cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9514262
title: Raw Data- Revised

description: Raw data for creep testing and the thermoelectric properties measurement
DOI: 10.6084/m9.figshare.9505415
title: Data.zip

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data in the northern South China Sea.Yang, Y., Wang, D., Wang, Q., Zeng, L., et al.(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans
DOI: 10.25375/uct.9505409
title: Microsatellite data for HiP lions

description: Supplementary material for "Genetic rescue of an isolated African lion population" published in Conservation Genetics.<br>Raw microsatellite data for lions (Panthera leo) in Hluhluwe-iMfolozi Park (HiP), KZN, South Africa. Lions were sampled from three populations: 1. original HiP lions; 2. lions that were translocated into the population in a genetic rescue effort in 1999-2001; 3. lions post-genetic rescue collected between 2009 - 2014.<br><br><br><br>
DOI: 10.6084/m9.figshare.9505415.v1
title: Data.zip

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data in the northern South China Sea.Yang, Y., Wang, D., Wang, Q., Zeng, L., et al.(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans
DOI: 10.6084/m9.figshare.9505346
title: Synthesis and enzyme-based evaluation of analogues <i>L</i>-tyrosine thiol carboxylic acid inhibitor of metallo-β-lactamase IMP-1

description: The emergence of drug-resistant pathogenic bacteria is occurring due to the global overuse and misuse of β-lactam antibiotics. Infections caused by some bacteria which secrete metallo-β-lactamases (enzymes that inactivate β-lactam antibiotics) are increasingly prevalent and have become a major worldwide threat to human health. These bacteria are resistant to β-lactam antibiotics and MBL-inhibitor/β-lactam antibiotic combination therapy can be a strategy to overcome this problem. So far, no clinically available inhibitors of metallo-β-lactamases (MBLs) have been reported. In this study, <i>L</i>-benzyl tyrosine thiol carboxylic acid analogues (<b>2a–2k</b>) were synthesized after the study of computational simulation by adding of methyl, chloro, bromo and nitro groups to the benzyl ring for investigation of SAR analysis. Although the synthesized molecules <b>2a–k</b> shows the potent inhibitory effects against metallo-β-lactamase (IMP-1) with the range of <i>K<sub>ic</sub></i> values of 1.04<b>–</b>4.77 µM, they are not as potent as the candidate inhibitor.
DOI: 10.6084/m9.figshare.9505346.v1
title: Synthesis and enzyme-based evaluation of analogues <i>L</i>-tyrosine thiol carboxylic acid inhibitor of metallo-β-lactamase IMP-1

description: The emergence of drug-resistant pathogenic bacteria is occurring due to the global overuse and misuse of β-lactam antibiotics. Infections caused by some bacteria which secrete metallo-β-lactamases (enzymes that inactivate β-lactam antibiotics) are increasingly prevalent and have become a major worldwide threat to human health. These bacteria are resistant to β-lactam antibiotics and MBL-inhibitor/β-lactam antibiotic combination therapy can be a strategy to overcome this problem. So far, no clinically available inhibitors of metallo-β-lactamases (MBLs) have been reported. In this study, <i>L</i>-benzyl tyrosine thiol carboxylic acid analogues (<b>2a–2k</b>) were synthesized after the study of computational simulation by adding of methyl, chloro, bromo and nitro groups to the benzyl ring for investigation of SAR analysis. Although the synthesized molecules <b>2a–k</b> shows the potent inhibitory effects against metallo-β-lactamase (IMP-1) with the range of <i>K<sub>ic</sub></i> values of 1.04<b>–</b>4.77 µM, they are not as potent as the candidate inhibitor.
DOI: 10.6084/m9.figshare.9505292
title: Additional file 3: of The start of migration correlates with arrival timing, and the total speed of migration increases with migration distance in migratory songbirds: a cross-continental analysis

description: All tracking data used for the analyses. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.9505322
title: data.mat

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data. Yang, Y., Wang, D., Wang, Q., Zeng, L., et al..(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans<br><br>
DOI: 10.6084/m9.figshare.9505328
title: Data_old

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data.Yang, Y., Wang, D., Wang, Q., Zeng, L., et al..(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans<br>
DOI: 10.6084/m9.figshare.9505292.v1
title: Additional file 3: of The start of migration correlates with arrival timing, and the total speed of migration increases with migration distance in migratory songbirds: a cross-continental analysis

description: All tracking data used for the analyses. (XLSX 60 kb)
DOI: 10.6084/m9.figshare.9505322.v1
title: data.mat

