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440 results for “Dynamic Analysis”
Reinforcing Tunnel Network Exploration in Proteins using Gaussian Accelerated Molecular Dynamics (inputs, outputs, analysis)
<ul> <li>00_LinB-Wt.tar.gz - LinB-Wt: contains raw data that are used for analysis, also conatin folder for GaMD testing.</li> </ul> <p> 1. cMD(Classical MD simulation) analysis files :<br> <br> 1. Analysis of catalytic residue’s RMSD, whole protein RMSD and RMSF along with whole protein’s Rg and sasa.<br> 2. Inputs and output files of caver calculations. <br> 3. H-bond raw distance files from all simulations named run1-run5. <br> 4. Distance files used to calculate PCA and cluster analysis.<br> 5. Input files and input structure used to run simulations along with output restart files from each stage of production.<br> <br> 2. GaMD(Gaussian Accelerated MD simulation) analysis files : <br> <br> 1. Analysis of catalytic residue’s RMSD, whole protein RMSD and RMSF along with whole protein’s Rg and sasa.<br> 2. Inputs and output files of caver calculations. <br> 3. H-bond raw distance files from all simulations named run1-run5. <br> 4. Distance files used to calculate PCA and cluster analysis.<br> 5. Input files and input structure used to run simulations along with output restart files from each stage of production.</p> <p> 3. GaMD-testing :</p> <p> 1. Input file of GaMD used to run testing and output gamd.log files for multiple run of σOP 1.2 - 1.4 and σOD 2.5.</p> <p> 4. Initial 200ns cMD simulation files used for cluster analysis :</p> <p> 1. Force field parameters and input coordinates *.inpcrd, parameters *.parm7 and 200ns stripped water and ions simulation in Amber *.nc format<br> 2. Restart files for each stage of the minimization, equilibration and production runs in Amber *.rst format in rst folder.<br> 3. Ouput files from Simulation for each stage of the minimization, equilibration and production runs in Amber *.out format in out folder.</p> <ul> <li>01_LinB-Open.tar.gz - LinB Open mutant: contains raw data that are used for analysis.</li> </ul> <p> 1. cMD(Classical MD simulation) analysis files :<br> <br> 1. Analysis of catalytic residue’s RMSD, whole protein RMSD and RMSF along with whole protein’s Rg and sasa.<br> 2. Inputs and output files of caver calculations. <br> 3. H-bond raw distance files from all simulations named run1-run5. <br> 4. Distance files used to calculate PCA and cluster analysis.<br> 5. Input files and input structure used to run simulations along with output restart files from each stage of production.<br> <br> 2. GaMD(Gaussian Accelerated MD simulation) analysis files : <br> <br> 1. Analysis of catalytic residue’s RMSD, whole protein RMSD and RMSF along with whole protein’s Rg and sasa.<br> 2. Inputs and output files of caver calculations. <br> 3. H-bond raw distance files from all simulations named run1-run5. <br> 4. Distance files used to calculate PCA and cluster analysis.<br> 5. Input files and input structure used to run simulations along with output restart files from each stage of production.</p> <p> 3. Initial 200ns cMD simulation files used for cluster analysis :</p> <p> 1. Force field parameters and input coordinates *.inpcrd, parameters *.parm7 and 200ns stripped water and ions simulation in Amber *.nc format<br> 2. Restart files for each stage of the minimization, equilibration and production runs in Amber *.rst format in rst folder.<br> 3. Ouput files from Simulation for each stage of the minimization, equilibration and production runs in Amber *.out format in out folder.</p> <ul> <li>02_LinB-Closed.tar.gz - LinB Closed mutant: contains raw data that are used for analysis.</li> </ul> <p><br> 1. cMD(Classical MD simulation) analysis files :<br> <br> 1. Analysis of catalytic residue’s RMSD, whole protein RMSD and RMSF along with whole protein’s Rg and sasa.<br> 2. Inputs and output files of caver calculations. <br> 3. H-bond raw distance files from all simulations named run1-run5. <br> 4. Distance files used to calculate PCA and cluster analysis.<br> 5. Input files and input structure used to run simulations along with output restart files from each stage of production.<br> <br> 2. GaMD(Gaussian Accelerated MD simulation) analysis files : <br> <br> 1. Analysis of catalytic residue’s RMSD, whole protein RMSD and RMSF along with whole protein’s Rg and sasa.