cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7006328
title: Microarray Methods

description: Microarray information, RNA extraction, RNA labeling, array hybridization, data analysis.
DOI: 10.6084/m9.figshare.7006334.v1
title: Analysis of cell proliferation, migration and invasion

description: Analysis of cell proliferation, migration and invasion
DOI: 10.6084/m9.figshare.7006328.v1
title: Microarray Methods

description: Microarray information, RNA extraction, RNA labeling, array hybridization, data analysis.
DOI: 10.6084/m9.figshare.7006265
title: Electrostatic enhancement factor - notebook

description: Supplementary material for "Electrostatic enhancement factor for the coagulation of silicon nanoparticles in low-temperature plasmas"
DOI: 10.6084/m9.figshare.7006262
title: Convergence MC - data

description: Convergence MC
DOI: 10.6084/m9.figshare.7006262.v1
title: Convergence MC - data

description: Convergence MC
DOI: 10.6084/m9.figshare.7006265.v2
title: Electrostatic enhancement factor - notebook

description: Supplementary material for "Electrostatic enhancement factor for the coagulation of silicon nanoparticles in low-temperature plasmas"
DOI: 10.6084/m9.figshare.7006259
title: MCP potential data

description: MCP potential - figB1
DOI: 10.6084/m9.figshare.7006259.v1
title: MCP potential data

description: MCP potential - figB1
DOI: 10.6084/m9.figshare.7006244
title: MCP at contact

description: MCP at contact
DOI: 10.6084/m9.figshare.7006244.v1
title: MCP at contact

description: MCP at contact
DOI: 10.6084/m9.figshare.7006220
title: transcriptome data of Torreya grandis

description: transcriptome data of Torreya grandis generated by Illumina sequencing.
DOI: 10.6084/m9.figshare.7006220.v1
title: transcriptome data of Torreya grandis

description: transcriptome data of Torreya grandis generated by Illumina sequencing.
DOI: 10.6084/m9.figshare.7006208
title: Descending Equi-heptatonic Circuits

description: <i>EMAP Resources for Euterpe 2</i><br>An experimental composition for Classical-era auloi with diagrams and commentary by Barnaby Brown<br>A new hypothesis is advanced concerning the conception of tonal space: how the octave was divided by the composers of aulos-based music around 500 BCE. A grid of 12 semitones is not the only tonal system that supports extensive modulation. On instruments that bend pitches easily, cyclic modulation is also possible – in fact easier – on a grid that spaces keys one seventh of an octave apart. This functionally-equidistant 7-tone system is suggested by the the finger-hole boring of archaeological finds, notably the Poseidonia, Pydna and Elgin auloi.<br>Download the PDF "Descending_Equi-heptatonic_Circuits…" first. The other files (beginning "EMAPRE2…") are the open formats that allow users to edit the elements bound in this volume.<br>
DOI: 10.6084/m9.figshare.7006199
title: Laser Parameters.xlsx

description: Laser Surface Texturing for Interference Fit Joints
DOI: 10.6084/m9.figshare.7006196
title: An evaluation of the TrueHB hemometer for accuracy (capillary and venous samples)

description: Comparison between the TrueHB hemometer and HemoCue 201+ using capillary and venous blood samples.
DOI: 10.6084/m9.figshare.7006196.v1
title: An evaluation of the TrueHB hemometer for accuracy (capillary and venous samples)

description: Comparison between the TrueHB hemometer and HemoCue 201+ using capillary and venous blood samples.
DOI: 10.6084/m9.figshare.7006199.v1
title: draft v1.xlsx

description: Laser Surface Texturing for Interference Fit Joints
DOI: 10.6084/m9.figshare.7006154
title: Metadata

description: Metadata related to uATAC-seq data for Mezger et. al. (Nature Communications, 2018)<br>
DOI: 10.6084/m9.figshare.7006154.v1
title: Metadata

description: Metadata related to uATAC-seq data for Mezger et. al. (Nature Communications, 2018)<br>
DOI: 10.6084/m9.figshare.7006199.v2
title: draft v1.xlsx

description: Laser Surface Texturing for Interference Fit Joints
DOI: 10.6084/m9.figshare.7006148
title: uATAC-seq samples metadata

description: Metadata file for uATAC-seq samples<br>
DOI: 10.6084/m9.figshare.7006199.v4
title: draft v1.xlsx

description: Laser Surface Texturing for Interference Fit Joints
DOI: 10.6084/m9.figshare.7006199.v5
title: Laser Parameters

description: Laser Surface Texturing for Interference Fit Joints
DOI: 10.6084/m9.figshare.7006028
title: The WMO Stewardship Maturity Matrix for Climate Data (SMM-CD)

description: The WMO Stewardship Maturity Matrix for Climate Data (SMM-CD) was developed as a tool to enable dataset owners to assess and rate their datasets quantifiably, based on internationally-validated data stewardship best practices. The SMM-CD is intended to provide authoritative guidance in relation to the stewardship maturity of those datasets that are to be submitted for inclusion in the WMO Catalogue for Climate Data.
DOI: 10.6084/m9.figshare.7006028.v1
title: The WMO-Wide Stewardship Maturity Matrix for Climate Data

