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105 results for “Material characterization”
Supplementary material 1 from: Luo J, Zhang R, Deng W (2024) First mitogenomic characterization of Macromotettixoides (Orthoptera, Tetrigidae), with the descriptions of two new species. ZooKeys 1195: 95-120. https://doi.org/10.3897/zookeys.1195.112623
Mitochondrial genome comparison of 37 species in Tetrigidae, the initiation and termination codons of PCGs of mitogenomes in Tetrigidae
Supporting material for Petricca et al. (2024), "Gravity and Radio Science Investigation at the Moons of Uranus to Reveal Subsurface Oceans and Characterize Interior Structures", JGR: Planets
<p>This archive contains the supplementary material for the paper "Gravity and Radio Science Investigation at the Moons of Uranus to Reveal Subsurface Oceans and Characterize Interior Structures", JGR: Planets</p> <p>Content of the dataset:</p> <ol> <li>Synthetic gravity fields for Ariel and Titania generated in the study</li> <li>SPICE kernels of the trajectory of the Uranus Orbiter and Probe designed at JPL</li> </ol> <p> </p> <p>---------------------------------------------------------------</p> <p>Synthetic gravity fields</p> <p>---------------------------------------------------------------</p> <p>The gravity fields are generated following the procedures described in Section 2.1.2 of the main paper. The hydrosphere thickness is assumed to be 190 km and 220 km for Ariel and Titania, respectively. The ocean density is fixed at 1050 kg/m^3. The syntethic topography is generated with pyshtools (Wieczorek and Meschede, 2018). The label of the file indicates the amplitude of the topography of each interface (ice shell or ocean floor) and the maximum degree of the spherical harmonics expansion. The files are formatted according to the Spherical Harmonics ASCII Data Record (SHADR) standard.</p> <p>The header of each file contains: reference radius (km), GM (km^3 / s^2), uncertatinty in the GM (not used and set to zero), maximum degree <em>l </em>of the<em> </em>expansion, maximum order<em> m </em>of the expansion, normalization (0 for unnormalized, 1 for 4pi normalization), reference latitude, reference longitude</p> <p>The columns contain: degree <em>l</em>, order <em>m</em>, coefficient C_<em>lm</em>, coefficient S_<em>lm</em></p> <p>---------------------------------------------------------------</p> <p>UOP trajectories</p> <p>---------------------------------------------------------------</p> <p>The reference positions and velocities of the UOP were generated by Damon Landau (JPL) as part of an internal study at JPL. These initial positions and velocities were numerically integrated by Flavio Petricca (JPL) using the dynamical models described in the main paper. For this reason, the trajectories only cover +- 8 hours from closest approach with each moon and not the entire tour.</p> <p>The ID of the spacecraft is set to -999. The simple text kernel provided here (id_name_map.txt) can be loaded in the kernel pool to associate the ID code with the SPICE names 'URANUS ORBITER PROBE' and 'UOP' for a more explicit and user-friendly access to the trajectories.</p>
Supplementary material 4 from: Corbin LA-J, Awde DN, Richards MH (2021) Phenological and social characterization of three Lasioglossum (Dialictus) species inferred from long-term trapping collections. Journal of Hymenoptera Research 88: 17-38. https://doi.org/10.3897/jhr.88.73220
Figure S4. Head width comparisons among weeks suggest a mix of social traits in L. hitchensi summer females
Supplementary material 1 from: Conrado AC, Arruda H, Stanton DWG, James SW, Kille P, Brown G, Silva E, Dupont L, Taheri S, Morgan AJ, Simões N, Rodrigues A, Montiel R, Cunha L (2017) The complete mitochondrial DNA sequence of the pantropical earthworm Pontoscolex corethrurus (Rhinodrilidae, Clitellata): Mitogenome characterization and phylogenetic positioning. ZooKeys 688: 1-13. https://doi.org/10.3897/zookeys.688.13721
Inferred secondary structure of 22 tRNA genes in the mitochondrial DNA of the pantropical earthworm Pontoscolex corethrurus (Rhinodrilidae, Clitellata). :
Supplementary material 1 from: Laciny A, Zettel H, Druzhinina I (2016) Workers, soldiers, and gynes – morphometric characterization and description of the female castes of Camponotus singularis (Smith, 1858) (Hymenoptera, Formicidae). Deutsche Entomologische Zeitschrift 63(2): 183-193. https://doi.org/10.3897/dez.63.9435
Table S1: Measurements (mm) of all examined specimens of Camponotus singularis (n =100) and Camponotus singularis var. rufomaculatus (n = 6). :
Supplementary material 1 from: Kim D, Chun J-Y, Lee K-Y (2016) Morphometric and molecular characterization of populations of Pratylenchus kumamotoensis and P. pseudocoffeae (Nematoda, Pratylenchidae) newly recorded in Korea. ZooKeys 600: 1-5. https://doi.org/10.3897/zookeys.600.8508
Analysis of ITS2 and D2-d3 segment sequences of Pratylenchus kumamotoensis and Pratylenchus pseudocoffeae. : Explanation note:
Supplementary material 1 from: Ruch J, Riehl T, Michalik P (2014) Re-description of Xysticus bimaculatus L. Koch, 1867 (Araneae, Thomisidae) and characterization of its subsocial lifestyle. ZooKeys 427: 1-19. https://doi.org/10.3897/zookeys.427.7450
List of species examined: Explanation note: The table shows a list of all species examined as well as the location of the material. Sex (male, female or juvenile) and whether the material was type material (yes/no) is shown as well.
