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829 results for “Evolvability”
Data from: How mechanisms of habitat preference evolve and promote divergence with gene flow
Habitat preference may promote adaptive divergence and speciation, yet the conditions under which this is likely are insufficiently explored. We use individual-based simulations to study the evolution and consequence of habitat preference during divergence with gene flow, considering four different underlying genetically-based behavioral mechanisms: natal habitat imprinting, phenotype-dependent, competition-dependent, and direct genetic habitat preference. We find that the evolution of habitat preference generally requires initially high dispersal, is facilitated by asymmetry in population sizes between habitats, and is hindered by an increasing number of underlying genetic loci. Moreover, the probability of habitat preference to emerge and promote divergence differs greatly among the underlying mechanisms. Natal habitat imprinting evolves most easily and can allow full divergence in parameter ranges where no divergence is possible in the absence of habitat preference. The reason is that imprinting represents a one-allele mechanism of assortative mating linking dispersal behavior very effectively to local selection. At the other extreme, direct genetic habitat preference, a two-allele mechanism, evolves under restricted conditions only, and even then facilitates divergence weakly. Overall, our results indicate that habitat preference can be a strong reproductive barrier promoting divergence with gene flow, but that this is highly contingent on the underlying preference mechanism.
View of an Evolving Pandemic: Changes in the Relationship between Clinical Cases and Levels of SARS-CoV-2 RNA in Colorado Wastewater
<p>This repository contains datasets utilized in the research paper titled "View of an Evolving Pandemic: Changes in the Relationship between Clinical Cases and Levels of SARS-CoV-2 RNA in Colorado Wastewater," published in ACS ES&T Water. The datasets include SARS-CoV-2 wastewater monitoring data alongside COVID caseload data for 23 locations in Colorado over a 22-month period.</p>
The Dusty Evolved Star Kit (DESK) model grids
<p>The library of model grids used by the <a href="https://github.com/s-goldman/Dusty-Evolved-Star-Kit">Dusty Evolved Star Kit (DESK)</a>. Model shapes and fluxes are in Wm<sup>-2</sup>, and all models assume no distance except for the GRAMS models which assume a distance of 50 kpc. More details on the model grids can be found in the package <a href="https://dusty-evolved-star-kit.readthedocs.io/en/latest/grids.html">documentation</a>.</p>
Evolving geometries, topologies, and apertures in fracture networks: Quantitative insights from lattice modeling
<p>Fracture networks are crucial in controlling rock mass permeability. Some of the important features of the fracture networks like the density, interconnectivity, spatial distribution, and fracture apertures determine the success of the subsurface operations. Fracture networks can be studied with analogue studies, physical experiments, and numerical modeling. In this study, we analyse the evolution of a two-dimensional fracture network under gravitational and shear loads using the lattice modeling capabilities of the microstructural modeling environment “Elle”. The simulation cases include varying gravitational loads and Young’s moduli of the formations. The topological progression of the modeled fracture network from isolated to interconnected nodes depicts a realistic network evolution process. The study shows that the rock stiffness exhibits a direct correlation with the number of fractures influencing the average aperture size of the network. A higher gravity load resulted in the development of a sparse fracture network. Stiffer rock models also showed an early onset of fracturing.</p>
Diversely evolved xibalbin variants from remipede venom inhibit 3 potassium channels and activate PKA-II and Erk1/2 signalling
