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4,489 results for “transitivity”
Flow-to-fracture transition of linear Maxwell-type vs. yield strength fluids by air injection – implications for magma fracturing
<p>Datasets for Sánchez et al., Flow-to-fracture transition of linear Maxwell-type vs. yield strength fluids by air injection – implications for magma fracturing, accepted on Dec 16, 2022, in Geophysical Research Letters.</p>
Simulation code and results for "Critical behavior and the Kibble-Zurek mechanism in a musical phase transition"
<p>Matlab simulation code and results for "Critical behavior and the Kibble-Zurek mechanism in a musical phase transition."</p> <p>See readme.txt for descriptions of all files.</p>
Nanofocused X-ray beam drives a hydriding phase transition in Pd nanoparticles under electrochemical control
<p>For analysis, see</p> <p>https://github.com/maxiv-science/20200372-analysis</p>
Supplementary Materials for "Temperature field, flow field and temporal fluctuations thereof 2 in ammonothermal growth of bulk GaN – transition from dis-3 solution stage to growth stage conditions"
<p>Video S1: dissolution stage (upper part of nutrient and above), Video S2: 630 dissolution stage (baffle region), Video S3: dissolution stage (top seed), Video S4: dissolution stage 631 (middle seed), Video S5: dissolution stage (bottom seed), Video S6: growth stage (upper part of 632 nutrient and above), Video S7: growth stage (baffle region), Video S8: growth stage (top seed), Video 633 S9: growth stage (middle seed), Video S10: growth stage (bottom seed).</p>
Continuous millisecond conformational cycle of a DEAH box helicase reveals control of domain motions by atomic-scale transitions
<p>Data sets for the manuscript with the title "Continuous millisecond conformational cycle of a DEAH box helicase reveals control of domain motions by atomic-scale transitions".</p> <p>For further information read README</p> <p> </p> <p>Code for the MSM construction in the jupyter notebook file.</p> <p>Trajectories of opening and closing in the Trajectories.zip<br> </p> <p> </p>
Experiments on gravel-sand transitions
<p>Primary data underlying and collected during flume experiments presented in two companion papers by Dingle & Venditti. Runs 1-8 are detailed in the first companion paper (test of wash load deposition) and Runs 9-16 are detailed in the second (grain size gap). Details of each flume run are presented on the first 8 tabs, as well as input and final gravel bed/bedload grain size distributions. Subsequent calculations using these data are also shown in the remaining tabs of each file. Descriptions of each run are included on the first page of each Excel file. Experiments were conducted in the River Dynamics Laboratory at Simon Fraser University between 2019-2021 by E. Dingle, and were supported through an NSERC Discovery grant & Accelerator Supplement awarded to J Venditti. </p>
Spatial separation of spin currents in transition metal dichalcogenides
<p>Code and data from the manuscript "Spatial separation of spin currents in transition metal dichalcogenides"</p>
Quadrupole transitions and quantum gates protected by continuous dynamic decoupling data
<p>Experimental and theoretical data for the creation of the Figures in the article: Quadrupole transitions and quantum gates protected by continuous dynamic decoupling</p>
Observation of entanglement transition of pseudo-random mixed states
<p>Experimental data in the manuscript "Observation of entanglement transition of pseudo-random mixed states".</p>
Dataset from: Resolving marine–freshwater transitions by diatoms through a fog of gene tree discordance
<p>This repository contains the datasets, code, and results for:</p> <p>Roberts et al. Resolving marine-freshwater transitions by diatoms through a fog of gene tree discordance.</p> <p>CONTACT INFORMATION:</p> <p>Andrew J. Alverson<br> University of Arkansas<br> aja [at] uark [dot] edu</p> <p>Wade R. Roberts<br> University of Arkansas<br> wader [at] uark [dot] edu</p> <p>TAXON LABEL INFORMATION:</p> <p>Genomes have strain ID before genus_species (e.g., CCMP332_Cyclotella_cryptica)<br> Transcriptomes have genus_species before strain ID (e.g., Cyclotella_nana_AJA048-54)</p> <p><br> DATA AND DIRECTORY OVERVIEW:</p> <p>Voucher images of diatom strains collected:</p> <ul> <li>voucher-images.tgz</li> </ul> <p>OrthoFinder output:</p> <ul> <li>orthofinder.zip</li> </ul> <p>Predicted proteomes and coding sequences for each strain:</p> <ul> <li>proteomes.zip</li> <li>coding-sequences.zip</li> </ul> <p>Workflow for phylogenomic dataset assembly and species tree analyses:</p> <ul> <li>phylogenomic-workflow.html</li> <li>phylogenomic-workflow.md</li> <li>phylogenomic-workflow.pdf</li> </ul> <p>Fasta files, alignments, and gene trees for each ortholog:</p> <ul> <li>datasets.zip</li> </ul> <p>Concatenated alignments, partition models, and estimated species trees:</p> <ul> <li>species-trees.zip</li> <li>species-trees.nexus</li> </ul> <p>Analyses results and code to plot figures:</p> <ul> <li>analyses-and-plots.zip</li> </ul> <p>Additional scripts and miscellaneous files:</p> <ul> <li>scripts-and-misc.zip</li> </ul> <p>Supplemental Materials for publication:</p> <ul> <li>supplemental-materials.zip</li> </ul> <p> </p>
Data for: Coral adaptive capacity insufficient to halt global transition of coral reefs into net erosion under climate change
