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194 results for “laser ablation”
Hyperspectral Imaging Dataset for Laser Thermal Ablation Monitoring in Vital Organs
<p><strong>Objectives:</strong> The objective of the research was to use hyperspectral imaging (HSI) to detect thermal damage induced in vital organs (such as the liver, pancreas, and stomach) during laser thermal therapy. The experimental study was conducted during thermal ablation procedures on live pigs.</p> <p><strong>Ethical Approval:</strong> The experiments were performed at the Institute for Image Guided Surgery in Strasbourg, France. This experimental study was approved by the local Ethical Committee on Animal Experimentation (ICOMETH No. 38.2015.01.069) and by the French Ministry of Higher Education and Research (protocol №APAFiS-19543-2019030112087889, approved on March 14, 2019). All animals were treated in accordance with the ARRIVE guidelines, the French legislation on the use and care of animals, and the guidelines of the Council of the European Union (2010/63/EU).</p> <p><strong>Description:</strong> During our experimental study, we used a TIVITA hyperspectral camera to acquire hypercubes of size 640x480x100 voxels, indicating 640x480 pixels for 100 bands, and regular RGB images at each acquisition step. These bands were acquired directly from the hyperspectral camera without additional pre-processing. The hypercube was acquired in approximately 6 seconds and synchronized with the absence of breathing motion using a protocol implemented for animal anesthesia. Polyurethane markers were placed around the target area to serve as references for superimposing the hyperspectral images, which were acquired using target areas selected according to the hyperspectral camera manufacturer's guidelines.</p> <p>As part of our investigation, we included hyperspectral cubes from 20 experiments conducted under identical conditions in our study. The hyperspectral cubes were collected in three distinct stages. In the first stage, the cubes were gathered before laparotomy at a temperature of 37°C. In the second stage, we obtained the cubes as the temperature gradually increased from 60°C to 110°C at 10°C intervals. Finally, in the last stage, the cubes were collected after turning off the laser during the post-ablation phase. Thus, we obtained a total of 233 hyperspectral cubes, each consisting of 100 wavelengths, resulting in a dataset of 23,300 two-dimensional images. The temperature changes were recorded, and the “<em>Temperature profile during laser ablation</em>” image illustrates the corresponding profile, highlighting the specific time intervals during which the hyperspectral camera and laser were activated and deactivated. To provide a visual representation of the collected data, we have included several examples of images captured from different organs in the “<em>Examples of ablation areas</em>” figure.</p> <p>The raw dataset, comprising 233 hyperspectral cubes of 100 wavelengths each, was transformed into 699 single-channel images using PCA and t-SNE decompositions. These images were then divided into training and test subsets and prepared in the COCO object detection format. This COCO dataset can be used for training and testing different neural networks.</p> <p><strong>Access to the Study:</strong> Further information about this study, including curated source code, dataset details, and trained models, can be accessed through the following repositories:</p> <ul> <li><strong>Source code:</strong> <a href="https://github.com/ViacheslavDanilov/hsi_analysis" target="_blank" rel="noopener">https://github.com/ViacheslavDanilov/hsi_analysis</a></li> <li><strong>Dataset:</strong> <a href="https://doi.org/10.5281/zenodo.10444212" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.10444212</a></li> <li><strong>Models:</strong> <a href="https://doi.org/10.5281/zenodo.10444269" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.10444269</a></li> </ul>
