@article{lecun2015deep,
  title={Deep learning},
  author={LeCun, Yann and Bengio, Yoshua and Hinton, Geoffrey},
  journal={Nature},
  volume={521},
  number={7553},
  pages={436--444},
  year={2015},
  publisher={Nature Publishing Group}
}

@inproceedings{mamun2023lcdctcnn,
  title={Lcdctcnn: Lung cancer diagnosis of ct scan images using cnn based model},
  author={Mamun, Muntasir and Mahmud, Md Ishtyaq and Meherin, Mahabuba and Abdelgawad, Ahmed},
  booktitle={2023 10th International Conference on Signal Processing and Integrated Networks (SPIN)},
  pages={205--212},
  year={2023},
  organization={IEEE}
}

@article{motamed2021randgan,
  title={RANDGAN: randomized generative adversarial network for detection of COVID-19 in chest X-ray},
  author={Motamed, Saman and Rogalla, Patrik and Khalvati, Farzad},
  journal={Scientific Reports},
  volume={11},
  number={1},
  pages={8602},
  year={2021},
  publisher={Nature Publishing Group UK London}
}

@article{lalitha2021automated,
  title={An automated lung cancer detection system based on machine learning algorithm},
  author={Lalitha, S},
  journal={Journal of Intelligent \& Fuzzy Systems},
  volume={40},
  number={4},
  pages={6355--6364},
  year={2021},
  publisher={IOS Press}
}

@article{goldhaber2002pulmonary,
  title={Pulmonary embolism and deep vein thrombosis},
  author={Goldhaber, Samuel Z and Morrison, Ruth B},
  journal={Circulation},
  volume={106},
  number={12},
  pages={1436--1438},
  year={2002},
  publisher={Am Heart Assoc}
}

@article{mclaughlin2006pulmonary,
  title={Pulmonary arterial hypertension},
  author={McLaughlin, Vallerie V and McGoon, Michael D},
  journal={Circulation},
  volume={114},
  number={13},
  pages={1417--1431},
  year={2006},
  publisher={Am Heart Assoc}
}

@article{pu2022automated,
  title={Automated identification of pulmonary arteries and veins depicted in non-contrast chest CT scans},
  author={Pu, Jiantao and Leader, Joseph K and Sechrist, Jacob and Beeche, Cameron A and Singh, Jatin P and Ocak, Iclal K and Risbano, Michael G},
  journal={Medical image analysis},
  volume={77},
  pages={102367},
  year={2022},
  publisher={Elsevier}
}

@article{linguraru2010segmentation,
  title={Segmentation and quantification of pulmonary artery for noninvasive CT assessment of sickle cell secondary pulmonary hypertension},
  author={Linguraru, Marius George and Pura, John A and Van Uitert, Robert L and Mukherjee, Nisha and Summers, Ronald M and Minniti, Caterina and Gladwin, Mark T and Kato, Gregory and Machado, Roberto F and Wood, Bradford J},
  journal={Medical physics},
  volume={37},
  number={4},
  pages={1522--1532},
  year={2010},
  publisher={Wiley Online Library}
}

@article{oliveira2011segmentation,
  title={Segmentation of liver, its vessels and lesions from CT images for surgical planning},
  author={Oliveira, D{\'a}rio AB and Feitosa, Raul Q and Correia, Mauro M},
  journal={Biomedical engineering online},
  volume={10},
  pages={1--23},
  year={2011},
  publisher={Springer}
}


@article{sun2017diagnostic,
  title={Diagnostic yield of CT pulmonary angiography in the diagnosis of pulmonary embolism: a single center experience},
  author={Sun, Zhonghua and Lei, Jing},
  journal={Interventional Cardiology},
  volume={9},
  number={5},
  pages={191--198},
  year={2017},
  publisher={Future Medicine Ltd}
}

@article{hulten2011prognostic,
  title={Prognostic value of cardiac computed tomography angiography: a systematic review and meta-analysis},
  author={Hulten, Edward A and Carbonaro, Salvatore and Petrillo, Sara P and Mitchell, Joshua D and Villines, Todd C},
  journal={Journal of the American College of Cardiology},
  volume={57},
  number={10},
  pages={1237--1247},
  year={2011},
  publisher={American College of Cardiology Foundation Washington, DC}
}

@inproceedings{schembri2010radiation,
  title={Radiation dosimetry and safety issues in the investigation of pulmonary embolism},
  author={Schembri, Geoffrey P and Miller, Anne E and Smart, Richard},
  booktitle={Seminars in nuclear medicine},
  volume={40},
  pages={442--454},
  year={2010},
  organization={Elsevier}
}

