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2,394 results for “ms”
Pennyleon caatinganus Stange MS, holotype female, FSCA 00093941
<p><em>Pennyleon caatinganus</em> Stange MS, holotype female, FSCA 00093941</p>
Proteolytic Profiling of Streptococcal Pyrogenic Exotoxin B (SpeB) by Complementary HPLC-MS Approaches.
<p>Streptococcal pyrogenic exotoxin B (SpeB) is a cysteine protease expressed during group A streptococcal infection that represents a major virulence factor. Although subject to several studies, its role during infection is still under debate, and its proteolytic properties remain insufficiently characterized. Here, we revisited this protease through a set of complementary approaches relying on state of-the-art HPLC-MS methods. After conceiving an efficient protocol to recombinantly express SpeB, the zymogen of the protease and its activation were characterized. Employing proteome-derived peptide libraries, a strong preference for hydrophobic and aromatic residues at P2 alongside negatively charged amino acids at P3′ to P6′ was revealed. To identify relevant in vivo substrates, native proteins were obtained from monocytic secretome and plasma to assess their cleavage under physiological conditions. Besides corroborating our findings concerning specificity, more than 200 cleaved proteins were identified, including proteins of the extracellular matrix, proteins of the immune system, and proteins involved in inflammation. Finally, the cleavage of IgG subclasses was studied in detail. This study precisely depicts the proteolytic properties of SpeB and provides a library of potential host substrates, including their exact cleavage positions, as a valuable source for further research to unravel the role of SpeB during streptococcal infection.</p>
Dioxins by GC-MS/MS - Data from Interlaboratory intercomparison
<p>Data from analysis of samples for dioxins and PCBs by GC-MS/MS at Fera and CSFA</p>
Lipidomics and metabolomics datasets for "Adverse effects of arsenic uptake in rice metabolome and lipidome revealed by untargeted liquid chromatography coupled to mass spectrometry (LC-MS) and regions of interest multivariate curve resolution"
<p><strong>Files description</strong></p> <p>Raw files for lipidomics and metabolics studies on the impact of arsenic exposure on rice growth.</p> <p>File details on the worksheets lipids_files.xlsx and metabolomics_files.xlsx</p> <p>Files have been organized as follows:</p> <p><strong>Lipidomics</strong></p> <blockquote> <p>1) Control samples: lip_controls.rar<br> 2) Watering low As exposure: lip_water_1.rar<br> 3) Watering high As exposure: lip_water_1000.rar<br> 4) Soil low As exposure: lip_soil_5.rar<br> 5) Soil high As exposure: lip_soil_50.rar<br> 6) QC samples: lip_qcs.rar</p> </blockquote> <p><strong>Metabolomics (positive ionization mode)</strong></p> <blockquote> <p>1) Control samples: met_pos_controls.rar<br> 2) Watering low As exposure: met_pos_water_1.rar<br> 3) Watering high As exposure: met_pos_water_1000.rar<br> 4) Soil low As exposure: met_pos_soil_5.rar<br> 5) Soil high As exposure: met_pos_soil_50.rar<br> 6) QC samples: met_pos_qcs.rar</p> </blockquote> <p><strong>Metabolomics (negative ionization mode)</strong></p> <blockquote> <p>1) Control samples: met_neg_controls.rar<br> 2) Watering low As exposure: met_neg_water_1.rar<br> 3) Watering high As exposure: met_neg_water_1000.rar<br> 4) Soil low As exposure: met_neg_soil_5.rar<br> 5) Soil high As exposure: met_neg_soil_50.rar<br> 6) QC samples: met_neg_qcs.rar<br> </p> </blockquote> <p> </p> <p><strong>Experimental details</strong></p> <blockquote> <p><strong>Arsenic Exposure</strong></p> <p>Arsenic was supplied through two main routes: watering with contaminated water or soil containing arsenic. In addition, this new study includes metabolomic as well as lipidomic analysis, in order to have a more global overview of arsenic exposure.</p> <p>For the watering treatment, during the first 11 days, rice was irrigated with Milli-Q water. From that day until harvesting, plants were watered with 1 and 1000 μM of As (V) for the two concentration levels of exposure, and with Milli-Q water for control samples. The lowest concentration was established at 1 μM as it is the limit of the acceptable arsenic concentration in water by European legislation. The upper concentration was set at 1000 μM, a threshold established to ensure that the experiment was performed under sub-lethal arsenic concentration for the plant, based on previous studies.