<p><span><strong>Background:</strong> </span><span>The identification of novel toxins from overlooked and taxonomically exceptional species bears potential for various pharmacological applications. The remipede <em>Xibalbanus tulumensis</em>, an underwater cave-dwelling crustacean, is the only crustacean for which a venom system has been described. Its venom contains several xibalbin peptides that have an inhibitor cysteine knot (ICK) scaffold.</span></p> <p><strong><span>Result:</span></strong><span><strong> </strong>Our screenings revealed that all tested xibalbin variants particularly inhibit potassium channels. Xib<sub>1</sub> and xib<sub>13</sub>, with their eight-cysteine domain similar to spider knottins also inhibit voltage-gated sodium channels. No activity was noted on calcium channels. Expanding the functional testing we demonstrate that xib<sub>1</sub> and xib<sub>13</sub> increase PKA-II and Erk1/2 sensitization signaling in nociceptive neurons, which may initiate pain sensitization. Our phylogenetic analysis suggests that xib<sub>13</sub> either originates from the common ancestor of pancrustaceans or earlier while xib<sub>1</sub> is more restricted to remipedes. The ten-cysteine scaffolded xib<sub>2</sub> emerged from xib<sub>1</sub>, a result that is supported by our phylogenetic and machine learning-based analyses.</span></p> <p><strong><span>Conclusions</span></strong><span><strong>: </strong>Our functional characterization of synthesized variants of xib<sub>1</sub>, xib<sub>2</sub>, and xib<sub>13</sub> elucidates their potential as inhibitors of potassium channels in mammalian systems. The specific interaction of xib<sub>2</sub> with Kv1.6 channels, which are relevant to treating variants of epilepsy, shows potential for further studies. At higher concentrations, xib1 and xib13 activate the kinases PKA-II and ERK1/2 in mammalian sensory neurons, suggesting pain sensitization and potential applications related to pain research and therapy. While tested insect channels suggest that all probably act as neurotoxins, the biological function of xib<sub>1</sub>, xib<sub>2,</sub> and xib<sub>13</sub> requires further elucidation. A novel finding on their evolutionary origin is the apparent emergence of </span><em><span>X. tulumensis</span></em><span>-specific xib<sub>2</sub> from xib<sub>1</sub>. Our study is an important cornerstone for future studies to untangle the origin and function of these enigmatic proteins as important components of remipede but also other pancrustacean and arthropod venoms.</span></p>
Tidal Dissipation in Evolved Low and Intermediate Mass Stars
<p>MESA inlist files used for the simulations presented in the paper "Tidal Dissipation in Evolved Low and Intermediate Mass Stars" by Mats Esseldeurs, Stéphane Mathis, and Leen Decin. The inlist files are used to run the MESA stellar evolution code release-r23.05.1 and MESA-SDK version 21.4.1.</p> <p>In addition to the inlist files, the tidal Love numbers for the equilibrium and dynamical tide are provided in the .h5 (HDF5) files. An example on how to make the images in the paper with these files is given in the Equilibrium.py file.</p> <p>This study was done in collaboration between the KU Leuven and the CEA Paris-Saclay. M. Esseldeurs and L. Decin acknowledge support from the FWO grants G099720N and G0B3823N, the KU Leuven C1 excellence grant MAESTRO C16/17/007 and the KU Leuven IDN grant ESCHER IDN/19/028. S. Mathis acknowledges support from the PLATO CNES grant at CEA/DAp, from the Programme National de Planétologie (PNP-CNRS/INSU) and from the European Research Council through HORIZON ERC SyG Grant 4D-STAR 101071505. While partially funded by the European Union, views and opinions expressed are however those of the author only and do not necessarily reflect those of the European Union or the European Research Council. Neither the European Union nor the granting authority can be held responsible for them.</p>
Data from: Phenotypic variation across the first steps of experimentally evolved multicellularity.
