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Dataset results
175 results for “Single-molecule”
Data for Single-Molecule Tip-Enhanced Raman Spectroscopy of C60 on the Si(111)-(7×7) Surface
<p>Data for Single-Molecule Tip-Enhanced Raman Spectroscopy of C60 on the Si(111)-(7×7) Surface</p>
Single-molecule source data files
<p>This data archive contains single-molecule source data for "Delayed inhibition mechanism for secondary channel factor regulation of ribosomal RNA transcription" by Sarah K. Stumper, Harini Ravi, Larry J. Friedman, Rachel Anne Mooney, Ivan R. Corrêa, Jr., Anne Gershenson, Robert Landick, and Jeff Gelles.</p> <p>The data archive (doi: 10.5281/zenodo.2530159) provides files for each figure and figure supplement. The files are ‘intervals’ files readable by the imscroll program (<a href="https://github.com/gelles-brandeis/CoSMoS_Analysis">https://github.com/gelles-brandeis/CoSMoS_Analysis</a>).</p>
Single-molecule source data files
<p>This data archive contains single-molecule source data for "A Conserved Mcm4 Motif is Required for Mcm2-7 Double-hexamer Formation and Origin DNA Unwinding" by Kanokwan Champasa, Caitlin Blank, Larry J. Friedman, Jeff Gelles, and Stephen P. Bell.</p> <p>The data archive (doi: 10.5281/zenodo.2556799) provides files for figure 5 and 6. The ‘intervals’ files are readable by the imscroll program (<a href="https://github.com/gelles-brandeis/CoSMoS_Analysis">https://github.com/gelles-brandeis/CoSMoS_Analysis</a>).</p>
Systematic assessment of burst impurity in confocal-based single-molecule fluorescence detection using Brownian motion simulations - raw figures of all quantities from all simulations
<p>We performed many simulations in many conditions, calculated many quantities and reported them in the main paper. However, the journal manuscript did not place for so many figures. Nevertheless, the reported values of all simulations rely on the results that were also summarized in the figures. These figures were produced by the Jupyter notebooks analyzing the simulation results.</p> <p>Each figure file has the following nomenclature:</p> <p>TypeOfFigure_concentration_diffusionCoefficient_1or2pop_simulationDuration(long)_Type of PSF.</p> <p>For example:</p> <p><em>molecule_positions_pure_and_impure_bursts_varying_F_C62_D22_5_psfNumeric</em> - report on the molecular position histograms of pure and impure bursts for varying F values, in the simulation with C=62pM, D=22.5 um^2/s, a NUmerical PSF model and 60s duration of simulation (if nothing appears, it was 60s; if the word <em>long</em> appears, it was 180s).</p>
Experimental data supporting the paper "Fluorescence from a single-molecule probe directly attached to a plasmonic STM tip"
<p>Experimental STM, STS and STML data studying the fluorescent behaviour of a PTCDA molecule attached to the metallic apex of a scanning tunneling microscope.</p> <p> </p> <p>Treated source data of all Figures included in the publication.</p>
Single-molecule analysis of transcription activation: dynamics of SAGA co-activator recruitment
<p>Source data for:</p> <p><strong>Single-molecule analysis of transcription activation: dynamics of SAGA co-activator recruitment</strong></p> <p><strong> </strong></p> <p>Jongcheol Jeon<sup>1</sup>, Larry J. Friedman<sup>2</sup>, Daniel H. Zhou<sup>2</sup>, Hogyu David Seo<sup>1</sup>, Oluwatobi A. Adeleke<sup>3</sup>, Bria Graham<sup>3</sup>, Emily F. Patteson<sup>3</sup>, Jeff Gelles<sup>2</sup>*, and Stephen Buratowski<sup>1,</sup>*</p> <p> </p> <p><sup>1</sup>Department of Biological Chemistry and Molecular Pharmacology,</p> <p>Harvard Medical School, Boston, MA 02115</p> <p><sup>2</sup> Department of Biochemistry, Brandeis University, Waltham, MA 02454</p> <p><sup>3</sup> EpiCypher Inc., Durham NC 27709</p> <p> </p> <p>*Corresponding authors</p> <p>Lead author contact information:</p> <p><a href="mailto:steveb@hms.harvard.edu">steveb@hms.harvard.edu</a></p> <p> </p> <p> </p> <p>The source data for the single molecule experiments are provided as "intervals" files and "CoSMoS parameters", which can be read and manipulated using the publicly available programs "Imscroll" and "Tapqir", respectively:</p> <p><a href="https://github.com/gelles-brandeis/CoSMoS_Analysis">https://github.com/gelles-brandeis/CoSMoS_Analysis</a></p> <p><a href="https://github.com/gelles-brandeis/tapqir">https://github.com/gelles-brandeis/tapqir</a></p>
