cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4008565
title: LeConte Bay CHIRP Subsurface Data

description: <strong>CHIRP subsurface seismic data</strong><br> These data are raw .sgy and .xys files of CHIRP subsurface data collected from LeConte Bay, AK in September 2017. More than 45 km of sub-bottom sonar profiles were acquired across- and along-fjord using an Edgetech 3100 CHIRP profiler. Energetics of the fjord were weak and minimal noise was introduced by surface gravity waves. Parabolic artifacts from the steep fjord walls were manifest in the water column and were not removed. Parabolic features observed subsurface typically represented artifacts created by surfaces of greater density. A .nc (netcdf) file of aggregated xy location data and other metadata is also included for ease in viewing data extents. Reference and more details: Eidam, E.F., Sutherland, D.A., Duncan, D., Kienholz, C., Amundson, J.M., Motyka, R.J. Morainal bank evolution and impact on terminus dynamics during a tidewater glacier stillstand. In revision for JGR-Earth Surface, August 2020.
DOI: 10.5281/zenodo.4008564
title: LeConte Bay CHIRP Subsurface Data

description: <strong>CHIRP subsurface seismic data</strong><br> These data are raw .sgy and .xys files of CHIRP subsurface data collected from LeConte Bay, AK in September 2017. More than 45 km of sub-bottom sonar profiles were acquired across- and along-fjord using an Edgetech 3100 CHIRP profiler. Energetics of the fjord were weak and minimal noise was introduced by surface gravity waves. Parabolic artifacts from the steep fjord walls were manifest in the water column and were not removed. Parabolic features observed subsurface typically represented artifacts created by surfaces of greater density. A .nc (netcdf) file of aggregated xy location data and other metadata is also included for ease in viewing data extents. Reference and more details: Eidam, E.F., Sutherland, D.A., Duncan, D., Kienholz, C., Amundson, J.M., Motyka, R.J. Morainal bank evolution and impact on terminus dynamics during a tidewater glacier stillstand. In revision for JGR-Earth Surface, August 2020.
DOI: 10.6084/m9.figshare.5811924
title: Additional fileÂ 5: of Psychotropic medication non-adherence and associated factors among adult patients with major psychiatric disorders: a protocol for a systematic review

description: Data extraction Tamplete. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5811924.v1
title: Additional fileÂ 5: of Psychotropic medication non-adherence and associated factors among adult patients with major psychiatric disorders: a protocol for a systematic review

description: Data extraction Tamplete. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.5811921
title: Additional file 6 of What is the effect of phasing out long-chain per- and polyfluoroalkyl substances on the concentrations of perfluoroalkyl acids and their precursors in the environment? A systematic review

description: Additional file 6. Narrative synthesis table.
DOI: 10.6084/m9.figshare.5811921.v2
title: Additional file 6 of What is the effect of phasing out long-chain per- and polyfluoroalkyl substances on the concentrations of perfluoroalkyl acids and their precursors in the environment? A systematic review

description: Additional file 6. Narrative synthesis table.
DOI: 10.6084/m9.figshare.5811921.v1
title: MOESM6 of What is the effect of phasing out long-chain per- and polyfluoroalkyl substances on the concentrations of perfluoroalkyl acids and their precursors in the environment? A systematic review

description: Additional file 6. Narrative synthesis table.
DOI: 10.6084/m9.figshare.5811900
title: Additional file 5 of What is the effect of phasing out long-chain per- and polyfluoroalkyl substances on the concentrations of perfluoroalkyl acids and their precursors in the environment? A systematic review

description: Additional file 5. Critical appraisal table.
DOI: 10.6084/m9.figshare.5811900.v2
title: Additional file 5 of What is the effect of phasing out long-chain per- and polyfluoroalkyl substances on the concentrations of perfluoroalkyl acids and their precursors in the environment? A systematic review