<p>Projecting the effects of climate change on net reef calcium carbonate production is critical to understanding the future impacts on ecosystem function, but prior estimates have not included corals' natural adaptive capacity to such change. Here we estimate how the ability of symbionts to evolve tolerance to heat stress, or for coral hosts to shuffle to favourable symbionts, and their combination, may influence responses to the combined impacts of ocean warming and acidification under three representative concentration pathway emissions scenarios (RCP2.6, RCP4.5, RCP8.5). We show that symbiont evolution and shuffling both individually and when combined favours persistent positive net reef calcium carbonate production. However, our projections of future net calcium carbonate production under climate change vary both spatially and by RCP. For example, 19–35% of modelled coral reefs are still projected to have net positive net calcium carbonate production by 2050 if symbionts can evolve increased thermal tolerance, depending on the RCP. Without <span>symbiont adaptive capacity,</span> the number of coral reefs with positive net calcium carbonate production drops to 9–13% by 2050. Accounting for both symbiont evolution and shuffling, we project median positive net calcium carbonate production of coral reefs will still occur under low greenhouse emissions (RCP2.6) in the Indian Ocean, and even under moderate emissions (RCP4.5) in the Pacific Ocean. However, adaptive capacity will be insufficient to halt the transition of coral reefs globally into erosion by 2050 under severe emissions scenarios (RCP8.5).</p>
Supplementary data for Yeoman's et al. in review "Waterfowl eggshell refines palaeoenvironmental reconstruction and multi-species niche construction at the Pleistocene-Holocene transition in the Levant"
<p>This upload contains MALDI-TOF mass spectra, averaged from replicates or as single-best spectrum, as .txt files. Data derive from archaeological eggshells samples for the paper "Waterfowl eggshell refines palaeoenvironmental reconstruction and multi-species niche construction at the Pleistocene-Holocene transition in the Levant". </p> <p>Sample preparation:</p> <p>Eggshell was recovered from multiple contexts at Shubayqa 1 and Shubayqa 6 from flotation samples [screened with 1mm mesh]. A sample of 34 eggshell fragments were selected for preliminary analysis across seven excavation contexts. Samples were processed according to Demarchi et al., (2022). Briefly, 10-30 mg of sample were ground to a powder and treated with bleach (NaOCl 12-15% w/v) for 72 hours. Samples were washed thoroughly and demineralised in 0.6M hydrochloridric acid (HCl) prior to filtration with 3000 Da Nanosep micro-ultrafiltration cells. Sulfide bonds were reduced and alkylated using dithiothreitol (1M, aqueous solution) and iodoacetamide (0.5 M, aqueous solution) and the samples were digested in trypsin overnight at 37 °C. Following digestion, peptide digests were purified using C18 Zip-tips according to the manufacturer’s directions, prior to spotting. Samples were analysed in triplicate or duplicate by MALDI-MS (Bruker Microflex MALDI-TOF mass spectrometer).</p>
SnRNA-seq and mRNA hybridization indicate key bud events and LcFT1 and LcTFL1-2 mRNA transportability during floral transition in litchi
<p>In flowering plants, floral induction signals intersect at the shoot apex to modulate meristem determinacy and growth form. Herein, we reported a snRNA-seq analysis of litchi apical buds at different developmental stages. A total of 41,641 nuclei expressing 21,402 genes were analyzed, revealing 35 cell clusters corresponding to 12 broad populations. We signature genes associated with floral transition and propose a model that profiles the key events associated with litchi floral meristem identity by analyzing 567 identified floral meristem cells at single-cell resolution. Interestingly, snRNA-seq data indicated that all putative FT and TFL1 genes were not expressed in bud nuclei, but significant expressions of them were detected in bud samples using RT-PCR. Based on the expression patterns and gene silencing results, we highlight the critical role of LcTFL1-2 in inhibiting flowering and propose that LcFT1/LcTFL1-2 expression ratio may determine the success of flower transition. The transport of LcFT1 and LcTFL1-2 mRNA from the leaf to the shoot apical meristem was proposed based on in-situ and dot blot hybridization results. These findings allowed for a more comprehensive understanding of the molecular events that occur during the litchi floral transition, as well as the identification of new regulators.</p>
Figure 1. Cavitary marine nematodes. A in Paraphyly of Marimermithida refines primary routes of transition to parasitism in roundworms
Figure 1. Cavitary marine nematodes. A, Marimermis maritima: 1, live specimens exposed in open host, sea urchin Strongylocentrotus polyacanthus; 2, 3, cephalic end apically and laterally, respectively, scanning electron microphotograph; pharyngeal gland outlets on lips, abundant irregular somatic setae; 4, generalized anterior ends juxtaposed in M. maritima [modified from Tchesunov (1997a)] and Thoracostomopsis barbata (Enoplida: Thoracostomopsidae) [modified from Lorenzen (1994)]. B, Aborjinia sp.: 1, juvenile occupying introvert of Priapulus caudatus (photograph courtesy of Dr A. S. Maiorova, NSCMB FEB RAS); 2, generalized anterior ends juxtaposed in Aborjinia sp. and Leptosomatum sp. (Enoplida: Leptosomatidae); 3, anterior body with two-celled ventral secretory-excretory gland, a distinctive genus feature [redrawn and modified from Miljutin (2003)]. C, Nematimermis enopliƲora: 1, two mature parasitoid individuals within host body of nematode Enoplus communis (Enoplida: Enoplidae); 2, 3, anterior body and head of immature parasitoid retrieved from body cavity of E. communis; 4, 5, anterior and tail regions of mature parasitoid from E. communis; trophosome resorbed, embryos with larval stylet inside egg cases, nested retained exuvia (old moulted cuticles) [all drawings modified from Tchesunov & Spiridonov (1993)]. (See also Fig. S1.) Key: a, amphid; emb ova, embryonated eggs; ep g, epidermal glands; ils, inner labial sensilla; ols + cs, joint crown of outer labial and cephalic setae; paras ind, parasitoid individuals; ph g, pharyngeal glands; ph t, pharyngeal tube; ss, somatic setae; stylet, spear-shaped armature; tr, trophosome; vgc, ventral gland cells.
