The links below are to publications on PubMed referring to STAPLE. This list is gathered weekly from PubMed automatically and was last updated on December 17, 2025.

Publication/References
Thalamocortical structural connectivity abnormalities in drug-resistant generalized epilepsy: A diffusion tensor imaging study.
Description: Zhang, Yiming, et al. Thalamocortical structural connectivity abnormalities in drug-resistant generalized epilepsy: A diffusion tensor imaging study. ''Brain Res''. 2020 Jan 15; '''1727''': 146558
Investigation of biases in convolutional neural networks for semantic segmentation using performance sensitivity analysis.
Description: Gullmar, Daniel, et al. Investigation of biases in convolutional neural networks for semantic segmentation using performance sensitivity analysis. ''Z Med Phys''. 2022 Aug; '''32''' (3):346-360
Bassoon contributes to tau-seed propagation and neurotoxicity.
Description: Martinez, Pablo, et al. Bassoon contributes to tau-seed propagation and neurotoxicity. ''Nat Neurosci''. 2022 Dec; '''25''' (12):1597-1607
Ts66Yah, a mouse model of Down syndrome with improved construct and face validity.
Description: Duchon, Arnaud, et al. Ts66Yah, a mouse model of Down syndrome with improved construct and face validity. ''Dis Model Mech''. 2022 Dec 1; '''15''' (12):
Deep-learning-based AI for evaluating estimated nonperfusion areas requiring further examination in ultra-widefield fundus images.
Description: Inoda, Satoru, et al. Deep-learning-based AI for evaluating estimated nonperfusion areas requiring further examination in ultra-widefield fundus images. ''Sci Rep''. 2022 Dec 17; '''12''' (1):21826
Cell segmentation in images without structural fluorescent labels.
Description: Zyss, Daniel, et al. Cell segmentation in images without structural fluorescent labels. ''Biol Imaging''. 2023; '''3''': e16
CrossMoDA 2021 challenge: Benchmark of cross-modality domain adaptation techniques for vestibular schwannoma and cochlea segmentation.
Description: Dorent, Reuben, et al. CrossMoDA 2021 challenge: Benchmark of cross-modality domain adaptation techniques for vestibular schwannoma and cochlea segmentation. ''Med Image Anal''. 2023 Jan; '''83''': 102628
Segmenting white matter hyperintensities on isotropic three-dimensional Fluid Attenuated Inversion Recovery magnetic resonance images: Assessing deep learning tools on a Norwegian imaging database.
Description: Rovang, Martin Soria, et al. Segmenting white matter hyperintensities on isotropic three-dimensional Fluid Attenuated Inversion Recovery magnetic resonance images: Assessing deep learning tools on a Norwegian imaging database. ''PLoS One''. 2023; '''18''' (8):e0285683
Chaksu: A glaucoma specific fundus image database.
Description: Kumar, J R Harish, et al. Chaksu: A glaucoma specific fundus image database. ''Sci Data''. 2023 Feb 3; '''10''' (1):70
Detailed anatomic segmentations of a fetal brain diffusion tensor imaging atlas between 23 and 30 weeks of gestation.
Description: Calixto, Camilo, et al. Detailed anatomic segmentations of a fetal brain diffusion tensor imaging atlas between 23 and 30 weeks of gestation. ''Hum Brain Mapp''. 2023 Mar; '''44''' (4):1593-1602
Large scale crowdsourced radiotherapy segmentations across a variety of cancer anatomic sites.
Description: Wahid, Kareem A, et al. Large scale crowdsourced radiotherapy segmentations across a variety of cancer anatomic sites. ''Sci Data''. 2023 Mar 22; '''10''' (1):161
Unbiased analysis of the dorsal root ganglion after peripheral nerve injury: no neuronal loss, no gliosis, but satellite glial cell plasticity.
Description: Schulte, Annemarie, et al. Unbiased analysis of the dorsal root ganglion after peripheral nerve injury: no neuronal loss, no gliosis, but satellite glial cell plasticity. ''Pain''. 2023 Apr 1; '''164''' (4):728-740
Prostate stereotactic body radiotherapy: quantifying intra-fraction motion and calculating margins using the new BIR geometric uncertainties in daily online IGRT recommendations.