description: Additional file 5. Critical appraisal table.
DOI: 10.6084/m9.figshare.5811900.v1
title: MOESM5 of What is the effect of phasing out long-chain per- and polyfluoroalkyl substances on the concentrations of perfluoroalkyl acids and their precursors in the environment? A systematic review

description: Additional file 5. Critical appraisal table.
DOI: 10.5281/zenodo.3590397
title: Analysis data for ""Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance""

description: Analysis data for the manuscript: "Integration of meta-omics data reveals how microbial ecosystems respond to disturbance" Files used with the repository: https://git-r3lab.uni.lu/malte.herold/laots_niche_ecology_analysis/ The archive was split into multiple parts for uploading to zenodo which need to be joined in order to extract the files: <pre><code class="language-bash">cat resultsdir_laots.tar.gz.part_* &gt; resultsdir_laots.tar.gz tar xvfz resultsdir_laots.tar.gz</code></pre>
DOI: 10.6084/m9.figshare.5811876
title: Additional file 1: Table S1. of Dissection of the multigenic wheat stem rust resistance present in the Montenegrin spring wheat accession PI 362698

description: The LMPG-6/PI 362698â 1 linkage map and the positions of significant QTLs detected using seedling and adult data. (XLSX 295 kb)
DOI: 10.6084/m9.figshare.5811876.v1
title: Additional file 1: Table S1. of Dissection of the multigenic wheat stem rust resistance present in the Montenegrin spring wheat accession PI 362698

description: The LMPG-6/PI 362698â 1 linkage map and the positions of significant QTLs detected using seedling and adult data. (XLSX 295 kb)
DOI: 10.6084/m9.figshare.5811837
title: Additional file 1: of Comparative analysis of cerebrospinal fluid metabolites in Alzheimer’s disease and idiopathic normal pressure hydrocephalus in a Japanese cohort

description: The list of metabolites detected in the comprehensive metabolic analysis. Cerebrospinal fluid of patients with Alzheimer’s disease and idiopathic normal pressure hydrocephalus was analyzed with capillary electrophoresis-time-of-flight mass spectrometry and detected metabolites were listed. Values are indicated as μM. ND, not detected. (XLSX 135 kb)
DOI: 10.6084/m9.figshare.5811837.v1
title: Additional file 1: of Comparative analysis of cerebrospinal fluid metabolites in Alzheimer’s disease and idiopathic normal pressure hydrocephalus in a Japanese cohort

description: The list of metabolites detected in the comprehensive metabolic analysis. Cerebrospinal fluid of patients with Alzheimer’s disease and idiopathic normal pressure hydrocephalus was analyzed with capillary electrophoresis-time-of-flight mass spectrometry and detected metabolites were listed. Values are indicated as μM. ND, not detected. (XLSX 135 kb)
DOI: 10.6084/m9.figshare.5811786
title: Human list of microarray datasets before and after hypoxic stress

description: List of NCBI Gene Expression Omnibus (GEO) or EBI ArrayExpress IDs before and after hypoxic stress in mouse.<br>
DOI: 10.6084/m9.figshare.5811786.v2
title: Human list of microarray datasets before and after hypoxic stress

description: List of NCBI Gene Expression Omnibus (GEO) or EBI ArrayExpress IDs before and after hypoxic stress in mouse.<br>
DOI: 10.6084/m9.figshare.5811786.v1
title: Human list of microarray datasets before and after hypoxic stress

description: List of NCBI Gene Expression Omnibus (GEO) or EBI ArrayExpress IDs before and after hypoxic stress in mouse.<br>
DOI: 10.6084/m9.figshare.5811735
title: Mouse list of microarray datasets before and after hypoxic stress

description: List of NCBI Gene Expression Omnibus (GEO) or EBI ArrayExpress IDs before and after hypoxic stress in mouse.
DOI: 10.6084/m9.figshare.5811735.v1
title: Mouse list of microarray datasets before and after hypoxic stress