<br> 2. Inputs and output files of caver calculations. <br> 3. H-bond raw distance files from all simulations named run1-run5. <br> 4. Distance files used to calculate PCA and cluster analysis.<br> 5. Input files and input structure used to run simulations along with output restart files from each stage of production.</p> <p> 3. Initial 200ns cMD simulation files used for cluster analysis :</p> <p> 1. Force field parameters and input coordinates *.inpcrd, parameters *.parm7 and 200ns stripped water and ions simulation in Amber *.nc format<br> 2. Restart files for each stage of the minimization, equilibration and production runs in Amber *.rst format in rst folder.<br> 3. Ouput files from Simulation for each stage of the minimization, equilibration and production runs in Amber *.out format in out folder.</p> <ul> <li>03_TT_analysis.tar.gz - TransportTools: contains config file and all the raw data from all set and subset of reclustered (using in-house python script) caver calculations used for running TT.</li> </ul> <p> 1. Caver input data for comparison between 500ns, 1 us, 2.5 us and 5us between LinB-Wt and it’s mutants.<br> 2. TransportTools log file.<br> 3. Main statistics result of comparative analysis.</p> <ul> <li>04_reweighting.tar.gz: directory contains reweighted .csv files after running in-house reweighting protocol.<br> <br> 1. GaMD log files from each simulation of LinB-Wt and it’s mutants.<br> 2. CSV files from TT result folder.<br> 3. Result *.csv file contained reweighted tunnel properties in folder reweighted_filtered_new.</li> <li>05_caverdock.tar.gz: contains raw data for caverdock calculations uisng 100 best tunnels with four ligands 2-bromoethanol (be), 1,2-dibromoethane (dbe), Bromide ion (br-) and water (h2o).</li> </ul> <p> 1. Top 100 tunnels present in tunnel folder for all three tunnels ST, p1b and p3 with subdirectory containing three variants and four ligand, whichare used for running caverdock.<br> 2. Ligand *.pdbqt file and receptor *.pdbqt are present in each 100 tunnel folder of respective caverdock calculation.<br> 3. Inside each variant and each ligand, there is respective result of migration analysis with energy barrier calculation of respective tunnels *energy_barriers-new.log* and further simplied *.csv files that was used for preparing figure in manuscript.</p> <p> </p>
Dataset for High-throughput combinatorial analysis of the spatiotemporal dynamics of nanoscale lithium metal plating
<p>This is a dataset for the manuscript High-throughput combinatorial analysis of the spatiotemporal dynamics of nanoscale lithium metal plating. This mansucript is currently under peer-review in ACS Nano. </p>
Supplementary Simulation Data for "A contact-based analysis of local energetic frustration dynamics identifies key residues enabling RfaH fold-switch"
<p>Additional simulation data for "A contact-based analysis of local energetic frustration dynamics identifies key residues enabling RfaH fold-switch"</p> <p><strong>Content:</strong></p> <p>'clusters_foldswitch': Contains representative structures in PDB format of the refolding landscape of RfaH using all-atom structure-based models. The QA and QB values indicated in each filename correspond to the fraction of native contacts contain in the representative structure in comparison to the total number of contacts in the structure of the autoinhibited ⍺-folded (A) and active β-folded (B) states of the C-terminal domain of RfaH.</p> <p>'input_one_fs': Contains a trajectory of RfaH refolding from the ⍺-folded to the β-folded state, with each frame contained into a separate PDB file, totalling 400 PDB files. These files can be used with the frustration-based windowing method scripts and Colab notebook made available at https://github.com/pb3lab/RfaH-frustration</p> <p>'input_many_fs': Contains several trajectory of RfaH reversible refolding between the ⍺-folded and β-folded states, with each frame contained into a separate PDB file, totalling 11,999 PDB files. These files can be used with the frustration-based windowing method scripts and Colab notebook made available at https://github.com/pb3lab/RfaH-frustration</p> <p>'output_one_fs': Contains output results from the analysis of local energetic frustration dynamics of the 400 frames contained in 'input_one_fs' using the windowing method available in the Colab notebook at https://github.com/pb3lab/RfaH-frustration.</p> <p>'output_many_fs': Contains output results from the analysis of local energetic frustration dynamics of the 11,999 frames contained in 'input_many_fs' using the windowing method available in the Python script at https://github.com/pb3lab/RfaH-frustration.</p>
