Find research datasets worth reusing

opencc-by-4.0Jun 2022View details →

Data set of manuscript entiteld Sigma Oscillations Protect or Reinstate Motor Memory Depending on their Temporal Coordination with Slow Waves

Data set of manuscript entiteld Sigma Oscillations Protect or Reinstate Motor Memory Depending on their Temporal Coordination with Slow Waves EEG files : Brainvision *.dat; *.edf : eeg files of the experimental nap  *.vhdr: corresponding header files *.vmrk: corresponding marker files time starting from recording sample *._Pauselog.txt: markers with condition in the stimulation computer time Sleep Scores:  Scores by the sleep technician (one file per participants).  Surveys: General survey (first screening) and complete survey (for inclusion). Code correspondance is provided in ID_correspondance.txt BehavData: For each participant, a text file with all the cues and responses logged for each tasks. *_raw.txt are present when an issue arised during experiment and a task needed to be re-started.

dryad40/100

Data for the manuscript: Demographic basis of spatially structured fluctuations in a threespine stickleback metapopulation

Uncovering the demographic basis of population fluctuations is a central goal of population biology. This is particularly challenging for spatially structured populations, which require disentangling synchrony in demographic rates from coupling via immigration. In this study, we fit a stage-structured metapopulation model to a 29-year times series of threespine stickleback abundance in the heterogeneous and productive Lake Myvatn, Iceland. The lake comprises two basins (North and South) connected by a channel through which the stickleback disperse. The model includes time-varying demographic rates, allowing us to assess the potential contributions of recruitment and survival, spatial coupling via immigration, and demographic transience to the population's large fluctuations in abundance. Our analyses indicate that recruitment was only modestly synchronized between the two basins, whereas survival probabilities of adults were more strongly synchronized, contributing to cyclic fluctuations in the lake-wide population size with a period of approximately six years. The analyses further show that the two basins are coupled through immigration, with the North Basin subsidizing the South Basin and playing a dominant role in driving the lake-wide dynamics. Our results show that cyclic fluctuations of a metapopulation can be explained in terms of the combined effects of synchronized demographic rates and spatial coupling.

opencc-zeroJun 2022View details →

opencc-by-4.0Sep 2021View details →

Data associated with the manuscript "Simple statistical models can be sufficient for testing hypotheses with population time series data"

This is a revised version of the archive of R code and data used in the manuscript, Simple statistical models can be sufficient for testing hypotheses with population time series data. The data are in three files. etodata1.csv and etodata2.csv contain two versions of the same data for shoal-dwelling fishes in the Etowah River and associated environmental covariates. knz_dat contains data for small mammals collected in the Konza Prairie Biological Station and associated environmental covariates. The R code consists of four primary files that call nine auxiliary files. CaseStudy1-main_code and CaseStudy2-main_code are the primary files for running the two case studies. Simulations1 and Simulations2 are the files for running the two batteries of simulations. We thank the Konza Prairie Biological Station and Konza Prairie Long-Term Ecological Research Program supported by the National Science Foundation (DEB-1440484) for collecting and providing access to mammal community data. More details are in the manuscript and supporting information.

YALTAi: Segmonto Manuscript and Early Printed Book Dataset

This dataset has been built to train a segmentation model. It contains ALTO and YOLOv5 formats This dataset is derived from: <ul> <li>CREMMA Medieval ( Pinche, A. (2022). Cremma Medieval (Version Bicerin 1.1.0) [Data set]. https://github.com/HTR-United/cremma-medieval )</li> <li>CREMMA Medieval Lat (Clérice, T. and Vlachou-Efstathiou, M. (2022). Cremma Medieval Latin [Data set]. https://github.com/HTR-United/cremma-medieval-lat )</li> <li>Eutyches. (Vlachou-Efstathiou, M. Voss.Lat.O.41 - Eutyches "de uerbo" glossed [Data set]. https://github.com/malamatenia/Eutyches)</li> <li>Gallicorpora HTR-Incunable-15e-Siecle ( Pinche, A., Gabay, S., Leroy, N., & Christensen, K. Données HTR incunable du 15e siècle [Computer software]. https://github.com/Gallicorpora/HTR-incunable-15e-siecle )</li> <li>Gallicorpora HTR-MSS-15e-Siecle ( Pinche, A., Gabay, S., Leroy, N., & Christensen, K. Données HTR manuscrits du 15e siècle [Computer software]. https://github.com/Gallicorpora/HTR-MSS-15e-Siecle )</li> <li>Gallicorpora HTR-imprime-gothique-16e-siecle ( Pinche, A., Gabay, S., Vlachou-Efstathiou, M., & Christensen, K. HTR-imprime-gothique-16e-siecle [Computer software]. https://github.com/Gallicorpora/HTR-imprime-gothique-16e-siecle )</li> </ul> + a few hundred newly annotated data, specifically the test set which is completely novel and based on early prints and manuscripts.   <table> <tbody> <tr> <td>Dataset</td> <td>Number of images</td> </tr> <tr> <td>Train</td> <td>854</td> </tr> <tr> <td>Dev</td> <td>154</td> </tr> <tr> <td>Test</td> <td>139</td> </tr> </tbody> </table>