description: List of NCBI Gene Expression Omnibus (GEO) or EBI ArrayExpress IDs before and after hypoxic stress in mouse.
DOI: 10.5281/zenodo.3961685
title: Analysis data for ""Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance""

description: Analysis data for the manuscript: "Integration of meta-omics data reveals how microbial ecosystems respond to disturbance" Files used with the repository: https://git-r3lab.uni.lu/malte.herold/laots_niche_ecology_analysis/ The archive was split into multiple parts for uploading to zenodo which need to be joined in order to extract the files: <pre><code class="language-bash">cat resultsdir_laots.tar.gz.part_* &gt; resultsdir_laots.tar.gz tar xvfz resultsdir_laots.tar.gz</code></pre> Version 2 contains additional files generated in the revision.
DOI: 10.5281/zenodo.3590396
title: Analysis data for ""Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance""

description: Analysis data for the manuscript: "Integration of meta-omics data reveals how microbial ecosystems respond to disturbance" Files used with the repository: https://git-r3lab.uni.lu/malte.herold/laots_niche_ecology_analysis/ The archive was split into multiple parts for uploading to zenodo which need to be joined in order to extract the files: <pre><code class="language-bash">cat resultsdir_laots.tar.gz.part_* &gt; resultsdir_laots.tar.gz tar xvfz resultsdir_laots.tar.gz</code></pre> Version 2 contains additional files generated in the revision.
DOI: 10.6084/m9.figshare.5811399
title: Automatic detection of a 2D recirculation zone (volume)

description: The Matlab function for automatically detecting 2D recirculation zones based on a 2D high-resolution velocity field<br>
DOI: 10.6084/m9.figshare.5811399.v3
title: Automatic detection of a 2D recirculation zone (volume)

description: Function for automatically detecting a 2D recirculation zone
DOI: 10.6084/m9.figshare.5811399.v4
title: Automatic detection of a 2D recirculation zone (volume)

description: The Matlab function for automatically detecting 2D recirculation zones based on a 2D high-resolution velocity field<br>
DOI: 10.6084/m9.figshare.5811378
title: Isotope Data of Sumatra Squalls

description: This excel file contains the stable isotope data of the rain events in Singapore recorded by our instruments in 2015. Corresponding rain gauge data are also also included
DOI: 10.6084/m9.figshare.5811378.v1
title: Isotope Data of Sumatra Squalls

description: This excel file contains the stable isotope data of the rain events in Singapore recorded by our instruments. Corresponding rain gauge data also included
DOI: 10.6084/m9.figshare.5811378.v3
title: Isotope Data of Sumatra Squalls

description: This excel file contains the stable isotope data of the rain events in Singapore recorded by our instruments in 2015. Corresponding rain gauge data are also also included
DOI: 10.6084/m9.figshare.5811378.v2
title: Isotope Data of Sumatra Squalls

description: This excel file contains the stable isotope data of the rain events in Singapore recorded by our instruments in 2015. Corresponding rain gauge data are also also included
DOI: 10.6084/m9.figshare.5811165
title: Stelzer et al., (2017) Data Analysis.pdf

description: Statistical Analysis from the article "<i>Is it Fish Embryo Test (FET) according to OECD 236 sensible enough for delivering quality data for effluent risk assessment?</i>"<br>
DOI: 10.6084/m9.figshare.5811048
title: Computing in the Classroom: Coding for Kids