Probing DNA - transcription factor interactions using single-molecule fluorescence detection in nanofluidic devices
<p>Readme.txt, 16.07.2021<br> Fontana et al.<br> “Probing DNA - transcription factor interactions using single-molecule fluorescence detection in nanofluidic devices”</p> <p>pre-print: https://doi.org/10.1101/2021.05.12.443786 (BioRxiv)</p> <p>The repository contains the raw data ("*.tif") files, data from subsequent analysis steps performed in Matlab ("*.mat") and obtained histograms.</p> <p>For further information, please contact<br> dr. Johannes Hohlbein @ Wageningen University & Research<br> (johannes.hohlbein@wur.nl)</p>
Single-molecule datasets for Slitflow tutorials
<p>Datasets used in tutorials on Slitflow, a Python framework for single-molecule dynamics and localization analysis. For more information see https://slitflow.readthedocs.io</p>
Data supporting "COMBI-Tweez: high-precision single-molecule mechanical manipulation and imaging for dynamic chiral biopolymers"
<p>Experimental data for our paper on COMBI-Tweez</p>
single-molecule measurements of nucleotides
<p>Current-time profiles of 4 nucleotides measured with a nanogap electrode fabricated using MCBJ.</p>
Dataset to Carbon nanotube field-effect transistor for resolving single-molecule aptamer-ligand binding kinetics
<p>Raw data of single molecular field effect transistor data from recordings of aptamer serotonin interactions.</p>
Data from: Free-energy changes of bacteriorhodopsin point mutants measured by single-molecule force spectroscopy
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Structural dynamics of DNA strand break sensing by PARP-1 at a single-molecule level
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Single-molecule tracking of Nodal and Lefty in live zebrafish embryos supports hindered diffusion model
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Example single molecule tracking data from: A high-throughput platform for single-molecule tracking identifies drug interaction and cellular mechanisms
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Raw data associated with the article: "Single-molecule DNA sequencing of widely varying GC-content using nucleotide release, capture and detection in microdroplets.", NAR, Puchtler et.al.
<p>All data taken in the production of the corresponding paper: "Single-molecule DNA sequencing of widely varying GC-content using nucleotide release, capture and detection in microdroplets."</p> <p>The associated manuscript describes a method for DNA sequencing which involves the sequential release of nucleotides from a single, immobilised strand of DNA via pyrophosphorolysis (PPL). Released nucleotides, in the form of dNTPs, are captured in microdroplets which are manipulated using an optical-EWOD platform. A detection chemistry within each droplet releases a specific dye depending on which dNTPs are present, allowing the optical read-out of bases within each droplet. Hence, by capturing bases sequentially within droplets as they are cleaved from the strand of DNA, the sequence can be optically identified.</p>
Deep learning-assisted single-molecule detection of protein post-translational modifications with a biological nanopore
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Source Data for "Atomic-Precision Control of Plasmon-Induced Single-Molecule Switching in a Metal-Semiconductor Nanojunction" and Supplementary Information
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Single-molecule two- and three-colour FRET studies reveal a hidden transition state in SNARE disassembly by NSF
<p>Raw Data for the NC manuscript</p>
Data for: Orbital-resolved visualization of single-molecule photocurrent channels
<p>Data for: Orbital-resolved visualization of single-molecule photocurrent channels</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)
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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.