@article{nunes2017asthma,
  title={Asthma costs and social impact},
  author={Nunes, Carlos and Pereira, Ana Margarida and Morais-Almeida, M{\'a}rio},
  journal={Asthma research and practice},
  volume={3},
  pages={1--11},
  year={2017},
  publisher={Springer}
}

@article{charbonnier2019airway,
  title={Airway wall thickening on CT: relation to smoking status and severity of COPD},
  author={Charbonnier, Jean-Paul and Pompe, Esther and Moore, Camille and Humphries, Stephen and van Ginneken, Bram and Make, Barry and Regan, Elizabeth and Crapo, James D and van Rikxoort, Eva M and Lynch, David A and others},
  journal={Respiratory medicine},
  volume={146},
  pages={36--41},
  year={2019},
  publisher={Elsevier}
}

@inproceedings{qin2019airwaynet,
  title={Airwaynet: a voxel-connectivity aware approach for accurate airway segmentation using convolutional neural networks},
  author={Qin, Yulei and Chen, Mingjian and Zheng, Hao and Gu, Yun and Shen, Mali and Yang, Jie and Huang, Xiaolin and Zhu, Yue-Min and Yang, Guang-Zhong},
  booktitle={International conference on medical image computing and computer-assisted intervention},
  pages={212--220},
  year={2019},
  organization={Springer}
}

@article{hsia2023quantitative,
  title={Quantitative imaging metrics for the assessment of pulmonary pathophysiology: an official American Thoracic Society and Fleischner Society joint workshop report},
  author={Hsia, Connie CW and Bates, Jason HT and Driehuys, Bastiaan and Fain, Sean B and Goldin, Jonathan G and Hoffman, Eric A and Hogg, James C and Levin, David L and Lynch, David A and Ochs, Matthias and others},
  journal={Annals of the American Thoracic Society},
  volume={20},
  number={2},
  pages={161--195},
  year={2023},
  publisher={American Thoracic Society}
}

@article{nardelli2020generative,
  title={Generative-based airway and vessel morphology quantification on chest CT images},
  author={Nardelli, Pietro and Ross, James C and Est{\'e}par, Ra{\'u}l San Jos{\'e}},
  journal={Medical image analysis},
  volume={63},
  pages={101691},
  year={2020},
  publisher={Elsevier}
}

@article{yu2022tnn,
  title={Tnn: Tree neural network for airway anatomical labeling},
  author={Yu, Weihao and Zheng, Hao and Gu, Yun and Xie, Fangfang and Yang, Jie and Sun, Jiayuan and Yang, Guang-Zhong},
  journal={IEEE Transactions on Medical Imaging},
  volume={42},
  number={1},
  pages={103--118},
  year={2022},
  publisher={IEEE}
}

@article{bidhult2019new,
  title={A new vessel segmentation algorithm for robust blood flow quantification from two-dimensional phase-contrast magnetic resonance images},
  author={Bidhult, Sebastian and Hedstr{\"o}m, Erik and Carlsson, Marcus and T{\"o}ger, Johannes and Steding-Ehrenborg, Katarina and Arheden, H{\aa}kan and Aletras, Anthony H and Heiberg, Einar},
  journal={Clinical physiology and functional imaging},
  volume={39},
  number={5},
  pages={327--338},
  year={2019},
  publisher={Wiley Online Library}
}

@inproceedings{marks2003radiation,
  title={Radiation-induced lung injury},
  author={Marks, Lawrence B and Yu, Xiaoli and Vujaskovic, Zjelko and Small Jr, William and Folz, Rodney and Anscher, Mitchell S},
  booktitle={Seminars in radiation oncology},
  volume={13},
  pages={333--345},
  year={2003},
  organization={Elsevier}
}

@article{venkatesulu2018radiation,
  title={Radiation-induced endothelial vascular injury: a review of possible mechanisms},
  author={Venkatesulu, Bhanu Prasad and Mahadevan, Lakshmi Shree and Aliru, Maureen L and Yang, Xi and Bodd, Monica Himaani and Singh, Pankaj K and Yusuf, Syed Wamique and Abe, Jun-ichi and Krishnan, Sunil},
  journal={JACC: Basic to Translational Science},
  volume={3},
  number={4},
  pages={563--572},
  year={2018},
  publisher={American College of Cardiology Foundation Washington, DC}
}

@article{graham1990pharmacological,
  title={Pharmacological alteration of the lung vascular response to radiation},
  author={Graham, Michael M and Evans, Margaret L and Dahlen, Debra D and Mahler, Peter A and Rasey, Janet S},
  journal={International Journal of Radiation Oncology* Biology* Physics},
  volume={19},
  number={2},
  pages={329--339},
  year={1990},
  publisher={Elsevier}
}

