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1,087 results for “aneurysm”
Histopathological Evaluation of Abdominal Aortic Aneurysms with Deep Learning: The HistAAA Dataset
<p>This dataset accompanies our manuscript "Histopathological Evaluation of Abdominal Aortic Aneurysms with Deep Learning" (<a title="Histopathological evaluation of abdominal aortic aneurysms with deep learning" href="https://www.medrxiv.org/content/10.1101/2024.04.23.24306178v1">1</a>) and comprises feature vectors extracted from digital whole-slide images (WSI) of abdominal aortic aneurysm (AAA) wall samples from 369 patients treated at three European centers and corresponding expert pathologist annotations. This dataset is intended to be used for computational modelling tasks including automated prediction of pathology-related variables such as inflammation, degradation of elastic fibers, and fibrosis (<a title="Histopathological evaluation of abdominal aortic aneurysms with deep learning" href="https://www.medrxiv.org/content/10.1101/2024.04.23.24306178v1">1</a>). </p> <p>Code for preprocessing is available at <a href="https://github.com/KatherLab/STAMP">https://github.com/KatherLab/STAMP</a>. Code for modeling is available at <a href="https://github.com/KatherLab/marugoto">https://github.com/KatherLab/marugoto</a>. Code for spatial heatmaps and top-attention tiles is available at <a href="https://github.com/KatherLab/highres-WSI-heatmaps/tree/AAA_heatmaps">https://github.com/KatherLab/highres-WSI-heatmaps/tree/AAA_heatmaps</a>. </p> <h3>Patient Cohort</h3> <p>Data from a total of 369 patients (84.6% male, mean age 69.1 ± 8.0 years, average maximum diameter 62.9 ± 15.7 mm) undergoing open AAA repair at the Technical University Munich (TUM, n = 287), the University Hospital Würzburg (UHW, n = 36) and the Medical University Vienna (MUV, n = 46), between 2005 and 2019, are included in this dataset. </p> <p>To generate annotations, aneurysm samples from the left anterior wall were independently analyzed by three pathologists as described previously (<a title="Abdominal aortic aneurysms harbor different histomorphology not associated with classic risk factors &ndash; the HistAAA study" href="https://www.medrxiv.org/content/10.1101/2024.04.16.24305904v1">2</a>). In brief, the following histopathological parameters were evaluated: Grade of inflammation in tunica media [none, minor, intermediate, major], grade of inflammation in adventitia [none, minor, intermediate, major], type of inflammation in adventitia and tunica media [none, acute, chronic], Histological Inflammation Scale of Aneurysms (HISA) grade (<a title="Inflammation of the abdominal aortic aneurysm wall" href="https://www.sciencedirect.com/science/article/abs/pii/S0950821X05801185">3</a>) [0, 1, 2, 3, 4], angiogenesis in tunica media [present, not present], calcification in tunica media [present, not present], grade of fibrosis in adventitia [minor, intermediate, major], remaining elastic fibers in tunica media [< 25%, > 25%]. In case of disagreement, consensus was reached through discussion. Hematoxylin and Eosin (HE)- and Elastica van Gieson (EvG)-stained slides were digitized using an Aperio AT2 (Leica, Wetzlar, Germany) slide scanner. Patient sex and smoking history were gathered as binary clinical parameters. </p> <h3>Preprocessing and Feature Extraction</h3> <p>The STAMP protocol was utilized to process the WSIs (<a title="From Whole-slide Image to Biomarker Prediction: A Protocol for End-to-End Deep Learning in Computational Pathology" href="https://arxiv.org/abs/2312.10944">4</a>). In brief, WSI were preprocessed by tessellation into 224 x 224 pixel patches at a magnification of 256 µm per pixel, followed by computational background rejection, and color normalization of HE-stained slides. EvG-stained slides were not color-normalized as no color normalization protocols exist for this staining. Subsequently, features were extracted using CTranspath (<a title="Transformer-based unsupervised contrastive learning for histopathological image classification" href="https://www.sciencedirect.com/science/article/abs/pii/S1361841522002043">5</a>), a pre-trained histology image encoder. </p> <p> </p> <h3>References</h3> <p>1. Kolbinger, F. R. et al. Histopathological Evaluation of Abdominal Aortic Aneurysms with Deep Learning. medRxiv 2024.04.23.24306178 (2024) doi:10.1101/2024.04.23.24306178. </p> <p>2. Nackenhorst, M. C. et al. Abdominal aortic aneurysms harbor different histomorphology not associated with classic risk factors – the HistAAA study. medRxiv 2024.04.16.24305904 (2024) doi:10.1101/2024.04.16.24305904. </p> <p>3. Rijbroek, A., Moll, F. L., von Dijk, H. A., Meijer, R. & Jansen, J. W. Inflammation of the abdominal aortic aneurysm wall. Eur. J. Vasc. Surg. 8, 41–46 (1994).</p> <p>4. El Nahhas, O. S. M. et al. From Whole-slide Image to Biomarker Prediction: A Protocol for End-to-End Deep Learning in Computational Pathology. arXiv [cs.CV] (2023).</p> <p>5. Wang, X. et al. Transformer-based unsupervised contrastive learning for histopathological image classification. Med. Image Anal. 81, 102559 (2022).</p>
