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16,682 results for “Lung”
Epigenome-wide DNA Methylation and Pesticide Use in the Agricultural Lung Health Study
<p>An epigenome-wide association study of blood DNA methylation and pesticide use was conducted in adults in the Agricultural Lung Health Study. Sixteen specific pesticides were analyzed: dicamba, picloram, mesotrione, acetochlor, metolachlor, glyphosate, 2,4-Dichlorophenoxyacetic acid (2,4-D), atrazine, malathion, aldrin, chlordane, DDT, dieldrin, heptachlor, lindane, and toxaphene. 162 differentially methylated CpGs across 9 specific pesticides (acetochlor, atrazine, dicamba, glyphosate, malathion, metolachlor, mesotrione, picloram, and heptachlor.</p>
Persistent alveolar type 2 dysfunction and lung structural derangement in post-acute COVID-19
<p>SARS-CoV-2 infection can manifest as a wide range of respiratory and systemic symptoms well after the acute phase of infection in over 50% of patients. Key questions remain on the long-term effect of infection on tissue pathology and on recovered COVID-19 patients. Here we perform multiplexed imaging of post-mortem lung tissue from 12 individuals that died post-acute COVID-19 (PC) and compare them to patients who died during the acute phase of COVID-19, patients who died with idiopathic pulmonary fibrosis (IPF), and otherwise healthy lung. We find evidence of viral presence in the lung up to 359 days after the acute phase of disease, often in patients with negative nasopharyngeal swab test. Our analyses identify accumulation of senescent alveolar type 2 cells, fibrosis with hypervascularization of peribronchial areas and alveolar septa, as the most pronounced pathophysiological features seen in the lung of PC patients. At the cellular level, lung disease of PC patients is distinct from the chronic pulmonary disease of IPF but shares pathological features which may help rationalize interventions for PASC patients. Altogether, this study provides an important ground for the understanding of the long-term effects of SARS-CoV-2 infection at the microanatomical, cellular and molecular level.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - PROLONGED CASE 1 FOV2
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (PROLONGED CASE 1 FOV2)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - PROLONGED CASE 1 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (PROLONGED CASE 1 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - CONTROL CASE 1 FOV2
<p><strong>Image-based data set of a post-mortem lung sample from a non-COVID-related pneumonia donor (CONTROL CASE 1, FOV2)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - CHRONIC CASE 2 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (CHRONIC CASE 2 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - ACUTE CASE 2 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (ACUTE CASE 2 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - PROLONGED CASE 5 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (PROLONGED CASE 5 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - ACUTE CASE 3 FOV1
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (ACUTE CASE 3 FOV1)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - ACUTE CASE 3 FOV2
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (ACUTE CASE 3 FOV2)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Multiplexed histology of COVID-19 post-mortem lung samples - ACUTE CASE 2 FOV2
<p><strong>Image-based data set of a post-mortem lung sample from a COVID-19 donor (ACUTE CASE 2 FOV2)</strong></p> <p>Each image shows the same field of view (FOV), sequentially stained with the depicted fluorescence-labelled antibodies, including surface proteins, intracellular proteins and transcription factors. Images contain 2024 x 2024 pixels and are generated using an inverted wide-field fluorescence microscope with a 20x objective, a lateral resolution of 325 nm and an axial resolution above 5 µm. Images have been normalized and intensities adjusted.</p>
Data and analysis scripts for: Lung adenocarcinoma promotion by air pollutants
<p>Code for "Lung adenocarcinoma promotion by air pollutants" manuscript</p> <p>egfrm_lc_incidence</p> <ul> <li>Epidemiological analyses of EGFRm lung cancer incidence and PM2.5 levels in England (NHS England), South Korea and Taiwan.</li> </ul> <p>ukbb</p> <ul> <li>Epidemiological analyses of lung cancer incidence and PM2.5 levels in England, using the UKBB data set.</li> </ul> <p>mouse_RNA_seq</p> <ul> <li>Analysis of RNA-seq data derived from lung tumour tissue of pollution-exposed mice.</li> </ul> <p>mouse_WGS</p> <ul> <li>Analysis of WGS data derived from lung tumour tissue of pollution-exposed mice.</li> </ul> <p>normal_lung</p> <ul> <li>Analysis of ddPCR for EGFRm from normal lung tissue from the TRACERx and PEACE cohorts.</li> <li>Analysis of Duplex-seq data from normal lung tissue from the PEACE and BDRE cohorts.</li> </ul>
Multiplexed Immunofluorescence Staining Dataset - OMAP 7 - Lung, Cell DIVE
<p>This dataset contains an exemplary multiplexed immunofluorescence (MxIF) dataset for the antibody markers captured in Cell DIVE Lung OMAP (OMAP #7). The slide type is a TMA of FFPE tissue, and it contains a range of human lung tissue.</p> <p> </p> <p> </p>
Personalized aerosolised bacteriophage treatment of a chronic lung infection due to multidrug-resistant Pseudomonas aeruginosa