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing U.S. and European maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v2
title: The WMO-Wide Stewardship Maturity Matrix for Climate Data

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing U.S. and European maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v3
title: The WMO-Wide Stewardship Maturity Matrix for Climate Data

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v4
title: The WMO-Wide Stewardship Maturity Matrix for Climate Data

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v5
title: The WMO-Wide Stewardship Maturity Matrix for Climate Data

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v6
title: The WMO-Wide Stewardship Maturity Matrix for Climate Data

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v7
title: The WMO Stewardship Maturity Matrix for Climate Data (SMM-CD)

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v8
title: The WMO Stewardship Maturity Matrix for Climate Data (SMM-CD)

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v9
title: The WMO Stewardship Maturity Matrix for Climate Data (SMM-CD)

description: A WMO-wide Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7006028.v10
title: The WMO Stewardship Maturity Matrix for Climate Data (SMM-CD)

description: A WMO Stewardship Maturity Matrix for Climate Data (SMM-CD) based on existing maturity assessment models to assess and score the management and stewardship maturity of climate datasets
DOI: 10.6084/m9.figshare.7005752
title: Human peripheral blood mononuclear cells (PBMCs, uATAC-seq)

description: uATAC-seq for human peripheral blood mononuclear cells (PBMCs)
DOI: 10.6084/m9.figshare.7005710
title: Mouse embryonic stem cells (mESCs, uATAC-seq)

description: uATAC-seq for mouse embryonic stem cells (mESCs)<br>
DOI: 10.6084/m9.figshare.7005713
title: Human lymphoblast cells (GM12878, uATAC-seq)

description: uATAC-seq for human lymphoblast cells (GM12878)
DOI: 10.6084/m9.figshare.7005752.v1
title: Human peripheral blood mononuclear cells (PBMCs, uATAC-seq)

description: uATAC-seq for human peripheral blood mononuclear cells (PBMCs)
DOI: 10.6084/m9.figshare.7005707
title: Human monocyte cells (uATAC-seq)

description: uATAC-seq for human monocytes<br>
DOI: 10.6084/m9.figshare.7005701
title: Human CD8+ T cells (uATAC-seq)

description: uATAC-seq for CD8+ human T cells<br>
DOI: 10.6084/m9.figshare.7005701.v1
title: Human CD8+ T cells (uATAC-seq)

description: uATAC-seq for CD8+ human T cells<br>
DOI: 10.6084/m9.figshare.7005707.v1
title: Human monocyte cells (uATAC-seq)

description: uATAC-seq for human monocytes<br>
DOI: 10.6084/m9.figshare.7005698
title: Human CD4+ T cells (uATAC-seq)

description: uATAC-seq for CD4+ human T cells<br>
DOI: 10.6084/m9.figshare.7005683
title: Human T cells (uATAC-seq)

description: uATAC-seq for human T cells<br>
DOI: 10.6084/m9.figshare.7005698.v1
title: Human CD4+ T cells (uATAC-seq)

description: uATAC-seq for CD4+ human T cells<br>
DOI: 10.6084/m9.figshare.7005683.v1
title: Human T cells (uATAC-seq)

description: uATAC-seq for human T cells<br>
DOI: 10.6084/m9.figshare.7005539
title: Human B cells (uATAC-seq)

description: uATAC-seq for human B cells<br>
DOI: 10.6084/m9.figshare.7005539.v1
title: Human B cells (uATAC-seq)

description: uATAC-seq for human B cells<br>
DOI: 10.7284/104559
title: Multiplexed data collected during research cruise HRS110525JP using a Delaware SMS instrument system onboard the platform RV Hugh R. Sharp
DOI: 10.6084/m9.figshare.7001597
title: Table S3 Tracking Data from Neuropeptides encoded by <i>nlp-49</i> modulate locomotion, arousal and egg-laying behaviours in <i>Caenorhabditis elegans</i> via the receptor SEB-3