Structural Health Monitoring via Thermoelastic Stress Analysis with low-cost sensors for the characterization of composite GFRP materials
Open the record for dataset details and reuse information.
Supplementary Materials: High-Quality Genome of a novel species belonging to the family Thermosynechococcaceae from Namibia and characterization of its protein expression patterns at elevated temperatures
<p><strong>Supplementary Materials</strong> to the scientific research article "<strong>High-Quality Genome of a novel species belonging to the family<em> Thermosynechococcaceae </em>from Namibia and characterization of its protein expression patterns at elevated temperatures</strong>" in MicrobiologyOpen.</p> <p>Including raw data of: the BCG analysis with antismash, dbCAN3 analysis of carbohydrate active enzymes, eggNOG mapper and KEGG (blastKOALA) functional annotations, whole genome alignments with progressiveMauve, ortholog-based phylogenetics with OrthoFinder, RAST annotations of the novel <em>Thermosynechococcus</em> sp. Okahandja<em> </em>and the type strains <em>Thermosynechococcus lividus</em> PCC 6715-6717, the full length 16S rRNA sequence extracted from the genome, proteomics analyses, the novel <em>T. </em>sp. Okahandja<em> </em>annotated genome, additional STEM microscopy figures and CRISPR analyses.</p>
Supplementary material 1 from: Li J, Lin R-R, Zhang Y-Y, Hu K-J, Zhao Y-Q, Li Y, Huang Z-R, Zhang X, Geng X-X, Ding J-H (2018) Characterization of the complete mitochondrial DNA of Theretra japonica and its phylogenetic position within the Sphingidae (Lepidoptera, Sphingidae). ZooKeys 754: 127-139. https://doi.org/10.3897/zookeys.754.23404
Phylogenetic analysis : Explanation note: ML tree constructed based on the cox1 barcodes of genus Theretra using B. mori as outgroups. The asterisk represents the species researched presently.
Supplementary material 6 from: Xi B-W, Zhang D, Li W-X, Yang B-J, Xie J (2018) Characterization of the complete mitochondrial genome of Parabreviscolex niepini Xi et al., 2018 (Cestoda, Caryophyllidea). ZooKeys 783: 97-112. https://doi.org/10.3897/zookeys.783.24674
Figure S3. Amino acid alignment for sites under positive selection for cytb : Explanation note: The positions of each site are denoted on the top. An asterisk * denotes sites with posterior probability value ≥ 0.95 in Bayes Empirical Bayes (BEB) analysis.
Supplementary material 3 from: Xi B-W, Zhang D, Li W-X, Yang B-J, Xie J (2018) Characterization of the complete mitochondrial genome of Parabreviscolex niepini Xi et al., 2018 (Cestoda, Caryophyllidea). ZooKeys 783: 97-112. https://doi.org/10.3897/zookeys.783.24674
Table S3. Nucleotide composition and skewness of different elements of the studied mitochondrial genome :
Supplementary material 5 from: Xi B-W, Zhang D, Li W-X, Yang B-J, Xie J (2018) Characterization of the complete mitochondrial genome of Parabreviscolex niepini Xi et al., 2018 (Cestoda, Caryophyllidea). ZooKeys 783: 97-112. https://doi.org/10.3897/zookeys.783.24674
Figure S2. Relative Synonymous Codon Usage (RSCU) of Parabreviscolexniepini : Explanation note: Codon families are labelled on the x-axis. Values on the top of the bars denote amino acid usage.