@article{kasmann2020radiation,
  title={Radiation-induced lung toxicity--cellular and molecular mechanisms of pathogenesis, management, and literature review},
  author={K{\"a}smann, Lukas and Dietrich, Alexander and Staab-Weijnitz, Claudia A and Manapov, Farkhad and Behr, J{\"u}rgen and Rimner, Andreas and Jeremic, Branislav and Senan, Suresh and De Ruysscher, Dirk and Lauber, Kirsten and others},
  journal={Radiation Oncology},
  volume={15},
  pages={1--16},
  year={2020},
  publisher={Springer}
}

@article{kuipers2024predicting,
  title={Predicting Radiation-Induced Lung Injury in Patients With Lung Cancer: Challenges and Opportunities},
  author={Kuipers, Merian E and van Doorn-Wink, Krista CJ and Hiemstra, Pieter S and Slats, Annelies M},
  journal={International Journal of Radiation Oncology* Biology* Physics},
  volume={118},
  number={3},
  pages={639--649},
  year={2024},
  publisher={Elsevier}
}

@article{arroyo2021radiation,
  title={Radiation-induced lung injury: current evidence},
  author={Arroyo-Hern{\'a}ndez, Marisol and Maldonado, Federico and Lozano-Ruiz, Francisco and Mu{\~n}oz-Monta{\~n}o, Wendy and Nu{\~n}ez-Baez, M{\'o}nica and Arrieta, Oscar},
  journal={BMC pulmonary medicine},
  volume={21},
  pages={1--12},
  year={2021},
  publisher={Springer}
}

@article{charbonnier2015automatic,
  title={Automatic pulmonary artery-vein separation and classification in computed tomography using tree partitioning and peripheral vessel matching},
  author={Charbonnier, Jean-Paul and Brink, Monique and Ciompi, Francesco and Scholten, Ernst T and Schaefer-Prokop, Cornelia M and Van Rikxoort, Eva M},
  journal={IEEE transactions on medical imaging},
  volume={35},
  number={3},
  pages={882--892},
  year={2015},
  publisher={IEEE}
}

@article{qin2021learning,
  title={Learning tubule-sensitive CNNs for pulmonary airway and artery-vein segmentation in CT},
  author={Qin, Yulei and Zheng, Hao and Gu, Yun and Huang, Xiaolin and Yang, Jie and Wang, Lihui and Yao, Feng and Zhu, Yue-Min and Yang, Guang-Zhong},
  journal={IEEE transactions on medical imaging},
  volume={40},
  number={6},
  pages={1603--1617},
  year={2021},
  publisher={IEEE}
}

@article{wittram2007ct,
  title={How I do it: CT pulmonary angiography},
  author={Wittram, Conrad},
  journal={American journal of roentgenology},
  volume={188},
  number={5},
  pages={1255--1261},
  year={2007},
  publisher={Am Roentgen Ray Soc}
}

@inproceedings{berty2012semi,
  title={A semi-automated quantification of pulmonary artery dimensions in computed tomography angiography images},
  author={Berty, Holly L and Simon, Marc and Chapman, Brian E},
  booktitle={AMIA Annual Symposium Proceedings},
  volume={2012},
  pages={36},
  year={2012},
  organization={American Medical Informatics Association}
}

@article{payer2016automated,
  title={Automated integer programming based separation of arteries and veins from thoracic CT images},
  author={Payer, Christian and Pienn, Michael and B{\'a}lint, Zolt{\'a}n and Shekhovtsov, Alexander and Talakic, Emina and Nagy, Eszter and Olschewski, Andrea and Olschewski, Horst and Urschler, Martin},
  journal={Medical image analysis},
  volume={34},
  pages={109--122},
  year={2016},
  publisher={Elsevier}
}

@inproceedings{mekada2006pulmonary,
  title={Pulmonary artery and vein classification using spatial arrangement features from X-ray CT images},
  author={Mekada, Y and Nakamura, S and Ide, I and Murase, H and Otsuji, H},
  booktitle={Proc. 7th Asia-pacific Conference on Control and Measurement},
  pages={232--235},
  year={2006}
}

@inproceedings{yonekura2007classification,
  title={Classification algorithm of pulmonary vein and artery based on multi-slice CT image},
  author={Yonekura, Taihei and Matsuhiro, Mikio and Saita, Shinsuke and Kubo, Mitsuru and Kawata, Yoshiki and Niki, Noboru and Nishitani, Hiromu and Ohmatsu, Hironobu and Kakinuma, Ryutaro and Moriyama, Noriyuki},
  booktitle={Medical Imaging 2007: Computer-Aided Diagnosis},
  volume={6514},
  pages={754--761},
  year={2007},
  organization={SPIE}
}