<p>This BBC_2024__README.txt file was generated on 2024-07-15 by Beatriz Baselga Cervera</p> <p>GENERAL INFORMATION</p> <p>1. Title of Dataset and code: Data from: Phenotypic variation across the first steps of experimentally evolved multicellularity.</p> <p>2. Author Information</p> <p> Corresponding Investigator</p> <p> Name: Dr Beatriz Baselga-Cervera</p> <p> Institution: University of Minnesota Twin cities, Minnesota, US.</p> <p> Email: <a href="mailto:bbaselga@umn.edu">bbaselga@umn.edu</a>; beabaselga@gmail.com</p> <p> Co-investigator 1</p> <p> Name: Dr Noah Gettle</p> <p> Institution: Wellcome Sanger Institute, Hinxton, UK</p> <p> Email: noah.gettle@sanger.ac.uk</p> <p> Co-investigator 2</p> <p> Name: Dr Michael Travisano</p> <p> Institution: University of Minnesota Twin cities, Minnesota, US.</p> <p> Email:travisan@umn.edu</p> <p> </p> <p>4.Data collector: Dr Beatriz Baselga-Cervera</p> <p> </p> <p>5. Date of data collection: 2021-2022</p> <p> </p> <p>6. Geographic location of data collection: Saint Paul, US</p> <p> </p> <p>5. Funding sources that supported the collection of the data: Fundación Alfonso Martín Escudero, Madrid, Spain.</p> <p> </p> <p>6. Recommended citation for this dataset: Baselga-Cervera et al. (2024), Data from: Phenotypic variation across the first steps of experimentally evolved multicellularity. Zenodo. Data set.</p> <p>DATA & FILE OVERVIEW</p> <p> </p> <p>1. Description of dataset</p> <p>In this study, we study the genotype to phenotype map that provides the basis for the diverse morphologies and unique adaptations observed in nascent multicellularity carried over from their unicellular ancestors under high and low nutrient availability conditions. We carried out a NetLogo agent-based model simulation of the multicellular snowflake yeast growth. Populations characterization was conducted with a Coulter Counter multisize 4 and FlowCam 3. The populations studied were the genetically uniform diploid wild-type <em>Saccharomyces cerevisiae</em> Y55 strain clones, C1W8.1 and C1W8.2 multicellular evolved strains, constructed ACE2 gene knockouts, and strains containing the missense mutation (ACE2 c.1934 A>T). The population data represent the six independent isolates per strain in two different media, YPD and SD.</p> <p>2. File list:</p> <ul> <li>NetLogo Agent Base model: </li> <ul> <li>File 1 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Netlogo%20Snowflake%203D.nlogo3d?versionId=6fc2e8c0-02be-4956-875e-b4e48dd37163">Netlogo Snowflake 3D.nlogo3d</a> </li> </ul> </ul> <p> File 1 Description: Netlogo code for the 3D model/</p> <ul> <ul> <li>File name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Data_NETLOGO_model.csv?versionId=bb3e52cd-aac2-4f3e-a395-40a4995a1192">Data_NETLOGO_model.csv</a> </li> </ul> </ul> <p> File 2 Description: Data obtained from the Netlogo model.</p> <ul> <li>Coulter Counter size distribution data of all the populations: </li> <ul> <li>File 3 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Counter_Counter_Raw_data.xls?versionId=389afe4d-46c3-4569-92cb-ea73355a4ed7">Counter_Counter_Raw_data.xls</a></li> <li>File 3 description: Data from <em>Saccharomyces cerevisiae</em> Y55 strain clones, C1W8.1 and C1W8.2 multicellular evolved strains, constructed ACE2 gene knockouts, and strains containing the missense mutation (ACE2 c.1934 A>T) in YPD and SD at 24h growth. </li> <li>File 4 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Coulter_Counter_Raw_data_heterozygous_contructions.xlsx?versionId=e1fa6610-3f88-414c-b07a-03cc11b913e4">Coulter_Counter_Raw_data_heterozygous_contructions</a></li> <li>File 4 description: Size distributions of the heterozygous construct knockout (ACE2/<em>ace</em>2Δ) and homozygous missense (ACE2/<em>ace2Δ</em>) in YPD and SD at 24h growth. </li> </ul> <li>FlowCam image data:</li> <ul> <li>File 5 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/FlowCamPicturesData.zip?versionId=1e80636d-3022-4feb-828e-bc9552fef091">FlowCamPicturesData.zip</a></li> <li>File 5 description: Pictures generated by the FlowCam.