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data. Yang, Y., Wang, D., Wang, Q., Zeng, L., et al..(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans<br><br>
DOI: 10.6084/m9.figshare.9505328.v1
title: Data

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data.Yang, Y., Wang, D., Wang, Q., Zeng, L., et al..(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans<br>
DOI: 10.6084/m9.figshare.9505328.v3
title: Data_old

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data.Yang, Y., Wang, D., Wang, Q., Zeng, L., et al..(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans<br>
DOI: 10.6084/m9.figshare.9505328.v2
title: Data

description: Temperature and salinity data of Expendable Conductivity–Temperature–Depth recorder (XCTD) profile, merged XCTD profile and Sea-Wing underwater glider data.Yang, Y., Wang, D., Wang, Q., Zeng, L., et al..(2019). Eddy-induced transport of saline Kuroshio water into the northern South China Sea. Journal of Geophysical Research: Oceans<br>
DOI: 10.6084/m9.figshare.9505259
title: phenotype and genotype data_data2019.tar.gz

description: phenotype and genotype data<br>
DOI: 10.6084/m9.figshare.9505247
title: Marketplace Shrimp Mislabeling in North Carolina

description: We quantified the extent of shrimp mislabeling in coastal and inland North Carolina. Following the DNAEasy extraction protocol (Quiagen, INC), we extracted genomic DNA from approximately 20mg shrimp tissue. To identify individual samples to the species-level we focused on sequencing the mitochondrial DNA cytochrome oxidase I gene (CO1). It has been used in other seafood mislabeling studies (e.g., Cox et. al 2013, Staffen et al. 2017, Willette et. al 2017). We amplified CO1 sequences from extracted DNA following the PCR protocol outlined in Willette et al. (2017) and a primer cocktail from Ivanova et al. (2009). To prepare a 25μL sample for PCR, we combined the DNA with a primer cocktail of CO1_F1, CO1_F2, CO1_R1, and CO1_R2, deionized water, and a PuRe Taq Ready-To-Go PCR bead containing the necessary PCR components. In the thermal cycler, the samples went under 35 cycles of 95°C for denaturation, 50°C for annealing, and 70°C for extension. A negative control containing all of the PCR components, except DNA, was used to test for contamination. We ran the PCR products on a 1% agarose gel to determine if PCR amplification of the DNA was successful. Samples with successful ~650 base pair bands were sent to an ETON Bioscience facility in Raleigh, NC for sequencing. Chromatograms of successfully sequenced regions were then matched against CO1 sequences of known samples on National Center for Biotechnology Information’s nucleotide collection database GenBank using the Basic Local Alignment Search Tool (BLAST). We only concluded the identity of a species if the percent identity and query coverage was greater than or equal to 98% and the e-value was close to zero. Samples identified as <i>Litopenaeus setiferus</i> were considered to be local North Carolina shrimp while <i>Litopenaeus vannamei</i> samples were determined to be Pacific whiteleg shrimp, and thus mislabeled.
DOI: 10.6084/m9.figshare.9505250
title: Recording of 19,000 neurons across mouse visual cortex during sparse noise stimuli

description: This repository contains the activity of 18,975 neurons across visual cortex during the presentation of sparse noise visual stimuli.<br>The deconvolved data is in the "spks.npy". "F.npy", "Fneu.npy", "stat.npy" and "ops.npy" are documented on the suite2p page: https://github.com/MouseLand/suite2p/wiki/Outputs<br>The frames of the sparse noise stimuli are in "mov.npy". The frame times are in "iframe.npy".<br>The behavioral data (already aligned to the neural frames) is in "cam1_TX39_2019_05_31_1_proc_resampled.npy". A subsampled subset of frames is in "cam1_TX39_20hz.avi".<br>For an example of how to load the data, align it to the image stimuli, compute receptive fields and predict from behavior, see this notebook: https://github.com/MouseLand/rastermap/blob/master/tutorial/tutorial.ipynb
DOI: 10.6084/m9.figshare.9505247.v1
title: Marketplace Shrimp Mislabeling in North Carolina