@article{ochs2007automated,
  title={Automated classification of lung bronchovascular anatomy in CT using AdaBoost},
  author={Ochs, Robert A and Goldin, Jonathan G and Abtin, Fereidoun and Kim, Hyun J and Brown, Kathleen and Batra, Poonam and Roback, Donald and McNitt-Gray, Michael F and Brown, Matthew S},
  journal={Medical image analysis},
  volume={11},
  number={3},
  pages={315--324},
  year={2007},
  publisher={Elsevier}
}

@inproceedings{buelow2005automatic,
  title={Automatic extraction of the pulmonary artery tree from multi-slice CT data},
  author={Buelow, Thomas and Wiemker, Rafael and Blaffert, Thomas and Lorenz, Cristian and Renisch, Steffen},
  booktitle={Medical Imaging 2005: Physiology, Function, and Structure from Medical Images},
  volume={5746},
  pages={730--740},
  year={2005},
  organization={SPIE}
}

@article{tetteh2020deepvesselnet,
  title={Deepvesselnet: Vessel segmentation, centerline prediction, and bifurcation detection in 3-d angiographic volumes},
  author={Tetteh, Giles and Efremov, Velizar and Forkert, Nils D and Schneider, Matthias and Kirschke, Jan and Weber, Bruno and Zimmer, Claus and Piraud, Marie and Menze, Bj{\"o}rn H},
  journal={Frontiers in Neuroscience},
  volume={14},
  pages={592352},
  year={2020},
  publisher={Frontiers Media SA}
}

@article{nardelli2018pulmonary,
  title={Pulmonary artery--vein classification in CT images using deep learning},
  author={Nardelli, Pietro and Jimenez-Carretero, Daniel and Bermejo-Pelaez, David and Washko, George R and Rahaghi, Farbod N and Ledesma-Carbayo, Maria J and Est{\'e}par, Ra{\'u}l San Jos{\'e}},
  journal={IEEE transactions on medical imaging},
  volume={37},
  number={11},
  pages={2428--2440},
  year={2018},
  publisher={IEEE}
}

@article{wu2023transformer,
  title={Transformer-based 3D U-Net for pulmonary vessel segmentation and artery-vein separation from CT images},
  author={Wu, Yanan and Qi, Shouliang and Wang, Meihuan and Zhao, Shuiqing and Pang, Haowen and Xu, Jiaxuan and Bai, Long and Ren, Hongliang},
  journal={Medical \& Biological Engineering \& Computing},
  volume={61},
  number={10},
  pages={2649--2663},
  year={2023},
  publisher={Springer}
}

@article{wu2023hepatic,
  title={Hepatic vessel segmentation based on 3D swin-transformer with inductive biased multi-head self-attention},
  author={Wu, Mian and Qian, Yinling and Liao, Xiangyun and Wang, Qiong and Heng, Pheng-Ann},
  journal={BMC Medical Imaging},
  volume={23},
  number={1},
  pages={91},
  year={2023},
  publisher={Springer}
}

@article{lv2024tcddu,
  title={TCDDU-Net: combining transformer and convolutional dual-path decoding U-Net for retinal vessel segmentation},
  author={Lv, Nianzu and Xu, Li and Chen, Yuling and Sun, Wei and Tian, Jiya and Zhang, Shuping},
  journal={Scientific Reports},
  volume={14},
  number={1},
  pages={25978},
  year={2024},
  publisher={Nature Publishing Group UK London}
}

@inproceedings{dosovitskiy2021an,
    title={An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale},
    author={Alexey Dosovitskiy and Lucas Beyer and Alexander Kolesnikov and Dirk Weissenborn and Xiaohua Zhai and Thomas Unterthiner and Mostafa Dehghani and Matthias Minderer and Georg Heigold and Sylvain Gelly and Jakob Uszkoreit and Neil Houlsby},
    booktitle={International Conference on Learning Representations},
    year={2021},
    url={https://openreview.net/forum?id=YicbFdNTTy}
}

@article{vaswani2017attention,
  title={Attention is all you need},
  author={Vaswani, Ashish and Shazeer, Noam and Parmar, Niki and Uszkoreit, Jakob and Jones, Llion and Gomez, Aidan N and Kaiser, {\L}ukasz and Polosukhin, Illia},
  journal={Advances in neural information processing systems},
  volume={30},
  year={2017}
}