</li> <li>File 6 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Flow_Cam_Raw%20data.xls?versionId=efd469dc-66f9-4504-8de3-f96c74f07f38">Flow_Cam_Raw data.xls</a></li> <li>File 6 desciption: FlowCam data from <em>Saccharomyces cerevisiae</em> Y55 strain clones, C1W8.1 and C1W8.2 multicellular evolved strains, constructed ACE2 gene knockouts, and strains containing the missense mutation (ACE2 c.1934 A>T) in YPD and SD at 24h growth. </li> </ul> <li>Data generated statistically:</li> <ul> <li>File 7 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/bootstrapped_means.csv?versionId=48184a51-e3b5-407d-8ce1-ecdf5d7e1c99">bootstrapped_means.csv</a></li> <li>File 7 description: bootstrapped means from the Coulter Counter data to calculate the relative contributions to phenotypic variation.</li> <li>File 8 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/bootstrapped_vars.csv?versionId=3ff5b6aa-6644-4264-8a6b-448c8a733689">bootstrapped_vars.csv</a></li> <li>File 8 description: bootstrapped variance from the Coulter Counter data to calculate the phenotypic noise.</li> <li>File 9 name: overlapPairs_values.xlsx </li> <li>File 9 description: overlapping indexes (η) of the KDE distributions were computed using the R-package ‘overlapping’ from the Coulter Counter data.</li> </ul> <li>R codes for data generated statistically:</li> <ul> <li>File 10 name: <a href="Code%20for%20bootstrapping.docx">R_code_bootstrapping.docx</a></li> <li>File 10 description: R code to obtain bootstrapped means and variance from the <a>Counter_Counter_Raw_data.xls</a> data to calculate the relative contributions to phenotypic variation.</li> <li>File 11 name: <a href="R%20code%20Overlap%20KDE%20distributions%20from%20the%20Coulter%20Counter%20data.docx">R_code_Overlap_KDE_distributions_from _the_Coulter_Counter_data</a></li> <li>File 11 description: R code to obtain overlapping indexes (η) of the Kernel density estimations (KDE) distributions from <a>Counter_Counter_Raw_data.xls</a></li> </ul> <li>R codes for figures:</li> <ul> <li>File 12 name: R_code_Fig2.docx</li> <li>File 12 description: R code for Figure 2 panels B and C. Panels are created from <a>Data_NETLOGO_model.csv</a>.</li> <li>File 13 name: R_code_Fig3.docx</li> <li>File 13 description: R code for Figure 3 panels A to E. Panels are created from <a>Counter_Counter_Raw_data.xls</a></li> <li>File 13 name: R_code_Fig4.docx</li> <li>File 13 description: R code for Figure 4, data from <a>Counter_Counter_Raw_data.xls</a></li> <li>File 14 name: R_code_FigS1.docx</li> <li>File 14 description: R code for Figure S1. Raw data from <a>Data_NETLOGO_model.csv</a> </li> <li>File 15 name: R_code_FigS2.docx</li> <li>File 15 description: R code for Figure S2. Raw data from <a>Counter_Counter_Raw_data.xls</a></li> <li>File 16 name: R_code_FigS3.docx</li> <li>File 16 description: R code for Figure S3. Raw data from <a>Coulter_Counter_Raw_data_heterozygous_contructions</a>.xlsx</li> <li>File 16 name: R_code_FigS4.docx</li> <li>File 16 description: R code for Figure S4. Raw data from <a>Counter_Counter_Raw_data.xls</a></li> </ul> </ul> <p> </p> <p>METHODOLOGICAL INFORMATION</p> <p>Strains: ancestral wildtype (Y55 strains), C1W8.1 and C1W8.2 multicellular derived strains isolated after 60 days of selection in YPD media, constructed ACE2 gene knockouts, and strains containing the ACE2 missense mutation (ACE2 c.1934 A>T).</p> <p>Media: Growth media used in this study were Yeast Peptone Dextrose media (YPD; 1% (v/w) yeast extract, 2% (v/w) peptone, 2% (v/w) D-glucose, pH 5.8) and Standard minimal (SD; Yeast nitrogen base with amino acids (YNB w/AA) 6.7 g L-1, 0.5% (v/w) D-glucose).</p> <p>Phenotypic characterization of the different strains was conducted in a Coulter Counter Multisizer 4 and FlowCam® 3.0 Fluid Imaging Technologies. Replicate populations of different individual isolates per strain were analyzed to obtain the population distributions in both YPD and SD media.</p> <p>Agent Base Model data was generated in Netlogo (https://ccl.northwestern.edu/netlogo/).</p> <p> </p> <p>3. Detailed description</p> <ul> <li>NetLogo Agent Base model: </li> <ul> <li>File 1 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Netlogo%20Snowflake%203D.nlogo3d?versionId=6fc2e8c0-02be-4956-875e-b4e48dd37163">Netlogo Snowflake 3D.nlogo3d</a> </li> </ul> </ul> <p>o File 1 Description: Netlogo code for the 3D model.</p> <p>o File name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Data_NETLOGO_model.csv?versionId=bb3e52cd-aac2-4f3e-a395-40a4995a1192">Data_NETLOGO_model.csv</a> </p> <p>o File 2 Description: Data obtained from the Netlogo model.