A multi-method study of femtosecond laser modification and ablation of amorphous hydrogenated carbon coatings
<p>We report here the optical constants of ECR (MW) and RF generated a-C:H layers before and after laser irradiation. The work is described in the following publication:</p> <p><a title="A multi-method study of femtosecond laser modification and ablation of amorphous hydrogenated carbon coatings" href="https://doi.org/10.1007/s00339-024-07980-z" target="_blank" rel="noopener">https://doi.org/10.1007/s00339-024-07980-z</a></p> <p>The data uploaded are the optical constants (n and k) of the a-C:H layers before (base) and after (ROIx) laser irradiation. Please see the article for the nomenclature of the data and for the methods applied ot produce the layers, laser shots, and OK data.</p>
Raw and analyzed data for manuscript: "Wood surface ablation and nanostructuring using a femtosecond laser"
<p><strong>Abstract</strong></p> <p>The processing of Norway spruce and European beech wood specimens by means of femtosecond laser pulses was investigated on conditioned natural samples as well as on samples coated with beeswax or a water-borne stain. Depending on laser pulse energies and processing times, this allowed for different modes of surface modification. At low laser intensities, an etching almost without thermal impact was detected, whereas higher laser intensities led to the generation of hierarchical micro and nanostructures. The usage of argon or atmospheric air as cover gases during the laser processing had only minor effects on the surface structures. Observed differences in the etching or functionalization of the wooden surfaces mostly originated in the chemical structure of the surface finish and the physical properties of the wood substrates, such as the density or moisture content.</p>
Animation to visualize the effects of laser ablation on unhydrated cement clinker
<p>This animation illustrates the effect of the damage on the surface of unhydrated cement clinker caused by a pulsed laser for a LA-ICP-MS mapping. The dataset contains the raw data and the final animations.</p> <p>The images were acquired using a Thermofischer Scientific Helios G4 UX microscope at 2 kV/0.1 nA. The surface was tilted in two orientations by a few degree and an image was acquired after every tilt. The ablated area has a size of approx. 367 x 300 µm.</p> <p>A detailed description of the specimen and the parameters used for the analysis can be found in the <a href="https://doi.org/10.1016/j.cemconres.2022.106875">corresponding paper</a>.</p> <p><strong>Funding</strong></p> <p>The research was supported by the Deutsche Forschungsgemeinschaft (DFG), grant number <a href="https://gepris.dfg.de/gepris/projekt/344069666">344069666</a>.</p>
Laser Ablation Electrospray Ionization Mass Spectrometry Imaging (LAESI MSI) of Arabidopsis thaliana leaf
<p>Mass spectrometry imaging (MSI) data set in imzML format, obtained from the 5th leaf of an Arabidopsis thaliana wildtype plant using Laser Ablation Electrospray Ionization. Laser ablation took place with 20 pulses per pixel at an energy of 58.4 µJ/pulse. The ROI measures 9 mm by 5 mm and was sampled with a step size of 200 µm.</p>
Data and code for publication: A simple preparation protocol for shipping and storage of tissue sections for laser ablation-inductively coupled plasma-mass spectrometry imaging