@article{khan2022transformers,
  title={Transformers in vision: A survey},
  author={Khan, Salman and Naseer, Muzammal and Hayat, Munawar and Zamir, Syed Waqas and Khan, Fahad Shahbaz and Shah, Mubarak},
  journal={ACM computing surveys (CSUR)},
  volume={54},
  number={10s},
  pages={1--41},
  year={2022},
  publisher={ACM New York, NY}
}

@article{shen2014ct,
  title={CT-base pulmonary artery measurementin the detection of pulmonary hypertension: a meta-analysis and systematic Review},
  author={Shen, Yongchun and Wan, Chun and Tian, Panwen and Wu, Yanqiu and Li, Xiaoou and Yang, Ting and An, Jing and Wang, Tao and Chen, Lei and Wen, Fuqiang},
  journal={Medicine},
  volume={93},
  number={27},
  pages={e256},
  year={2014},
  publisher={LWW}
}

@article{ukil2008anatomy,
  title={Anatomy-guided lung lobe segmentation in X-ray CT images},
  author={Ukil, Soumik and Reinhardt, Joseph M},
  journal={IEEE transactions on medical imaging},
  volume={28},
  number={2},
  pages={202--214},
  year={2008},
  publisher={IEEE}
}

@article{choi2004effects,
  title={Effects of radiation therapy on the lung: radiologic appearances and differential diagnosis},
  author={Choi, Yo Won and Munden, Reginald F and Erasmus, Jeremy J and Joo Park, Kyung and Chung, Woo Kyung and Jeon, Seok Chol and Park, Choong-Ki},
  journal={Radiographics},
  volume={24},
  number={4},
  pages={985--997},
  year={2004},
  publisher={Radiological Society of North America}
}

@article{xie2025efficient,
  title={Efficient anatomical labeling of pulmonary tree structures via deep point-graph representation-based implicit fields},
  author={Xie, Kangxian and Yang, Jiancheng and Wei, Donglai and Weng, Ziqiao and Fua, Pascal},
  journal={Medical image analysis},
  volume={99},
  pages={103367},
  year={2025},
  publisher={Elsevier}
}

@inproceedings{tan2021sgnet,
  title={SGNet: Structure-aware graph-based network for airway semantic segmentation},
  author={Tan, Zimeng and Feng, Jianjiang and Zhou, Jie},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={153--163},
  year={2021},
  organization={Springer}
}

@article{xie2024structure,
  title={Structure and position-aware graph neural network for airway labeling},
  author={Xie, Weiyi and Jacobs, Colin and Charbonnier, Jean-Paul and van Ginneken, Bram},
  journal={Medical Image Analysis},
  volume={97},
  pages={103286},
  year={2024},
  publisher={Elsevier}
}

@inproceedings{nadeem2020anatomical,
  title={Anatomical labeling of human airway branches using a novel two-step machine learning and hierarchical features},
  author={Nadeem, Syed Ahmed and Hoffman, Eric A and Comellas, Alejandro P and Saha, Punam K},
  booktitle={Medical Imaging 2020: Image Processing},
  volume={11313},
  pages={234--240},
  year={2020},
  organization={SPIE}
}

@inproceedings{bulow2006point,
  title={Point based methods for automatic bronchial tree matching and labeling},
  author={B{\"u}low, Thomas and Lorenz, Cristian and Wiemker, Rafael and Honko, Janett},
  booktitle={Medical Imaging 2006: Physiology, Function, and Structure from Medical Images},
  volume={6143},
  pages={225--234},
  year={2006},
  organization={SPIE}
}

@article{jin2023ribseg,
  title={Ribseg v2: A large-scale benchmark for rib labeling and anatomical centerline extraction},
  author={Jin, Liang and Gu, Shixuan and Wei, Donglai and Adhinarta, Jason Ken and Kuang, Kaiming and Zhang, Yongjie Jessica and Pfister, Hanspeter and Ni, Bingbing and Yang, Jiancheng and Li, Ming},
  journal={IEEE Transactions on Medical Imaging},
  year={2023},
  publisher={IEEE}
}

@inproceedings{chen2019learning,
  title={Learning implicit fields for generative shape modeling},
  author={Chen, Zhiqin and Zhang, Hao},
  booktitle={Proceedings of the IEEE/CVF conference on computer vision and pattern recognition},
  pages={5939--5948},
  year={2019}
}

@inproceedings{chibane2020implicit,
  title={Implicit functions in feature space for 3d shape reconstruction and completion},
  author={Chibane, Julian and Alldieck, Thiemo and Pons-Moll, Gerard},
  booktitle={Proceedings of the IEEE/CVF conference on computer vision and pattern recognition},
  pages={6970--6981},
  year={2020}
}