</p> <p>§ Page 1: Agent Base Model data generated with Netlogo.</p> <pre> Column 1: run number</pre> <pre> Column 2: size-of-turtle(cells)</pre> <p> Column 3: [step]</p> <p> Column 4: N</p> <p> Column 5: ticks(generations)</p> <pre> Column 6:distance-turtle(cells)</pre> <p> Column 7: diameter cells</p> <p> Column 8: radius cells</p> <p> Column 9: diameter cluster</p> <p> Column 10: radius cluster</p> <p> Column 11: volume</p> <p> Column 12: SAVr (surface area/volume ratio)</p> <p> Column 13: packing</p> <p> Column 14: Ratio</p> <ul> <li>Coulter Counter size distribution data of all the populations: </li> <ul> <li>File 3 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Counter_Counter_Raw_data.xls?versionId=389afe4d-46c3-4569-92cb-ea73355a4ed7">Counter_Counter_Raw_data.xls</a></li> <li>File 3 description: Data from <em>Saccharomyces cerevisiae</em> Y55 strain clones, C1W8.1 and C1W8.2 multicellular evolved strains, constructed ACE2 gene knockouts, and strains containing the missense mutation (ACE2 c.1934 A>T) in YPD and SD at 24h growth. </li> </ul> </ul> <p>§ Page 1: Coulter Coulter data runs at 24h</p> <p> Column 1: Volumen (um3)</p> <p> Column 2: Diameter (um2)</p> <p>Column 3: ace2Δ _k_1_SD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate one is SD media.</p> <p>Column 4: ace2Δ _k_1_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate one is YPD media.</p> <p>Column 5: ace2Δ _k_2_SD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate two is SD media.</p> <p>Column 6: ace2Δ _k_2_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate two is YPD media.</p> <p>Column 7: ace2Δ _k_3_SD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate three is SD media.</p> <p>Column 8: ace2Δ _k_3_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate three is YPD media.</p> <p>Column 9: ace2Δ _k_4_SD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate four is SD media.</p> <p>Column 10: ace2Δ _k_4_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate four is YPD media.</p> <p>Column 11: ace2Δ _k_5_SD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate five is SD media.</p> <p>Column 12: ace2Δ _k_5_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate one is YPD media.</p> <p>Column 13: ace2Δ _k_6_SD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate five is SD media.</p> <p>Column 14: ace2Δ _k_6_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate five is YPD media.</p> <p>Column 15: ace2Δ _m_1_SD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate one is SD media.</p> <p>Column 16: ace2Δ _m_1_YPD. Homozygous ACE2 knockout construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate one is YPD media.</p> <p>Column 17: ace2Δ _m_2_SD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate two is SD media.</p> <p>Column 18: ace2Δ _m_2_YPD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate two is YPD media.</p> <p>Column 19: ace2Δ _m_3_SD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate three is SD media.</p> <p>Column 20: ace2Δ _m_3_YPD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate three is YPD media.</p> <p>Column 21: ace2Δ _m_4_SD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate four is SD media.</p> <p>Column 22: ace2Δ _m_4_YPD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate four is YPD media.</p> <p>Column 23: ace2Δ _m_5_SD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate five is SD media.</p> <p>Column 24: ace2Δ _m_5_YPD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate one is YPD media.</p> <p>Column 25: ace2Δ _m_6_SD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate five is SD media.</p> <p>Column 26: ace2Δ _m_6_YPD. Homozygous ACE2 missense construct (<em>ace2Δ</em> /<em>ace2Δ</em>) isolate five is YPD media.</p> <p>Column 27: C1W8.1 _m_1_SD. C1W8.1 evolved strain isolate one is SD media.</p> <p>Column 28: C1W8.1 _m_1_YPD. C1W8.1 evolved strain isolate one is YPD media.</p> <p>Column 29: C1W8.1 _m_2_SD. C1W8.1 evolved strain isolate two is SD media.</p> <p>Column 30: C1W8.1 _m_2_YPD. C1W8.1 evolved strain isolate two is YPD media.