diff --git a/Paper/paper.bib b/Paper/paper.bib index 6969e0d..bcf3f11 100644 --- a/Paper/paper.bib +++ b/Paper/paper.bib @@ -1,4 +1,26 @@ -@article{Fedorov2012, +@article{Anderson2021-fp, + title = "Simple Python Module for Conversions Between {DICOM} Images and Radiation Therapy Structures, Masks, and Prediction Arrays", + author = {Anderson, Brian M and Wahid, Kareem A and Brock, Kristy K}, + journal = {Pract. Radiat. Oncol.}, + publisher = {Elsevier}, + volume = {11}, + number = {3}, + pages = {226--229}, + month = {Feb}, + year = {2021}, + language = {en}, + doi = {10.1016/j.prro.2021.02.003} +} + +@misc{Creators_The_MONAI_Consortium_undated-or, + title = {Project {MONAI}}, + author = {{Creators The MONAI Consortium}}, + doi = {10.48550/arXiv.2211.02701}, + year = {2022}, + url = {https://arxiv.org/abs/2211.02701} +} + +@article{Fedorov2012-ax, 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 Buatti, John and Aylward, Stephen and Miller, James V and Pieper, Steve and Kikinis, Ron}, journal = {Magn. Reson. Imaging}, @@ -12,15 +34,21 @@ @article{Fedorov2012 doi = {10.1016/j.mri.2012.05.001} } -@misc{Creators_The_MONAI_Consortium, - title = {Project {MONAI}}, - author = {{Creators The MONAI Consortium}}, - doi = {10.48550/arXiv.2211.02701}, - year = {2022}, - url = {https://arxiv.org/abs/2211.02701} +@article{Nioche2018-ct, + title = "{LIFEx}: A Freeware for Radiomic Feature Calculation in Multimodality Imaging to Accelerate Advances in the Characterization of Tumor Heterogeneity", + author = {Nioche, Christophe and Orlhac, Fanny and Boughdad, Sarah and Reuz{\'e}, Sylvain and Goya-Outi, Jessica and Robert, Charlotte and Pellot-Barakat, Claire and Soussan, Michael and Frouin, Fr{\'e}d{\'e}rique and Buvat, Ir{\`e}ne}, + journal = {Cancer Res.}, + publisher = {AACR}, + volume = {78}, + number = {16}, + pages = {4786--4789}, + month = {Aug}, + year = {2018}, + language = {en}, + doi = {10.1158/0008-5472.can-18-0125} } -@article{Perez-Garcia2021, +@article{Perez-Garcia2021-jf, title = "{TorchIO}: A Python library for efficient loading, preprocessing, augmentation and patch-based sampling of medical images in deep learning", author = {P{\'e}rez-Garc{\'i}a, Fernando and Sparks, Rachel and Ourselin, S{\'e}bastien}, journal = {Comput. Methods Programs Biomed.}, @@ -34,21 +62,7 @@ @article{Perez-Garcia2021 doi = {10.1016/j.cmpb.2021.106236} } -@article{Anderson2021, - title = "Simple Python Module for Conversions Between {DICOM} Images and Radiation Therapy Structures, Masks, and Prediction Arrays", - author = {Anderson, Brian M and Wahid, Kareem A and Brock, Kristy K}, - journal = {Pract. Radiat. Oncol.}, - publisher = {Elsevier}, - volume = {11}, - number = {3}, - pages = {226--229}, - month = {Feb}, - year = {2021}, - language = {en}, - doi = {10.1016/j.prro.2021.02.003} -} - -@article{Rufenacht2023, +@article{Rufenacht2023-as, title = {PyRaDiSe: A Python package for DICOM-RT-based auto-segmentation pipeline construction and DICOM-RT data conversion}, author = {R{\"u}fenacht, Elias and Kamath, Amit and Suter, Yannick and Poel, Robert and Ermi, {\"O}mer}, journal = {Journal of Open Source Software}, @@ -59,7 +73,7 @@ @article{Rufenacht2023 doi = {10.21105/joss.04675} } -@article{Whybra2023, +@article{Whybra2023-en, title = "Sensitivity of standardised radiomics algorithms to mask generation across different software platforms", author = {Whybra, Philip and Spezi, Emiliano}, journal = {Sci. Rep.}, @@ -72,34 +86,7 @@ @article{Whybra2023 doi = {10.1038/s41598-023-41475-w} } -@article{Zwanenburg2020, - title = {The Image Biomarker Standardisation Initiative: Standardised Quantitative Radiomics for High-Throughput Image-based Phenotyping}, - author = {Zwanenburg, Alex and Valli{\`e}res, Martin and Abdalah, Mohamed A and Aerts, Hugo J W L and Andrearczyk, Vincent and Apte, Aditya and Ashrafinia, Shima and Bakas, Spyridon and Beukinga, Renger J and Boellaard, Ronald and Bogowicz, Margarita and Boldrini, Laura and Buvat, Ir{\`e}ne and Cook, Gary and Davatzikos, Christos and Depeursinge, Adrien and Desseroit, Marie-Claire and Dunet, Vincent and Echegaray, Santiago and El Naqa, Issam and Fave, Xenia and F{\"o}rster, Mathieu and Goh, Vicky and G{\"o}nen, Mehmet and Gollub, Marc and Grossmann, Patrick and Hakimi, Adam A and Hatt, Mathieu and Isensee, Fabian and Lambin, Philippe and Lee, Jeongjin and Leijenaar, Ralph T H and Liptrot, Matthew G and Losnegard, Are and Maier-Hein, Klaus H and Morin, Olivier and Mountz, James M and Nioche, Christophe and Orlhac, Fanny and Peet, Andrew W and Rao, Arvind and Scherer, Daniel and Schleiermacher, Geraldine and Schmidt-Richberg, Alexander and Schoemaker, Matthew and Shafiq-ul Hassan, Muhammad and Siegel, Eliot L and Silva, Mariana and Sousa, Joana and Traverso, Alberto and De Umbrajkar, Mahesh and Valentine, James W and van Griethuysen, Joost J M and Walsh, Sarah and Welk, Alexandra and Wilhelm, Christoph and Wright, Katia L and Yip, Stephen S F and Zeng, Jin and Fennessy, Fiona M and Mak, Raymond H and Pfaehler, Erik and Baessler, Benjamin}, - journal = {Radiology}, - volume = {295}, - number = {2}, - pages = {328--338}, - month = {May}, - year = {2020}, - language = {en}, - doi = {10.1148/radiol.2020191145} -} - -@article{Nioche2018, - title = "{LIFEx}: A Freeware for Radiomic Feature Calculation in Multimodality Imaging to Accelerate Advances in the Characterization of Tumor Heterogeneity", - author = {Nioche, Christophe and Orlhac, Fanny and Boughdad, Sarah and Reuz{\'e}, Sylvain and Goya-Outi, Jessica and Robert, Charlotte and Pellot-Barakat, Claire and Soussan, Michael and Frouin, Fr{\'e}d{\'e}rique and Buvat, Ir{\`e}ne}, - journal = {Cancer Res.}, - publisher = {AACR}, - volume = {78}, - number = {16}, - pages = {4786--4789}, - month = {Aug}, - year = {2018}, - language = {en}, - doi = {10.1158/0008-5472.can-18-0125} -} - -@article{Yousefirizi2024, +@article{Yousefirizi2023-ax, title = {From code sharing to sharing of implementations: Advancing reproducible AI development for medical imaging through federated testing}, journal = {Journal of Medical Imaging and Radiation Sciences}, volume = {55},