@inproceedings{erler2020points2surf,
  title={Points2surf learning implicit surfaces from point clouds},
  author={Erler, Philipp and Guerrero, Paul and Ohrhallinger, Stefan and Mitra, Niloy J and Wimmer, Michael},
  booktitle={European Conference on Computer Vision},
  pages={108--124},
  year={2020},
  organization={Springer}
}

@inproceedings{kuang2022makes,
  title={What makes for automatic reconstruction of pulmonary segments},
  author={Kuang, Kaiming and Zhang, Li and Li, Jingyu and Li, Hongwei and Chen, Jiajun and Du, Bo and Yang, Jiancheng},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={495--505},
  year={2022},
  organization={Springer}
}

@article{draelos2021machine,
  title={Machine-learning-based multiple abnormality prediction with large-scale chest computed tomography volumes},
  author={Draelos, Rachel Lea and Dov, David and Mazurowski, Maciej A and Lo, Joseph Y and Henao, Ricardo and Rubin, Geoffrey D and Carin, Lawrence},
  journal={Medical image analysis},
  volume={67},
  pages={101857},
  year={2021},
  publisher={Elsevier}
}

@article{colak2021rsna,
  title={The RSNA pulmonary embolism CT dataset},
  author={Colak, Errol and Kitamura, Felipe C and Hobbs, Stephen B and Wu, Carol C and Lungren, Matthew P and Prevedello, Luciano M and Kalpathy-Cramer, Jayashree and Ball, Robyn L and Shih, George and Stein, Anouk and others},
  journal={Radiology: Artificial Intelligence},
  volume={3},
  number={2},
  pages={e200254},
  year={2021},
  publisher={Radiological Society of North America}
}

@inproceedings{cheng2025fusion,
  title={Fusion of Machine Learning and Deep Neural Networks for Pulmonary Arteries and Veins Segmentation in Lung Cancer Surgery Planning},
  author={Cheng, Hongyu and Zheng, Limin and Yan, Zeyu and Zhang, Haoran and Meng, Bo and Xu, Xiaowei},
  booktitle={International Conference on Pattern Recognition},
  pages={422--438},
  year={2025},
  organization={Springer}
}

@article{chu2025deep,
  title={Deep learning-driven pulmonary artery and vein segmentation reveals demography-associated vasculature anatomical differences},
  author={Chu, Yuetan and Luo, Gongning and Zhou, Longxi and Cao, Shaodong and Ma, Guolin and Meng, Xianglin and Zhou, Juexiao and Yang, Changchun and Xie, Dexuan and Mu, Dan and others},
  journal={Nature Communications},
  volume={16},
  number={1},
  pages={2262},
  year={2025},
  publisher={Nature Publishing Group UK London}
}

@article{isensee2021nnu,
  title={nnU-Net: a self-configuring method for deep learning-based biomedical image segmentation},
  author={Isensee, Fabian and Jaeger, Paul F and Kohl, Simon AA and Petersen, Jens and Maier-Hein, Klaus H},
  journal={Nature methods},
  volume={18},
  number={2},
  pages={203--211},
  year={2021},
  publisher={Nature Publishing Group}
}

@article{zhang2023multi,
  title={Multi-site, multi-domain airway tree modeling},
  author={Zhang, Minghui and Wu, Yangqian and Zhang, Hanxiao and Qin, Yulei and Zheng, Hao and Tang, Wen and Arnold, Corey and Pei, Chenhao and Yu, Pengxin and Nan, Yang and others},
  journal={Medical image analysis},
  volume={90},
  pages={102957},
  year={2023},
  publisher={Elsevier}
}

@article{bahri2024explaining,
  title={Explaining neural scaling laws},
  author={Bahri, Yasaman and Dyer, Ethan and Kaplan, Jared and Lee, Jaehoon and Sharma, Utkarsh},
  journal={Proceedings of the National Academy of Sciences},
  volume={121},
  number={27},
  pages={e2311878121},
  year={2024},
  publisher={National Academy of Sciences}
}

@incollection{kikinis20133d,
  title={3D Slicer: a platform for subject-specific image analysis, visualization, and clinical support},
  author={Kikinis, Ron and Pieper, Steve D and Vosburgh, Kirby G},
  booktitle={Intraoperative imaging and image-guided therapy},
  pages={277--289},
  year={2013},
  publisher={Springer}
}

@inproceedings{he2022masked,
  title={Masked autoencoders are scalable vision learners},
  author={He, Kaiming and Chen, Xinlei and Xie, Saining and Li, Yanghao and Doll{\'a}r, Piotr and Girshick, Ross},
  booktitle={Proceedings of the IEEE/CVF conference on computer vision and pattern recognition},
  pages={16000--16009},
  year={2022}
}

