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5,531 results for “ultrasound”
Dataset related to the article "LITHOTRIPSY OF CALCIFIED AORTIC VALVE LEAFLETS BY A NOVEL ULTRASOUND TRANSCATHETER-BASED DEVICE"
<p>This record contains raw data related to the article “LITHOTRIPSY OF CALCIFIED AORTIC VALVE LEAFLETS BY A NOVEL ULTRASOUND TRANSCATHETER-BASED DEVICE”</p> <p>The increasing incidence of calcific aortic valve disease necessitates the elaboration of new strategies to retard the progression of the pathology with an innovative solution. While the increasing diffusion of the transcatheter aortic valve replacements (TAVRs) allows a mini-invasive approach to aortic valve substitution as an alternative to conventional surgical replacement (SAVR) in an always larger patient population, TAVR implantation still has contraindications for young patients. In addition, it is liable to undergo calcification with the consequent necessity of re-intervention with conventional valve surgery or repeated implantation in the so-called TAVR-in-TAVR procedure. Inspired by applications for non-cardiac pathologies or for vascular decalcification before stenting (i.e., coronary lithotripsy), in the present study, we show the feasibility of human valve treatment with a mini-invasive device tailored to deliver shockwaves to the calcific leaflets. We provide evidence of efficient calcium deposit ruptures in human calcified leaflets treated <em>ex vivo</em> and the safety of the treatment in pigs. The use of this device could be helpful to perform shockwaves valvuloplasty as an option to retard TAVR/SAVR, or as a pretreatment to facilitate prosthesis implantation and minimize the occurrence of paravalvular leak.</p>
Ultrasound-driven degradation data for GenX, PFOA and PFOS at different ultrasonic frequencies and power densities
<p>The spreadsheet contains the individual and mixture degradation data for three different PFAS type representatives: PFOA, PFOS, and GenX.</p> <p>All PFAS stock solutions were prepared in ultrapure water.</p> <p>The data was generated by sampling from 500 mL batches of PFAS stock solutions irradiated with ultrasound at predetermined time intervals.</p> <p>The document contains separate tabs for the individual degradation of the 3 PFAS, as well as the mixture degradation data.</p> <p>In addition to PFAS concentrations, fluoride concentrations measured with an ion-selective electrode are shared.</p>
Ultrasound Stochastic Tomography simulation data for In-silico 2D Breast Phantom model with tumour
<p>An anatomically realistic numerical breast phantom model (with realistic acoustic properties of speed of sound, density, and attenuation coefficient of tissues) derived from [1] is presented with details of a ultrasound tomography experiment in simulation. Details of source wavelets, geometry of transducer set, observed data at each transducer for each shots are provided with phantom model.</p> <p>References</p> <p>[1] <a href="https://anastasio.bioengineering.illinois.edu/downloadable-content/oa-breast-database/">https://anastasio.bioengineering.illinois.edu/downloadable-content/oa-breast-database/</a></p>
Echo from noise: synthetically generated cardiac ultrasound data using semantic diffusion models
<p>This is the data repository for the paper: "Echo from noise: synthetic ultrasound image generation using diffusion models for real image segmentation", available at: https://arxiv.org/abs/2305.05424. The corresponding code is available at: https://github.com/david-stojanovski/echo_from_noise</p> <p> </p> <p>This is the first work to utilize Denoising Diffusion Probabilistic Models (DDPMs) for generating medical images using semantic label maps as a source image for conditioning the generated image.</p> <p>Each of the 400+50 CAMUS patients contributes with 4 labelled frames (ED and ES for 2 chamber and 4 chamber), totalling 1800 initial semantic maps, to which we added the sector label. These semantic maps then had five random deformations applied (a combination of random affine and elastic deformation) to produce, 9000 transformed semantic maps (8000 for training and 1000 for validation). </p> <p>Affine transformation ranges for rotation degrees, translate, scale and shear were: (-5, 5), (0, 0.05), (0.8, 1.05) and 5 respectively. This was implemented using the torchvision python package. Elastic deformation was implemented using the TorchIO package. The settings for number of control points and max displacement were (10, 10, 4) and (0, 30, 30) respectively.