Figure 2 in Paraphyly of Marimermithida refines primary routes of transition to parasitism in roundworms
Figure 2. Bayesian tree of Nematoda based on concatenated rDNA data. Gene sampling maximizes the available coverage of SSU, 5.8S and LSU genes (accession IDs for each taxon correspond either to individual genes available, full cistrons or eDNA samples). The data covers the three major clades (Enoplia, Dorylaimia and Chromadoria), with extended sampling of marine Enoplia, and a selection of representative host-associations (in bold) for the clades. Parasitism-relevant life traits are mapped as pictograms, explained in the legend and addressed in the following discussion section. Traits apply either to a particular sampled species or more broadly to the subclade it represents (according to general knowledge of typical large subclades). Pictogram series denote the co-occurrence of traits either within subclade or individual life cycle. The habitat is colour-coded to generally typify subclades (e.g. as per Holterman et al., 2019), blue – marine; yellow – brackish/ limnic/terrestrial. Marine animal parasites/associates are listed in dark blue, brackish/limnic/terrestrial in red, while plant parasites/associates are shown in green. Nodes mismatched in BI and ML topologies are unlabelled. Otherwise, labels contain BI posterior probabilities (left) and ML bootstrap support (right). Values <0.7/70 are replaced with dashes (–). Bipartitions with support>0.95/95 dotted (●). BI posterior probabilities are calculated across GTR+Г parameter space in 3 M generations, ML bootstrap support estimated under GTR+F+G16 model in 100 replicates. NCBI accessions appended to taxon names, original sequences and assemblies marked with asterisk (*). Scale bar: substitutions per site. See also Supporting Information, Figure S2 (for an ML tree) and Supporting Information, Table S1 (for details on gene sampling, data origin and accession IDs).
Inferring neutral winds in the ionospheric transition region from AGW-TID observations with the EISCAT VHF radar and the Nordic Meteor Radar Cluster
<p>[Dataset] Inferring neutral winds in the ionospheric transition region from AGW-TID observations with the EISCAT VHF radar and the Nordic Meteor Radar Cluster</p>
FIGURE 12 in Fannia pretiosa-group (Diptera: Fanniidae) from Mexico: six new species from the Mexico Transition Zone and an identification key
FIGURE 12. Fannia grisalesae sp. nov. Male: head, frontal view (A); habitus, dorsal view (B); habitus, lateral view (C); fore tarsi (D); mid leg, anterior view (E); hind leg, anterior view (F). Scale: 1.0 mm.
FIGURE 9 in Fannia pretiosa-group (Diptera: Fanniidae) from Mexico: six new species from the Mexico Transition Zone and an identification key
FIGURE 9. Fannia arcuata. Male: head, frontal view (A); habitus, dorsal view (B); habitus, lateral view (C); fore tarsi (D); mid leg, anterior view (E); hind leg, anterior view (F). Scale: 1.0 mm.
FIGURE 7 in Fannia pretiosa-group (Diptera: Fanniidae) from Mexico: six new species from the Mexico Transition Zone and an identification key
FIGURE 7. Fannia amplitarsis sp. nov. Male: head, frontal view (A); habitus, dorsal view (B); habitus, lateral view (C); fore tarsi (D); mid leg, anterior view (E); hind leg, anterior view (F). Scale: 1.0 mm.
FIGURE 16 in Fannia pretiosa-group (Diptera: Fanniidae) from Mexico: six new species from the Mexico Transition Zone and an identification key
FIGURE 16. Distribution map of Fannia pretiosa-group (sensu Chillcott 1961) species from Mexico. Black lines (borders of Mexico states). Purple region (Sierra Madre del Sur province), yellow region (Sierra Madre Oriental province), red region (Transmexican Volcanic Belt province), orange region (Chiapas Highlands province) (sensu Morrone et al. 2022).
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.