Code and Additional Files for the Manuscript "The Impact of Farming Practices on Resistance to Critically Important Antimicrobials in ESBL or AmpC-producing Escherichia coli in Thailand"

These scripts were used in the"The Impact of Farming Practices on Resistance to Critically Important Antimicrobials in ESBL or AmpC-producing Escherichia coli in Thailand" manuscript. The scripts are ordered for ease of use. It also contains intermediate files and files necessary for the mapping. Table S1 containing the metadata is available in the supplementary information of the manuscript.

opencc-by-4.0Mar 2022View details →

Data for Manuscript Geographic variation in thermo-hydroregulation biology Chabaud-et-al-2022

Data on Zootoca vivipara louislantzi populations in France on morphology and ecophysiological traits linked to water balance and thermoregulation

Dataset for the manuscript "Crowding results from optimal integration of visual targets with contextual information"

There are seven experimental datasets, two program with which data are collected, two supplemetary programs needed to run the main code and one program to analyse data. Two .txt files are included, where we describe how to use the stimulation and analysis programs.

Data used in a manuscript entitled "Large ensemble simulation for investigating predictability of precursor vortices of Typhoon Faxai in 2019 with a 14-km mesh global nonhydrostatic atmospheric model" submitted to Geophysical Research Letters

This include a dataset used in a manuscript entitled “Large ensemble simulation for investigating predictability of precursor vortices of Typhoon Faxai in 2019 with a 14-km mesh global nonhydrostatic atmospheric model” by Yamada and co-authors, which is submitted to Geophysical Research Letters. Contact: Yohei Yamada (yoheiy@jamstec.go.jp)

opencc-by-4.0Aug 2022View details →

Data for manuscript "rMATS-turbo: an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq data"

Output files generated by rMATS-turbo for the two example datasets described in the manuscript titled "rMATS-turbo: an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq data". <table> <tbody> <tr> <td>File</td> <td>Description</td> <td>Cell lines</td> <td>BioProject</td> </tr> <tr> <td>PC3E-GS689.tar.gz</td> <td>Compressed folder containing all 36 rMATS-turbo output files for Example 1 described in the manuscript</td> <td>PC3E and GS689 cell lines</td> <td>PRJNA438990</td> </tr> <tr> <td>CCLE.tar.gz</td> <td>Compressed folder containing all 36 rMATS-turbo output files for Example 2 described in the manuscript</td> <td>1,019 CCLE human cancer cell lines</td> <td>PRJNA523380</td> </tr> </tbody> </table> A detailed description of the output files is available in the manuscript and the rMATS-turbo software GitHub repository (https://github.com/Xinglab/rmats-turbo).

opencc-by-4.0Aug 2022View details →

Data for the manuscript: Planning for climate migration in Great Lake Legacy Cities

Our analysis for the manuscript, "Planning for climate migration in Great Lake Legacy Cities" uses county level spatial data from the FEMA National Risk Index (USFEMA, 2021) and the CDC SVI ranking system (ATSDR, 2018) in the form of shapefiles(.shp). To create the geovisualization, we used boundaries of the Great Lakes that are published here https://www.glc.org/greatlakesgis. All analysis was conducted using R (2020), with code that can be found here: https://derekvanberkel.github.io/Planning-for-climate-migration-in-Great-Lake-Legacy-Cities/   ATSDR. (2018). Cdc/atsdr social vulnerability index. https://www.atsdr.cdc.gov/placeandhealth/svi/fact sheet/fact sheet.html. USGCRP. (2018). Impacts, risks, and adaptation in the united states: Fourth national climate assessment. US Global Change Research Program.

opencc-by-4.0Feb 2022View details →

Supporting data for manuscript describing Slice and Dice method to measure NMR relaxation with nested experiments