description: Presentations from the Working Session @ ESIP 2018 Winter Meeting, Tuesday, January 9, 2:00pm - 3:30pm. Organizing presentation with discussion notes (Coding-in-the-classroom-gslides-ESIPWinter2018.pptx.pdf) and Presentations of actual classroom coding courses led by Becky Reid (block-coding-for-ESIPWinter-20018-Reid.pptx.pdf) and Deb Graf (esipDebGaff-Jan2018-coding-classroom.pptx.pdf) <br> Session information: Computing skills are near and dear to the ESIP mission. The Education Committee is exploring how best to provide educator opportunities to learn Earth Science-relevant computer skills. The possibilities range from building story maps to basic coding to simple smartphone apps. These skills can help educators encourage their students to be creators of the technology around us rather than just consumers. In this session we will hear from current educators, discuss options for different computing curricula, identify the best fit for ESIP Education, and plan the workshop session for the 2018 ESIP Summer Meeting.<br>Presenters:Shelley Olds: Introduction of projectBecky Reid: Block-coding language (Scratch)Debra Graf: Collecting Data that Matters - Physical ComputingLuAnn Dahlman: ESRI Story Maps
DOI: 10.6084/m9.figshare.5809866
title: Building Resilience Before, During, and After Hazards Strike

description: Over the past two decades, our community has been bringing big data from Earth Systems ever closer to the complexity of human systems. Building the U.S. Climate Resilience Toolkit and Climate.gov allowed us to road test and establish a vocabulary for applying climate science to decision making. We've developed metadata schema, templates for developing content, and gained insight into the process that business owners walk through on their path to making decisions following climate-related hazards. Our objective is to put climate tools and data into the hands of decision makers-- those who bear the majority of the costs for the billion dollar disasters that are increasingly striking our nation.
DOI: 10.6084/m9.figshare.5809827
title: Sequences and anotations

description: Sequences and anotations.
DOI: 10.6084/m9.figshare.5809812
title: Using ribosome profiling to quantify differences in protein expression: a case study in Saccharomyces cerevisiae oxidative stress conditions

description: Blevins_Tavella_etal_Scer_transcriptome.gtf: Transcriptome of S.cerevisiae that includes the genomic coordinates of annotated features as well as <i>de novo</i> assembled transcripts mapped for <i>S.cerevisiae</i> S288C. We performed RNA-Seq of polyA+ RNA of yeast was grown in normal and oxidative stress conditions (H<sub>2</sub>O<sub>2</sub>). Paired-end strand-specific sequencing reads were generated. Next, we assembled the transcriptome with Trinity using the sequencing data from all RNA-Seq experiments. Transcripts that did not overlap with annotated genes (XLOC) were kept and combined with the gene annotations to produce the final file.<br><br>Blevins_Tavella_etal_tableofcounts.txt: Number of mapped reads per gene in Ribo-Seq (RF) and RNA-Seq (RNA) experiments, for control and oxidative stress (treated); Rep1: sequencing replicate 1; Rep2: sequencing replicate 2.<br>Blevins_Tavella_etal_X_up.csv: list of genes significantly up-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Blevins_Tavella_etal_X_down.csv: list of genes significantly down-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Blevins_Tavella_Scerevisiaes_5UTR.gtf: annotation file for the 5'UTRs of <i>S.cerevisiae</i> S288C.<br>Blevins_Tavella_gene_lists.xlsx: quantitative RNA (RNA-Seq and Ribo-Seq) and protein (mass spec) data for all genes analyzed.<br>Blevins_Tavella_geneswithdifferentialexpression.xlsx: list of genes that follow different kinds of regulation (homodirectional, compensated mRNA change, translational regulation) as well as genes with increased or decrease translational efficiency (TE) during stress according to Ribodiff.<br>
DOI: 10.6084/m9.figshare.5809812.v1
title: Parallel gene expression analysis with Ribo-Seq and RNA-Seq

description: Tavella_etal_Scer_transcriptome.gtf: Transcriptome of S.cerevisiae that includes the genomic coordinates of annotated features as well as de novo assembled transcripts mapped to genome S288C. Yeast was grown in normal and oxidative stress conditions, as described in the section "Biological Material". De novo transcript assembly was performed with Trinity, transcripts that did not overlap with annotated genes were kept and combined with the gene annotations.<br>Tavella_etal_tableofcounts.txt: Number of mapped reads per gene in Ribo-Seq (RF) and RNA-Seq (RNA) experiments, for control and oxidative stress (treated); Rep1: sequencing replicate 1; Rep2: sequencing replicate 2.<br>Tavella_etal_X_up.csv: list of genes significantly up-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Tavella_etal_X_down.csv: list of genes significantly down-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br><br>
DOI: 10.6084/m9.figshare.5809812.v2
title: Using ribosome profiling to quantify differences in protein expression: a case study in Saccharomyces cerevisiae oxidative stress conditions