</p> <p>For the soil treatment, two containers were prepared with 1 kg of soil two days before planting. Soil from the container was exposed to two arsenic concentration levels (5 and 50 mg L<sup>-1</sup>). Once sowing, rice was irrigated the whole growth period with a solution containing 0.001 μM of As (V). The lowest arsenic limit in this treatment was set at 5 mg L<sup>-1</sup> as a maximum value of common arsenic leaches without toxic characteristics, although background soil content of arsenic varies between one and 40 ppm according to the US food and drug administration (FDA) report. The highest arsenic limit was established to 50 mg L<sup>-1</sup>, as a considerably high arsenic content in the soil, slightly above the maximum frequently encountered levels.</p> <p><strong>Lipidomic Analysis</strong></p> <p>The lipidomic analysis was performed using a Waters Acquity UPLC system (Waters Corporation, MA, USA), connected to a Waters LCT Premier orthogonal accelerated time of flight mass spectrometer (Waters), operated in both positive and negative electrospray (ESI) ionization modes. Full scan spectra were acquired from 50 to 1500 Da.</p> <p>The chromatographic column employed was a Kinetex C8 (100 x 2.1 mm, 1.7 μm) (Phenomenex) under the following conditions (already used in [47]): temperature at 30˚C, injection volume at 10 μL, and flow rate at 0.3 mL min<sup>-1</sup>. Mobile phases selected were (A) MeOH 1mM ammonium formate, and (B) H<sub>2</sub>O 2mM ammonium formate, both at 0.2% formic acid. The gradient started at 80% A, increased to 90% A in 3 min, from 3 to 6 min remained at 90% A, changed to 99 % A until minute 15, remained constant 1 min, and returned to initial conditions until minute 20.</p> <p><strong>Metabolomic analysis</strong></p> <p>The metabolomic analysis was performed using a Waters Acquity UPLC system connected to a Q-Exactive (Thermo Fisher Scientific, Hemel Hempstead, UK) equipped with a quadrupole-Orbitrap mass analyzer. Electrospray (ESI) was used as an ionization source in both positive and negative ion modes. Full scan mass range was set from <em>m/z</em> 90 to 1000, and all ion fragmentation (AIF) was performed with normalized collision energy (NCE) of 35 eV.</p> <p>The column employed was an HILIC TSK gel amide-80 column (250 x 2.0 mm i.d., 5 μm) provided by Tosoh Bioscience (Tokyo, Japan), under the following experimental conditions (already employed in [45]): flow rate at 0.15 mL min<sup>-1</sup>, at room temperature, and 5 μL injection volume. Mobile phases were (A) AcN, and (B) 5 mM ammonium acetate, adjusted at pH 5.5 with acetic acid. The gradient employed was: starting conditions at 25% B, then increased until 30% B in 8 min; a 60% B was reached at 10 min, held for 2 min more and then back to 25% B until minute 14 min; lastly, a re-equilibration step was added and from 14 to 20 min at 25% B.</p> </blockquote> <p> </p> <p><strong>Funding:</strong> This research was funded by the Spanish Ministry of Science and Innovation (MCI, Grant CTQ2017-82598-P) and Severo Ochoa Project CEX2018-000794-S (funded by MCIN/AEI/ 10.13039/501100011033), and supported from the Catalan Agency for Management of University and Research Grants (AGAUR, Grant 2017SGR753). MPC was funded by a predoctoral FPU 16/02640 scholarship from the Spanish Ministry of Education and Vocational Training (MEFP). </p> <p> </p>
A Rapid and Simple UHPLC-MS/MS Method for Quantification of Plasma Globotriaosylsphingosine (lyso-Gb3)
<p>Fabry disease (FD) is a rare X-linked lysosomal storage disorder caused by α-galactosidase A gene (GLA) mutations, resulting in loss of activity of the lysosomal hydrolase, α-galactosidase A (α-Gal A). As a result, the main glycosphingolipid substrates, globotriaosylceramide (Gb3) and globotriaosylsphingosine (lyso-Gb3), accumulate in plasma, urine, and tissues. Here, we propose a simple, fast, and sensitive method for plasma quantification of lyso-Gb3, the most promising secondary screening target for FD. Assisted protein precipitation with methanol using Phree cartridges was performed as sample pre-treatment and plasma concentrations were measured using UHPLC-MS/MS operating in MRM positive electrospray ionization. Method validation provided excellent results for the whole calibration range (0.25–100 ng/mL). Intra-assay and inter-assay accuracy and precision (CV%) were calculated as <10%. The method was successfully applied to 55 plasma samples obtained from 34 patients with FD, 5 individuals carrying non-relevant polymorphisms of the GLA gene, and 16 healthy controls. Plasma lyso-Gb3 concentrations were larger in both male and female FD groups compared to healthy subjects (<em>p </em>< 0.001). Normal levels of plasma lyso-Gb3 were observed for patients carrying non-relevant mutations of the GLA gene compared to the control group (<em>p </em>= 0.141). Dropping the lower limit of quantification (LLOQ) to 0.25 ng/mL allowed us to set the optimal plasma lyso-Gb3 cut-off value between FD patients and healthy controls at 0.6 ng/mL, with a sensitivity of 97.1%, specificity of 100%, and accuracy of 0.998 expressed by the area under the ROC curve (C.I. 0.992 to 1.000, <em>p</em>-value < 0.001). Based on the results obtained, this method can be a reliable tool for early phenotypic assignment, assessing diagnoses in patients with borderline GalA activity, and confirming non-relevant mutations of the GLA gene.</p>