</p> <p>Using these 9000 semantic maps as input to the generative models, we produced 9000 synthetic ultrasound images.</p> <p>Each echo view folder contains 3 folders:</p> <p>1) annotations: augmented labels, with no sector label and no clipping due to sector</p> <p>2) images: semantic diffusion model inferenced images</p> <p>3) sector_annotations: label maps which contain ultrasound cone sector, which were used to generate corresponding semantic diffusion model images</p> <p>ema_0.9999_050000_2ch_ed_256.pt and ema_0.9999_050000_4ch_ed_256.pt are the saved checkpoints for the 2 and 4 chamber diffusion models respectively.</p> <p>The pretrained segmentation networks are provided within the <a href="https://zenodo.org/api/files/0af4e6a3-234d-40a3-8351-c91261628982/final_models.zip">final_models.zip</a> file.</p> <p>A diagram of image numbers is shown in <a href="https://zenodo.org/api/files/0af4e6a3-234d-40a3-8351-c91261628982/Data%20diagram.png">Data diagram.png</a></p>
MR to Ultrasound Registration for Prostate Challenge - Dataset
<p>Multimodal image registration between pre-operative and intra-operative imaging enables the fusion of clinically important information during many surgical and interventional tasks. The registration of magnetic resonance imaging (MRI) and transrectal ultrasound (TRUS) images assists prostate biopsy and focal therapy, arguably having transformed prostate cancer patient care to a less invasive and more localized diagnostic, monitoring and treatment pathway. Though, even with great progress having been made by the community in the past two decades, challenges remain in this application. First, paired MRI and TRUS data from a sizable patient cohort are not routinely stored in clinical practice, and publicly-accessible data is scarce and low-quality. Second, annotating anatomical and pathological landmarks on both images - critical in representing corresponding locations for validation - requires expert domain knowledge and experience from multiple disciplines including urology, radiology and pathology.</p> <p>In addition to its prevalence-warranted clinical importance, this is also a unique application that saw a wide range of registration algorithms proposed and housed intriguing debates such as rigid-versus-nonrigid and FLE-versus-TRE. Both feature- and intensity-based classical methods and unsupervised or segmentation-driven learning methods have been innovated with some most technically interesting approaches in the field such as biomechanical regularisation and statistical motion modelling.</p> <p>The mu-Reg challenge aims to provide well-curated, yet real-world clinical data, with more than a hundred paired MR and TRUS images, annotated carefully by researchers and clinicians with more than 15 years of experience working with this application. The outcome of the challenge includes one of the first multimodal imaging data, facilitated with expert annotations for validation, for benchmarking advancement in registration methodology, as well as for future research in managing the most common non-skin cancer in men.</p> <p>---</p> <p><strong>The training and validation data may be used within the research remit of this challenge and in further research-related publications. The training and validation data are not to be used commercially. However, if the desired use is unclear, the organizers ask that those accessing the data refrain from further use or distribution outside of this challenge.</strong></p> <p>---</p> <p>Challenge information is accessible at: https://muregpro.github.io/</p>
Development of a national point-of-care ultrasound training course for physicians in Japan: A 3-year evaluation
<p><strong>Purpose</strong>: Point-of-care ultrasound (POCUS) allows bedside clinicians to acquire, interpret, and integrate ultrasound images into patient care. Although the availability of POCUS training courses has increased, the educational effectiveness of these courses is unclear.</p> <p><strong>Methods</strong>: From 2017 to 2019, we investigated the educational effectiveness of a standardized 2-day hands-on POCUS training course and changes in pre- and post-course exam scores in relationship to participants’ (n = 571) clinical rank, years of POCUS experience, and frequency of POCUS use in clinical practice.</p> <p><strong>Results</strong>: The mean pre- and post-course examination scores were 67.2 (standard deviation [SD] 12.3) and 79.7 (SD 9.7), respectively. Higher pre-course examination scores were associated with higher clinical rank, more years of POCUS experience, and more frequent POCUS use (p < 0.05). All participants showed significant changes in pre- to post-course exam scores. Though pre-course scores differed by clinical rank, POCUS experience, and frequency of POCUS use, differences in post-course scores according to participant baseline differences were non-significant.</p> <p><strong>Conclusion</strong>: A standardized hands-on POCUS training course is effective for improving POCUS knowledge regardless of baseline differences in clinical rank, POCUS experience, or frequency of POCUS use. Future studies shall evaluate changes in POCUS use in clinical practice after POCUS training.</p>