This is a supporting dataset for the manuscript "Slice and Dice: Nested Spin-lattice Relaxation Measurements" by W. Trent Franks, Jacqueline Tognetti and Józef R. Lewandowski. <ul> <li>NMR_data.zip : Raw NMR data in the Bruker format for the experiments presented in the manuscript. The file expands to a directory called "Raw NMR Data" that contains: <ul> <li>ReadMe_NMR_data.txt - describing the datasets included in the file.</li> <li>Record 1: 13C\(^\alpha\) individual experiment. Pulse program name: hRCH_CT1</li> <li>Record 2: 13C' individual experiment. Pulse program name: hCOcaH_SP_T1</li> <li>Record 3: 15N individual experiment. Pulse program name: hRNH_NT1b</li> <li>Record 10: 13C\(^\alpha\) + 13C' + 15N Slice & Dice experiment. Pulse program name: hR[COca,Ca,N]Ha_T10818 corresponding to the final sequence: hR[N,COca,Ca]HR_T1</li> </ul> </li> <li>Pulse_program.zip: The pulse program and include file for the Slice and Dice experiment described in the manuscript. The pulse program in Bruker format (war.hR[COca,Ca,N]H_T1 - this is a text file that can be opened with any text editor) was tested on a Bruker Avance III HD console. Both the pulse program file, war.hR[COca,Ca,N]H_T1, and include file, HCN_defs.incl, need to be placed in the pulse program directory (/opt/topspinXX/exp/stan/nmr/lists/pp/user where XX is replaced with the version of Topspin). The file expands to a directory "Pulse_program_incl" that contains: <ul> <li>war.hR[COca,Ca,N]H_T1 - pulse program</li> <li>HCN_defs.incl - include file</li> <li>ReadMe_SliceDice_pp.txt - details on how to set up the experiment.</li> </ul> </li> <li>HowToProcessSliceAndDice.pdf : Instructions on how to process Slice and Dice experiment in Topspin.</li> <li>MultiR1list.zip: A program written in Python 3 required to calculate delay lists for the nested experiment to be included in the pulse program. The file expands to a directory MultiT1list directory that contains: <ul> <li>MultiT1list.py - the program</li> <li>ReadMe_MultiT1list.txt - instructions on how to use the program</li> </ul> </li> <li>SNDProcguide.py.zip: A program written in Python 2 (SNDProcguideV2.py), which generates macro for processing and sorting 2D planes in Topspin. The script also provides some tips on setting parameters for different 2Ds and sorted lists of relaxation delays. Example output of the script is also included. The parameters in the script are set for the supplied example data.</li> <li>HowToProcess.mp4 - a video working through an example of processing Slice and Dice data.</li> </ul>

Nonvolatile Electric-Field Control of Inversion Symmetry: Manuscript Data

<ul> <li>Relevant Raw Data files for Main Text Figures of "Nonvolatile Electric-Field Control of Inversion Symmetry."</li> <li> Relaxation input and output files of the polar & antipolar phases (including structure .cif files) and the input and output files of the DOS calculation from Main Text Fig. 3 </li> </ul>

Pre-processed ex vivo MRI data for manuscript titled "Neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy prior to onset of motor symptoms""

Repository for ex vivo magnetic resonance imaging data from the project titled "Presymptomatic neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy" Contains the pre-processed ex vivo T1-weighted images (Bruker 7T; 70 micron isotropic voxel resolution) for M83 alpha-synuclein A53T hemizygous mice that received either a phosphate buffered saline (PBS) or alpha-synuclein pre-formed fibrils (PFF) injection in the right dorsal striatum. Full subject list can be viewed with the "subject_list.csv" file. More details are available in the manuscript.

Data for manuscript "Long-term variation in the quasi-five-day wave in the top layer of Venus clouds"

The dataset contain the derived cloud motions from Akatsuki LIR level3c and the corrected LIR level3c brightness temperature.  The data of each figure used for drawing are also contained.

Data published in manuscript "Highest methane concentrations in an Arctic River linked to local terrestrial inputs"

This data is published in the manuscript: Castro-Morales, K., Canning, A., Arzberger, S., Overholt, W.A., Küsel, K., Kolle, O., Göckede, M., Zimov, N. and Körtzinger, A. (2022). Highest methane concentrations in an Arctic River linked to local terrestrial inputs. Biogeosciences. XX, XXX-XXX. https://doi.org/10.5194/bg-XX-XXX-2022. The data contains the water properties, the dissolved gas concentrations and flux densities at 1-min resolution corresponding to two transects in the Kolyma River main channel and two tributaries (Ambolikha and Leonid). The data was collected between 15 and 17 June, 2019. This folder contains four data files and the file "README_Data_access_Castro-Morales_etal_CH4_Kolyma_River.txt" provides more details on the data.

Raw data accompanying the manuscript "Cost-effective high-speed, three-dimensional live-cell imaging of HIV-1 transfer at the T cell virological synapse"

These are the raw datasets used to generate the figures for the manuscript entitled "Cost-effective high-speed, three-dimensional live-cell imaging of HIV-1 transfer at the T cell virological synapse". The data files are 3D image stacks of a custom-built wide field deconvolution fluorescence microscope (.tif) and super-resolution structured illumination microscopy data (.dv) of Jurkat T cells transferring HIV-1 virus particles to previously uninfected primary T cells.

opencc-by-4.0Mar 2022View details →

MS data linked to the manuscript : DOI: 10.3390/pharmaceutics14030616

Data set containing Extract_E_Chevalieri_EtOAc_DCM .raw file of the  LC-MS/MS acquisition.

opencc-by-4.0Mar 2022View details →

MS data linked to the manuscript : DOI: 10.3390/pharmaceutics14030616

Data set containing Extract_E_Chevalieri_EtOAc_DCM .raw file of the  LC-MS/MS acquisition.

Data associated to the manuscript "Co-Ion Desorption as the Main Charging Mechanism in Metallic 1T-MoS2 Supercapacitors"

Supporting data for the article: Co-Ion Desorption as the Main Charging Mechanism in Metallic 1T-MoS2 Supercapacitors Sheng Bi, Salanne Mathieu, ACS Nano, 2022 https://pubs.acs.org/doi/10.1021/acsnano.2c07272 The folders slab  and slit contain typical MetalWalls input files used to perform the simulations for two electrode geometries.