Pengwei Wu, Alejandro Sisniega, Ali Uneri et al.2021 · 15 citationsarXiv
3D vertebrae labeling in spine CT: an accurate, memory-efficient (Ortho2D) framework.34082413 · Huang, Y, Uneri, A, Jones, C K et al.2021 · 14 citationsPhysics in medicine and biology. 2021;66(12)
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