cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/135949
title: GNSS (Global Navigation Satellite System) data collected during research cruise AT42-15 using a Furuno GP-90D instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135950
title: Gyrocompass data collected during research cruise AT42-15 using a Sperry MK-37 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135956
title: Meteorological Station data collected during research cruise AT42-15 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135957
title: Meteorological Station data collected during research cruise AT42-15 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135960
title: Radiometer data collected during research cruise AT42-15 using a Eppley RAD instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135961
title: Radiometer data collected during research cruise AT42-15 using a Biospherical QSR-2150 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135953
title: Singlebeam Echosounder data collected during research cruise AT42-15 using a Knudsen 3260 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135951
title: Speedlog data collected during research cruise AT42-15 using a Furuno DS-50 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135958
title: Water Temperature data collected during research cruise AT42-15 using a Sea-Bird SBE-48 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135959
title: TSG (Thermosalinograph) data collected during research cruise AT42-15 using a Sea-Bird SBE-45 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5281/zenodo.4009499
title: AGTR1 is overexpressed in neuroendocrine neoplasms, regulates secretion and may serve as a target for molecular imaging and therapy

description: Numerical data for this manuscript.
DOI: 10.5281/zenodo.3550903
title: AGTR1 is overexpressed in neuroendocrine neoplasms, regulates secretion and may serve as a target for molecular imaging and therapy

description: Numerical data for this manuscript.
DOI: 10.6084/m9.figshare.11516694
title: GLASER

description: (1) Result of meaningless contracts.(2) Result of stack/opcode error contracts.(3) Result of DoS contracts.(4) Result of empty accounts.(5) Result of DoS EOAs.<br><b>BibTeX citation:</b>@inproceedings{li2020glaser,title={Characterizing Erasable Accounts in Ethereum},author={Li, Xiaoqi and Chen, Ting and Luo, Xiapu and Yu, Jiangshan},booktitle={Proceedings of the 23rd Information Security Conference (ISC)},year={2020}}
DOI: 10.6084/m9.figshare.11518017
title: GLASER

description: (1): Analyzed internal transactions of attacked Parity wallet contracts.(2): Analyzed normal transactions of attacked Parity wallet contracts.(3-4): Analyzed internal transactions of malicious DoS contracts.(5): Analyzed normal transactions of malicious DoS contracts.(6-7): Analyzed internal transactions of meaningless contracts.(8): Analyzed normal transactions of meaningless contracts.(9-10): Analyzed internal transactions of stack/opcode error contracts.(11): Analyzed normal transactions of stack/opcode error contracts.(12): Analyzed transactions of DoS EOAs.(13): Analyzed internal transactions of empty accounts.(14): Analyzed normal transactions of empty accounts.<br><b>BibTeX citation:</b><br>@inproceedings{li2020glaser,title={Characterizing Erasable Accounts in Ethereum},author={Li, Xiaoqi and Chen, Ting and Luo, Xiapu and Yu, Jiangshan},booktitle={Proceedings of the 23rd Information Security Conference (ISC)},year={2020}}<br>
DOI: 10.6084/m9.figshare.12899285
title: Supplementary file Blanco-Rivero et al, September 2020.pdf

description: Supplementary files for: <br>Enhanced sympathetic neurotransduction in the superior mesenteric artery in a rat model of heart failure: role of noradrenaline and ATP. <br><b></b><b></b>
DOI: 10.6084/m9.figshare.12899285.v1
title: Supplementary file Blanco-Rivero et al, September 2020.pdf

description: Supplementary files for: <br>Enhanced sympathetic neurotransduction in the superior mesenteric artery in a rat model of heart failure: role of noradrenaline and ATP. <br><b></b><b></b>
DOI: 10.6073/pasta/d4c7a43ba17b2ed1885d42cf0380c1dd
title: Delta Smelt Formalin Fixation and Preservation Effects on Fish Weight and Length

description: Natural history museum specimen are invaluable for a variety of conservation and ecological applications. Fishes are commonly preserved in formalin; however, formalin preservation is associated with reduced fish length and increased weight, but the magnitude and timing of these changes may vary among species. Unaccounted for preservation-driven shifts in fish length and weight may have drastic effects on any conservation or ecological conclusions drawn from specimen preserved for various durations as well as when compared to fresh, unpreserved specimen. The ​purpose of this study was to ​test whether formalin fixation and preservation affects endangered Delta Smelt, Hypomesus transpacificus, lengths and weights with implications for the use of data collected on preserved and fresh specimen. Fresh Delta Smelt were lengthed and weighted, then fixed and preserved in 10% buffered formalin​. Repeated measures of specimen length and weight were recorded weekly for 4 weeks, fortnightly from preservation week 4 through preservation week 24, and then approximately annually through 6 total years of preservation.
DOI: 10.6084/m9.figshare.12896090
title: R0191_20171009a_videos