Experimental data related to the publication: "In-situ analysis of the effect of residual fcc phase and special grain boundaries on the deformation dynamics in pure cobalt"
<p>The article figures were produced solely from these data sets employing data processing methods described therein. For experimental conditions and naming conventions please refer to the paper.</p> <p><br>1. Deformation data files contained within "deformation_data.zip":</p> <p>The .zip archive contains five files related to five samples of thermally treated cobalt:<br>def_co600.csv<br>def_co800.csv<br>def_co1100.csv<br>def_co1100-10c.csv<br>def_co1100-20c.csv</p> <p>The data were recorded during compression of the above-listed samples at room temperature. </p> <p><br>2. Acoustic emission (AE) data files contained within "AE_data.zip":</p> <p>The .zip archive contains four files related to four samples of thermally treated cobalt:<br>AE_co600.wav<br>AE_co800.wav<br>AE_co1100.wav<br>AE_co1100-20c.wav</p> <p>The AE data were recorded in continuous mode ("data streaming" at 2 MHz) during compression of the above-listed samples at room temperature. </p> <p> </p> <p>3. Electron back-scatter diffraction (EBSD) data files contained within "EBSD_data.zip":</p> <p>The .zip archive contains fifty-three .osc files related to samples of as-drawn and thermally treated cobalt within four folders:<br>0c - as-drawn and annealed samples (i.e. without thermal cycling)<br>10c - annealed samples after thermal cycling of 10 cycles<br>20c - annealed samples after thermal cycling of 20 cycles<br>ex-situ_def - ex-situ EBSD during deformation of selected samples</p> <p>The .osc data files represent EBSD data after clean-up procedures described in detail in the manuscript.</p> <p> </p> <p> </p> <p> </p>
LBM dynamism analysis with MERIC
<p>Lattice Boltzmann method (LBM) application analysis using READEX approach provided by MERIC library. Exhaustive algorithm has been used for state space search.</p> <p>This data has been measured on a single node of TU Dresden Taurus supercomputer powered by two Intel Xeon CPUs E5-2680v3 (codename Haswell). HDEEM system has been used for energy measurement.</p>
Fig. 25 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 25. Scheme of main environmental changes and faunal responses across the Klonk Event and the S–D transition carbon isotope excursion (SIDECIE) in the Dnistrove succession. Sea−level pattern after Walliser (1996: fig. 1; see other sea−level curves in Haq and Schutter 2008: fig. 2; Brett et al. 2009: fig. 20; Johnson 2010: fig. 1; Munnecke et al. 2010: fig. 2); for discussion of differently recorded eustasy, as well as climatic setting see Buggisch and Joachimski (2006) and Małkowski and Racki (2009). Shades of gray denote two slices of the SIDECIE.
Fig. 24 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 24. Scheme of main environmental changes and faunal responses across the Ireviken Event and early Sheinwoodian carbon isotope excursion (ESCIE) in the Kytayhorod succession. Overall eustatic pattern and climatic events compiled from Johnson (2010: fig. 2; see other sea−level curves in Lüning et al. 2000: fig. 9; Cramer and Saltzman 2007: fig. 5; Brett et al. 2009: fig. 20; Ray and Butcher 2010: fig. 1) and Lehnert et al. (2010: figs. 1–3), respectively. Regional bathymetric curve modified from Koren et al. (1989: fig. 1). Note a distinctive discrepancy of the both sea−level patterns in some intervals, probably mostly controlled by regional epeirogenic activity in the Podolian shelf domain. Shades of gray denote three slices of the ESCIE.
Fig. 23. Faunal dynamics through the Klonk Event and S–D in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 23. Faunal dynamics through the Klonk Event and S–D transition carbon isotope excursion (SIDECIE) at Dnistrove. Shades of gray denote two slices of the SIDECIE.