Description: McNeice, Joseph M, et al. Prostate stereotactic body radiotherapy: quantifying intra-fraction motion and calculating margins using the new BIR geometric uncertainties in daily online IGRT recommendations. ''Br J Radiol''. 2023 Jun 1; '''96''' (1146):20220852
Segmentation of 4D Flow MRI: Comparison between 3D Deep Learning and Velocity-Based Level Sets.
Description: Barrera-Naranjo, Armando, et al. Segmentation of 4D Flow MRI: Comparison between 3D Deep Learning and Velocity-Based Level Sets. ''J Imaging''. 2023 Jun 19; '''9''' (6):
The Cell Tracking Challenge: 10 years of objective benchmarking.
Description: Maska, Martin, et al. The Cell Tracking Challenge: 10 years of objective benchmarking. ''Nat Methods''. 2023 Jul; '''20''' (7):1010-1020
Automated hippocampal segmentation algorithms evaluated in stroke patients.
Description: Schell, Marianne, et al. Automated hippocampal segmentation algorithms evaluated in stroke patients. ''Sci Rep''. 2023 Jul 20; '''13''' (1):11712
Determining The Role Of Radiation Oncologist Demographic Factors On Segmentation Quality: Insights From A Crowd-Sourced Challenge Using Bayesian Estimation.
Description: Wahid, Kareem A, et al. Determining The Role Of Radiation Oncologist Demographic Factors On Segmentation Quality: Insights From A Crowd-Sourced Challenge Using Bayesian Estimation. ''medRxiv''. 2023 Sep 5;
Dosimetry impact of distinct gating strategies in cine MR image-guided breath-hold pancreatic cancer radiotherapy.
Description: Dong, Yuyan, et al. Dosimetry impact of distinct gating strategies in cine MR image-guided breath-hold pancreatic cancer radiotherapy. ''J Appl Clin Med Phys''. 2023 Oct; '''24''' (10):e14078
Deep learning-based algorithm for postoperative glioblastoma MRI segmentation: a promising new tool for tumor burden assessment.
Description: Bianconi, Andrea, et al. Deep learning-based algorithm for postoperative glioblastoma MRI segmentation: a promising new tool for tumor burden assessment. ''Brain Inform''. 2023 Oct 6; '''10''' (1):26
Reproducibility of APT-weighted CEST-MRI at 3T in healthy brain and tumor across sessions and scanners.
Description: Wu, Yulun, et al. Reproducibility of APT-weighted CEST-MRI at 3T in healthy brain and tumor across sessions and scanners. ''Sci Rep''. 2023 Oct 23; '''13''' (1):18115
Feasibility evaluation of novel AI-based deep-learning contouring algorithm for radiotherapy.
Description: Maduro Bustos, Luis A, et al. Feasibility evaluation of novel AI-based deep-learning contouring algorithm for radiotherapy. ''J Appl Clin Med Phys''. 2023 Nov; '''24''' (11):e14090
Use of deep learning to segment bolus during videofluoroscopic swallow studies.
Description: Shaheen, Nadeem, et al. Use of deep learning to segment bolus during videofluoroscopic swallow studies. ''Biomed Phys Eng Express''. 2023 Nov 23; '''10''' (1):
Robust in-vehicle heartbeat detection using multimodal signal fusion.
Description: Warnecke, Joana M, et al. Robust in-vehicle heartbeat detection using multimodal signal fusion. ''Sci Rep''. 2023 Nov 27; '''13''' (1):20864
Motoneuron-driven computational muscle modelling with motor unit resolution and subject-specific musculoskeletal anatomy.
Description: Caillet, Arnault H, et al. Motoneuron-driven computational muscle modelling with motor unit resolution and subject-specific musculoskeletal anatomy. ''PLoS Comput Biol''. 2023 Dec; '''19''' (12):e1011606
A Technique to Enable Efficient Adaptive Radiation Therapy: Automated Contouring of Prostate and Adjacent Organs.
Description: Hyer, Daniel E, et al. A Technique to Enable Efficient Adaptive Radiation Therapy: Automated Contouring of Prostate and Adjacent Organs. ''Adv Radiat Oncol''. 2024 Jan; '''9''' (1):101336
Automatic segmentation of the spinal cord nerve rootlets.
