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2,208 results for “coupling”
Coupling and de-coupling of the El Niño Southern Oscillation to the supply of larval fishes to benthic populations in the Hawaiian Islands
<p>Several recent high intensity ENSO events have caused strong negative impacts on the adult phases of foundational species in coral reef ecosystems, but comparatively little is known about how climatic variables related to recent ENSOs are impacting the supply of larvae to benthic populations. In marine fishes and invertebrates, reproductive adults and planktonic larvae are generally more sensitive to environmental variability than older, non-reproductive adults. Further, the transport of larvae in ocean currents may also be strongly ENSO dependent. The interactions between the dynamics of larval survivorship and larval transport could lead to population bottlenecks as stronger ENSO events become more common. We tested the predictions of this hypothesis around the Main Hawaiian Islands (MHI) by constructing a correlation matrix of physical and biological time series variables that spanned 11 years (2007 – 2017) and multiple ENSO events. Our correlation matrix included four types of variables: i. published ENSO indices, ii. satellite-derived sea surface temperature (SST) and chlorophyll variables, iii. abundance and diversity of larval fishes sampled during the late winter spawning season off Oahu, and iv. abundance and diversity of coral reef fish recruits sampled on the western shore of the Big Island of Hawaii. We found that the abundance and diversity of larval fishes was negatively correlated with the Multivariate El Niño Index (MEI), and that larval variables were positively correlated with measures of fall recruitment (September & November), but not correlated with spring-summer recruitment (May & July). In the MHI, SST variables were not correlated with the MEI, but two successive El Niño events of 2014-15 and 2015-2016 were characterized by SST maxima approaching 30 °C. Two large pulses of benthic recruitment occurred in the 2009 and 2014 recruitment seasons, with > 8000 recruits observed by divers over the summer and fall months. Both events were characterized by either neutral or negative MEI indices measured during the preceding winter months. These patterns suggest that La Niña and the neutral phases of the ENSO cycle are generally favorable for adult reproduction and larval development in the spring and summer, while El Niño phases may limit recruitment in the late summer and fall. We hypothesize that episodic recruitment during non-El Niño phases is related to favorable survivorship and transport dynamics that are associated with the formation of pairs of anticyclonic and cyclonic eddies on the leeward sides (western shores) of the Main Hawaiian Islands.</p>
Evolution of Hydromechanical Coupling from Quartz to Shale rich Faults and Implications for Slip stability
<p><span>Fault rock heterogeneity has a dominant effect on frictional and fluid flow properties of faults, yet the study of how fault hydromechanical properties are coupled, evolve with fault fabric and influence slip </span><span>behaviour</span><span> is still in its infancy. Here, we show that the increase in shale content within a quartz-rich experimental fault promotes a fabric ev</span><span>olution from a load-bearing granular framework to an interconnected foliated and clay-rich network. This fabric evolution causes a significant reduction in frictional strength, a marked decrease in permeability, and enhanced frictional stability. Fault sta</span><span>b</span><span>ility is enhanced by fault dilation associated to a reduction in pore fluid pressure within the low permeability, clay-rich faults. Our results indicate that fault rock fabric and associated hydromechanical properties exert a primary control on fault slip </span><span>behaviour</span><span>. The enhanced stability within pressurized clay-rich faults </span><span>matches</span><span> well with observations of aseismic slip during hydraulic stimulations of shales and models proposing dilation strengthening as a mechanism for the occurrence of slow slip events in shale rich sediments at shallow crustal levels. </span></p> <p> </p> <p><span>this repository contains the raw data for all experiments reported in Table 1. </span></p> <p><span>Furthermore, you are able to reproduce each figure by executing the Python code in each .zip file. </span></p> <p><span>For most of the codes you will have to install rawPy that is a specific Python package to manipulate our lab data and can be found at </span></p> <p><span>https://github.com/marcoscuderi/rawPy</span></p> <p><span>for any further request please do not hesitate to contact me at marco.scuderi@uniroma1.it</span></p>
Increased spatial coupling of integrin and collagen IV in the immunoresistant clear-cell renal-cell carcinoma tumor microenvironment - Nanostring CosMx SMI Data
<p>Data export from Nanostring CosMx SMI, directly from Nanostring, in Seurat Object format for use in R. Clear cell renal cell carcinoma and papillary renal cell carcinoma were profiled before and after exposure to immunotherapy, with and without sarcomatoid features in clear cell tumors. Each tumor had a field of view in the stromal compartment and field of view in the tumor compartment.</p> <p>For appropriate clinical information associated with this study, please contact Dr. Brandon Manley.</p>
Northern Hemisphere ice sheets and ocean interactions during the last glacial period in a coupled ice sheet-climate model
<p>This archive provides the GRISLI ice sheet model and iLOVECLIM model outputs as part of the manuscript "Northern Hemisphere ice sheets and ocean interactions during the last glacial period in a coupled ice sheet-climate model".<br><br></p> <p>Contact: louise.abot@locean.ipsl.fr</p>
Processed Data for Short Gianotti et al., "Two Sub-Annual Time-Scales and Coupling Modes for Terrestrial Water and Carbon Cycles" (2024), Global Change Biology.