description: Tavella_etal_Scer_transcriptome.gtf: Transcriptome of S.cerevisiae that includes the genomic coordinates of annotated features as well as <i>de novo</i> assembled transcripts mapped for yeast strain S288C. We performed RNA-Seq of polyA+ RNA of yeast was grown in normal and oxidative stress conditions (H<sub>2</sub>O<sub>2</sub>). Paired-end strand-specific sequencing reads were generated. Next, we assembled the transcriptome with Trinity, transcripts that did not overlap with annotated genes were kept and combined with the gene annotations.<br>Tavella_etal_tableofcounts.txt: Number of mapped reads per gene in Ribo-Seq (RF) and RNA-Seq (RNA) experiments, for control and oxidative stress (treated); Rep1: sequencing replicate 1; Rep2: sequencing replicate 2.<br>Tavella_etal_X_up.csv: list of genes significantly up-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Tavella_etal_X_down.csv: list of genes significantly down-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br><br>
DOI: 10.6084/m9.figshare.5809812.v3
title: Using ribosome profiling to quantify differences in protein expression: a case study in Saccharomyces cerevisiae oxidative stress conditions

description: Tavella_etal_Scer_transcriptome.gtf: Transcriptome of S.cerevisiae that includes the genomic coordinates of annotated features as well as <i>de novo</i> assembled transcripts mapped for <i>S.cerevisiae</i> S288C. We performed RNA-Seq of polyA+ RNA of yeast was grown in normal and oxidative stress conditions (H<sub>2</sub>O<sub>2</sub>). Paired-end strand-specific sequencing reads were generated. Next, we assembled the transcriptome with Trinity, transcripts that did not overlap with annotated genes were kept and combined with the gene annotations.<br>Tavella_etal_tableofcounts.txt: Number of mapped reads per gene in Ribo-Seq (RF) and RNA-Seq (RNA) experiments, for control and oxidative stress (treated); Rep1: sequencing replicate 1; Rep2: sequencing replicate 2.<br>Tavella_etal_X_up.csv: list of genes significantly up-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Tavella_etal_X_down.csv: list of genes significantly down-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).Scerevisiaes_5UTR.gtf: annotation file for the 5'UTRs of <i>S.cerevisiae</i> S288C.<br>gene_lists: list of proteins in significant Gene Ontology terms (Figure 6 in Blevins, Tavella, et al.)<br>
DOI: 10.6084/m9.figshare.5809812.v4
title: Using ribosome profiling to quantify differences in protein expression: a case study in Saccharomyces cerevisiae oxidative stress conditions

description: Tavella_etal_Scer_transcriptome.gtf: Transcriptome of S.cerevisiae that includes the genomic coordinates of annotated features as well as <i>de novo</i> assembled transcripts mapped for <i>S.cerevisiae</i> S288C. We performed RNA-Seq of polyA+ RNA of yeast was grown in normal and oxidative stress conditions (H<sub>2</sub>O<sub>2</sub>). Paired-end strand-specific sequencing reads were generated. Next, we assembled the transcriptome with Trinity, transcripts that did not overlap with annotated genes were kept and combined with the gene annotations.<br>Tavella_etal_tableofcounts.txt: Number of mapped reads per gene in Ribo-Seq (RF) and RNA-Seq (RNA) experiments, for control and oxidative stress (treated); Rep1: sequencing replicate 1; Rep2: sequencing replicate 2.<br>Tavella_etal_X_up.csv: list of genes significantly up-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Tavella_etal_X_down.csv: list of genes significantly down-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).Scerevisiaes_5UTR.gtf: annotation file for the 5'UTRs of <i>S.cerevisiae</i> S288C.<br>gene_lists: quantitative RNA (RNA-Seq and Ribo-Seq) and protein (mass spec) data for all genes analyzed; list of genes from Figure 6.<br>
DOI: 10.6084/m9.figshare.5809812.v5
title: Using ribosome profiling to quantify differences in protein expression: a case study in Saccharomyces cerevisiae oxidative stress conditions