description: Rat 0191, skilled reaching data collected in Leventhal laboratory by Alexandra Bova
DOI: 10.6084/m9.figshare.12896879
title: Example output for the SubcellularDistribution pipeline

description: Example output files for the SubcellularDistribution pipeline. These results were generated using the "rna" and "centrosomes" test dataset and the code available at https://github.com/pearlryder/subcellular-distribution-pipeline
DOI: 10.6084/m9.figshare.12738698.v1
title: Supporting data for SubcellularDistribution Pipeline

description: This data includes a "raw-data-metadata.csv" file, which is needed for the SubcellularDistribution pipeline to map results to specific RNAs and cell cycle stages.<br>The "centrosomes.csv", "rna.csv", and "images.csv" files are output files for users to compare their results with our workflow.
DOI: 10.6084/m9.figshare.12738698
title: Supporting data for SubcellularDistribution Pipeline

description: This data includes a "raw-data-metadata.csv" file, which is needed for the SubcellularDistribution pipeline to map results to specific RNAs and cell cycle stages.
DOI: 10.6084/m9.figshare.12738698.v2
title: Supporting data for SubcellularDistribution Pipeline

description: This data includes a "raw-data-metadata.csv" file, which is needed for the SubcellularDistribution pipeline to map results to specific RNAs and cell cycle stages.<br>The "centrosomes.csv", "rna.csv", and "images.csv" files are output files for users to compare their results with our workflow.
DOI: 10.6084/m9.figshare.12895349.v1
title: Large File Datasets - Scholz et al. 2019

description: Converted datasets as part of Google Summer of Code 2020.<br><br>Scholz, Monika. 2019. “Whole-Brain Neural Recordings of Freely Moving C. Elegans.” OSF. March 8. doi:10.17605/OSF.IO/MW5ZS.<br>Source of data: https://osf.io/mw5zs/<br>Conversion scripts: https://github.com/OpenSourceBrain/NWBShowcase/tree/master/ScholzEtAl2019<br>GUI Explorer: http://nwbexplorer.opensourcebrain.org
DOI: 10.5281/zenodo.4005000
title: GIIRS RTTOV coefficient file using local training profiles

description: GIIRS RTTOV coefficient file using local training profiles Reference: Di, D., Jun Li, Han Wei, W. Bai, C. Wu, and W. Paul Menzel, 2018: Enhancing the fast radiative transfer model for FengYun-4 GIIRS by using local training profiles, <em>Journal of Geophysical Research - Atmospheres</em>, DOI: 10.1029/2018JD029089.
description: {"references": ["Di, D., Jun Li, Han Wei, W. Bai, C. Wu, and W. Paul Menzel, 2018: Enhancing the fast radiative transfer model for FengYun-4 GIIRS by using local training profiles, Journal of Geophysical Research - Atmospheres, DOI: 10.1029/2018JD029089."]}
DOI: 10.5281/zenodo.4004999
title: GIIRS RTTOV coefficient file using local training profiles

description: GIIRS RTTOV coefficient file using local training profiles Reference: Di, D., Jun Li, Han Wei, W. Bai, C. Wu, and W. Paul Menzel, 2018: Enhancing the fast radiative transfer model for FengYun-4 GIIRS by using local training profiles, <em>Journal of Geophysical Research - Atmospheres</em>, DOI: 10.1029/2018JD029089.
description: {"references": ["Di, D., Jun Li, Han Wei, W. Bai, C. Wu, and W. Paul Menzel, 2018: Enhancing the fast radiative transfer model for FengYun-4 GIIRS by using local training profiles, Journal of Geophysical Research - Atmospheres, DOI: 10.1029/2018JD029089."]}
DOI: 10.5281/zenodo.3934747
title: GPR data from the Brazilian Caatinga

description: These data were uploaded for peer review of a manuscript. The figures in the manuscript were made using the pre-processed data packed in DATA.zip. These must be unpacked inside a folder labeled DATA, which must be in the same folder as the Python files unpacked from codes.zip.
DOI: 10.5281/zenodo.3934746
title: GPR data from the Brazilian Caatinga