Three-Dimensional Ultrasound Matrix Imaging
<p><strong>Ultrasound data associated to the paper "Three-Dimensional Ultrasound Matrix Imaging",<em> Nature Communications</em>, 2023. </strong></p> <p>--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</p> <p><strong>Abstract :</strong> "Matrix imaging paves the way towards a next revolution in wave imaging.<br>Based on the response matrix recorded between a set of sensors, it enables<br>an optimized compensation of aberration phenomena and multiple scattering<br>events that usually drastically hinder the focusing process in heterogeneous<br>media. Although it gave rise to spectacular results in optical microscopy or<br>seismic imaging, the success of matrix imaging has been so far relatively lim-<br>ited with ultrasonic waves because wave control is generally only performed<br>with a linear array of transducers. In this paper, we extend ultrasound ma-<br>trix imaging to a 3D geometry. Switching from a 1D to a 2D probe enables<br>a much sharper estimation of the transmission matrix that links each trans-<br>ducer and each medium voxel. Here, we first present an experimental proof<br>of concept on a tissue-mimicking phantom through ex-vivo tissues and then,<br>show the potential of 3D matrix imaging for transcranial applications."</p> <p>--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</p> <p>Data corresponding to the <strong>pork tissue experiment</strong>: <br>- Raw data: "1_PorkChop_on_Phantom.mat" [Fig. 1, 2, 3 and Supplementary Fig. S3, S4, S5]<br>- Focused reflection matrix (after beamforming): "1bis_PorkChop_on_Phantom_Focused_reflection_Matrix_Rdrr.mat" </p> <p>Raw data corresponding to the<strong> head phantom experiment</strong>: <br>- "2_HeadPhantom_position1.mat" [Fig. 4 & 5, S6, S7]<br>- "2_HeadPhantom_position2.mat" [Fig. 6]</p> <p>Raw data corresponding to the tissue mimicking phantom without aberrations: <br>- "4_Phantom_withtout_aberrations.mat" [supplementary Fig. S8]</p> <p>In each case : <br>- <strong>"rfr"</strong> contains the raw ultrasound data;<br>- <strong>"p"</strong> is a structure that contains all the parameters used during acquisition.<br> </p>
Evaluation of ultrasound sensors for transcranial photoacoustic sensing and imaging - Data
<p>Raw data and simulation code for the paper "Evaluation of ultrasound sensors for transcranial photoacoustic sensing and imaging"</p>
BUS-BRA: A Breast Ultrasound Dataset for Assessing Computer-aided Diagnosis Systems
<p>The BUS-BRA Dataset is a publicly available dataset of anonymized breast ultrasound (BUS) images of 1,064 patients that underwent routinary breast studies. The BUS dataset contains biopsy-proven tumor cases and BI-RADS annotations in categories 2, 3, 4, and 5. In addition, the dataset also contains ground truth delineations that divide the BUS images into tumoral and normal regions. A full description of the BUS-BRA dataset can be found in the following article:</p> <p>Wilfrido Gómez-Flores, Maria Julia Gregorio-Calas, and Wagner Coelho de Albuquerque Pereira, "BUS-BRA: A Breast Ultrasound Dataset for Assessing Computer-aided Diagnosis Systems," Medical Physics, vol. 51, pp. 3110-3123, 2024, DOI: 10.1002/mp.16812.</p> <p>Any research originating from its usage is required to cite this paper.</p> <p>The Program of Biomedical Engineering of the Federal University of Rio de Janeiro (PEB/COPPE-UFRJ, Brazil) has a copyright on the data and is the principal distributor of the BUS-BRA Dataset. In addition, the Centro de Investigación y de Estudios Avanzados (Cinvestav, Mexico) is involved in an ongoing effort to develop this dataset to aid research efforts in developing, testing, and evaluating algorithms for breast ultrasound analysis.</p>
Metabolomic Profile of Cerebral Tissue After Blood-Brain Barrier Opening using Microbubble-Assisted Ultrasound: A Focus on Contralateral Side.