<p>Data & Code release for publication:</p> <p>Rebecca Buchholz, Sebastian Krossa, Maria K Andersen, Michael Holtkamp, Michael Sperling, Uwe Karst, May-Britt Tessem, A simple preparation protocol for shipping and storage of tissue sections for laser ablation-inductively coupled plasma-mass spectrometry imaging, <em>Metallomics</em>, Volume 14, Issue 3, March 2022, mfac013, <a href="https://doi.org/10.1093/mtomcs/mfac013">https://doi.org/10.1093/mtomcs/mfac013</a></p> <p>Python code for LA ICP MS imaging data segmentation</p> <p>Code & Data also on <a href="https://github.com/sekro/la-icp-msi_segmentation">github</a></p> <p>Thresholding based segmentation of LA-ICP-MS imaging data</p> <p>Description</p> <p><a href="https://github.com/sekro/la-icp-msi_segmentation/blob/master/src/main.py">src/main.py</a> - run this to process LA ICP MS data in data folder - generates matplotlib.figures - project specific setup <a href="https://github.com/sekro/la-icp-msi_segmentation/blob/master/src/laicpms_data_handler.py">src/laicpms_data_handler.py</a> - contains object to import, handle and segment (shimadzu) raw data</p> <p>Dependencies</p> <p>Python 3.8.1 or newer</p> <p>For packages see <a href="https://github.com/sekro/la-icp-msi_segmentation/blob/master/requirements.txt">requirements.txt</a></p> <p>Data</p> <p>LA-ICP-MS imaging data of human prostate tissue of the elements Zn, Fe & P. Details on data generation & collection in <a href="https://doi.org/10.1093/mtomcs/mfac013">publication</a>. LA-ICP-MS imaging data as plain text files (comma-separated values)</p> <ul> <li>Condition 1 = fresh frozen (FF)</li> <li>Condition 2 = room temperature vacuum dried and sealed (RTV)</li> <li>Condition 3 = formalin fixed (FFix)</li> <li>Condition 4 = formalin fixed, paraffin sealed (FFPS)</li> </ul> <p>3 replicate sectioning sets named A, B, C</p> <p>File-naming: LA_Data_CISN1.csv, where I = [1, 2, 3, 4] is indicating the condition used and N = [A, B, C] is indicating the replicate set</p> <p>License</p> <p>Data</p> <p>CC-BY 4.0 - respective <a href="https://github.com/sekro/la-icp-msi_segmentation/blob/master/data/LICENSE">LICENSE</a> file in data folder</p> <p>Source code</p> <p>MIT - respective <a href="https://github.com/sekro/la-icp-msi_segmentation/blob/master/src/LICENSE">LICENSE</a> file in src folder</p>
Data for: "Simulation of uranium plasma plume dynamics in atmospheric oxygen produced via femtosecond laser ablation"
<p>Data generated by 2D reactive, compressible, multi-species fluid model of uranium femtosecond laser ablation in an atmospheric oxygen environment. The dataset consists of a series of plain text tabular data files recorded at several time points during the simulation run. The data files are numbered according to the simulation time in nanoseconds (FFF-0100.txt is the data at 100 ns) and are given at intervals of 50 ns for the first 500 ns of simulation time, and every 100 ns thereafter, up to the total simulation time of 10000 ns. The initial conditions are provided in the first data file (FFF-0000.txt). Each data file contains spatially-resolved values of the fluid moments along with the molar concentrations of each species considered in the model (total of 30 species), given in a column format delimited by spaces.</p> <p>For details on the model implementation and simulation conditions, please refer to the associated manuscript.</p>
Microscopy image sequences and annotated kymographs of laser ablation experiments in Drosophila embryos
<p><strong>Content</strong></p> <p>This dataset contains 15 2D time-lapse fluorescence microscopy image sequences recorded with confocal laser-scanning microscopy. Each movie shows an epithelial tissue laser nanoablation experiment conducted in a Drosophila embryo.</p> <p>For each sequence, the dataset contains kymographs (one-dimensional space-time plots) of a supracellular cable that is cut during the ablation, and manually created tracks of visible features, such as the resulting cut ends. These tracks allow to estimate, for instance, recoil velocities of the cut tissue and may be used to evaluate automated methods for estimating said velocities.</p> <p>This dataset is used in the manuscript to evaluate various variational approaches for joint motion estimation and source identification:</p> <p>L. F. Lang, N. Dutta, E. Scarpa, B. Sanson, C.-B. Schönlieb, and J. Étienne. Joint Motion Estimation and Source Identification using Convective Regularisation with an Application to the Analysis of Laser Nanoablations. 