description: These data were uploaded for peer review of a manuscript. The figures in the manuscript were made using the pre-processed data packed in DATA.zip. These must be unpacked inside a folder labeled DATA, which must be in the same folder as the Python files unpacked from codes.zip.
DOI: 10.5281/zenodo.3882571
title: Resonance energy transfer sensitizes and monitors in situ switching of LOV2-based optogenetic actuators

description: Engineered light-dependent switches provide uniquely powerful opportunities to investigate and control cell regulatory mechanisms. Existing tools offer high spatiotemporal resolution, reversibility and repeatability. Yet cellular optogenetics applications remain limited in practice. Validation difficulties constrain most usage to easily verified protein translocation rather than inhibition of diffusible targets. Blue light levels commonly needed for actuation can be cytotoxic, precluding long-term experiments. We describe a simple approach overcoming these obstacles. Resonance energy transfer with an adjacent chromophore modulates actuation sensitivity over a 7-fold range. This simultaneously offers on-line monitoring of light-dependent switching and precise quantification of activation-relaxation properties in intact living cells. Applying this approach to different LOV2-based switches reveals relaxation times up to 11-fold faster than anticipated. <em>In situ</em>–measured parameter values guide the design of target-inhibiting actuation trains with minimal blue-light exposure, and context-based optimisation can increase sensitivity and experimental throughput a further 10-fold without loss of temporal precision.
description: Manuscript post-review cycle, addressing editorial requirements Acknowledgements: This work was supported by the Magnus Ehrnrooths Foundation (MJC), the National Cancer Institute Grant R01CA200417 (MJC and LLL), the European Union Erasmus + programme (FMK), and 7th Framework Programme Initial Training Networks FP7-PEOPLE-2013-ITN Project Number 608346 Project 'Brain Imaging Return To Health' r'Birth (AP, LLG), the Academy of Finland (mobility projects 309736 and 324581 to MJC), the DAAD with funds from the German Federal Ministry of Education and Research (57348387 and 57458932 to FF), and by access to the facilities of the Turku Screening Unit, a member of the Biocentre Finland Drug Discovery and Chemical Biology Network. We thank David Kelly (Beckton Dickinson) for assistance with the Pathway 855 instrument maintenance, Michiyuki Matsuda (University of Kyoto) and Guillaume Jacquemet (Åbo Academy University) for generously providing fluorescent protein templates, Elena Tcarenkova (University of Turku) for helpful discussion and James Conway (University of Turku) for critical reading of the manuscript.
DOI: 10.25345/c5zn0r
title: MassIVE MSV000086042 - A novel mechanism for NF-kB activation via IkB aggregation
title: Proteins which interact with IkBa in insoluble aggregates known as Mallory-Denk bodies were characterized by AP-MS, Biotinylation by antibody recognition (BAR), and LCMS analysis of detergent solubalized aggregates. See the supplementary table (S12) for file annotation.
DOI: 10.25345/c5tx89
title: MassIVE MSV000086043 - PHOTODYNAMIC THERAPY ASSOCIATED WITH THE EXTRACT DE JABUTICABA (MYRCIARIA CAULIFLORA)
title: Bacterial infections are a major public health problem. A of the main responsible for these infections is Staphylococcus aureus. This has been associated with the emergence of strains resistant to several antibiotics, as well as for example, methicilin-resistant S. aureus - MRSA. In this context, therapy antimicrobial photodynamics (antimicrobial photodynamic therapy - aPDT) appears as a promising therapeutic platform.
DOI: 10.5281/zenodo.4009464
title: Data and Code for: Performance Evaluation of the Particle Swarm Optimization Algorithm to Unambiguously Estimate Plasma Parameters from Incoherent Scatter Radar Signals