Fig. 22 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 22. Stereoscan microphotographs of selected Chitinozoa from the Dnistrove section. A, H. Calpichitina aff. gregaria Paris and Křiž, 1984. A. Single specimen in oblique lateral view, ZPAL Ch. 8/159S117, sample V−15. H. Vesicles aggregated in cluster, ZPAL Ch. 8/161S101, sample V−13. B. Calpichitina velata (Wrona, 1980), ZPAL Ch 8/160S53, sample V−27. C. Pterochitina sp., ZPAL Ch. 8/152S099, sample V−28. D. Vinnalochitina pilosa (Wrona, 1980), ZPAL Ch 8/159S054, sample V−27. E–F. Vinnalochitina cf. suchomastyensis Paris and Laufeld, 1981. E. ZPAL Ch 8/152S054, sample V−25. F. ZPAL Ch 8/152S107, sample V−27. G, K–N. Urnochitina urna (Eisenack, 1934). G. ZPAL Ch 8/160S55, sample V−09. K. Specimen with wide copula and operculum attached, ZPAL Ch 8/160S102, sample V−10. L. Detail of aboral part showing operculum attachment, ZPAL Ch 8/160S85, sample V−10. M. Chain of three closely similar vesicles, ZPAL Ch 8/161S112, sample V−13. N. Two marginal vesicles of a chain, showing small terminal vesicle, ZPAL Ch 8/161S104, sample V−15. I. Cingulochitina ex. gr. ervensis (Paris, 1979), Chain of four vesicles, ZPAL Ch 8/159S094, sample V−27. J. Margachitina catenaria Obut, 1973, Chain of three vesicles, ZPAL Ch 8/159S094, sample V−27. O–Q. Eisenackitina barrandei Paris and Křiž, 1984. O. ZPAL Ch 8/161S001, sample V−04. P. ZPAL Ch 8/152S017, sample V−05. Q. ZPAL Ch 8/152S058, sample V−13. R. Ramochitina cf. longispina (Wrona, 1980), ZPAL Ch 8/172S077, sample V−03. S. Ancyrochitina cf. aurita Wrona, 1980, ZPAL Ch 8/159Y02, sample V−27. T–V. Anthochitina ex. gr. superba Eisenack, 1971. T. ZPAL Ch 8/152S056, sample V−25. U. ZPAL Ch 8/159S042, sample V−25. V. ZPAL Ch 8/159S082, sample V−25. W. Angochitina sp., ZPAL Ch 8/159S160, sample V−13. X. Eisenackitina sp., ZPAL Ch 8/160S54, sample V−03. Y. Eisenackitina bohemica (Eisenack, 1934), ZPAL Ch 8/159S127, sample V−23. Scale bars 50 µm.
Fig. 7 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 7. Stratigraphical distribution of the Al−normalized abundance for selected major and trace elements as well as Al2O3 and TOC contents (wt. %) and the U/Th ratio (for redox thresholds see Racka et al. 2010) from the Kytayhorod section (see SOM 2). Thicker vertical lines indicate level of the ratios for average limestone after Wedepohl (1971, 1991). Approximated proxy values, resulted from the content of Mo below the detection levels, are asterisked. Shades of gray denote three slices of the ESCIE.
Fig. 11 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 11. Lowermost Wenlock lithologic and faunal succession at Kytayhorod, against the key brachiopod assemblages (see Fig. 10) and a representative micritic microfacies of the Restiv Beds, i.e., bioturbated skeletal wackestone to packstone with shelly bioclasts, crinoids, and trilobites (compare Fig. 5). Note onset of the carbon isotope excursion (ESCIE) before the ending of Ireviken Event.
Fig. 21 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 21. Distribution of chitinozoans species, diversity, and ecological indices through the S–D boundary beds in the Dnistrove section. Shades of gray denote two slices of the SIDECIE.
Fig. 8 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 8. Secular trends of δ13C and δ18O values in carbonate and organic matter, Δ13C and total organic carbon from section 64 near Dnistrove village (see SOM 3). Two slices S−1 to S−3 (marked by shades of grey) denote of the Silurian–Devonian transition carbon isotope excursion (SIDECIE): the interval S−3 corresponds to the isotopic highstand; S−2 to the increasing curve segment, and S−1 to the regional background. Lithology after Nikiforova et al. (1972: fig. 82), modified. Note that the Klonk biotic event (crossed band) is associated roughly with the final positive shift (S−2) and initial highstand (S−3) δ13C curve slices; its lower event boundary corresponds to a collapse of carbonate production and chitinozoan crisis near the base of Dnistrove Level, and the upper boundary is questionably placed below an acme level of brachiopod and conodont faunas (see Figs. 4 and 23).
Fig. 15 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 15. Conodont and graptolite distribution in the Kytayhorod section. Numbers near the ovals are numbers of specimens in the sample. Shades of gray denote three slices of the ESCIE.
Fig. 1 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 1. Schematic compilation of positive δ13C excursions and global events in the Late Ordovician to Early Devonian interval (adapted from Stricanne et al. 2006: fig. 1; for more refined composite isotopic curve see Cramer et al. 2011a: fig. 3; for discussion of the Silurian timescale see Cramer et al. 2011b and Melchin et al. 2012). Abbreviations: Dev., Devonian; ESCIE, early Sheinwoodian carbon isotope excursion; SIDECIE, Silurian–Devonian carbon isotope excursion.