Description: Valosek, Jan, et al. Automatic segmentation of the spinal cord nerve rootlets. ''Imaging Neurosci (Camb)''. 2024; '''2''':
Multi-stage semi-supervised learning enhances white matter hyperintensity segmentation.
Description: Duarte, Kaue T N, et al. Multi-stage semi-supervised learning enhances white matter hyperintensity segmentation. ''Front Comput Neurosci''. 2024; '''18''': 1487877
Posterior tibial slope influences joint mechanics and soft tissue loading after total knee arthroplasty.
Description: Guo, Ning, et al. Posterior tibial slope influences joint mechanics and soft tissue loading after total knee arthroplasty. ''Front Bioeng Biotechnol''. 2024; '''12''': 1352794
Two-dimensional segmentation fusion tool: an extensible, free-to-use, user-friendly tool for combining different bidimensional segmentations.
Description: Piccinini, Filippo, et al. Two-dimensional segmentation fusion tool: an extensible, free-to-use, user-friendly tool for combining different bidimensional segmentations. ''Front Bioeng Biotechnol''. 2024; '''12''': 1339723
Utility of 68Ga-DOTATATE PET-MRI for Gamma Knife(R) stereotactic radiosurgery treatment planning for meningioma.
Description: Ratnayake, Gishan, et al. Utility of 68Ga-DOTATATE PET-MRI for Gamma Knife(R) stereotactic radiosurgery treatment planning for meningioma. ''Br J Radiol''. 2024 Jan 23; '''97''' (1153):180-185
Explainable hybrid vision transformers and convolutional network for multimodal glioma segmentation in brain MRI.
Description: Zeineldin, Ramy A, et al. Explainable hybrid vision transformers and convolutional network for multimodal glioma segmentation in brain MRI. ''Sci Rep''. 2024 Feb 14; '''14''' (1):3713
Fully automated deep learning based auto-contouring of liver segments and spleen on contrast-enhanced CT images.
Description: Gupta, Aashish C, et al. Fully automated deep learning based auto-contouring of liver segments and spleen on contrast-enhanced CT images. ''Sci Rep''. 2024 Feb 26; '''14''' (1):4678
Urethra contouring on computed tomography urethrogram versus magnetic resonance imaging for stereotactic body radiotherapy in prostate cancer.
Description: Ong, Wee Loon, et al. Urethra contouring on computed tomography urethrogram versus magnetic resonance imaging for stereotactic body radiotherapy in prostate cancer. ''Clin Transl Radiat Oncol''. 2024 Mar; '''45''': 100722
Development and validation of a semi-automated and unsupervised method for femur segmentation from CT.
Description: Aldieri, Alessandra, et al. Development and validation of a semi-automated and unsupervised method for femur segmentation from CT. ''Sci Rep''. 2024 Mar 28; '''14''' (1):7403
A detailed spatio-temporal atlas of the white matter tracts for the fetal brain.
Description: Calixto, Camilo, et al. A detailed spatio-temporal atlas of the white matter tracts for the fetal brain. ''bioRxiv''. 2024 Apr 27;
Associations Between Radiation Oncologist Demographic Factors and Segmentation Similarity Benchmarks: Insights From a Crowd-Sourced Challenge Using Bayesian Estimation.
Description: Wahid, Kareem A, et al. Associations Between Radiation Oncologist Demographic Factors and Segmentation Similarity Benchmarks: Insights From a Crowd-Sourced Challenge Using Bayesian Estimation. ''JCO Clin Cancer Inform''. 2024 Jun; '''8''': e2300174
Accuracy of gross tumour volume delineation with [68Ga]-PSMA-PET compared to histopathology for high-risk prostate cancer.
Description: Zarei, Maryam, et al. Accuracy of gross tumour volume delineation with [68Ga]-PSMA-PET compared to histopathology for high-risk prostate cancer. ''Acta Oncol''. 2024 Jun 23; '''63''': 503-510
Histopathology-validated gross tumor volume delineations of intraprostatic lesions using PSMA-positron emission tomography/multiparametric magnetic resonance imaging.