<p>Microbubble (MB)-assisted ultrasound (US) is an innovative modality for the non-invasive, targeted and efficient delivery of the therapeutic molecules into the brain. Previously, we reported the first metabolomic signature of blood-brain barrier opening (BBBO) induced by MB-assisted US. In the present study, the neurometabolic consequences of acoustically mediated BBBO on cerebral tissue using multimodal metabolomics approaches. Sinusoid US waves (1 MHz, peak negative pressure 0.6 MPa, burst length 10 ms, total treatment time 30 s, MB bolus dose 0.7 10<sup>5</sup> MBs/g) were applied on the right striatum (ipsilateral side). Brain was collected and both striata were then dissected 3 h, 2 days and 1 week after BBBO. After tissue preparation, the samples were analyzed using nuclear magnetic resonance spectrometry (NMRS) and high-performance liquid chromatography coupled to mass spectrometry (HPLC-MS). Our findings showed a slight disruption of metabolic pathways in contralateral striata of animals. Analyses of metabolic pathways indicated change of amino acid metabolisms. In addition, tryptophan derivate dosages revealed the perturbation of a central metabolite of the kynurenin pathway (<em>i.e.</em>, 3-hydroxykynurenin). In conclusion, the acoustically mediated BBBO of the ipsilateral cerebral hemisphere induced significant change in metabolism of contralateral one.</p>
Endoscopic Ultrasound-guided Ethanol Injection of Pancreatic Cystic Neoplasms
ClinicalTrials.gov study NCT02158039. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Study of Power Doppler Ultrasound (PDUS) to Measure Response of Secukinumab Treatment in Patients With Active Psoriatic Arthritis (PsA)
ClinicalTrials.gov study NCT02662985. IPD Sharing: UNDECIDED. Countries: 17. Publications: 1.
Effects of Tamoxifen on the Reproductive System of Females with Breast Cancer – an Ultrasound-based Cohort study
<p>This data represent an ultrasound-based cohort study conducted in three oncology centers. The studied groups included a total of ‎‎255 patients, 140 premenopausal (PreM) and 115 postmenopausal (PostM) female patients with ER-positive BC using TMX adjuvant hormonal treatment in ‎a dose of 20 mg/day for at least three months after surgery and adjuvant ‎chemo/radiotherapy.‎ The study conducted at the three main oncology centers in Baghdad. The collected data includes: age of the patient, menopausal status, co-morbid chronic illness such as hypertension, diabetes mellitus, etc, and used medications.an ultrasound-based cohort study conducted in three oncology centers. The studied groups included a total of ‎‎255 patients, 140 premenopausal (PreM) and 115 postmenopausal (PostM) female patients with ER-positive BC using TMX adjuvant hormonal treatment in ‎a dose of 20 mg/day for at least three months after surgery and adjuvant ‎chemo/radiotherapy.‎ The study conducted at the three main oncology centers in Baghdad. The collected data includes: age of the patient, menopausal status, co-morbid chronic illness such as hypertension, diabetes mellitus, etc, and used medications.</p>
FETAL_PLANES_DB: Common maternal-fetal ultrasound images
<p>A large dataset of routinely acquired maternal-fetal screening ultrasound images collected from two different hospitals by several operators and ultrasound machines. All images were manually labeled by an expert maternal fetal clinician. Images are divided into 6 classes: four of the most widely used fetal anatomical planes (Abdomen, Brain, Femur and Thorax), the mother’s cervix (widely used for prematurity screening) and a general category to include any other less common image plane. Fetal brain images are further categorized into the 3 most common fetal brain planes (Trans-thalamic, Trans-cerebellum, Trans-ventricular) to judge fine grain categorization performance. Meta information (patient number, us machine, operator) is also provided, as well as the training-test split used in the Nature Sci Rep paper.</p>
An ultrasound probe array for a high-pressure, high-temperature solid medium deformation apparatus: CAD drawings
<p>CAD drawings of cooled load plate and base plate for integrating pizoelectric needle sensors. Electrical schema of heating system. Dimensional pdf drawings of sigma 1 piston for integration of pizoelectric needle sensors. Matalb code for basic 1D source localization, synchronization of triggered AE data with mechanical data and plotting of AE rate.</p>
Sonography display demonstrating intra-operative ultrasound imaging guidance for the localization of the foreign body (dental implant) in the soft tissues of the floor of the mouth via navigation with a spinal needle.