description: Measurements for selected locomotion parameters for wild type, mutant strains, and transgenic lines.
DOI: 10.6084/m9.figshare.7001597.v1
title: Table S3 Tracking Data from Neuropeptides encoded by <i>nlp-49</i> modulate locomotion, arousal and egg-laying behaviours in <i>Caenorhabditis elegans</i> via the receptor SEB-3

description: Measurements for selected locomotion parameters for wild type, mutant strains, and transgenic lines.
DOI: 10.6084/m9.figshare.7001525
title: figure1.2_outbreak_type_tree.pdf

description: Figures for a manuscript describing a Bacillus cereus foodborne outbreak characterized using whole-genome sequencing
DOI: 10.6084/m9.figshare.7001525.v2
title: figure1.2_outbreak_type_tree.pdf

description: Figures for a manuscript describing a Bacillus cereus foodborne outbreak characterized using whole-genome sequencing
DOI: 10.6084/m9.figshare.7001525.v1
title: figure1.2_outbreak_type_tree.pdf

description: Figures for a manuscript describing a Bacillus cereus foodborne outbreak characterized using whole-genome sequencing
DOI: 10.6084/m9.figshare.7001456
title: <i>CDKN2A</i> Depletion Causes Aneuploidy and Enhances Cell Proliferation in Non-Immortalized Normal Human Cells

description: Aneuploidy is a common feature of cancer cells and may contribute to cellular transformation and cancer development. In this study, we found that significant down-regulation of <i>CDKN2A</i>, <i>CHEK2</i>, <i>CDCA8</i>, <i>TP53BP1,</i> and <i>CCNDBP1</i> led to chromosome imbalances in two diploid non-immortalized human cell lines; however, only <i>CDKN2A</i> inhibition enhanced cell proliferation and additionally up-regulated three cell cycle control genes: <i>CDCA8</i>, <i>AURKA,</i> and <i>CCND.</i> These results confirm that <i>CDKN2A</i> is a tumor suppressor gene driving human cancer development by inducing cell aneuploidy and cell cycle up-regulation.
DOI: 10.6084/m9.figshare.7001456.v1
title: <i>CDKN2A</i> Depletion Causes Aneuploidy and Enhances Cell Proliferation in Non-Immortalized Normal Human Cells

description: Aneuploidy is a common feature of cancer cells and may contribute to cellular transformation and cancer development. In this study, we found that significant down-regulation of <i>CDKN2A</i>, <i>CHEK2</i>, <i>CDCA8</i>, <i>TP53BP1,</i> and <i>CCNDBP1</i> led to chromosome imbalances in two diploid non-immortalized human cell lines; however, only <i>CDKN2A</i> inhibition enhanced cell proliferation and additionally up-regulated three cell cycle control genes: <i>CDCA8</i>, <i>AURKA,</i> and <i>CCND.</i> These results confirm that <i>CDKN2A</i> is a tumor suppressor gene driving human cancer development by inducing cell aneuploidy and cell cycle up-regulation.
DOI: 10.6084/m9.figshare.7001414
title: Online supplementary materials for genetic diversity analysis of crested wheatgrass GBS data

description: These files and data sets are online supplementary materials for the paper by Kiran Baral, Bruce Coulman, Bill Biligetu and Yong-Bi Fu (2018) Genotyping-by-sequencing enhances genetic diversity analysis of crested wheatgrass [<i>Agropyron cristatum </i>(L.) Gaertn.]. International Journal of Molecular Sciences. If having questions about these supplementary files, contact Dr. Yong-Bi Fu at yong-bi.fu@agr.gc.ca<br>
DOI: 10.6084/m9.figshare.7001399
title: intestinal microbiota 16S

description: study of the intestinal microbiota alterations due to parasite infections
DOI: 10.6084/m9.figshare.7001414.v1
title: Online supplementary materials for genetic diversity analysis of crested wheatgrass GBS data

description: These files and data sets are online supplementary materials for the paper by Kiran Baral, Bruce Coulman, Bill Biligetu and Yong-Bi Fu (2018) Genotyping-by-sequencing enhances genetic diversity analysis of crested wheatgrass [<i>Agropyron cristatum </i>(L.) Gaertn.]. International Journal of Molecular Sciences. If having questions about these supplementary files, contact Dr. Yong-Bi Fu at yong-bi.fu@agr.gc.ca<br>
DOI: 10.6084/m9.figshare.7001399.v1
title: intestinal microbiota 16S

description: study of the intestinal microbiota alterations due to parasite infections
DOI: 10.6084/m9.figshare.7001243
title: Airfoil data, cross-section parameter calculation and DTM-SFEM program, and FE model of the tapered blade