<p>These files include all data used to create Figures in Short Gianotti et al., "Two Sub-Annual Time-Scales and Coupling Modes for Terrestrial Water and Carbon Cycles" (2024), Global Change Biology. Raw data provenances and methodological processing are cited in the published manuscript.</p> <p>See README file for metadata information.</p>
Datasets and Scripts: Full-length mRNA sequencing uncovers a widespread coupling between transcription and mRNA processing
<p>The multilayered control of gene expression requires tight coordination of regulatory mechanisms at the transcriptional and post-transcriptional level. In this study, we studied the interdependence of transcription, splicing and polyadenylation events on single mRNA molecules by full-length mRNA sequencing. In MCF-7 breast cancer cells and three human tissues, we found an unforeseen number of genes that demonstrate mutually inclusive or exclusive alternative transcription and mRNA processing events, which can span the entire length of mRNA molecules. Furthermore, alternative poly(A) sites that are coupled with alternative splicing events are depleted for known poly(A) signals and enriched for MBNL binding motifs, supporting a dual role of MBNL proteins in regulating splicing and polyadenylation. We predict thousands of open-reading frames from the sequence of full-length mRNAs, allowing for a more sensitive proteogenomics analysis of MCF-7 mass-spectrometry data. Our findings demonstrate that our understanding of transcriptome complexity is far from complete and provides a framework to reveal largely unresolved mechanisms that coordinate transcription and mRNA processing.</p>
Precipitating electron fluxes of the magnetosphere-ionosphere coupling processes
<p>Numerical data for he precipitating electron fluxes, at altitude of 800 km, of the magnetosphere-ionosphere coupling processes, calculated for both Maxwell and Kappa distributions - used in Khazanov et al. (2018), in review.</p>
Data and code for article "Excitonic Emission of Monolayer Semiconductors Near-Field Coupled to High-Q Microresonators"
<p>Data, code and sample fabrication details for article "Excitonic Emission of Monolayer Semiconductors Near-Field Coupled to High-Q Microresonators".</p> <p>The code was tested with Matlab R2015b.</p>
Role of Troposphere-Convection-Land Coupling in the Southwestern Amazon Precipitation Bias of the Community Earth System Model version 1 (CESM1)
<p>Necessary outputs and scripts for recreating the figures for the journal article with the same title.</p>
Dataset for "Role of electron-phonon coupling and thermal expansion on band gaps, carrier mobility, and interfacial offsets in kesterite thin-film solar cells"
<p>Dataset for "Role of electron-phonon coupling and thermal expansion on band gaps, carrier mobility, and interfacial offsets in kesterite thin-film solar cells"</p>
Manipulating azobenzene photoisomerization through strong light-molecule coupling
<p>Deposited data of the Non-adiabatic Dynamics of the cases presented in the paper.<br> <br> The formation of hybrid light-molecule states (polaritons) offers a new strategy to manipulate the photochemistry of molecules. To fully exploit its potential, one needs to build a toolbox of polaritonic phenomenologies that supplement those of standard photochemistry. By means of a state-of-the-art computational photochemistry approach extended to the strong-coupling regime, here we disclose various mechanisms peculiar of polaritonic chemistry: coherent population oscillations between polaritons, quenching by trapping in dead-end polaritonic states and the alteration of the photochemical reaction pathway and quantum yields. We focus on azobenzene photoisomerization, that encompasses the essential features of complex photochemical reactions such as the presence of conical intersections and reaction coordinates involving multiple internal modes. In the strong coupling regime, a polaritonic conical intersection arises and we characterize its role in the photochemical process. Our chemically detailed simulations provide a framework to rationalize how the strong coupling impacts the photochemistry of realistic molecules.</p>
Heterobiaryl synthesis by contractive C–C coupling via P(V) intermediates
<p>This data-set includes the output files of DFT (wB97XD) optimizations and DLPNO-CCSD(T) single-point energy calculations performed as part of the above paper.</p>
Conceptual Coupling Values - Github Projects Dataset