description: Blevins_Tavella_etal_Scer_transcriptome.gtf: Transcriptome of S.cerevisiae that includes the genomic coordinates of annotated features as well as <i>de novo</i> assembled transcripts mapped for <i>S.cerevisiae</i> S288C. We performed RNA-Seq of polyA+ RNA of yeast was grown in normal and oxidative stress conditions (H<sub>2</sub>O<sub>2</sub>). Paired-end strand-specific sequencing reads were generated. Next, we assembled the transcriptome with Trinity using the sequencing data from all RNA-Seq experiments. Transcripts that did not overlap with annotated genes (XLOC) were kept and combined with the gene annotations to produce the final file.<br><br>Tavella_etal_tableofcounts.txt: Number of mapped reads per gene in Ribo-Seq (RF) and RNA-Seq (RNA) experiments, for control and oxidative stress (treated); Rep1: sequencing replicate 1; Rep2: sequencing replicate 2.<br>Blevins_Tavella_etal_X_up.csv: list of genes significantly up-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Blevins_Tavella_etal_X_down.csv: list of genes significantly down-regulated by Ribo-Seq (X=RP) or RNA-Seq (X=RNA).<br>Blevins_Tavella_Scerevisiaes_5UTR.gtf: annotation file for the 5'UTRs of <i>S.cerevisiae</i> S288C.<br>Blevins_Tavella_gene_lists.xlsx: quantitative RNA (RNA-Seq and Ribo-Seq) and protein (mass spec) data for all genes analyzed.<br>
DOI: 10.6084/m9.figshare.5809797
title: Ectocarpus Es540 Raw data

description: Raw data for publication in PeerJ
DOI: 10.6084/m9.figshare.5809797.v1
title: Ectocarpus Es540 Raw data

description: Raw data for publication in PeerJ
DOI: 10.17028/rd.lboro.5809776
title: Experimental data - characterising a printable flexible strain sensor

description: This file contains the experimental data generated from testing a flexible strain sensor, when integrated to a pneumatic bending actuator, at different input pressures. Both the flexible sensor and bending actuator were directly printed using an FDM printing process.<br>The data includes:- Sheet 1 (Repeatability analysis): testing the sensorized actuator repeatedly at variable input pressures of 12, 14, 16, and 18 psi.- Sheet 2 (Bending calibration): 501 samples from testing the sensorised actuator at an input pressure of 18 psi for training, and another 550 samples at input pressures of 16 and 20 psi for validation. Each sample is an array containing the readings from the printed sensor and onboard pressure sensor, with the corresponding bending angle from the vision system.<br>The related article is available in Loughborough University's Institutional Repository.
DOI: 10.17028/rd.lboro.5809776.v1
title: Experimental data - characterising a printable flexible strain sensor

description: This file contains the experimental data generated from testing a flexible strain sensor, when integrated to a pneumatic bending actuator, at different input pressures. Both the flexible sensor and bending actuator were directly printed using an FDM printing process.<br>The data includes:- Sheet 1 (Repeatability analysis): testing the sensorized actuator repeatedly at variable input pressures of 12, 14, 16, and 18 psi.- Sheet 2 (Bending calibration): 501 samples from testing the sensorised actuator at an input pressure of 18 psi for training, and another 550 samples at input pressures of 16 and 20 psi for validation. Each sample is an array containing the readings from the printed sensor and onboard pressure sensor, with the corresponding bending angle from the vision system.<br>The related article is available in Loughborough University's Institutional Repository.