</p> <p>Column 31: C1W8.1 _m_3_SD. C1W8.1 evolved strain isolate three is SD media.</p> <p>Column 32: C1W8.1 _m_3_YPD. C1W8.1 evolved strain isolate three is YPD media.</p> <p>Column 33: C1W8.1 _m_4_SD. C1W8.1 evolved strain isolate four is SD media.</p> <p>Column 34: C1W8.1 _m_4_YPD. C1W8.1 evolved strain isolate four is YPD media.</p> <p>Column 35: C1W8.1 _m_5_SD. C1W8.1 evolved strain isolate five is SD media.</p> <p>Column 36: C1W8.1 _m_5_YPD. C1W8.1 evolved strain isolate five is YPD media.</p> <p>Column 37: C1W8.1 _m_6_SD. C1W8.1 evolved strain isolate six is SD media.</p> <p>Column 38: C1W8.1 _m_6_YPD. C1W8.1 evolved strain isolate sic is YPD media.</p> <p>Column 39: C1W8.2 _m_1_SD. C1W8.2 evolved strain isolate one is SD media.</p> <p>Column 40: C1W8.2 _m_1_YPD. C1W8.2 evolved strain isolate one is YPD media.</p> <p>Column 41: C1W8.2 _m_2_SD. C1W8.2 evolved strain isolate two is SD media.</p> <p>Column 42: C1W8.2 _m_2_YPD. C1W8.2 evolved strain isolate two is YPD media.</p> <p>Column 43: C1W8.2 _m_3_SD. C1W8.2 evolved strain isolate three is SD media.</p> <p>Column 44: C1W8.2 _m_3_YPD. C1W8.2 evolved strain isolate three is YPD media.</p> <p>Column 45: C1W8.2 _m_4_SD. C1W8.2 evolved strain isolate four is SD media.</p> <p>Column 46: C1W8.2 _m_4_YPD. C1W8.2 evolved strain isolate four is YPD media.</p> <p>Column 47: C1W8.2 _m_5_SD. C1W8.2 evolved strain isolate five is SD media.</p> <p>Column 48: C1W8.2 _m_5_YPD. C1W8.2 evolved strain isolate five is YPD media.</p> <p>Column 49: C1W8.2 _m_6_SD. C1W8.2 evolved strain isolate six is SD media.</p> <p>Column 50: C1W8.2 _m_6_YPD. C1W8.2 evolved strain isolate sic is YPD media.</p> <p>Column 51: Y55_1_SD. Y55 ancestral strain isolate one is SD media.</p> <p>Column 52: Y55_1_SD. Y55 ancestral strain isolate one is YPD media.</p> <p>Column 53: Y55_2_SD. Y55 ancestral strain isolate two is SD media.</p> <p>Column 54 Y55_2_SD. Y55 ancestral strain isolate two is YPD media.</p> <p>Column 55: Y55_3_SD. Y55 ancestral strain isolate three is SD media.</p> <p>Column 56: Y55_3_SD. Y55 ancestral strain isolate three is YPD media.</p> <p>Column 57: Y55_4_SD. Y55 ancestral strain isolate four is SD media.</p> <p>Column 58: Y55_4_SD. Y55 ancestral strain isolate four is YPD media.</p> <p>Column 59: Y55_5_SD. Y55 ancestral strain isolate five is SD media.</p> <p>Column 60: Y55_5_SD. Y55 ancestral strain isolate five is YPD media.</p> <p>Column 61: Y55_6_SD. Y55 ancestral strain isolate six is SD media.</p> <p>Column 62: Y55_6_SD. Y55 ancestral strain isolate sic is YPD media.</p> <p> </p> <p> </p> <p>o File 4 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Coulter_Counter_Raw_data_heterozygous_contructions.xlsx?versionId=e1fa6610-3f88-414c-b07a-03cc11b913e4">Coulter_Counter_Raw_data_heterozygous_contructions</a></p> <ul> <ul> <li>File 4 description: Size distributions of the heterozygote construct knockout (ACE2/<em>ace</em>2Δ) and heterozygous missense construct (ACE2/<em>ace2Δ</em>) in YPD and SD at 24h growth. </li> </ul> </ul> <p>§ Page 1: Coulter Coulter data runs at 24h</p> <p> Column 1: Volumen (um3)</p> <p> Column 2: Diameter (um2)</p> <p>Column 3: ACE2/ace2Δ missense_1_SD. Heterozygous missense construct (ACE2/<em>ace2Δ</em>) isolate one is SD media.</p> <p>Column 4: ACE2/ace2Δ missense_1_YPD. Heterozygous missense construct (ACE2/<em>ace2Δ</em>) isolate one is YPD media.</p> <p>Column 5: ACE2/ace2Δ missense_2_SD. Heterozygous missense construct (ACE2/<em>ace2Δ</em>) isolate two is SD media.</p> <p>Column 6: ACE2/ace2Δ missense_2_YPD. Heterozygous missense construct (ACE2/<em>ace2Δ</em>) isolate two is YPD media.</p> <p>Column 7: ACE2/ace2Δ missense_3_SD. Heterozygous missense construct (ACE2/<em>ace2Δ</em>) isolate three is SD media.</p> <p>Column 8: ACE2/ace2Δ missense_3_YPD. Heterozygous missense construct (ACE2/<em>ace2Δ</em>) isolate three is YPD media.</p> <p>Column 9: ACE2/ace2Δ knockout_1_SD. Heterozygous knockout construct (ACE2/<em>ace2Δ</em>) isolate one is SD media.</p> <p>Column 10: ACE2/ace2Δ knockout _1_YPD. Heterozygous knockout construct (ACE2/<em>ace2Δ</em>) isolate one is YPD media.</p> <p>Column 11: ACE2/ace2Δ knockout _2_SD. Heterozygous knockout construct (ACE2/<em>ace2Δ</em>) isolate two is SD media.