Description: Grefve, Josefine, et al. Histopathology-validated gross tumor volume delineations of intraprostatic lesions using PSMA-positron emission tomography/multiparametric magnetic resonance imaging. ''Phys Imaging Radiat Oncol''. 2024 Jul; '''31''': 100633
Potential of E-Learning Interventions and Artificial Intelligence-Assisted Contouring Skills in Radiotherapy: The ELAISA Study.
Description: Rasmussen, Mathis Ersted, et al. Potential of E-Learning Interventions and Artificial Intelligence-Assisted Contouring Skills in Radiotherapy: The ELAISA Study. ''JCO Glob Oncol''. 2024 Aug; '''10''': e2400173
FAST (fast analytical simulator of tracer)-PET: an accurate and efficient PET analytical simulation tool.
Description: Li, Suya, et al. FAST (fast analytical simulator of tracer)-PET: an accurate and efficient PET analytical simulation tool. ''Phys Med Biol''. 2024 Aug 6; '''69''' (16):
Detailed delineation of the fetal brain in diffusion MRI via multi-task learning.
Description: Karimi, Davood, et al. Detailed delineation of the fetal brain in diffusion MRI via multi-task learning. ''ArXiv''. 2024 Sep 12;
Impact of motion management strategies on abdominal organ at risk delineation for magnetic resonance-guided radiotherapy.
Description: Daly, Mairead, et al. Impact of motion management strategies on abdominal organ at risk delineation for magnetic resonance-guided radiotherapy. ''Phys Imaging Radiat Oncol''. 2024 Oct; '''32''': 100650
Antibody selection and automated quantification of TRPV1 immunofluorescence on human skin.
Description: Jin, Yuying, et al. Antibody selection and automated quantification of TRPV1 immunofluorescence on human skin. ''Sci Rep''. 2024 Nov 18; '''14''' (1):28496
Development and external evaluation of a self-learning auto-segmentation model for Colorectal Cancer Liver Metastases Assessment (COALA).
Description: Bereska, Jacqueline I, et al. Development and external evaluation of a self-learning auto-segmentation model for Colorectal Cancer Liver Metastases Assessment (COALA). ''Insights Imaging''. 2024 Nov 22; '''15''' (1):279
Inter-observer variation in gross tumour volume delineation of oesophageal cancer on MR, CT and PET/CT.
Description: Secerov-Ermenc, Ajra, et al. Inter-observer variation in gross tumour volume delineation of oesophageal cancer on MR, CT and PET/CT. ''Radiol Oncol''. 2024 Dec 1; '''58''' (4):580-587
Artificial intelligence for instance segmentation of MRI: advancing efficiency and safety in laparoscopic myomectomy of broad ligament fibroids.
Description: Liu, Feiran, et al. Artificial intelligence for instance segmentation of MRI: advancing efficiency and safety in laparoscopic myomectomy of broad ligament fibroids. ''Front Oncol''. 2025; '''15''': 1549803
Benchmark of Deep Encoder-Decoder Architectures for Head and Neck Tumor Segmentation in Magnetic Resonance Images: Contribution to the HNTSMRG Challenge.
Description: Wodzinski, Marek. Benchmark of Deep Encoder-Decoder Architectures for Head and Neck Tumor Segmentation in Magnetic Resonance Images: Contribution to the HNTSMRG Challenge. ''Head Neck Tumor Segm MR Guid Appl (2024)''. 2025; '''15273''': 204-213
Cortico-hippocampal networks underpin verbal memory encoding in temporal lobe epilepsy.
Description: Fiore, Giorgio, et al. Cortico-hippocampal networks underpin verbal memory encoding in temporal lobe epilepsy. ''Brain Commun''. 2025; '''7''' (2):fcaf067
Deep Learning for Longitudinal Gross Tumor Volume Segmentation in MRI-Guided Adaptive Radiotherapy for Head and Neck Cancer.
Description: Tie, Xin, et al. Deep Learning for Longitudinal Gross Tumor Volume Segmentation in MRI-Guided Adaptive Radiotherapy for Head and Neck Cancer. ''Head Neck Tumor Segm MR Guid Appl (2024)''. 2025; '''15273''': 99-111
Ensemble Deep Learning Models for Automated Segmentation of Tumor and Lymph Node Volumes in Head and Neck Cancer Using Pre- and Mid-Treatment MRI: Application of Auto3DSeg and SegResNet.