AAA-100: A Curated Dataset of 3D Watertight Abdominal Aortic Aneurysm Models
<p>An abdominal aortic aneurysm (AAA) is a local dilatation of the abdominal aorta exceeding 30 mm that might rupture, with fatal outcomes in 70-80% of cases. Personalized 3D models of AAAs, including surrounding vasculature such as iliac and renal arteries play an important role in tailored clinical decision-making for AAA patients. Models could be used for, e.g., AAA growth modeling, stentgraft sizing and positioning for endovascular aorta repair (EVAR) procedures, or 3D printing for surgical practice. Extracting high-quality 3D arterial models from imaging modalities such as computed tomography angiography (CTA) is a time-consuming and challenging problem. For downstream applications such as computational fluid dynamics (CFD) or shape analysis, models should have sub-voxel accuracy, be watertight, and adhere to topological constraints. We present the AAA-100 dataset, containing 100 detailed 3D AAA models with consistent anatomical boundaries acquired semi-automatically from pre-operative CTA scans. These models span a wide range of possible AAA pathology. Moreover, all models are carefully curated to be anatomically and topologically correct. </p> <p>A detailed description of the data set and file structure is provided in description.pdf.</p> <p>We kindly ask you to cite the following works when using the AAA-100 dataset in your research</p> <blockquote> <p>Alblas, D., Suk, J., Brune, C., Yeung, K. K., & Wolterink, J. M. (2025). SIRE: Scale-invariant, rotation-equivariant estimation of artery orientations using graph neural networks. <em>Medical Image Analysis</em>, 103467.</p> <p>Rygiel, P., Alblas, D., Brune, C., Yeung, K. K., & Wolterink, J. M. (2024). Global Control for Local SO (3)-Equivariant Scale-Invariant Vessel Segmentation. <em>arXiv preprint arXiv:2403.15314</em>.</p> </blockquote>
Figure 3: The microscopy images fo neuronal cells generated by SWCNT (a) and MWCNT (b)-COMPARATIVE STUDY OF SINGLE- AND MULTI-WALL CARBON NANOTUBES WITH APPLICATION IN CEREBRAL ANEURYSM
<p>Carbon nanotubes (CNTs) are nanometer-scale cylindrical graphitic struc-<br> tures that exhibit extraordinary physical properties as determined by their<br> structure [6]. Developing neural implants and the process of neuron regener-<br> ation are extremely di±cult. Nerve cells require the right environment and<br> the right growth factors at the right time to grow and proliferate. The elec-<br> trical conductive properties of these nanotubes o®er the possibility of using<br> it as a replacement to transmit and receive signals. The resulting 'hair like'<br> conductive wires that incorporate the properties of electrodes, permeable mi-<br> cro°uidic conduits and the porosity of the CNTs was found to promote cell<br> growth, migration and proliferation. The bridging consists either of an axon<br> or bundles of axons and dendrites. In some cases the bridge is covered with<br> clusters of cells [7]. These bridges form very e±ciently over quartz surfaces<br> which are apparently very poor surfaces for cell attachment. Fig. 2 shows the<br> evolution of a network generated by SWCNT and MWCNT. The data show<br> that cells ¯rst aggregate at the NT islands. As they complete this step axons<br> and dendrites begin to form and to build connections.<br> Also, has been observed for MWCNT higher connections than for SWCNT,<br> Figure 3.</p>
Figure 2: The microscopy images fo neuronal cells control (a) generated by MWCNT (b) and SWCNT (c)-COMPARATIVE STUDY OF SINGLE- AND MULTI-WALL CARBON NANOTUBES WITH APPLICATION IN CEREBRAL ANEURYSM
<p>Fig. 2 shows the evolution of a network generated by SWCNT and MWCNT. The data show<br> that cells ¯rst aggregate at the NT islands. As they complete this step axons and dendrites begin to form and to build connections.</p>
Figure 1: The structure of CNT-COMPARATIVE STUDY OF SINGLE- AND MULTI-WALL CARBON NANOTUBES WITH APPLICATION IN CEREBRAL ANEURYSM