</p> <p>Column 12: ACE2/ace2Δ knockout _2_YPD. Heterozygous knockout construct (ACE2/<em>ace2Δ</em>) isolate two is YPD media.</p> <p>Column 13: ACE2/ace2Δ knockout _3_SD. Heterozygous knockout construct (ACE2/<em>ace2Δ</em>) isolate three is SD media.</p> <p>Column 14: ACE2/ace2Δ knockout _3_YPD. Heterozygous knockout construct (ACE2/<em>ace2Δ</em>) isolate three is YPD media.</p> <ul> <li>FlowCam image data:</li> <ul> <li>File 5 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/FlowCamPicturesData.zip?versionId=1e80636d-3022-4feb-828e-bc9552fef091">FlowCamPicturesData.zip</a></li> <li>File 5 description: Pictures generated by the FlowCam.</li> <li>File 6 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/Flow_Cam_Raw%20data.xls?versionId=efd469dc-66f9-4504-8de3-f96c74f07f38">Flow_Cam_Raw data.xls</a></li> <li>File 6 desciption: FlowCam data from <em>Saccharomyces cerevisiae</em> Y55 strain clones, C1W8.1 and C1W8.2 multicellular evolved strains, constructed ACE2 gene knockouts, and strains containing the missense mutation (ACE2 c.1934 A>T) in YPD and SD at 24h growth. </li> </ul> </ul> <p>§ Page 1: FlowCam data runs at 24 hours of Y55 strain.</p> <p> Column 1:Particle ID</p> <p> Column 2: Class. Classification as; single cells and mother-daughter(s).</p> <p> Column 3: Area ABD</p> <p> Column 4: Aspect Ratio (Width/Length)</p> <p> Column 5: Circle Fit</p> <p> Column 6: Area base Diameter (ABD)</p> <p> Column 7: Equivalent Spherical Diameter (ESD)</p> <p> Column 8: Elongation</p> <p> Column 9: Perimeter</p> <p> Column 10: Roughness</p> <p> Column 11: Volume ESD-based</p> <p> Column 12: Width</p> <p> Column 13: Source. Name of the sample.</p> <p> Column 14: Strain Y55.</p> <p> Column 15: media. Values: YPD and SD</p> <p> Column 16: clone. Isolate.</p> <p>§ Page 2: FlowCam data runs at 24 hours of C1W8.1 multicellular strain.</p> <p> Column 1: Particle ID</p> <p> Column 2: Area ABD</p> <p> Column 3: Aspect Ratio (Width/LEngth)</p> <p> Column 4: Circle Fit</p> <p> Column 5: Area base Diameter (ABD)</p> <p> Column 6: Equivalent Spherical Diameter (ESD)</p> <p> Column 7: Elongation</p> <p> Column 8: Perimeter</p> <p> Column 9: Roughness</p> <p> Column 10: Volume ESD-based</p> <p> Column 11: Width</p> <p> Column 12: Source. Name of the sample.</p> <p> Column 13: Strain C1W8.1.</p> <p> Column 14: media. Values: YPD and SD</p> <p> Column 15: clone. Isolate.</p> <p>§ Page 3: FlowCam data runs at 24hours of C1W8.2 multicellular strain.</p> <p> Column 1: Particle ID</p> <p> Column 2: Area ABD</p> <p> Column 3: Aspect Ratio (Width/LEngth)</p> <p> Column 4: Circle Fit</p> <p> Column 5: Area base Diameter (ABD)</p> <p> Column 6: Equivalent Spherical Diameter (ESD)</p> <p> Column 7: Elongation</p> <p> Column 8: Perimeter</p> <p> Column 9: Roughness</p> <p> Column 10: Volume ESD-based</p> <p> Column 11: Width</p> <p> Column 12: Source. Name of the sample.</p> <p> Column 13: Strain C1W8.2.</p> <p> Column 14: media. Values: YPD and SD</p> <p> Column 15: clone. Isolate.</p> <p> </p> <ul> <li>Data generated statistically:</li> <ul> <li>File 7 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/bootstrapped_means.csv?versionId=48184a51-e3b5-407d-8ce1-ecdf5d7e1c99">bootstrapped_means.csv</a></li> <li>File 7 description: bootstrapped means from the Coulter Counter data to calculate the relative contributions to phenotypic variation.</li> </ul> </ul> <p>§ Page 1: Bootstrap mean values.</p> <p> Column 1: row number</p> <p> Column 2: sample. ID of the sample from whom the value was generated.</p> <p> Column 3: diameter_um. Mean diameter (um) values.</p> <ul> <ul> <li>File 8 name: <a href="../api/files/af95c779-dc43-44c4-b833-b44788b6b539/bootstrapped_vars.csv?versionId=3ff5b6aa-6644-4264-8a6b-448c8a733689">bootstrapped_vars.csv</a></li> <li>File 8 description: bootstrapped variance from the Coulter Counter data to calculate the phenotypic noise.</li> </ul> </ul> <p>§ Page 1: Bootstrap variance values.</p> <p> Column 1: row number</p> <p> Column 2: sample. ID of the sample from whom the value was generated.</p> <p> Column 3: diameter_um. Variance in diameter (um) values.