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ShareScore release 0.9.0
Dataset results
6 results for “NSP16”
SIRAH-CoV2 initiative: NSP16 - NSP10 Complex (PDB id:6W4H)
<p>This dataset contains the trajectory of a 10 microseconds-long coarse-grained molecular dynamics simulation of SARS-CoV2 NSP16 - NSP10 Complex with Zn ions bound (PDB id: 6W4H). Simulations have been performed using the SIRAH force field running with the Amber18 package at the Uruguayan National Center for Supercomputing (ClusterUY) under the conditions reported in <a href="https://pubs.acs.org/doi/10.1021/acs.jctc.9b00006">Machado et al. JCTC 2019</a>, adding 150 mM NaCl according to <a href="https://pubs.acs.org/doi/10.1021/acs.jctc.9b00953">Machado & Pantano JCTC 2020</a>. Zinc ions were parameterized as reported in <a href="https://pubs.acs.org/doi/10.1021/acs.jcim.0c00160">Klein et al. 2020</a>.</p> <p>The file 6W4H_SIRAHcg_rawdata.tar contains all the raw information required to visualize (on VMD), analyze, backmap, and eventually continue the simulations using Amber18 or higher. Step-By-Step tutorials for running, visualizing, and analyzing CG trajectories using <a href="https://academic.oup.com/bioinformatics/article/32/10/1568/1743152">SirahTools</a> can be found at www.sirahff.com.</p> <p>Additionally, the file 6W4H_SIRAHcg_10us_prot_Zn.tar contains only the protein coordinates, while 6W4H_SIRAHcg_10us_prot_Zn_skip10ns.tar contains one frame every 10ns.</p> <p>To take a quick look at the trajectory:</p> <p>1- Untar the file 6W4H_SIRAHcg_10us_prot_Zn_skip10ns.tar</p> <p>2- Open the trajectory on VMD using the command line:</p> <p>vmd 6w4h_SIRAHcg_prot.prmtop 6w4h_SIRAHcg_prot.ncrst 6w4h_SIRAHcg_prot_Zn_10us_skip10ns.nc -e sirah_vmdtk.tcl</p> <p>Note that you can use normal VMD drawing methods as vdw, licorice, etc., and coloring by restype, element, name, etc. </p> <p>This dataset is part of the SIRAH-CoV2 initiative.</p> <p>For further details, please contact Martín Soñora (msonora@pasteur.edu.uy) or Sergio Pantano (spantano@pasteur.edu.uy).</p> <p> </p>
Virtual screening on Nsp16: screening of 1084 compounds in VeroE6-eGFP cells
<p>This report describes the most relevant results of virtually screening the Janssen Pharmaceutica compound collection for potential activity against SARS-CoV-2 Nsp16 and confirmation of potential hits in a VeroE6 cell-based anti-SARS-CoV-2 assay.</p>
Emerging variants of SARS-CoV-2 NSP10 highlight strong and functional conservation of its binding to two non-structural protein, NSP14 and NSP16
<p>The data set contains: (1) topology (prmtop), (2) coordinate files to the run the simulation (3) A plumed.dat file (4) COLVAR and (5) HILLS files; (6) Trajectory (xtc) file and (7) corresponding pdb file. </p> <p>The simulations were run as replicates.</p>
A live attenuated SARS-CoV-2 vaccine constructed by dual inactivation of NSP16 and ORF3a
GEO Series GSE270469. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
SM014 - SARS MA15 wild type, and SARS nsp16 mutant virus infections of C57BL6 mice - A time course
GEO Series GSE49263. Mus musculus. 40 samples. Type: Expression profiling by array.
Comparative Transcriptomic and Molecular Pathway Analyses of HL-CZ Human Pro-Monocytic Cells Expressing SARS-CoV-2 Spike S1, S2, NP, NSP15 and NSP16 Genes
GEO Series GSE171080. Homo sapiens. 21 samples. Type: Expression profiling by high throughput sequencing.
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
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DANDI Archive for NWB datasets
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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.