2019.</p> <p><strong>Description</strong></p> <p>The movies depict a square region of approximately <span class="math-tex">\(42.2 \times 42.2 \, \mathrm{\mu m}^{2}\)</span> at a spatial resolution of <span class="math-tex">\(250 \times 250\)</span> pixels. A typical sequence contains between 60 and 100 frames. They temporal interval between recorded frames was <span class="math-tex">\(727.67 \, \mathrm{ms}\)</span>.</p> <p>Each sequence features cell membranes labelled with E-cadherin:GFP and shows a single plasma-induced laser nanoablation. The destructed tissue region is roughly of <span class="math-tex">\(2 \, \mathrm{\mu m}\)</span> length. This ablation is expected to have a width of the order of the size of one pixel. During the ablation the acquisition is paused, resulting in a black image.</p> <p>For the used microscopy techniques and for the preparation of flies, as well as for the details of the laser ablation method, see the paper:</p> <p>E. Scarpa, C. Finet, G. B. Blanchard, and B. Sanson. Actomyosin-driven tension at compartmental boundaries orients cell division independently of cell geometry In Vivo. Dev. Cell, 47(6):727–740.e6, December 2018. URL: <a href="https://doi.org/10.1016/j.devcel.2018.10.029">https://doi.org/10.1016/j.devcel.2018.10.029</a></p> <p>The kymographs and the manually created annotations (tracks) of features were created using Fiji (<a href="https://fiji.sc/">https://fiji.sc/</a>).</p> <p><strong>Content</strong></p> <p>The dataset contains 15 sequences placed in the following folder structure:</p> <ul> <li>SqAX3_SqhGFP42_GAP43_TM6B <ul> <li>190216E4PSB1</li> <li>190216E5PSB1</li> <li>190216E5PSB2</li> <li>190216E6PSB1</li> <li>190216E8PSB1</li> <li>E2PSB1</li> <li>E5PSB2</li> <li>E8PSB1</li> <li>PSB1E1</li> <li>PSB4</li> </ul> </li> <li>SqhGFP40 <ul> <li>e1_PSB8</li> <li>e3_PSB9</li> <li>e3_PSB10</li> <li>e4_PSB11</li> <li>e4_PSB12</li> </ul> </li> </ul> <p>Each folder contains:</p> <ul> <li>The sequence itself in TIF format, e.g. "190216E4PSB1PMT - PMT [560-] _C1.ome.tif".</li> <li>A file "reslice.roi" that indicates the location/direction of the cut supracellular cable.</li> <li>3 different kymographs for each sequence obtained by taking avg/max/sum projections in Fiji orthogonal to the line specified in "reslice.roi", e.g. <ul> <li>"AVG_Reslice of 190216E4PSB1PMT.tif",</li> <li>"MAX_Reslice of 190216E4PSB1PMT.tif",</li> <li>"SUM_Reslice of 190216E4PSB1PMT.tif".</li> </ul> </li> <li>Text files that state the time/space coordinates of manually tracked features in the kymographs, e.g. <ul> <li>"cutend_L.txt" (coordinates of the left cut end after the ablation),</li> <li>"cutend_R.txt" (coordiantes of the right cut end),</li> <li>"feat_X.txt" (coordinates of additional features, where X is a number and L or R).</li> </ul> </li> <li>A ZIP file "manual_ROIs.zip" that contains all the coordinates of tracked features of the kymograph in ROI format (e.g. "cutend_L.roi").</li> </ul> <p><strong>Usage</strong></p> <p>The sequences, kymographs, and the tracks can be viewed using, for example, Fiji.</p> <p>For the automated analysis, see the Python code that accompanies the manuscript above. It is available at https://dx.doi.org/XXX</p> <p><strong>License information</strong></p> <p>This dataset is released under Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License. See <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">CC BY-NA-SC 4.0</a>.</p> <p><strong>How to cite this dataset</strong></p> <p>If you use this dataset in an academic publication, please consider citing the paper:</p> <p>L. F. Lang, N. Dutta, E. Scarpa, B. Sanson, C.-B. Schönlieb, and J. Étienne. Joint Motion Estimation and Source Identification using Convective Regularisation with an Application to the Analysis of Laser Nanoablations. 2019.</p> <p>To cite solely the dataset, please use:</p> <p>L. F. Lang, N. Dutta, E. Scarpa, B. Sanson, C.-B. Schönlieb, and J. Étienne. (2019). Microscopy image sequences and annotated kymographs of laser ablation experiments in Drosophila embryos [Data set]. Zenodo. <a href="https://doi.org/10.5281/zenodo.3257654">http://doi.org/10.5281/zenodo.3257654</a></p>