Supplementary material 4 from: Xi B-W, Zhang D, Li W-X, Yang B-J, Xie J (2018) Characterization of the complete mitochondrial genome of Parabreviscolex niepini Xi et al., 2018 (Cestoda, Caryophyllidea). ZooKeys 783: 97-112. https://doi.org/10.3897/zookeys.783.24674
Figure S1. Sequence alignment of trnS1 for Parabreviscolexniepini and other cestodes : Explanation note: The position of the anticodon sequences was indicated.
Supplementary material 2 from: Xi B-W, Zhang D, Li W-X, Yang B-J, Xie J (2018) Characterization of the complete mitochondrial genome of Parabreviscolex niepini Xi et al., 2018 (Cestoda, Caryophyllidea). ZooKeys 783: 97-112. https://doi.org/10.3897/zookeys.783.24674
Table S2. The list of cestodes species and outgroups used for comparative mitogenomic and phylogenetic analyses :
Supplementary material 1 from: Xi B-W, Zhang D, Li W-X, Yang B-J, Xie J (2018) Characterization of the complete mitochondrial genome of Parabreviscolex niepini Xi et al., 2018 (Cestoda, Caryophyllidea). ZooKeys 783: 97-112. https://doi.org/10.3897/zookeys.783.24674
Table S1. Primers used to amplify and sequence the mitochondrial genomes of Parabreviscolexniepini :
Structural characterization of the protein-material interfacial interactions by using lysine reactivity profiling-mass spectrometry
<p>The exploration of interfacial molecular interactions of protein-material integrations and how material modulate the protein structure and activity are essential to the safety evaluation of biomedical micro/nanomaterials, toxicity estimation and design of nano-drugs, and catalytic activity improvement of bio-inorganic functional hybrids. However, characterizing the interfacial molecular details of protein-micro/nanomaterial hybrids remains a great challenge. Herein, we introduce the protocol of lysine reactivity profiling-mass spectrometry (LRP-MS) strategy for probing the interfacial molecular structures between proteins and micro/nanomaterials. LRP-MS utilizes lysine residues as the endogenous probes to characterize the protein localization orientation, interaction sequence regions, binding sites, and modulated protein structures in the protein-material hybrids, which cannot be achieved by traditional spectroscopy methods. We describe the optimized heavy and light two-step isotope dimethyl labeling strategy for protein-material hybrids under their native and denaturing conditions in sequence. The comparative quantification results of lysine reactivity (referred as NLE) are only dependent on the native microenvironments of lysine local structures. We also highlight other critical steps including protein digestion, elution from materials, data processing, and interfacial structure analysis. The two-step isotope labeling steps need about 5 h, and the whole protocol including digestion, liquid chromatography-tandem mass spectrometry, data processing, and structure analysis needs about 3-5 days.</p>
Materials Data Science for Microstructural Characterization of Archaeological Concrete
<ul> <li>Ancient Roman concrete: volcanic ash, lime, seawater, and volcanic rocks; </li> <li> <p>Baiae concrete was constructed about 55 BCE to 115 CE, and samples were obtained by the Roman Maritime Concrete Survey (ROMACONS) [12] drilling program from 2002 to 2006, which has been the most comprehensive study of Roman marine concrete. The field program extracted core samples from eleven locations throughout the Mediterranean;</p> </li> <li> <p>Imaging performed at ALS, LBNL.</p> </li> </ul>
Supplementary material 4 from: Wu Y-A, Gao J-W, Cheng X-F, Xie M, Yuan X-P, Liu D, Song R (2020) Characterization and comparative analysis of the complete mitochondrial genome of Azygia hwangtsiyui Tsin, 1933 (Digenea), the first for a member of the family Azygiidae. ZooKeys 945: 1-16. https://doi.org/10.3897/zookeys.945.49681
Figure S1
Supplementary material 1 from: Wu Y-A, Gao J-W, Cheng X-F, Xie M, Yuan X-P, Liu D, Song R (2020) Characterization and comparative analysis of the complete mitochondrial genome of Azygia hwangtsiyui Tsin, 1933 (Digenea), the first for a member of the family Azygiidae. ZooKeys 945: 1-16. https://doi.org/10.3897/zookeys.945.49681
Table S1
ScienceDex guides
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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.