<p>Carbon nanotubes (CNTs) are nanometer-scale cylindrical graphitic struc-<br> tures that exhibit extraordinary physical properties as determined by their<br> structure [6]. Developing neural implants and the process of neuron regener-<br> ation are extremely difcult. Nerve cells require the right environment and<br> the right growth factors at the right time to grow and proliferate. The elec-<br> trical conductive properties of these nanotubes o®er the possibility of using<br> it as a replacement to transmit and receive signals. The resulting 'hair like'<br> conductive wires that incorporate the properties of electrodes, permeable mi-<br> cro°uidic conduits and the porosity of the CNTs was found to promote cell<br> growth, migration and proliferation. The bridging consists either of an axon<br> or bundles of axons and dendrites. In some cases the bridge is covered with<br> clusters of cells [7]. These bridges form very e±ciently over quartz surfaces<br> which are apparently very poor surfaces for cell attachment.</p>
Imaging Data for "Ascending aortic aneurysm in angiotensin II- infused mice: formation, progression and the role of focal dissections"
<p>This dataset contains imaging files of the manuscript "Ascending aortic aneurysm in angiotensin II- infused mice: formation, progression and the role of focal dissections", published in ATVB in 2016. All .mcs files are to be opened in Mimics (Materialise, Leuven, Belgium). All files are named as follows: "technique_id_timepoint_asc.mcs". The technique can be either in vivo micro-CT, or ex-vivo synchrotron-based PCXTM. The mouse ID corresponds to the ID that was used during the experiments. Mice were distributed at random into 2 groups (G1 and G2) and sacrificed after 1 of 4 possible timepoints. TP0 corresponds to baseline (prior to Ang II infusion), TP1 corresponds to 3 days of Ang II infusion, TP2 corresponds to 10 days of Ang II infusion, TP3 corresponds to 18 days of Ang II infusion and TP4 corresponds to 28 days of Ang II infusion. Image files from PCXTM are ex vivo and always correspond to the latest timepoint available with micro-CT. Histology data are in the .zip file and have .vsi extension that can be opened with the software OlyVIA or with the BIOP extension "vsi-reader" to the open source software package fiji.</p>
Imaging dataset for "Angiotensin II infusion into ApoE-/- mice: a model for aortic dissection rather than abdominal aortic aneurysm?"
<p>This dataset contains imaging files of the manuscript "Angiotensin II infusion into ApoE-/- mice: a model for aortic dissection rather than abdominal aortic aneurysm?", published in Cardiovascular Research in 2017. All published files are to be opened in Mimics (Materialise, Leuven, Belgium). All files are named as follows: "technique_id_timepoint_abd.mcs". The technique can be either in vivo micro-CT, or ex-vivo synchrotron-based PCXTM. The mouse ID corresponds to the ID that was used during the experiments. Mice were distributed at random into 2 groups (G1 and G2) and sacrificed after 1 of 4 possible timepoints. TP0 corresponds to baseline (prior to Ang II infusion), TP1 corresponds to 3 days of Ang II infusion, TP2 corresponds to 10 days of Ang II infusion, TP3 corresponds to 18 days of Ang II infusion and TP4 corresponds to 28 days of Ang II infusion. Image files from PCXTM are ex vivo and always correspond to the latest timepoint available with micro-CT of that animal. Histology data are zipped and stored in .vsi format. They can be opened with the Olympus software package OlyVIA or with the BIOP-plugin "vsi-reader" to the open source software package fiji.</p>
Ultrasound Vevo 2100 data on ascending and abdominal aneurysms in ApoE-deficient mice - baseline and early stage
<p>This dataset contains raw data of ultrasound measurements taken of the ascending and abdominal aorta of Ang II-infused mice. Data were taken at baseline (prior to pump implantation) and at an early stage of disease development. Data can be openend with the Vevo 2100 analysis software provided by Fujifilm.</p> <p> </p> <p> </p>
Search strategies for screening for abdominal aortic aneurysm (AAA) in men: a health technology assessment
<p>The dataset includes the complete, reproducible search strategies for all literature databases searched during this project. The search strategies address the following research question: </p><p>What is the clinical effectiveness and safety of population-based ultrasound screening for AAA in men compared with no systematic screening?</p>
Extravascular administration of IGF1R antagonists protects against aortic aneurysm in rodent and porcine models