description: Airfoil data DU40_A17 for the NREL 5MW wind turbineMatlab program for cross-section parameter calculationMathematic program for eigenvalue calculationand FE model of the tapered blade<br>
DOI: 10.6084/m9.figshare.7001162
title: Dataset for: Effects of Bone Marrow-Derived Mesenchymal Stromal Cells on Gene Expression in Human Alveolar Type II Cells Exposed to TNF-α, IL-1β, and IFN-γ

description: The acute respiratory distress syndrome (ARDS) is common in critically ill patients and has a high mortality rate. Mesenchymal stromal cells (MSCs) have demonstrated therapeutic potential in animal models of ARDS, and their benefits occur in part through interactions with alveolar type II (ATII) cells. However, the effects that MSCs have on human ATII cells have not been well studied. Using previously published microarray data, we performed genome-wide differential gene expression analyses of human ATII cells that were 1) unstimulated, 2) exposed to proinflammatory cytokines (CytoMix), or 3) exposed to proinflammatory cytokines plus MSCs. Findings were validated by qPCR. Alveolar type II cells differentially expressed hundreds of genes when exposed either to proinflammatory cytokines or proinflammatory cytokines plus MSCs. Stimulation with proinflammatory cytokines increased expression of inflammatory genes and down-regulated genes related to surfactant function and alveolar fluid clearance. Some of these changes, including expression of some cytokines and genes related to surfactant, were reversed by exposure to MSCs. In addition, MSCs induced up-regulation of other potentially beneficial genes, such as those related to extracellular matrix remodeling. We confirmed several of these gene expression changes by qPCR. Thus, ATII cells down-regulate genes associated with surfactant and alveolar fluid clearance when exposed to inflammatory cytokines, and mesenchymal stromal cells partially reverse many of these gene expression changes.
DOI: 10.6084/m9.figshare.7001156
title: Better figures for natural sciences

description: For every research finding, scientists find a figure that supports their claims. Visual communication and data visualization strategies are however rarely taught. Here are a couple of tipps and tricks for producing visualizations that communicate research results. <br>
DOI: 10.6084/m9.figshare.7001162.v1
title: Dataset for: Effects of Bone Marrow-Derived Mesenchymal Stromal Cells on Gene Expression in Human Alveolar Type II Cells Exposed to TNF-α, IL-1β, and IFN-γ

description: The acute respiratory distress syndrome (ARDS) is common in critically ill patients and has a high mortality rate. Mesenchymal stromal cells (MSCs) have demonstrated therapeutic potential in animal models of ARDS, and their benefits occur in part through interactions with alveolar type II (ATII) cells. However, the effects that MSCs have on human ATII cells have not been well studied. Using previously published microarray data, we performed genome-wide differential gene expression analyses of human ATII cells that were 1) unstimulated, 2) exposed to proinflammatory cytokines (CytoMix), or 3) exposed to proinflammatory cytokines plus MSCs. Findings were validated by qPCR. Alveolar type II cells differentially expressed hundreds of genes when exposed either to proinflammatory cytokines or proinflammatory cytokines plus MSCs. Stimulation with proinflammatory cytokines increased expression of inflammatory genes and down-regulated genes related to surfactant function and alveolar fluid clearance. Some of these changes, including expression of some cytokines and genes related to surfactant, were reversed by exposure to MSCs. In addition, MSCs induced up-regulation of other potentially beneficial genes, such as those related to extracellular matrix remodeling. We confirmed several of these gene expression changes by qPCR. Thus, ATII cells down-regulate genes associated with surfactant and alveolar fluid clearance when exposed to inflammatory cytokines, and mesenchymal stromal cells partially reverse many of these gene expression changes.
DOI: 10.6084/m9.figshare.7001114
title: Datasets

description: Datasets for Paper "Temporal Understanding of Human Mobility: A Multi-time Scale Analysis"
DOI: 10.6084/m9.figshare.7001117
title: Supplementary Material for: Transient Ischaemic Attack Rarely Precedes Stroke in a Cohort with Low Proportions of Large Artery Atherosclerosis: A Population-Based Study