Investigating the Effects of Laser Wavelengths and Other Ablation Parameters on the Detection of Biogenic Elements and Contaminants in Hydroxyapatite - JAAS - Dataset
<p>The dataset provided contains measurements for an article in The Journal of Analytical Atomic Spectrometry (JAAS). Further details are available in the .txt file included in the folder.</p>
Laser Ablation Tomography of Woody Plants
<p>Movies generated by LATscan from stems of distinct woody vines (climbing plants). Movie 1 illustrates anastomoses and splitting between vascular cylinders in the compound stem of Paullinia pinnata (Sapindaceae), a woody vine normally growing in tropical forests. Movie 2 illustrates the wood and bark of the adult stem of four species of woody vines. The movie starts off showing the transverse view, then reorients to a tangential view. Species name (from left to right): Wisteria floribunda, Gnetum urens, Cocculus orbiculatus and Menispermum canadense. The videos are associated to the paper "Laser ablation tomography (LATscan) as a new tool for anatomical studies of woody plants". </p>
Change in H2O levels of a milliQ ice sample as a result of laser ablation (100kHz, 50uJ)
<p>This data includes the measured change in water vapour level corresponding to three different laser ablation durations applied to milliQ ice sample. Pulse energy of the laser is 50 uJ and repetition rate is 100kHz. </p> <table> <tbody> <tr> <td>Datetime</td> <td>Laser Ablation Duration (s)</td> </tr> <tr> <td>2019-12-09 11:28</td> <td>20</td> </tr> <tr> <td>2019-12-09 11:33</td> <td>40</td> </tr> <tr> <td>2019-12-09 11:40</td> <td>60</td> </tr> </tbody> </table> <p> </p>
Change in H2O levels of a milliQ ice sample as a result of laser ablation (50kHz, up to 43uJ)
<p>The change in measured water vapour corresponding to 19 and 30 laser ablated craters in a milliQ ice sample. Relevant time period is 2021-05-13 from 16:07 to 16:52.<br> <br> File LA_data_2021-05-13 10.29.58.456138++0200.csv includes data of the laser used for ablation as well as position and speed data of the linear stage that holds the ice sample. <br> <br> File HIDS2159-20210513-150816Z-DataLog_User.dat includes H2O data.</p>
A Study to Evaluate the Effectiveness of Laser-Ablated Implant-Abutments to Promote Tissue Healing
ClinicalTrials.gov study NCT01822223. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Micro-ultrasound-Guided Focal Laser Ablation for Intermediate-Risk Prostate Cancer: Safety & Effectiveness
ClinicalTrials.gov study NCT07339943. IPD Sharing: YES. Countries: 1. Publications: 18.
Laser Ablation of Abnormal Neurological Tissue Using Robotic NeuroBlate System
ClinicalTrials.gov study NCT02392078. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Using MRI-Guided Laser Heat Ablation to Induce Disruption of the Peritumoral Blood Brain Barrier to Enhance Delivery and Efficacy of Treatment of Pediatric Brain Tumors
ClinicalTrials.gov study NCT02372409. IPD Sharing: NO. Countries: 1. Publications: 12.
MK-3475 in Combination With MRI-guided Laser Ablation in Recurrent Malignant Gliomas
ClinicalTrials.gov study NCT02311582. IPD Sharing: NO. Countries: 1. Publications: 1.
MRI Guided Transrectal Prostate Laser Ablation for Benign Prostatic Hypertrophy (BPH)
ClinicalTrials.gov study NCT03131544. IPD Sharing: NO. Countries: 1. Publications: 1.
Laser Ablation After Stereotactic Radiosurgery
ClinicalTrials.gov study NCT01651078. IPD Sharing: Not stated. Countries: 1. Publications: 1.
ClosureFAST vs. Laser Ablation for the Treatment of GSV Disease: A Multicenter, Single-Blinded, Randomized Study.
ClinicalTrials.gov study NCT00509392. IPD Sharing: YES. Countries: 1. Publications: 1.
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