description: This repository contains the datasets and scripts used to obtain the figures of the paper "Performance Evaluation of the Particle Swarm Optimization Algorithm to Unambiguously Estimate Plasma Parameters from Incoherent Scatter Radar Signals". The repository is organized as follows:<br> - Part I) Monte Carlo simulation codes - Part II) Monte Carlo simulations using the parameter configuration "Param. 1" of Shi et al. (1999) - Part III) Monte Carlo simulation using the parameter configuration "Param. 1" of Shi et al. (1999) and a limited ion composition search space - Part IV) Monte Carlo simulations using the parameter configuration "Param. 2" of Wang et al. (2012) - Part V) Monte Carlo simulation using the parameter configuration "Param. 2" of Wang et al. (2012) and a limited ion composition search space - Part VI) Monte Carlo simulations using the parameter configuration "Param. 2" of Wang et al. (2012) with uncertainty on the a priori plasma parameters obtained from the Plasma Line - Part VII) Codes to generate all figures of the manuscript All datasets and scripts were generated and tested using Matlab 2017. Simulations have been executed in parallel on a SLURM cluster, compilation and running scripts are provided.
description: Powered@NLHPC: This research was partially supported by the supercomputing infrastructure of the NLHPC (ECM-02).
DOI: 10.5281/zenodo.4009463
title: Data and Code for: Performance Evaluation of the Particle Swarm Optimization Algorithm to Unambiguously Estimate Plasma Parameters from Incoherent Scatter Radar Signals

description: This repository contains the datasets and scripts used to obtain the figures of the paper "Performance Evaluation of the Particle Swarm Optimization Algorithm to Unambiguously Estimate Plasma Parameters from Incoherent Scatter Radar Signals". The repository is organized as follows:<br> - Part I) Monte Carlo simulation codes - Part II) Monte Carlo simulations using the parameter configuration "Param. 1" of Shi et al. (1999) - Part III) Monte Carlo simulation using the parameter configuration "Param. 1" of Shi et al. (1999) and a limited ion composition search space - Part IV) Monte Carlo simulations using the parameter configuration "Param. 2" of Wang et al. (2012) - Part V) Monte Carlo simulation using the parameter configuration "Param. 2" of Wang et al. (2012) and a limited ion composition search space - Part VI) Monte Carlo simulations using the parameter configuration "Param. 2" of Wang et al. (2012) with uncertainty on the a priori plasma parameters obtained from the Plasma Line - Part VII) Codes to generate all figures of the manuscript All datasets and scripts were generated and tested using Matlab 2017. Simulations have been executed in parallel on a SLURM cluster, compilation and running scripts are provided.
description: Powered@NLHPC: This research was partially supported by the supercomputing infrastructure of the NLHPC (ECM-02).
DOI: 10.5281/zenodo.3989016
title: Analysis and Figures from "Causal network inference from gene transcriptional time-series response to glucocorticoids"

description: Gene regulatory network inference is essential to uncover complex relationships among gene pathways and inform downstream experiments, ultimately enabling regulatory network re-engineering. Network inference from transcriptional time-series data requires accurate, interpretable, and efficient determination of causal relationships among thousands of genes. Here, we develop Bootstrap Elastic net regression from Time Series (BETS), a statistical framework based on Granger causality for the recovery of a directed gene network from transcriptional time-series data. BETS uses elastic net regression and stability selection from bootstrapped samples to infer causal relationships among genes. BETS is highly parallelized, enabling efficient analysis of large transcriptional data sets. We show competitive accuracy on a community benchmark, the DREAM4 100-gene network inference challenge, where BETS is one of the fastest among methods of similar performance and additionally infers whether the causal effects are activating or inhibitory. We apply BETS to transcriptional time-series data of 2,768 differentially-expressed genes from A549 cells exposed to glucocorticoids over a period of 12 hours. We identify a network of 2,768 genes and 31,945 directed edges (FDR &lt;= 0.2). We validate inferred causal network edges using two external data sources: overexpression experiments on the same glucocorticoid system, and genetic variants associated with inferred edges in primary lung tissue in the Genotype-Tissue Expression (GTEx) v6 project. BETS is available as an open source software package at https://github.com/lujonathanh/BETS This upload documents the analysis and figure files that support each numerical claim of the manuscript. Full Progeny.xlsx lists out the relevant code and files for each numerical claim of the manuscript, assuming the home folder of port-from-della
description: Full Progeny.xlsx lists out the relevant code and files for each numerical claim of the manuscript. The home folder is port-from-della
DOI: 10.6084/m9.figshare.12478865
title: RNAseq results from empty vector cells and SLC22A15 cells

description: Supplemental Table. RNAseq results showing the FPKM (fragments per kilobase of transcript per million mapped reads) from four empty vector (EV) cells and from four SLC22A15 stably transfected HEK293 Flp-In cells, as well as the average for each group. The table was sorted by the lowest p-value adjusted for the differentially expressed genes. The RNAseq experiment and data analysis were performed by NovoGene Co., Ltd.
DOI: 10.6084/m9.figshare.12478865.v1
title: RNAseq results from empty vector cells and SLC22A15 cells