</p> <ul> <ul> <li>File 9 name: <code>overlapPairs_values.xlsx</code> </li> <li>File 9 description: overlapping indexes (η) of the KDE distributions were computed using the R-package ‘overlapping’ from the Coulter Counter data.</li> </ul> </ul> <p>§ Page 1: Overlapping indexes (η) of the KDE distributions by strain, media and isolate.</p> <p> Column 1: var1. Population 1.</p> <p> Column 2: var2. Population 2.</p> <p> Column 3: value. Overlap value.</p> <p>§ Page 2: Overlapping indexes (η) of the KDE distributions by strain and media.</p> <p> Column 1: var1. Strain 1.</p> <p> Column 2: var2. Strain 2.</p> <p> Column 3: value. Overlap value.</p> <p> Column 4: media.</p> <p> </p> <p> </p>
Identifying the magnetospheric drivers of giant undulations: Global modeling of the evolving inner magnetosphere and its auroral manifestations
<p>We present the first global geospace simulation to reproduce auroral giant undulations (GUs). To identify their magnetospheric drivers, we employ the MAGE (Multiscale Atmosphere-Geospace Environment) model in a case study of a geomagnetic storm for which there were spacecraft- and ground-based observations of GUs. The model reproduces the spatial and temporal scales of the GUs as well as the presence of duskside subauroral polarization streams (SAPS) and plasmapause undulations. Based on our modeling, we are able to identify the magnetospheric drivers of GUs as mesoscale ring current injections which, after drifting westward, create inverted regions of flux-tube entropy (FTE) and subsequent interchange instability. Outward-protruding interchange fingers disrupt shielding of the inner magnetosphere, creating longitudinally-localized ripples in magnetospheric convection equatorward of the magnetospheric instability, which structure the plasmapause and duskside diffuse precipitation. While not causal, SAPS and plasmapause undulations are a consequence of the unstable magnetospheric configuration.</p>
The Effect of Supplementation With Fish Oil (EPAX EVOLVE 05) on Sperm Quality
ClinicalTrials.gov study NCT06950203. IPD Sharing: YES. Countries: 1. Publications: 0.
Study of Volrustomig in Women With High Risk Locally Advanced Cervical Cancer (eVOLVE-Cervical)
ClinicalTrials.gov study NCT06079671. IPD Sharing: YES. Countries: 19. Publications: 0.
Evaluation of the Next Generation WATCHMAN LAA Closure Technology in Non-Valvular AF Patients (EVOLVE)
ClinicalTrials.gov study NCT01196897. IPD Sharing: Not stated. Countries: 2. Publications: 0.
EVOLVE Study: The Real-life Clinical Practice With Tezepelumab in Greece
ClinicalTrials.gov study NCT06724575. IPD Sharing: YES. Countries: 1. Publications: 0.
Black Men Evolving Behavioral HIV Prevention Intervention for Black MSM
ClinicalTrials.gov study NCT01722838. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Evaluation of Neutrophil Gelatinase-associated Lipocalin (NGAL) in Early and Evolving Acute Kidney Injury
ClinicalTrials.gov study NCT00445809. IPD Sharing: Not stated. Countries: 2. Publications: 0.
EVOLVE-MI: EVOLocumab Very Early After Myocardial Infarction
ClinicalTrials.gov study NCT05284747. IPD Sharing: YES. Countries: 3. Publications: 0.
EVOLVING AZIMUTH IN MUSA CONTEXT
ClinicalTrials.gov study NCT07022067. IPD Sharing: Not stated. Countries: 1. Publications: 0.
How Does the Clinical and Paraclinical Efficacy of an Oral Appliance Evolved According to Propulsion: Control With Each mm of Advancement
ClinicalTrials.gov study NCT05056766. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Preemptive Lung Impedance-Guided Therapy in Evolving Acute Heart Failure in Acute Myocardial Infarction Patients
ClinicalTrials.gov study NCT01616121. IPD Sharing: Not stated. Countries: 1. Publications: 0.
The Effect of Sildenafil in Preterm Infants With Evolving Chronic Lung Disease
ClinicalTrials.gov study NCT00431418. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Preemptive Lung Impedance-guided Therapy of Evolving Acute Heart Failure in Acute Myocardial Infarction Patients
ClinicalTrials.gov study NCT01264159. IPD Sharing: Not stated. Countries: 1. Publications: 0.
ScienceDex guides
Understand access before you commit
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.