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2,395 results for “Contrast”
Dataset related to article "Contrast imaging techniques to diagnose hepatocellular carcinoma in cirrhotics outside regular surveillance."
<p>I</p> <p>NTRODUCTION AND AIM:</p> <p>The American Association for the Study of the Liver (AASLD) recommends contrast computerized tomography (CT-scan) and magnetic resonance (MRI) to diagnose hepatocellular carcinoma (HCC) arising in cirrhotic patients under semiannual surveillance with abdominal ultrasound (US). A US guided fine needle biopsy (FNB) serves the same purpose in radiologically undiagnosed tumors and incidentally detected nodules in cirrhotics outside surveillance. In this population, we evaluated the performance of radiological diagnosis of HCC according to 2010 AASLD recommendations.</p> <p>MATERIALS AND METHODS:</p> <p>All cirrhotic patients with a liver nodule incidentally detected by US were prospectively investigated with a sequential application of CT-scan/MRI examination and a FNB.</p> <p>RESULTS:</p> <p>Between 2011 and 2015, 94 patients (mean age 67 years) had a liver nodule (total 120) detected by US in the context of histologically confirmed cirrhosis. Mean nodules diameter was 40 (10-160) mm, 87 (73%) <5cm. At histology, 84 (70%) nodules were HCC, 8 (7%) intrahepatic cholangiocarcinoma, 6 (5%) metastases, 2 (2%) neuroendocrine tumors and 20 (16%) benign lesions. Hyperenhancement in arterial phase followed by wash-out in venous phases on at least one radiological technique was demonstrated in 62 nodules (61 HCC, 1 high grade dysplastic nodule), with a specificity of 97% (IC95%: 85-100%), sensitivity 73% (IC95%: 62-81%) and diagnostic accuracy 80%, being 64% for ≥5cm HCC. Sensitivity of AFP >200ng/mL was 12% (IC95%: 6-23%).</p> <p>CONCLUSION:</p> <p>A single contrast imaging technique showing a typical contrast pattern confidently identifies HCC also in cirrhotic patients with an incidental liver nodule, thereby reducing the need for FNB examinations.</p>
Assembled mRNAs from potato genotypes contrasted for their hexanal isomerase activity
<p>From PacBio and Illumina mRNA-seq coming from leaf total RNA isolated from three <em>Solanum tuberosum</em> genotypes (Desiree, Phureja153 and S869), mRNA isoforms were assembled.</p> <ul> <li><strong>Phureja153:</strong> low (3Z):(2E) hexenal isomerase activity</li> <li><strong>Desiree:</strong> mid (3Z):(2E) hexenal isomerase activity</li> <li><strong>S869</strong>: high (3Z):(2E) hexenal isomerase activity</li> </ul> <p> </p> <p><strong>== Step1: PacBio subreads to FASTA and GTF annotation == </strong></p> <p>For each genotype, a FASTA file and a GTF annotation file are available. File is called "<a href="https://zenodo.org/api/files/e5e70d61-d4cc-4896-8eb1-b41447b8859d/pacbio_assembled_isoforms.tar.gz?versionId=a91bb81f-3442-427c-be96-190f19b4bf3c">pacbio_assembled_isoforms.tar.gz</a>".</p> <p>Pipeline used: <a href="https://github.com/SilkeAllmannLab/pacbio_snakemake/releases/tag/v0.1.0">https://github.com/SilkeAllmannLab/pacbio_snakemake/releases/tag/v0.1.0</a></p> <p>Raw PacBio data submitted to NCBI EBI ENA under accession PRJXXX.</p> <p>=== Step 2: SQANTI QC ====</p> <p><a href="https://github.com/ConesaLab/SQANTI3/wiki/Introduction-to-SQANTI3">SQANTI3</a> was run on these three PacBio assembled sets of transcript to correct them.</p> <p>The corrected transcripts and related SQANTI3 info are available in the "<a href="https://zenodo.org/api/files/e5e70d61-d4cc-4896-8eb1-b41447b8859d/sqanti_corrected_transcripts.tar.gz">sqanti_corrected_transcripts.tar.gz</a>" file.</p> <p> </p> <p> </p>
Hyperpolarized [15N]nitrate as a potential long lived hyperpolarized contrast agent for MRI
<p>Primary data for DOI: <a href="https://doi.org/10.1016/j.jmr.2019.01.001">10.1016/j.jmr.2019.01.001</a></p> <p>Title: Hyperpolarized [<sup>15</sup>N]nitrate as a potential long lived hyperpolarized contrast agent for MRI</p> <p>Authors: Ayelet Gamliel, Sivaranjan Uppala, Gal Sapir, Talia Harris, Atara Nardi-Schreiber, David Shaul, Jacob Sosna, J. Moshe Gomori, Rachel Katz-Brull</p> <p>Description:</p> <p>The primary datasets in this archive contain data presented in the above publication and consist of <sup>15</sup>N-NMR spectra in solutions.</p> <p>Please consult the Archive Guide.</p>
Arbuscular mycorrhizal fungi and carrot demonstrate contrasting responses to drought stress as revealed through a dual transcriptomic approach
GEO Series GSE189806. Rhizophagus irregularis; Daucus carota. 16 samples. Type: Expression profiling by high throughput sequencing.