<p>Bacteriophage therapy has been suggested as an alternative or complementary strategy for the treatment of multidrug resistant (MDR) bacterial infections. Here, we report the favourable clinical evolution of a 41-year-old male patient with a Kartagener syndrome complicated by a life-threatening MDR <em>Pseudomonas aeruginosa </em>infection, who was treated successfully with iterative aerosolized phage treatments specifically directed against the patient’s isolate. We followed the longitudinal evolution of both phage and bacterial loads during and after phage administration in respiratory samples. Phage titres in consecutive sputum samples showed <em>in patient</em> phage replication. Phenotypic analysis and whole genome sequencing of sequential bacterial isolates revealed a clonal, but phenotypically diverse population of hypermutator strains. The MDR phenotype in the collected isolates was multifactorial and mainly due to spontaneous chromosomal mutations. All isolates recovered after phage treatment remained phage susceptible. These results demonstrate that clinically significant improvement is achievable by personalised phage therapy even in the absence of complete eradication of <em>P. aeruginosa</em> lung colonization.</p>
Lung nodule CT false positive reduction
<p>This data set is part of the public development data for the <a href="http://auc23.grand-challenge.org/">2023 Automated Universal Classification Challenge</a> (AUC23). The data set concerns the classification of lung nodules on screening thoracic computed tomography (CT) scans and was derived from the <a href="https://luna16.grand-challenge.org/Data/">2016 Lung Nodule Analysis (LUNA) challenge</a>. The data set was previously introduced and described by <a href="https://www.sciencedirect.com/science/article/pii/S1361841517301020?via%3Dihub">Setio et al. (2017)</a> and no images or patient information were added. Only the "false positive reduction" track was considered, where a provided set of nodule candidates should be classified. Data was restructured in compliance with the <a href="https://auc23.grand-challenge.org/">AUC23</a> challenge format. The data set was collected from the largest publicly available reference database for lung nodules: <a href="https://wiki.cancerimagingarchive.net/pages/viewpage.action?pageId=1966254">The Lung Image Database Consortium image collection</a>.</p> <p>Images are 3D tensors:</p> <ul> <li>0: 3D axial screening CT scan (cropped to candidate nodule's region of interest)</li> </ul> <p>Classification labels:</p> <ul> <li>0: Is a nodule</li> <li>1: Is not a nodule</li> </ul> <p>Folder structure:</p> <p>imagesTr (root folder with all patients and studies)<br> ├── LUNA16_0000_0000.mha (axial CT imaging for nodule 0000)<br> ├── LUNA16_0000_0002.mha (axial CT imaging for nodule 0002)<br> ├── ...<br> </p> <p>Please cite the following article if you are using the <a href="https://luna16.grand-challenge.org/Data/">2016 Lung Nodule Analysis (LUNA) challenge</a> false positive reduction track data set:</p> <pre><code>Setio AAA, Traverso A, de Bel T, Berens MSN, Bogaard CVD, Cerello P, Chen H, Dou Q, Fantacci ME, Geurts B, Gugten RV, Heng PA, Jansen B, de Kaste MMJ, Kotov V, Lin JY, Manders JTMC, Sóñora-Mengana A, García-Naranjo JC, Papavasileiou E, Prokop M, Saletta M, Schaefer-Prokop CM, Scholten ET, Scholten L, Snoeren MM, Torres EL, Vandemeulebroucke J, Walasek N, Zuidhof GCA, Ginneken BV, Jacobs C. Validation, comparison, and combination of algorithms for automatic detection of pulmonary nodules in computed tomography images: The LUNA16 challenge. Med Image Anal. 2017 Dec;42:1-13. doi: 10.1016/j.media.2017.06.015. Epub 2017 Jul 13. PMID: 28732268.</code></pre> <p> </p>
Processed counts data of cfMeDIP-seq profiles of small cell lung cancer patients
<p>R objects of cfMeDIP-seq profiles of small cell lung cancer patient cfDNA, peripheral blood leukocytes, non-cancer control patients cfDNA, and CDX tumour tissue. The data are whole-genome across 300bp windows after removing ENCODE-blacklisted regions. The data also includes MeDEStrand-converted MeDIP data for peripheral blood leukocytes</p>
Lung CT Deformable Image Registration Validation Dataset
<p>This dataset contains 30 different cases of CT image pairs, with a high number of vessel bifurcation landmark pairs identified in each case. These landmarks can be used for deformable image registration (DIR) algorithm validation and quality assurance. Images are obtained from several publicly available image repositories as well as clinical scans from Barnes Jewish Hospital.</p> <p> </p> <p>Guidelines for loading and visualizing data can be found on our Github at </p> <p>https://github.com/deshanyang/Lung-DIR-QA</p> <p> </p> <p>If you use our dataset, please cite the paper at </p> <p>https://doi.org/10.1002/mp.17026</p>
ALTA-1L Study: A Study of Brigatinib Versus Crizotinib in Anaplastic Lymphoma Kinase Positive (ALK+) Advanced Non-small Cell Lung Cancer (NSCLC) Participants
ClinicalTrials.gov study NCT02737501. IPD Sharing: YES. Countries: 19. Publications: 5.
Study of DS-1062a in Advanced or Metastatic Non-small Cell Lung Cancer With Actionable Genomic Alterations (TROPION-Lung05)
ClinicalTrials.gov study NCT04484142. IPD Sharing: YES. Countries: 10. Publications: 1.
Early Palliative Care in Advanced Lung and Gastrointestinal Malignancies
ClinicalTrials.gov study NCT01401907. IPD Sharing: YES. Countries: 1. Publications: 2.
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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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.