<p>Aortic aneurysm is a life-threatening cardiovascular disease with high mortality. Herein, we first identified that plasma IGF1 was an independent risk factor in patients with abdominal aortic aneurysm. The IGF1 receptor was also activated in aneurysmal aortas from humans and mice, and SMC- or fibroblast-specific knockout of IGF1R attenuated AAA formation in mouse models, indicating the potential of IGF1R as a therapeutic target. Systemic administration of IGF1C peptide exerted an evident inhibitory effect on AAA formation and progression via competitive inhibition of IGF1 binding to its receptor and modulation of downstream AKT/mTOR signaling. However, global inhibition of IGF1R signaling induces side effects, including abnormal glucose metabolism, muscular disorder, and pain hypersensitivity observed after systemic administration of IGF1C or the commercialized IGF1R antagonists. Accordingly, local administration of IGF1C was realized via ultrasound-guided percutaneous injection of an IGF1C-loaded hydrogel, and the therapeutic efficacy was confirmed in a pig AAA model, demonstrating its translational potential for AAA therapy.</p>
Raw Data for the article: Patient-Specific Analysis of Ascending Thoracic Aortic Aneurysm with the Living Heart Human Model
<p>In ascending thoracic aortic aneurysms (ATAAs), aneurysm kinematics are driven by ventricular traction occurring every heartbeat, increasing the stress level of dilated aortic wall. Aortic elongation due to heart motion and aortic length are emerging as potential indicators of adverse events in ATAAs; however, simulation of ATAA that takes into account the cardiac mechanics is technically challenging. The objective of this study was to adapt the realistic Living Heart Human Model (LHHM) to the anatomy and physiology of a patient with ATAA to assess the role of cardiac motion on aortic wall stress distribution. Patient-specific segmentation and material parameter estimation were done using preoperative computed tomography angiography (CTA) and ex vivo biaxial testing of the harvested tissue collected during surgery. The lumped-parameter model of systemic circulation implemented in the LHHM was refined using clinical and echocardiographic data. The results showed that the longitudinal stress was highest in the major curvature of the aneurysm, with specific aortic quadrants having stress levels change from tensile to compressive in a transmural direction. This study revealed the key role of heart motion that stretches the aortic root and increases ATAA wall tension. The ATAA LHHM is a realistic cardiovascular platform where patient-specific information can be easily integrated to assess the aneurysm biomechanics and potentially support the clinical management of patients with ATAAs.</p>
Sex-related differences in symptom presentation of patients with aneurysmal subarachnoid hemorrhage
<p>Retrospective study regarding sex-related differences in symptom presentation of patients with aneurysmal subarachnoid hemorrhage.</p>
Dataset for "Dissecting abdominal aortic aneurysm in Ang II-infused mice: suprarenal branch ruptures and apparent luminal dilatation"
<p>This dataset contains histology, synchrotron and ultrasound data for the manuscript "Dissecting abdominal aortic aneurysm<br> in Ang II-infused mice: suprarenal branch ruptures and apparent luminal dilatation", published in Cardiovascular Research in 2014.</p> <p>Histology data are zipped and to be opened using the Olympus-software OlyVIA, or with the BIOP-tool called VSI-reader, which is a plugin to the open-source software Fiji. Imaging data are saved in .mcs format and can be opened with the commercial software Mimics (Materialise, Leuven, Belgium). Filenames correspond to the mouse ID as it was used in the study.</p>
Safety and Effectiveness of an Intracranial Aneurysm Embolization System for Treating Large or Giant Wide Neck Aneurysms
ClinicalTrials.gov study NCT01716117. IPD Sharing: NO. Countries: 2. Publications: 5.
Preferences for Open Vs. Endovascular Repair for Abdominal Aortic Aneurysm
ClinicalTrials.gov study NCT03115346. IPD Sharing: NO. Countries: 1. Publications: 33.
Gabapentin for Headache in Aneurysmal Subarachnoid Hemorrhage
ClinicalTrials.gov study NCT02330094. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Thoracic Endoprosthesis for Treatment of Aneurysm of the Descending Thoracic Aortic
ClinicalTrials.gov study NCT00874250. IPD Sharing: NO. Countries: 1. Publications: 2.
Evaluating Neuroprotection in Aneurysm Coiling Therapy
ClinicalTrials.gov study NCT00728182. IPD Sharing: Not stated. Countries: 2. Publications: 2.
Pivotal Study of the FRED Stent System in the Treatment of Intracranial Aneurysms
ClinicalTrials.gov study NCT01801007. IPD Sharing: Not stated. Countries: 2. Publications: 1.
HORIZON CE Pivotal Study to Treat Abdominal Aortic Aneurysm
ClinicalTrials.gov study NCT02087501. IPD Sharing: Not stated. Countries: 4. Publications: 1.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.