Transcriptional signatures in contrasting cultivars of Barley during early reproductive development of meristem
GEO Series GSE218882. Hordeum vulgare. 4 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis of contrasting resistance to herbivory by empoasca fabae in two shrub willow species and their hybrid progeny
GEO Series GSE143616. Salix x rubra. 96 samples. Type: Expression profiling by high throughput sequencing.
Shared upregulation and contrasting downregulation distinguish extremely desiccation tolerance from intolerant green algae
GEO Series GSE133354. Flechtneria rotunda; Tetradesmus deserticola; Enallax costatus. 30 samples. Type: Expression profiling by high throughput sequencing.
What is the transcriptomic contrast between a TDNA-mutant and its respective wild-type from young Arabidopsis rosette?
GEO Series GSE93513. Arabidopsis thaliana. 4 samples. Type: Expression profiling by array.
Chloroplast activity provides invitro regeneration capability in contrasting cultivars
GEO Series GSE206271. Hordeum vulgare. 4 samples. Type: Expression profiling by high throughput sequencing.
Expression profile of contrasting maize genotypes grown in acid and control soil (leaves)
GEO Series GSE22479. Zea mays. 12 samples. Type: Expression profiling by array.
Contrasting Mutant and Overexpressor Phenotypes Position KIN10 as a Central Growth-Defense Integrator
GEO Series GSE311358. Arabidopsis thaliana. 26 samples. Type: Expression profiling by high throughput sequencing.
Transcript profiling of drought responsiveness in two contrasting rice genotypes during vegetative stage stress
GEO Series GSE5978. Oryza sativa; Oryza sativa Japonica Group. 6 samples. Type: Expression profiling by array.
Dissecting the AKT/mTOR pathway in estrogen receptor positive breast cancers identifies phosphorylated AKT to be associated with luminal A, PIK3CA mutations and good prognosis in contrast to phosphory
GEO Series GSE123834. Homo sapiens. 0 samples. Type: Expression profiling by array; Third-party reanalysis.
Drought responsive transcriptome profiling in roots of contrasting rice genotypes IR20 and Nootripathu
GEO Series GSE92883. Oryza sativa Indica Group; Oryza sativa. 8 samples. Type: Expression profiling by array.
Genome-wide transcriptome changes under nitrogen (N), water (W) and N+W stress in root and shoot tissues of contrasting rice genotypes, IR 64 and Nagina 22 at seedling stage
GEO Series GSE147158. Oryza sativa. 16 samples. Type: Expression profiling by high throughput sequencing.
Novel biomarkers for contrast-induced acute kidney injury identified from RNA sequencing data
GEO Series GSE248078. Homo sapiens. 8 samples. Type: Expression profiling by high throughput sequencing.
Sonication data related to article " preclinical study of diffusion-weighted MRI contrast as an early indicator of thermal ablation"
<p>data analysis table and workflow</p> <p> </p>
Subcutaneous, Paracardiac, and Epicardial Fat CT Density Before/After Contrast Injection: Any Correlation with CAD?
<p>Dataset from Monti CB, Capra D, Malavazos A, Florini G, Parietti C, Schiaffino S, Sardanelli F, Secchi F. Subcutaneous, Paracardiac, and Epicardial Fat CT Density Before/After Contrast Injection: Any Correlation with CAD? J Clin Med. 2021 Feb 12;10(4):735. doi: 10.3390/jcm10040735. PMID: 33673256; PMCID: PMC7918165.</p> <p>Abstract</p> <p>Adipose tissue, in particular epicardial adipose tissue, has been identified as a potential biomarker of cardiovascular pathologies such as coronary artery disease (CAD) in the light of its metabolic activity and close anatomic and pathophysiologic relationship to the heart. Our purpose was to evaluate epicardial adipose tissue density at both unenhanced and contrast-enhanced computed tomography (CT), along with CT densities of paracardiac and subcutaneous adipose tissue, as well as the relations of such densities with CAD. We retrospectively reviewed patients who underwent cardiac CT at our institution for CAD assessment. We segmented regions of interest on epicardial, paracardiac, and subcutaneous adipose tissue on unenhanced and contrast-enhanced scans. A total of 480 patients were included, 164 of them presenting with CAD. Median epicardial adipose tissue density measured on contrast-enhanced scans (-81.5 HU; interquartile range -84.9 to -78.0) was higher than that measured on unenhanced scans (-73.4 HU; -76.9 to -69.4) (<em>p</em> < 0.001), whereas paracardiac and subcutaneous adipose tissue densities were not (<em>p</em> ≥ 0.055). Patients with or without CAD, did not show significant differences in density of epicardial, paracardiac, and subcutaneous adipose tissue either on unenhanced or contrast-enhanced scans (<em>p</em> ≥ 0.092). CAD patients may experience different phenomena (inflammation, fibrosis, increase in adipose depots) leading to rises or drops in epicardial adipose tissue density, resulting in variations that are difficult to detect.</p>