description: Supplemental Table. RNAseq results showing the FPKM (fragments per kilobase of transcript per million mapped reads) from four empty vector (EV) cells and from four SLC22A15 stably transfected HEK293 Flp-In cells, as well as the average for each group. The table was sorted by the lowest p-value adjusted for the differentially expressed genes. The RNAseq experiment and data analysis were performed by NovoGene Co., Ltd.
DOI: 10.6084/m9.figshare.12895349
title: Large File Datasets - Scholz et al. 2018

description: Converted datasets as part of Google Summer of Code 2020.<br><br>Scholz, Monika. 2019. “Whole-Brain Neural Recordings of Freely Moving C. Elegans.” OSF. March 8. doi:10.17605/OSF.IO/MW5ZS.<br>Source of data: https://osf.io/mw5zs/Note: Originally uploaded to Open Science Framework in 2018.<br><br>Conversion scripts: https://github.com/OpenSourceBrain/NWBShowcase/tree/master/ScholzEtAl2019<br>GUI Explorer: http://nwbexplorer.opensourcebrain.org
DOI: 10.6084/m9.figshare.12895349.v2
title: Large File Datasets - Scholz et al. 2018

description: Converted datasets as part of Google Summer of Code 2020.<br><br>Scholz, Monika. 2019. “Whole-Brain Neural Recordings of Freely Moving C. Elegans.” OSF. March 8. doi:10.17605/OSF.IO/MW5ZS.<br>Source of data: https://osf.io/mw5zs/Note: Originally uploaded in 2018.<br><br>Conversion scripts: https://github.com/OpenSourceBrain/NWBShowcase/tree/master/ScholzEtAl2019<br>GUI Explorer: http://nwbexplorer.opensourcebrain.org
DOI: 10.6084/m9.figshare.12478910
title: Gene and pathway enrichment analyses

description: Supplemental Table. (A - C) KEGG is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular level information, especially large-scale molecular datasets generated by genome sequencing and other high-through put experimental technologies (http://www.genome.jp/kegg/). We used clusterProfiler R package to test the statistical enrichment of differential expression genes in KEGG pathways. (E - F) Gene Ontology (GO) enrichment analysis of differentially expressed genes was implemented by the clusterProfiler R package, in which gene length bias was corrected. GO terms with corrected P-value less than 0.05 were considered significantly enriched by differential expressed genes. Results in each tab were sorted by the most significant p-values.
DOI: 10.6084/m9.figshare.12896090.v1
title: R0191_20171009a_videos

description: Rat 0191, skilled reaching data collected in Leventhal laboratory by Alexandra Bova
DOI: 10.6084/m9.figshare.12478916
title: Publicly available datasets to support the genetic associations of SLC22A15

description: Supplemental Table. Associations of genetic polymorphisms in SLC22A15 with various different phenotypes available from various databasese. These phenotypes include expression quantitative trait loci (eQTL), human disease, traits and drug response. The following are the QTL data were obtained from GTEx Portal and also METSIM adipose data (http://mohlke.web.unc.edu/data/), human metabolites levels from http://snipa.helmholtz-muenchen.de/snipa3/?task=block_annotation
DOI: 10.25345/c5q459
title: MassIVE MSV000086044 - EVALUATION OF ANTIMICROBIAL PHOTODYNAMIC THERAPY
title: Staphylococcus aureus (S. aureus) is one of the main microorganisms that cause human diseases, leading from mild skin infection to more serious infections. With the use of semi-synthetic penicillins, strains resistant to methicillin called MRSA (methicillin-resistant Staphylococcus aureus) have emerged, which makes it difficult to treat infections caused by this pathogen. In this context, antimicrobial photodynamic therapy appears as a promising platform for treating these infections, since it has a high capacity to lead bacteria to death, sparing the tissues surrounding the infection.
DOI: 10.15468/k786yk
title: Phytoseiidae of Vietnam (Acari: Mesostigmata) with description of a new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Kreiter, Serge, Bopp, Marie-Charlotte, Douin, Martial, Nguyen, Duc Tung, Wyckhuys, Kris (2020): Phytoseiidae of Vietnam (Acari: Mesostigmata) with description of a new species. Acarologia 60 (1): 75-110, DOI: 10.24349/acarologia/20204362