description: We quantified the extent of shrimp mislabeling in coastal and inland North Carolina. Following the DNAEasy extraction protocol (Quiagen, INC), we extracted genomic DNA from approximately 20mg shrimp tissue. To identify individual samples to the species-level we focused on sequencing the mitochondrial DNA cytochrome oxidase I gene (CO1). It has been used in other seafood mislabeling studies (e.g., Cox et. al 2013, Staffen et al. 2017, Willette et. al 2017). We amplified CO1 sequences from extracted DNA following the PCR protocol outlined in Willette et al. (2017) and a primer cocktail from Ivanova et al. (2009). To prepare a 25μL sample for PCR, we combined the DNA with a primer cocktail of CO1_F1, CO1_F2, CO1_R1, and CO1_R2, deionized water, and a PuRe Taq Ready-To-Go PCR bead containing the necessary PCR components. In the thermal cycler, the samples went under 35 cycles of 95°C for denaturation, 50°C for annealing, and 70°C for extension. A negative control containing all of the PCR components, except DNA, was used to test for contamination. We ran the PCR products on a 1% agarose gel to determine if PCR amplification of the DNA was successful. Samples with successful ~650 base pair bands were sent to an ETON Bioscience facility in Raleigh, NC for sequencing. Chromatograms of successfully sequenced regions were then matched against CO1 sequences of known samples on National Center for Biotechnology Information’s nucleotide collection database GenBank using the Basic Local Alignment Search Tool (BLAST). We only concluded the identity of a species if the percent identity and query coverage was greater than or equal to 98% and the e-value was close to zero. Samples identified as <i>Litopenaeus setiferus</i> were considered to be local North Carolina shrimp while <i>Litopenaeus vannamei</i> samples were determined to be Pacific whiteleg shrimp, and thus mislabeled.
DOI: 10.6084/m9.figshare.9505250.v1
title: Recording of 19,000 neurons across mouse visual cortex during sparse noise stimuli

description: This repository contains the activity of 18,975 neurons across visual cortex during the presentation of sparse noise visual stimuli.<br>The deconvolved data is in the "spks.npy". "F.npy", "Fneu.npy", "stat.npy" and "ops.npy" are documented on the suite2p page: https://github.com/MouseLand/suite2p/wiki/Outputs<br>The frames of the sparse noise stimuli are in "mov.npy". The frame times are in "iframe.npy".<br>The behavioral data (already aligned to the neural frames) is in "cam1_TX39_2019_05_31_1_proc_resampled.npy". A subsampled subset of frames is in "cam1_TX39_20hz.avi".<br>For an example of how to load the data, align it to the image stimuli, compute receptive fields and predict from behavior, see this notebook: https://github.com/MouseLand/rastermap/blob/master/tutorial/tutorial.ipynb
DOI: 10.6084/m9.figshare.9503207
title: Data and Code for "Extinction filters mediate the global effects of habitat fragmentation on animals"

description: Data and analysis code for the paper "Extinction filters mediate the global effects of habitat fragmentation on animals"<br>To run the code for the entire analysis, simply unzip the input folder ("input.zip") and run the script "runner.R" after modifying it to change the working directory. Note - packages listed in this file must be installed beforehand.<br>The analysis scripts read from the provided "input" folder and write to the "output" folder, which is created. Descriptions of variables in the input dataset are provided in "variable descriptions.xlsx".<br>
DOI: 10.6084/m9.figshare.9505259.v1
title: data2019.tar.gz

description: phenotype and genotype data<br>
DOI: 10.6084/m9.figshare.9503207.v1
title: Data and Code for "Extinction filters mediate the global effects of habitat fragmentation on animals"

description: Data and analysis code for the paper "Extinction filters mediate the global effects of habitat fragmentation on animals"<br>To run the code for the entire analysis, simply unzip the input folder ("input.zip") and run the script "runner.R" after modifying it to change the working directory. Note - packages listed in this file must be installed beforehand.<br>The analysis scripts read from the provided "input" folder and write to the "output" folder, which is created. Descriptions of variables in the input dataset are provided in "variable descriptions.xlsx".<br>
DOI: 10.6084/m9.figshare.9500087
title: SeattleMicrobiome.zip

description: Archive contains a collection of field plot and laboratory analysis data and associated demultiplexed and split NGS forward reads from an Illumina MiSeq process. Field plot data was collected using a Daubenmier plot, and is expressed as associated classes. <br>
DOI: 10.6084/m9.figshare.9503207.v2
title: Data and Code for "Extinction filters mediate the global effects of habitat fragmentation on animals"

description: Data and analysis code for the paper "Extinction filters mediate the global effects of habitat fragmentation on animals"<br>To run the code for the entire analysis, simply unzip the input folder ("input.zip") and run the script "runner.R" after modifying it to change the working directory. Note - packages listed in this file must be installed beforehand.<br>The analysis scripts read from the provided "input" folder and write to the "output" folder, which is created. Descriptions of variables in the input dataset are provided in "variable descriptions.xlsx".<br>
DOI: 10.6084/m9.figshare.9500087.v1
title: SeattleMicrobiome.zip