<p>This video demonstrates the intraoperative navigation system with using sonography to localize foreign bodies in the soft tissues of the floor of the mouth with the help of a spinal needle</p>
Spatial variation and inconsistency between estimates of onset of muscle activation from EMG and ultrasound
<p>Study abstract: Delayed onset of muscle activation is a descriptor of impaired motor control. Activation<br> onset can be estimated from electromyography (EMG)-registered muscle excitation and<br> from ultrasound-registered muscle motion, which enables non-invasive measurements in<br> deep muscles. However, in voluntary activation, EMG- and ultrasound-detected activation<br> onsets may not correspond. To evaluate this, ten healthy men performed isometric elbow<br> flexion at 20% to 70% of their maximal force. Utilising a multi-channel electrode<br> transparent to ultrasound, EMG and M(otion)-mode ultrasound were recorded<br> simultaneously over the biceps brachii muscle. The time intervals between automated and<br> visually estimated activation onsets were correlated with the regional variation of EMG<br> and muscle motion onset, contraction level and speed. Automated and visual onsets<br> indicated variable time intervals between EMG- and motion onset, median (interquartile<br> range) 96 (121) ms and 48 (72) ms, respectively. In 17% of trials (computed analysis) or<br> 23% (visual analysis), motion onset was detected before local EMG onset. Multi-channel<br> EMG and M-mode ultrasound revealed regional differences in activation onset, which<br> decreased with higher contraction speed (Spearman ρ≥0.45, P<0.001). In voluntary<br> activation the heterogeneous motor unit recruitment together with immediate motion<br> transmission may explain the high variation of the time intervals between local EMG- and<br> ultrasound-detected activation onset.</p> <p>Data description:</p> <p><strong>EMG data:</strong> folder includes the EMG, torque and synchronization signal data as .otb files. The respective program can be downloaded without costs from http://www.otbioelettronica.it/index.php?lang=en. Data consist of two series (Misome2 and Misome3) of isometric trials at different force levels. The first three digits refer to the subject number.</p> <p><strong>M-mode ultrasound data</strong>: folder includes the M-mode clips of all recorded trials in .tvd format. The respective program can be downloaded for free at http://www.telemedultrasound.com/download/software-downloads/?lang=en. In addition, images of activation onset in DICOM format are provided. The data are sorted for subjects and series (Misome2 and Misome3). The following explanation refers to the filenames of the DICOM images. Usually, the M-mode trace started at the left side synchronously with the synch signal. In this case the rightmost frame of the trace is missing to indicate that the left edge represents the start of the trace. If the file name includes “ons50”, the frame includes the 50. frame = the rightmost frame, still starting with the synch signal. If the filename includes on100, the rightmost frame is the 100. frame and the duration of 50 frames must be added to the visible onset time. Filenames that include “basel” refer to frames that represent a proper delineation of the baseline.</p> <p><strong>Excel data sheet</strong>: Data sheet that includes the computed and visual EMG, M-mode ultrasound and torque onsets, the rate of torque development and the differences between the different types of onsets. The column headers explain the data type, most comprehensively in the first computed data sheet. The colors facilitate the orientation with blue columns referring to torque onsets and green columns referring to ultrasound onsets. The violet EMG channels are those in vicinity to the ultrasound beam. In the second version of each sheet the 5% slowest trials are separated.</p>
Plane wave ultrasound and OCT angiography of the eye in preeclampsia
<p>This study involves examination of ocular blood flow in human subjects in preeclampsia (PE). Both eyes were examined by plane-wave ultrasound and by optical coherence angiography (OCTA) within 72 hours of delivery. Ultrasound Doppler was used to assess flow velocity and resistance in the central retinal artery and vein, the short posterior ciliary arteries and the choroid. OCTA was used to assess vascular density in the superficial and deep retina and the choriocapillaris. Analysis included correlation with blood pressure, assessment of differences between normal and PE and correlation of ultrasound Doppler with OCTA vascular density.</p>
Four-dimensional computational ultrasound imaging of brain hemodynamics
<p><span>Four-dimensional ultrasound imaging of complex biological systems such as the brain is technically challenging because of the spatiotemporal sampling requirements. We present computational ultrasound imaging (cUSi), an imaging method that uses complex ultrasound fields that can be generated with simple hardware and a physical wave prediction model to alleviate the sampling constraints. cUSi allows for high-resolution four-dimensional imaging of brain haemodynamics in awake and anesthetized mice.</span></p>
Ultrasound-Guided Trans-Uterine Cavity Core Needle Biopsy of Uterine Myometrial Tumors - Diagnostics 2022, 12(6), 1348
<p>Ultrasound-guided trans-uterine cavity core needle biopsy of myometrial tumors to differentiate sarcoma from a benign lesion. </p> <p>This is a supplementary Video to the article published in <em>Diagnostics</em> <strong>2022</strong>, <em>12</em>(6), 1348.</p> <p><a href="https://doi.org/10.3390/diagnostics12061348">https://doi.org/10.3390/diagnostics12061348</a></p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
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.