@inproceedings{tian2023designing,
title={Designing {BERT} for Convolutional Networks: Sparse and Hierarchical Masked Modeling},
author={Keyu Tian and Yi Jiang and qishuai diao and Chen Lin and Liwei Wang and Zehuan Yuan},
booktitle={The Eleventh International Conference on Learning Representations },
year={2023},
url={https://openreview.net/forum?id=NRxydtWup1S}
}

@article{bumgarner2022open,
  title={Open-source analysis and visualization of segmented vasculature datasets with VesselVio},
  author={Bumgarner, Jacob R and Nelson, Randy J},
  journal={Cell reports methods},
  volume={2},
  number={4},
  year={2022},
  publisher={Elsevier}
}

@article{lee1994building,
  title={Building skeleton models via 3-D medial surface axis thinning algorithms},
  author={Lee, Ta-Chih and Kashyap, Rangasami L and Chu, Chong-Nam},
  journal={CVGIP: graphical models and image processing},
  volume={56},
  number={6},
  pages={462--478},
  year={1994},
  publisher={Elsevier}
}

@article{d2024deep,
  title={How do deep-learning models generalize across populations? Cross-ethnicity generalization of COPD detection},
  author={D. Almeida, Silvia and Norajitra, Tobias and L{\"u}th, Carsten T and Wald, Tassilo and Weru, Vivienn and Nolden, Marco and J{\"a}ger, Paul F and von Stackelberg, Oyunbileg and Heu{\ss}el, Claus Peter and Weinheimer, Oliver and others},
  journal={Insights into imaging},
  volume={15},
  number={1},
  pages={198},
  year={2024},
  publisher={Springer}
}

@article{pu2023automated,
  title={Automated detection and segmentation of pulmonary embolisms on computed tomography pulmonary angiography (CTPA) using deep learning but without manual outlining},
  author={Pu, Jiantao and Gezer, Naciye Sinem and Ren, Shangsi and Alpaydin, Aylin Ozgen and Avci, Emre Ruhat and Risbano, Michael G and Rivera-Lebron, Belinda and Chan, Stephen Yu-Wah and Leader, Joseph K},
  journal={Medical image analysis},
  volume={89},
  pages={102882},
  year={2023},
  publisher={Elsevier}
}

@article{pan2023learning,
  title={Learning multi-view and centerline topology connectivity information for pulmonary artery--vein separation},
  author={Pan, Lin and Li, Zhaopei and Shen, Zhiqiang and Liu, Zheng and Huang, Liqin and Yang, Mingjing and Zheng, Bin and Zeng, Taidui and Zheng, Shaohua},
  journal={Computers in Biology and Medicine},
  volume={155},
  pages={106669},
  year={2023},
  publisher={Elsevier}
}

@inproceedings{freund1996experiments,
  title={Experiments with a new boosting algorithm},
  author={Freund, Yoav and Schapire, Robert E and others},
  booktitle={icml},
  volume={96},
  pages={148--156},
  year={1996},
  organization={Citeseer}
}

@inproceedings{ronneberger2015u,
  title={U-net: Convolutional networks for biomedical image segmentation},
  author={Ronneberger, Olaf and Fischer, Philipp and Brox, Thomas},
  booktitle={Medical image computing and computer-assisted intervention--MICCAI 2015: 18th international conference, Munich, Germany, October 5-9, 2015, proceedings, part III 18},
  pages={234--241},
  year={2015},
  organization={Springer}
}

@article{melba:2023:002:kofler,
    title = "Are we using appropriate segmentation metrics? Identifying correlates of human expert perception for CNN training beyond rolling the DICE coefficient",
    author = "Kofler, Florian and Ezhov, Ivan and Isensee, Fabian and Balsiger, Fabian and Berger, Christoph and Koerner, Maximilian and Demiray, Beatrice and Rackerseder, Julia and Paetzold, Johannes and Li, Hongwei and Shit, Suprosanna and McKinley, Richard and Piraud, Marie and Bakas, Spyridon and Zimmer, Claus and Navab, Nassir and Kirschke, Jan and Wiestler, Benedikt and Menze, Bjoern",
    journal = "Machine Learning for Biomedical Imaging",
    volume = "2",
    issue = "May 2023 issue",
    year = "2023",
    pages = "27--71",
    issn = "2766-905X",
    doi = "https://doi.org/10.59275/j.melba.2023-dg1f",
    url = "https://melba-journal.org/2023:002"
}