description: Archive contains a collection of field plot and laboratory analysis data and associated demultiplexed and split NGS forward reads from an Illumina MiSeq process. Field plot data was collected using a Daubenmier plot, and is expressed as associated classes. <br>
DOI: 10.6084/m9.figshare.9494159
title: Full database alcohol reduction intervention study in HIV

description: Dataset for study: The efficacy of a brief intervention to reduce alcohol use in persons with HIV in South Africa, a randomized clinical trial
DOI: 10.6084/m9.figshare.9494159.v1
title: Full database alcohol reduction intervention study in HIV

description: Dataset for study: The efficacy of a brief intervention to reduce alcohol use in persons with HIV in South Africa, a randomized clinical trial
DOI: 10.6084/m9.figshare.9492215
title: RData.tar.xz

description: Required Data for reproducing the paper entitled "Optimal exercise of American options under<br>stock pinning"<br>
DOI: 10.6084/m9.figshare.9492215.v1
title: RData.tar.xz

description: Required Data for reproducing the paper entitled "Optimal exercise of American options under<br>stock pinning"<br>
DOI: 10.6084/m9.figshare.9491258
title: sequences_for_probe_design.fasta

description: A FASTA file containing sequences used for probe design for a customised depletion of mosquito ribosomal RNA (rRNA) sequences in order to increase the sensitivity of viral metatranscriptomic sequencing. The sequences include both publicly available mosquito rRNA sequences, and also highly abundant assembled mosquito contigs from previous metatranscriptomic sequencing of mosquito pools.
DOI: 10.6084/m9.figshare.9490916
title: Elachistocleis database

description: Database used for analyses<br>
DOI: 10.6084/m9.figshare.9490916.v1
title: Elachistocleis database

description: Database used for analyses<br>
DOI: 10.6084/m9.figshare.9490382
title: Data used by Kulha et al. in 10.3390/f9100631

description: Original data used in paper:<br>Kulha, N; Pasanen, L; T; Aakala, T 2018. How to Calibrate Historical Aerial Photographs: A Change Analysis of Naturally Dynamic Boreal Forest Landscapes. Forests. DOI: 10.3390/f9100631.<br>See the detailed description of the dataset stored in metadata-file in Figshare.<br>
DOI: 10.6084/m9.figshare.9489824
title: Additional file Table S1-7.xlsx

description: The genomic sequencing characteristics and evolutionary relationship of a novel MRSA strain SA.1B
DOI: 10.6084/m9.figshare.9490382.v1
title: Data used by Kulha et al. in 10.3390/f9100631

description: Original data used in paper:<br>Kulha, N; Pasanen, L; T; Aakala, T 2018. How to Calibrate Historical Aerial Photographs: A Change Analysis of Naturally Dynamic Boreal Forest Landscapes. Forests. DOI: 10.3390/f9100631.<br>See the detailed description of the dataset stored in metadata-file in Figshare.<br>
DOI: 10.17045/sthlmuni.9488804
title: Tunable assembly of truncated nanocubes by evaporation-driven poor-solvent enrichment

description: Raw data of the manuscript entitled "Tunable assembly of truncated nanocubes by evaporation-driven poor-solvent enrichment", including all the SEM (Scanning Electron Microscopy), SAXS (Small-Angle X-ray Scattering) data, OM (Optical Microscopy), photos, SC-XRD patterns (Single-Crystal X-ray Diffraction), TEM (Transmission Electron Microscopy), FTIR (Fourier Transform Infrared Spectroscopy), TG (Thermogravimetry), DLS (Dynamic Light Scattering), Zeta (Zeta Potential Measurement), and apparent size measurement.<br>Unzip the files with Winzip, WinRAR or 7-Zip.The data is sorted by data type and Figure numbers.The sample ID in the paper was indicated by the file names. <br>The 2D SAXS data can be managed by DPDAK package (<i>J. Appl. Crystallogr.</i> <b>47</b>, 1797-1803 (2014).), which can be download from: https://confluence.desy.de/display/DPDAK. For the SEM, TEM, OM, SC-XRD, and photos, simply open them by any photo viewer. The .sfrm files in SC-XRD can be viewed by Bruker XRD Software (https://www.bruker.com/ ). <br>The .dm3 Digital Micrograph image files in TEM can be opened with Gatan DigitalMicrograph software (http://www.gatan.com/) or with ImageJ from NIH (https://imagej.nih.gov/ij/).<br>The FTIR, TG, DLS, and Zeta data were in the conventional .txt, .csv format.<br>For the original source data (as an Excel sheet), please consult the second Reference (to the Associated Publication) below and then click Source Data to download the .xlsx file. <br><br>
DOI: 10.6084/m9.figshare.9489824.v1
title: Additional file Table S1-7.xlsx