description: <b><i>Background:</i></b> Ischaemic stroke is reportedly preceded by transient ischaemic attack (TIA) in 15–30% of all cases. The risk of stroke following TIA is highest in the presence of unstable atherosclerotic plaques in large arteries. The recent population-based Adelaide Stroke Incidence Study describes a population with a low proportion (16%) of stroke attributable to large artery atherosclerosis (LAA). We hypothesized that this population-based ischaemic stroke cohort would have a lower rate of preceding TIA than previously reported. <b><i>Methods:</i></b> This paper is a prospective ascertainment of all suspected TIAs and strokes in a 12-month period from 2009 to 2010. Ischaemic stroke pathogenesis was classified by the TOAST criteria. Details of preceding TIA events were scrutinised. <b><i>Results:</i></b> In this 12-month period, 318 stroke events in 301 individuals were recorded. Of the total 258 ischaemic strokes, 16% (95% confidence interval [CI] 12–22) were from LAA. Of 258 ischaemic stroke patients, only 11 (4%; 95% CI 2–7) reported symptoms in the preceding 90 days consistent with TIA. Nine (82%) sought medical attention. The median ABCD<sup>2</sup> score in this group was 4.5 (IQR: 3–7), and the median time of event prior to stroke was 20 days (IQR: 4–32). <b><i>Conclusion:</i></b> In our population-based cohort, rates of TIA preceding ischaemic stroke were much lower than previously reported, probably reflective of effective secondary prevention (active TIA clinics) and primary prevention (limiting LAA prevalence). In our population, further enhancements in TIA care will be of limited yield.
DOI: 10.6084/m9.figshare.7001117.v1
title: Supplementary Material for: Transient Ischaemic Attack Rarely Precedes Stroke in a Cohort with Low Proportions of Large Artery Atherosclerosis: A Population-Based Study

description: <b><i>Background:</i></b> Ischaemic stroke is reportedly preceded by transient ischaemic attack (TIA) in 15–30% of all cases. The risk of stroke following TIA is highest in the presence of unstable atherosclerotic plaques in large arteries. The recent population-based Adelaide Stroke Incidence Study describes a population with a low proportion (16%) of stroke attributable to large artery atherosclerosis (LAA). We hypothesized that this population-based ischaemic stroke cohort would have a lower rate of preceding TIA than previously reported. <b><i>Methods:</i></b> This paper is a prospective ascertainment of all suspected TIAs and strokes in a 12-month period from 2009 to 2010. Ischaemic stroke pathogenesis was classified by the TOAST criteria. Details of preceding TIA events were scrutinised. <b><i>Results:</i></b> In this 12-month period, 318 stroke events in 301 individuals were recorded. Of the total 258 ischaemic strokes, 16% (95% confidence interval [CI] 12–22) were from LAA. Of 258 ischaemic stroke patients, only 11 (4%; 95% CI 2–7) reported symptoms in the preceding 90 days consistent with TIA. Nine (82%) sought medical attention. The median ABCD<sup>2</sup> score in this group was 4.5 (IQR: 3–7), and the median time of event prior to stroke was 20 days (IQR: 4–32). <b><i>Conclusion:</i></b> In our population-based cohort, rates of TIA preceding ischaemic stroke were much lower than previously reported, probably reflective of effective secondary prevention (active TIA clinics) and primary prevention (limiting LAA prevalence). In our population, further enhancements in TIA care will be of limited yield.
DOI: 10.6084/m9.figshare.7001111
title: Interactions BridgeDb ID Mapping Database (20180822)

description: BridgeDb ID mapping database for interactions, using Rhea (version 96) as data source.<br>Several updated mappings compared to release of 2016-04-25.
DOI: 10.6084/m9.figshare.7001111.v1
title: Interactions BridgeDb ID Mapping Database (20180822)

description: BridgeDb ID mapping database for interactions, using Rhea (version 96) as data source.<br>Several updated mappings compared to release of 2016-04-25.
DOI: 10.6084/m9.figshare.7001114.v1
title: Datasets

description: Datasets for Paper "Temporal Understanding of Human Mobility: A Multi-time Scale Analysis"
DOI: 10.6084/m9.figshare.7001105
title: Online video I

description: This video shows beating cardiomyocytes in culture, hESC-derived. EB based differentiation protocol.
DOI: 10.6084/m9.figshare.7001108
title: table_genes_counts_RPKM

description: This table contains all the counts and RPKM values of genes identified on RNA-seq of hESC cardiac differentiation, including Ribosome-free and Polysome-bound fractions.
DOI: 10.6084/m9.figshare.7001105.v1
title: Online video I

description: This video shows beating cardiomyocytes in culture, hESC-derived. EB based differentiation protocol.
DOI: 10.6084/m9.figshare.7001108.v1
title: table_genes_counts_RPKM

description: This table contains all the counts and RPKM values of genes identified on RNA-seq of hESC cardiac differentiation, including Ribosome-free and Polysome-bound fractions.