Commercial standards of Streptomyces antibiotics (LC-MS-MS/MS)
<p>Commercial standards for 8 antibiotics produced by Streptomyces used for method validation for the untargeted metabolomics workflow UmetaFlow. Germicidin A, Germicidin B, Kanamycin, Tetracycline, Thiostreptone, Globomycin, Ampicillin, Apramycin. Publicly available also at MassIVE MSV000090047.</p>
Proteomic Profiling for Identification of Animal Skin Species in Ancient Egyptian Archaeological Leather using Liquid Chromatography Coupled with Tandem Mass Spectrometry (Nano LC-MS/MS)
<p><strong>Proteomic Profiling for Identification of Animal Skin Species in Ancient Egyptian Archaeological Leather using Liquid Chromatography Coupled with Tandem Mass Spectrometry (Nano LC-MS/MS)</strong></p>
Demonstration LC-IM-MS Lipidomics Data for mzapy
<p>LC-IM-MS lipidomics data, in MZA format, acquired from porcine brain total lipid extract. Used for demonstration of mzapy functionality. </p>
Native MS of MIGA2
<p>Native MS analysis datasheet of human MIGA2 soluble portion (purified from bacteria).</p>
Praça da Liberdade Bonito MS
Praça da Liberdade em Bonito Mato Grosso do Sul Source: Objaverse 1.0 / Sketchfab
Supplementary material 1 from: Legler BS, Dillenberger MS (2017) Two new species of Sabulina (Caryophyllaceae) from Washington State, U.S.A. PhytoKeys 81: 79-102. https://doi.org/10.3897/phytokeys.81.13106
Voucher information for herbarium specimens examined : Explanation note: General information and provenance for herbarium vouchers of Sabulina taxa examined for morphological characters and geographic distribution. Included are taxon names, general collection locations, collector names and numbers, herbarium acronyms and accession numbers.
Supplementary material 2 from: Legler BS, Dillenberger MS (2017) Two new species of Sabulina (Caryophyllaceae) from Washington State, U.S.A. PhytoKeys 81: 79-102. https://doi.org/10.3897/phytokeys.81.13106
Sample information and GenBank accessions of sequenced specimens : Explanation note: Voucher specimens of Caryophyllaceae taxa sequenced for phylogenetic analysis. Included are taxon names, sample extraction numbers, general collection location, collector names and numbers, herbarium acronyms and accession numbers, and GenBank numbers for ITS and trnQ-rps16 sequences.
Supplementary material 1 from: Mabidi A, Bird MS, Perissinotto R, Rogers DC (2016) Ecology and distribution of large branchiopods (Crustacea, Branchiopoda, Anostraca, Notostraca, Laevicaudata, Spinicaudata) of the Eastern Cape Karoo, South Africa. ZooKeys 618: 15-38. https://doi.org/10.3897/zookeys.618.9212
: Appendix 2: Large branchiopod species found in November 2014 and April 2015 in the 15 study sites included in the survey. a = present only in April; n = present only in November; an = present during both periods; 0 = absent during both periods.
Shallow Focal Depths of the 2022 Ms 6.8 Luding Earthquake and its M ≥ 3 Aftershocks
<p>Event waveforms of the 2022 Luding earthquake sequence used for focal depth determination and focal mechanism inversion</p>
Tooth enamel LC-MS dataset for: "Enamel histomorphometry, growth patterns and developmental trajectories of the first decidous molar in an Italian early medieval skeletal series"
<p>(n)LC-MS .raw data of tooth enamel samples from archaeological human remains. </p> <p>The dataset is related to the publication of Magri et al. </p>
COAD-MS Model, Figures 2,3, and supplementary mixing model.
<p>COAD-MS Model created by Philip Staudigel. </p> <p>Includes the scripts to generate all components of Figure 2 and 3. </p> <p>Science Advances 2024, "Resolving and correcting for kinetic biases on methane seep paleotemperature using carbonate ∆47/∆48 analysis" adn0155</p> <p>Patch Note April 25, 2024: Corrected issue with Seep_Function.m, which caused fatal errors in model (uncommented line 10).</p> <p> </p>
Peptidoform analysis of IP-MS data allows detection of differentially present bait proteoforms
<p>Datasets supporting iPTMs manuscript (https://doi.org/10.1101/2024.01.23.576810)</p>
GC-MS Combined with Fast GC e-nose for the Analysis of Volatile Components of Chamomile (Matricaria chamomilla L.) - Supplementary Materials
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in-silico EI-MS
<p><span>FastEI</span><span>里面的原始质谱库里面的前</span><span>1000</span><span>条记录</span></p>
IR and GC-MS data for catalytic studies in "Perchlorate reduction catalyzed by dioxidomolybdenum(VI) complexes: Effect of ligand substituents"
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Allen Brain Atlas
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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.