description: The genomic sequencing characteristics and evolutionary relationship of a novel MRSA strain SA.1B
DOI: 10.17045/sthlmuni.9488804.v2
title: Tunable assembly of truncated nanocubes by evaporation-driven poor-solvent enrichment

description: Raw data of the manuscript entitled "Tunable assembly of truncated nanocubes by evaporation-driven poor-solvent enrichment", including all the SEM (Scanning Electron Microscopy), SAXS (Small-Angle X-ray Scattering) data, OM (Optical Microscopy), photos, SC-XRD patterns (Single-Crystal X-ray Diffraction), TEM (Transmission Electron Microscopy), FTIR (Fourier Transform Infrared Spectroscopy), TG (Thermogravimetry), DLS (Dynamic Light Scattering), Zeta (Zeta Potential Measurement), and apparent size measurement.<br>Unzip the files with Winzip, WinRAR or 7-Zip.The data is sorted by data type and Figure numbers.The sample ID in the paper was indicated by the file names. <br>The 2D SAXS data can be managed by DPDAK package (<i>J. Appl. Crystallogr.</i> <b>47</b>, 1797-1803 (2014).), which can be download from: https://confluence.desy.de/display/DPDAK. For the SEM, TEM, OM, SC-XRD, and photos, simply open them by any photo viewer. The .sfrm files in SC-XRD can be viewed by Bruker XRD Software (https://www.bruker.com/ ). <br>The .dm3 Digital Micrograph image files in TEM can be opened with Gatan DigitalMicrograph software (http://www.gatan.com/) or with ImageJ from NIH (https://imagej.nih.gov/ij/).<br>The FTIR, TG, DLS, and Zeta data were in the conventional .txt, .csv format.<br>For the original source data (as an Excel sheet), please consult the second Reference (to the Associated Publication) below and then click Source Data to download the .xlsx file. <br><br>
DOI: 10.17045/sthlmuni.9488804.v1
title: Tunable assembly of truncated nanocubes by evaporation-driven poor-solvent enrichment

description: Raw data of the manuscript entitled "Tunable assembly of truncated nanocubes by evaporation-driven poor-solvent enrichment", including all the SEM (Scanning Electron Microscopy), SAXS (Small-Angle X-ray Scattering) data, OM (Optical Microscopy), photos, SC-XRD (Single-Crystal X-ray Diffraction), TEM (Transmission Electron Microscopy), FTIR (Fourier Transform Infrared Spectroscopy), TG (Thermogravimetry), DLS (Dynamic Light Scattering), Zeta (Zeta Potential Measurement), and apparent size measurement. Unzip the files with Winzip, WinRAR or 7-Zip.The 2D SAXS data can be managed by DPDAK package (<i>J. Appl. Crystallogr.</i> <b>47</b>, 1797-1803 (2014).). For the SEM, TEM, OM, and photos, simply open them by any photo viewer. For the SC-XRD, IR, TG, DLS, and Zeta, using Origin to plot them if needed.The "Apparent Size Measurement" shows how we manage to measure the mesocrystal apparent sizes from SEM images.Besides, the sample ID was indicated by the file names.<br><br>
DOI: 10.6084/m9.figshare.9487898
title: DESMAN files

description: Output files from DESMAN analysis of the 10 putative Limnohabitans MAGs according to https://github.com/rprops/MetaG_analysis_workflow/wiki/21.-DESMAN.<br>
DOI: 10.6084/m9.figshare.9487892
title: A High-Fat Diet Reverses Metabolic Disorders and Premature Aging by Modulating Insulin and IGF1 Signaling in SIRT6 Knockout Mice.zip

description: These data are the primary data of the paper "A High-Fat Diet Reverses Metabolic Disorders and Premature Aging by Modulating Insulin and IGF1 Signaling in SIRT6 Knockout Mice"<br>
DOI: 10.6084/m9.figshare.9487898.v1
title: DESMAN files

description: Output files from DESMAN analysis of the 10 putative Limnohabitans MAGs according to https://github.com/rprops/MetaG_analysis_workflow/wiki/21.-DESMAN.<br>