<p>A Dataset that contains conceptual coupling measures obtained on 61 opensource projects hosted in github.The conceptual coupling measure was calculated by 18 diferent ways. A way is called model. There are 299 software major version colected to calculate these values.</p> <p>To understand how each model was applyed, see the label meaning:</p> <ul> <li>Yco: Use code comment</li> <li>Nco: No use code comment</li> <li>Yca: Divide tokens by CamelCase</li> <li>Nca: no divide tokens by CamelCase</li> <li>Ns: no stemming tokens low frequency occurrence</li> <li>Ys: stemming tokens low frequeny occurrence</li> <li>Qth: remove third quantile </li> <li>Qfi: remove first quantile</li> <li>Lsi: Latent Semantic Indexing</li> <li>TFIDF: term frequency - inverse document frequency</li> <li>Naive: Term-Frequency</li> </ul> <p>All projects are from github and developed in the following language:</p> <ul> <li>C++</li> <li>Java</li> <li>Javascript</li> <li>Python</li> <li>Ruby</li> </ul> <p>This dataset also contains the following resources:</p> <ul> <li>Commits between those project versions</li> <li>List of versions used in this study</li> <li>Scripts used in some works</li> </ul>
Data for ''A note on systematic biases in the ocean due to the air-sea flux calculation in coupled models''
<p>Data used to in a JAMES publication.</p> <p> </p> <p>Plotting routines can be found at: https://github.com/RafaelAbel/Coarse_Graining</p> <p>Manuscript DOI: tba</p>
Dataset for: "Evolutionary couplings detect side-chain interactions"
<p>This is the pre-publication dataset for "Evolutionary couplings detect side-chain interactions", a manuscript currently undergoing the review process and posted at bioRxiv (doi.org/10.1101/447409)</p>
Seasonal and Interannual Variability of Areal Extent of the Gulf Hypoxia from a Coupled Physical-Biogeochemical Model: A New Implication for Management Practice
<p>netcdf data and code for JGR manuscript: seasonal and interannual variability of areal extent of the Gulf Hypoxia from a coupled physical-biogeochemical model: A new implication for management practice</p>
Chirally Coupled Nanomagnets
<p>Open access data set for manuscript "Chirally Coupled Nanomagnets<br> Zhaochu Luo1,2*, Trong Phuong Dao1,3, Aleš Hrabec1,2,3, Jaianth Vijayakumar2, Armin Kleibert2, Manuel Baumgartner3, Eugenie Kirk1,2, Jizhai Cui1,2, Tatiana Savchenko2, Gunasheel Krishnaswamy3, Laura Heyderman1,2*, Pietro Gambardella3*."</p>
Raw data for the article: Synthesis of aminyl biradicals by base-induced Csp3-Csp3 coupling of cationic azo dyes
<p>RAW DATA FOR THE ARTICLE</p> <p>TITLE: Synthesis of aminyl biradicals by base-induced Csp3-Csp3 coupling of cationic azo dyes</p> <p>AUTHORS: Yizhu Liu, Paul Varava, Alberto Fabrizio, Leonard Y. M. Eymann, Alexander G. Tskhovrebov, Ophélie Marie Planes,<br> Euro Solari, Farzaneh Fadaei-Tirani, Rosario Scopelliti, Andrzej Sienkiewicz, Clémence Corminboeuf, and Kay Severin</p> <p><br> JOURNAL: Chemical Science 2019</p> <p>DOI: 10.1039/c9sc01502g</p> <p>Names of folders correspond to the compound number in the article.<br> </p>
Reconstruction Movies for "Reconstructing Coupled Atmosphere-Ocean Variability Over the Last Millennium"
<p>Two videos of reconstructed climate fields (1000 - 2000 C.E.) from my doctoral dissertation.</p> <p><strong>production_ccsm4_atm_wProxy.mp4</strong>: A video showing the grand-ensemble mean (taken over Monte-Carlo iterations and ensemble members) spatial field results for the LMR Online reconstruction using the CCSM4-LIM calibration. Fields are centered about the 1000--1850 C.E. mean values. The spatial distribution of the proxy network available for assimilation in each year is provided in the last panel. Fields shown include: 2 m surface air temperature (TAS), 500 hPa geopotential heights (ZG500), precipitation (PR), sea-surface temperature (SST), and sea-level pressure (SLP).</p> <p> </p> <p><strong>production_ccsm4_ocean.mp4:</strong> As in Movie S1, but depicting ocean fields of sea-surface temperature (SST), sea-surface salinity (SSS), 0-700 m ocean heat content (OHC700), and ZOS (Dyn. SSH) along with the outgoing shortwave (RSUT) and longwave (RLUT) for each year. Provided as a separate video for clarity.</p> <p> </p>
ROMS-PISCES coupled implementation for the Marquesas (Run Biosope - Y4)
<p>These data are the average outputs of the ROMS-PISCES implementation (Run Biosope) used in the paper: Raapoto et al. 2019 "Role of iron in the remarkable Marquesas island mass effect" </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.