Dataset related to article "Contrast Administration Impacts CT-Based Radiomics of Colorectal Liver Metastases and Non-Tumoral Liver Parenchyma Revealing the "Radiological" Tumour Microenvironment"
<p>This record contains raw data related to article "Contrast Administration Impacts CT-Based Radiomics of Colorectal Liver Metastases and Non-Tumoral Liver Parenchyma Revealing the "Radiological" Tumour Microenvironment"</p> <p> </p> <p>The impact of the contrast medium on the radiomic textural features (TF) extracted from the CT scan is unclear. We investigated the modification of TFs of colorectal liver metastases (CLM), peritumoral tissue, and liver parenchyma. One hundred and sixty-two patients with 409 CLMs undergoing resection (2017-2020) into a single institution were considered. We analyzed the following volumes of interest (VOIs): The CLM (Tumor-VOI); a 5-mm parenchyma rim around the CLM (Margin-VOI); and a 2-mL sample of parenchyma distant from CLM (Liver-VOI). Forty-five TFs were extracted from each VOI (LIFEx<sup>®®</sup>). Contrast enhancement affected most TFs of the Tumor-VOI (71%) and Margin-VOI (62%), and part of those of the Liver-VOI (44%, <em>p</em> = 0.010). After contrast administration, entropy increased and energy decreased in the Tumor-VOI (0.93 ± 0.10 vs. 0.85 ± 0.14 in pre-contrast; 0.14 ± 0.03 vs. 0.18 ± 0.04, <em>p</em> < 0.001) and Margin-VOI (0.89 ± 0.11 vs. 0.85 ± 0.12; 0.16 ± 0.04 vs. 0.18 ± 0.04, <em>p</em> < 0.001), while remaining stable in the Liver-VOI. Comparing the VOIs, pre-contrast Tumor and Margin-VOI had similar entropy and energy (0.85/0.18 for both), while Liver-VOI had lower values (0.76/0.21, <em>p</em> < 0.001). In the portal phase, a gradient was observed (entropy: Tumor > Margin > Liver; energy: Tumor < Margin < Liver, <em>p</em> < 0.001). Contrast enhancement affected TFs of CLM, while it did not modify entropy and energy of parenchyma. TFs of the peritumoral tissue had modifications similar to the Tumor-VOI despite its radiological aspect being equal to non-tumoral parenchyma.</p>
Carotid Phase-Contrast Magnetic Resonance before Treatment: 4D-Flow versus Standard 2D Imaging
<p>Secchi F, Monti CB, Capra D, Vitale R, Mazzaccaro D, Conti M, Jin N, Giese D, Nano G, Sardanelli F, Marrocco-Trischitta MM. Carotid Phase-Contrast Magnetic Resonance before Treatment: 4D-Flow versus Standard 2D Imaging. Tomography. 2021 Sep 28;7(4):513-522. doi: 10.3390/tomography7040044. PMID: 34698250; PMCID: PMC8544659.</p> <p>Abstract</p> <p>The purpose of this study was to evaluate the level of agreement between flow/velocity data obtained from 2D-phase-contrast (PC) and 4D-flow in patients scheduled for treatment of carotid artery stenosis. Image acquisition was performed using a 1.5 T scanner. We compared mean flow rates, vessel areas, and peak velocities obtained during the acquisition with both techniques in 20 consecutive patients, 15 males and 5 females aged 69 ± 5 years (mean ± standard deviation). There was a good correlation between both techniques for the CCA flow (<em>r</em> = 0.65, <em>p</em> < 0.001), whereas for the ICA flow and ECA flow the correlation was only moderate (<em>r</em> = 0.4, <em>p</em> = 0.011 and <em>r</em> = 0.45, <em>p</em> = 0.003, respectively). Correlations of peak velocities between methods were good for CCA (<em>r</em> = 0.56, <em>p</em> < 0.001) and moderate for ECA (<em>r</em> = 0.41, <em>p</em> = 0.008). There was no correlation for ICA (<em>r</em> = 0.04, <em>p</em> = 0.805). Cross-sectional area values between methods showed no significant correlations for CCA (<em>r</em> = 0.18, <em>p</em> = 0.269), ICA (<em>r</em> = 0.1, <em>p</em> = 0.543), and ECA (<em>r</em> = 0.05, <em>p</em> = 0.767). Conclusion: the 4D-flow imaging provided a good correlation of CCA and a moderate correlation of ICA flow rates against 2D-PC, underestimating peak velocities and overestimating cross-sectional areas in all carotid segments.</p>
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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)
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.