Description: LaBella, Dominic. Ensemble Deep Learning Models for Automated Segmentation of Tumor and Lymph Node Volumes in Head and Neck Cancer Using Pre- and Mid-Treatment MRI: Application of Auto3DSeg and SegResNet. ''Head Neck Tumor Segm MR Guid Appl (2024)''. 2025; '''15273''': 259-273
Gradient Map-Assisted Head and Neck Tumor Segmentation: A Pre-RT to Mid-RT Approach in MRI-Guided Radiotherapy.
Description: Ren, Jintao, et al. Gradient Map-Assisted Head and Neck Tumor Segmentation: A Pre-RT to Mid-RT Approach in MRI-Guided Radiotherapy. ''Head Neck Tumor Segm MR Guid Appl (2024)''. 2025; '''15273''': 36-49
Head and Neck Tumor Segmentation Using Pre-RT MRI Scans and Cascaded DualUNet.
Description: Saukkoriipi, Mikko, et al. Head and Neck Tumor Segmentation Using Pre-RT MRI Scans and Cascaded DualUNet. ''Head Neck Tumor Segm MR Guid Appl (2024)''. 2025; '''15273''': 191-203
Interobserver variability in organ delineation on radiotherapy treatment planning for nasopharyngeal carcinoma: A dosimetric and prognostic analysis.
Description: Chen, Meining, et al. Interobserver variability in organ delineation on radiotherapy treatment planning for nasopharyngeal carcinoma: A dosimetric and prognostic analysis. ''Front Oncol''. 2025; '''15''': 1510568
UMamba Adjustment: Advancing GTV Segmentation for Head and Neck Cancer in MRI-Guided RT with UMamba and NnU-Net ResEnc Planner.
Description: Ren, Jintao, et al. UMamba Adjustment: Advancing GTV Segmentation for Head and Neck Cancer in MRI-Guided RT with UMamba and NnU-Net ResEnc Planner. ''Head Neck Tumor Segm MR Guid Appl (2024)''. 2025; '''15273''': 123-135
A detailed spatiotemporal atlas of the white matter tracts for the fetal brain.
Description: Calixto, Camilo, et al. A detailed spatiotemporal atlas of the white matter tracts for the fetal brain. ''Proc Natl Acad Sci U S A''. 2025 Jan 7; '''122''' (1):e2410341121
A Method for Sensitivity Analysis of Automatic Contouring Algorithms Across Different MRI Contrast Weightings Using SyntheticMR.
Description: McCullum, Lucas, et al. A Method for Sensitivity Analysis of Automatic Contouring Algorithms Across Different MRI Contrast Weightings Using SyntheticMR. ''medRxiv''. 2025 Jan 12;
TOM500: A Multi-Organ Annotated Orbital MRI Dataset for Thyroid Eye Disease.
Description: Zhang, Haiyang, et al. TOM500: A Multi-Organ Annotated Orbital MRI Dataset for Thyroid Eye Disease. ''Sci Data''. 2025 Jan 13; '''12''' (1):60
Regional Changes in the Fetal Telencephalic Wall Diffusion Metrics Across Late Second and Third Trimesters.
Description: Calixto, Camilo, et al. Regional Changes in the Fetal Telencephalic Wall Diffusion Metrics Across Late Second and Third Trimesters. ''Hum Brain Mapp''. 2025 Feb 15; '''46''' (3):e70159
Topology-preserving contourwise shape fusion.
Description: Melnikova, Aleksandra, et al. Topology-preserving contourwise shape fusion. ''Sci Rep''. 2025 Mar 28; '''15''' (1):10713
TRUSTED: The Paired 3D Transabdominal Ultrasound and CT Human Data for Kidney Segmentation and Registration Research.
Description: Ndzimbong, William, et al. TRUSTED: The Paired 3D Transabdominal Ultrasound and CT Human Data for Kidney Segmentation and Registration Research. ''Sci Data''. 2025 Apr 12; '''12''' (1):615
Inter-reader agreement of RECIST and mRECIST criteria for assessing response to transarterial chemoembolization in hepatocellular carcinoma.