Fig. 18 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 18. Faunal dynamics across the Ireviken Event and early Sheinwoodian carbon isotope excursion (ESCIE) in the Kytayhorod section. Shades of gray denote three slices of the ESCIE.
Fig. 10 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 10. Distribution of brachiopod species, diversity, and ecological indices through the Kytayhorod Horizon in Kytayhorod section. Dominating species are marked with thicker lines. Shades of gray denote three slices of the ESCIE.
Fig. 19 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 19. Distribution of brachiopod species, diversity, and ecological indices through the S–D passage beds at Dnistrove. Dominating species marked with thicker lines. Shades of gray denote two slices of the SIDECIE.
Fig. 14. Silurian brachiopods from the Kytayhorod section. A. Meristina bilobata Modzalevskaya, 1980 in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 14. Silurian brachiopods from the Kytayhorod section. A. Meristina bilobata Modzalevskaya, 1980, ZPAL Bp 71/24, shell in dorsal (A1), ventral (A2), lateral (A3), posterior (A4), and anterior (A5) views; Demshyn beds, sample D2. B. Meristina incrassata Modzalevskaya, 1980, ZPAL Bp 71/25, shell in dorsal (B1), ventral (B2), lateral (B3), posterior (B4), and anterior (B5) views; Maryanivka beds, sample M1. C. Meristina podolica (Nikiforova, 1954), ZPAL Bp 71/26, shell in dorsal (C1), ventral (C2), lateral (C3), posterior (C4), and anterior (C5) views; upper part of the Restiv beds. D. Glassia elongata Davidson, 1881, ZPAL Bp 71/27, shell in dorsal (D1), ventral (D2), lateral (D3), posterior (D4), and anterior (D5) views; Restiv beds, 0.8 m above sample R−1. E. Howellella globosa Tsegelnyuk, 1976, ZPAL Bp 71/28, in dorsal (E1), ventral (E2), lateral (E3), posterior (E4), and anterior (E5) views; lower part of the Maryanivka beds. F. Eospirifer radiatus (Sowerby, 1834), ZPAL Bp 71/29, slightly incomplete shell in dorsal (F1), ventral (F2), lateral (F3), posterior (F4), and anterior (F5) views; Demshyn beds. Scale bars 2 mm.
Fig. 13. Silurian brachiopods from the Kytayhorod section. A in Faunal dynamics across the Silurian-Devonian positive isotope excursions (δ C, δ O) in Podolia, Ukraine: Comparative analysis of the Ireviken and Klonk events
Fig. 13. Silurian brachiopods from the Kytayhorod section. A. Plagiorhycha depressa (Sowerby, 1839), ZPAL Bp 71/16, shell in dorsal (A1), ventral (A2), lateral (A3), posterior (A4), and anterior (A5) views; Restiv beds, sample R1. B, C. Atrypina barrandii (Davidson, 1848), ZPAL Bp 71/17 (B), ZPAL Bp 71/18 (C), two shells in dorsal (B1, C1), ventral (B2, C2), lateral (B3, C3), posterior (B4, C4), and anterior (B5, C5) views; upper part of the Restiv beds (B) and upper part of the Demshyn beds (C). D. Plectatrypa imbricata (Sowerby, 1839), ZPAL Bp 71/19, shell in dorsal (D1), ventral (D2), lateral (D3), posterior (D4), and anterior (D5) views; Demshyn beds, sample D1. E. Oglupes sp., ZPAL Bp 71/20, shell with partially preserved frills in ventral view; Restiv beds, sample R2. F. Sphaerirhynchia aff. wilsoni (Sowerby, 1816), ZPAL Bp 71/21, complete shell in dorsal (F1), ventral (F2), lateral (F3), posterior (F4), and anterior (F5) views; Demshyn beds. G. Antirhynchonella linguifera (Sowerby, 1839), ZPAL Bp 71/22, large shell in dorsal (G1), ventral (G2), lateral (G3), posterior (G4), and anterior (G5) views; lower part of the Maryanivka beds. H. Atrypa sp., ZPAL Bp 71/23, shell in dorsal (H1), ventral (H2), lateral (H3), posterior (H4), and anterior (H5) views; Demshyn beds. Scale bars 2 mm.
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.