@article{poletti2022automated,
  title={Automated lung vessel segmentation reveals blood vessel volume redistribution in viral pneumonia},
  author={Poletti, Julien and Bach, Michael and Yang, Shan and Sexauer, Raphael and Stieltjes, Bram and Rotzinger, David C and Bremerich, Jens and Sauter, Alexander Walter and Weikert, Thomas},
  journal={European Journal of Radiology},
  volume={150},
  year={2022},
  publisher={Elsevier}
}

@article{wasserthal2023totalsegmentator,
  title={TotalSegmentator: robust segmentation of 104 anatomic structures in CT images},
  author={Wasserthal, Jakob and Breit, Hanns-Christian and Meyer, Manfred T and Pradella, Maurice and Hinck, Daniel and Sauter, Alexander W and Heye, Tobias and Boll, Daniel T and Cyriac, Joshy and Yang, Shan and others},
  journal={Radiology: Artificial Intelligence},
  volume={5},
  number={5},
  pages={e230024},
  year={2023},
  publisher={Radiological Society of North America}
}

@inproceedings{zhu2014effective,
  title={An effective interactive medical image segmentation method using fast growcut},
  author={Zhu, Liangjia and Kolesov, Ivan and Gao, Yi and Kikinis, Ron and Tannenbaum, Allen},
  booktitle={MICCAI workshop on interactive medical image computing},
  year={2014}
}

@article{pinter2019polymorph,
  title={Polymorph segmentation representation for medical image computing},
  author={Pinter, Csaba and Lasso, Andras and Fichtinger, Gabor},
  journal={Computer methods and programs in biomedicine},
  volume={171},
  pages={19--26},
  year={2019},
  publisher={Elsevier}
}

@article{fedorov20123d,
  title={3D Slicer as an image computing platform for the Quantitative Imaging Network},
  author={Fedorov, Andriy and Beichel, Reinhard and Kalpathy-Cramer, Jayashree and Finet, Julien and Fillion-Robin, Jean-Christophe and Pujol, Sonia and Bauer, Christian and Jennings, Dominique and Fennessy, Fiona and Sonka, Milan and others},
  journal={Magnetic resonance imaging},
  volume={30},
  number={9},
  pages={1323--1341},
  year={2012},
  publisher={Elsevier}
}

@article{kruskal1956shortest,
  title={On the shortest spanning subtree of a graph and the traveling salesman problem},
  author={Kruskal, Joseph B},
  journal={Proceedings of the American Mathematical society},
  volume={7},
  number={1},
  pages={48--50},
  year={1956},
  publisher={JSTOR}
}

@inproceedings{frangi1998multiscale,
  title={Multiscale vessel enhancement filtering},
  author={Frangi, Alejandro F and Niessen, Wiro J and Vincken, Koen L and Viergever, Max A},
  booktitle={Medical image computing and computer-assisted intervention-MICCAI'98: first international conference cambridge, MA, USA, october 11--13, 1998 proceedings 1},
  pages={130--137},
  year={1998},
  organization={Springer}
}

@article{velickovic2017graph,
  title={Graph attention networks},
  author={Velickovic, Petar and Cucurull, Guillem and Casanova, Arantxa and Romero, Adriana and Lio, Pietro and Bengio, Yoshua and others},
  journal={stat},
  volume={1050},
  number={20},
  pages={10--48550},
  year={2017}
}

@article{taha2015metrics,
  title={Metrics for evaluating 3D medical image segmentation: analysis, selection, and tool},
  author={Taha, Abdel Aziz and Hanbury, Allan},
  journal={BMC medical imaging},
  volume={15},
  pages={1--28},
  year={2015},
  publisher={Springer}
}

@article{qi2017pointnet++,
  title={Pointnet++: Deep hierarchical feature learning on point sets in a metric space},
  author={Qi, Charles Ruizhongtai and Yi, Li and Su, Hao and Guibas, Leonidas J},
  journal={Advances in neural information processing systems},
  volume={30},
  year={2017}
}

@article{van2014scikit,
  title={scikit-image: image processing in Python},
  author={Van der Walt, Stefan and Sch{\"o}nberger, Johannes L and Nunez-Iglesias, Juan and Boulogne, Fran{\c{c}}ois and Warner, Joshua D and Yager, Neil and Gouillart, Emmanuelle and Yu, Tony},
  journal={PeerJ},
  volume={2},
  pages={e453},
  year={2014},
  publisher={PeerJ Inc.}
}

@article{spearman1987proof,
  title={The proof and measurement of association between two things},
  author={Spearman, Charles},
  journal={The American journal of psychology},
  volume={100},
  number={3/4},
  pages={441--471},
  year={1987},
  publisher={JSTOR}
}