Description: Mohammadzadeh, Saeed, et al. Inter-reader agreement of RECIST and mRECIST criteria for assessing response to transarterial chemoembolization in hepatocellular carcinoma. ''BMC Med Imaging''. 2025 May 3; '''25''' (1):148
Pancreas segmentation using AI developed on the largest CT dataset with multi-institutional validation and implications for early cancer detection.
Description: Mukherjee, Sovanlal, et al. Pancreas segmentation using AI developed on the largest CT dataset with multi-institutional validation and implications for early cancer detection. ''Sci Rep''. 2025 May 16; '''15''' (1):17096
Multicentre evaluation of deep learning CT autosegmentation of the head and neck region for radiotherapy.
Description: Pang, Eric Pei Ping, et al. Multicentre evaluation of deep learning CT autosegmentation of the head and neck region for radiotherapy. ''NPJ Digit Med''. 2025 May 27; '''8''' (1):312
MSLesSeg: baseline and benchmarking of a new Multiple Sclerosis Lesion Segmentation dataset.
Description: Guarnera, Francesco, et al. MSLesSeg: baseline and benchmarking of a new Multiple Sclerosis Lesion Segmentation dataset. ''Sci Data''. 2025 May 31; '''12''' (1):920
EMG-Informed Neuromusculoskeletal Simulations Increase the Accuracy of the Estimation of Knee Joint Contact Forces During Sub-optimal Level Walking.
Description: Princelle, Domitille, et al. EMG-Informed Neuromusculoskeletal Simulations Increase the Accuracy of the Estimation of Knee Joint Contact Forces During Sub-optimal Level Walking. ''Ann Biomed Eng''. 2025 Jun; '''53''' (6):1399-1408
Optic Cup and Disc Segmentation of Fundus Images Using Artificial Intelligence Externally Validated With Optical Coherence Tomography Measurements.
Description: Kinder, Scott, et al. Optic Cup and Disc Segmentation of Fundus Images Using Artificial Intelligence Externally Validated With Optical Coherence Tomography Measurements. ''Transl Vis Sci Technol''. 2025 Jun 2; '''14''' (6):30
Radiomics for Precision Diagnosis of FAI: How Close Are We to Clinical Translation? A Multi-Center Validation of a Single-Center Trained Model.
Description: Montin, Eros, et al. Radiomics for Precision Diagnosis of FAI: How Close Are We to Clinical Translation? A Multi-Center Validation of a Single-Center Trained Model. ''J Clin Med''. 2025 Jun 7; '''14''' (12):
A method for sensitivity analysis of automatic contouring algorithms across different contrast weightings using synthetic magnetic resonance imaging.
Description: McCullum, Lucas, et al. A method for sensitivity analysis of automatic contouring algorithms across different contrast weightings using synthetic magnetic resonance imaging. ''Phys Imaging Radiat Oncol''. 2025 Jul; '''35''': 100790
Towards fair decentralized benchmarking of healthcare AI algorithms with the Federated Tumor Segmentation (FeTS) challenge.
Description: Zenk, Maximilian, et al. Towards fair decentralized benchmarking of healthcare AI algorithms with the Federated Tumor Segmentation (FeTS) challenge. ''Nat Commun''. 2025 Jul 8; '''16''' (1):6274
Deep learning models for deriving optimised measures of fat and muscle mass from MRI.
Description: Thomas, Belvin, et al. Deep learning models for deriving optimised measures of fat and muscle mass from MRI. ''Sci Rep''. 2025 Jul 17; '''15''' (1):25960
Defining ground truth for prostate segmentation of transrectal ultrasound images: Inter- and intra-observer variability of manual versus semi-automatic methods.
Description: Lenfant, Louis, et al. Defining ground truth for prostate segmentation of transrectal ultrasound images: Inter- and intra-observer variability of manual versus semi-automatic methods. ''Med Phys''. 2025 Aug; '''52''' (8):e18025
Evaluation of therapeutic radiographer target volume contouring for magnetic resonance image guided online adaptive bladder radiotherapy.
Description: Williams, Bethany, et al. Evaluation of therapeutic radiographer target volume contouring for magnetic resonance image guided online adaptive bladder radiotherapy. ''Clin Transl Radiat Oncol''. 2025 Sep; '''54''': 100994