cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12896038.v1
title: Table S6 from Echolocation call frequency variation in horseshoe bats: molecular basis unveiled by comparative transcriptomics

description: A full list of the 750 DEGs in <i>himalayanus</i> vs. <i>macrurus</i> with fold-change and FDR.
DOI: 10.6084/m9.figshare.5660707
title: automated morphometry.zip

description: Standalone binary executables along with image datasets for segmenting images of various model organisms and extracting morphometric parameters. The code automatically segments the cell images without requiring user intervention.<br>
DOI: 10.6084/m9.figshare.5660701
title: Aantal beoordeelde onderzoeken naar gentherapie of met geneesmiddelen die een genetisch gemodificeerde organismen bevatten in 2008, 2013, 2015, 2016 en 2017, uitgesplitst naar type besluit

description: Aantal beoordeelde onderzoeken naar gentherapie of met geneesmiddelen die een genetisch gemodificeerde organismen bevatten in 2008, 2013, 2015, 2016 en 2017, uitgesplitst naar type besluit (positief, negatief, onbekend). <br>Van een aantal beoordeling valt niet te achterhalen of er een positief of negatief besluit is genomen (besluit onbekend).<br><br>* Het totaal aantal beoordelingen is gecorrigeerd aan de hand van het CCMO jaarverslag 2016. ** Het totaal aantal beoordelingen is gecorrigeerd aan de hand van het CCMO jaarverslag 2017. <br><br>Gebruikte bronnen: CCMO jaarverslagen 2008 (pag.18, 28-29), 2013 (pag. 27, 29), 2015 (pag. 6-8), 2016 (pag. 12, 14-15) en 2017 (pag.12, 14-15). Geraadpleegd 20 maart 2018.<br>
DOI: 10.6084/m9.figshare.5660701.v3
title: Aantal beoordeelde onderzoeken naar gentherapie of met geneesmiddelen die een genetisch gemodificeerde organismen bevatten in 2008, 2013, 2015, 2016 en 2017, uitgesplitst naar type besluit

description: Aantal beoordeelde onderzoeken naar gentherapie of met geneesmiddelen die een genetisch gemodificeerde organismen bevatten in 2008, 2013, 2015, 2016 en 2017, uitgesplitst naar type besluit (positief, negatief, onbekend). <br>Van een aantal beoordeling valt niet te achterhalen of er een positief of negatief besluit is genomen (besluit onbekend).<br><br>* Het totaal aantal beoordelingen is gecorrigeerd aan de hand van het CCMO jaarverslag 2016. ** Het totaal aantal beoordelingen is gecorrigeerd aan de hand van het CCMO jaarverslag 2017. <br><br>Gebruikte bronnen: CCMO jaarverslagen 2008 (pag.18, 28-29), 2013 (pag. 27, 29), 2015 (pag. 6-8), 2016 (pag. 12, 14-15) en 2017 (pag.12, 14-15). Geraadpleegd 20 maart 2018.<br>
DOI: 10.6084/m9.figshare.5660701.v2
title: Aantal beoordeelde onderzoeken naar gentherapie of met geneesmiddelen die een genetisch gemodificeerde organismen bevatten in 2008, 2013, 2015, 2016 en 2017, uitgesplitst naar type besluit

description: Aantal beoordeelde onderzoeken naar gentherapie of met geneesmiddelen die een genetisch gemodificeerde organismen bevatten in 2008, 2013, 2015, 2016 en 2017, uitgesplitst naar type besluit (positief, negatief, onbekend). <br>Van een aantal beoordeling valt niet te achterhalen of er een positief of negatief besluit is genomen (besluit onbekend).<br><br>* Het totaal aantal beoordelingen is gecorrigeerd aan de hand van het CCMO jaarverslag 2016. <br><br>Gebruikte bronnen: CCMO jaarverslagen 2008 (pag.18, 28-29), 2013 (pag. 27, 29), 2015 (pag. 6-8), 2016 (pag. 12, 14-15) en 2017 (pag.12, 14-15). Geraadpleegd 20 maart 2018.<br>
DOI: 10.6084/m9.figshare.5660689
title: Eulerian snapshots with gravity

description: Eulerian snapshots with gravity
DOI: 10.6084/m9.figshare.5660689.v2
title: Eulerian snapshots with gravity

description: Eulerian snapshots with gravity
DOI: 10.6084/m9.figshare.5660689.v1
title: Eulerian snapshots with gravity

description: Eulerian snapshots with gravity
DOI: 10.6084/m9.figshare.5660608
title: data for "Aridity weakens population-level effects of multiple species interactions on Hibiscus meyeri"

description: These datasheets are all associated with:Louthan, A.M., Pringle, R.M., Goheen, J.R., Palmer, T.M., Morris, W.F., and Doak, D.F. in press. Aridity weakens population-level effects of multiple species interactions on Hibiscus meyeri. Proceedings of the National Academy of Sciences-USA.<br>See the "list of datasheets" word document in this collection for information about specific files.
DOI: 10.6084/m9.figshare.5660608.v2
title: data for "Aridity weakens population-level effects of multiple species interactions on Hibiscus meyeri"

description: These datasheets are all associated with:Louthan, A.M., Pringle, R.M., Goheen, J.R., Palmer, T.M., Morris, W.F., and Doak, D.F. in press. Aridity weakens population-level effects of multiple species interactions on Hibiscus meyeri. Proceedings of the National Academy of Sciences-USA.<br>See the "list of datasheets" word document in this collection for information about specific files.
DOI: 10.6084/m9.figshare.5660608.v1
title: data for "Aridity weakens population-level effects of multiple species interactions on Hibiscus meyeri"

description: These datasheets are all associated with:Louthan, A.M., Pringle, R.M., Goheen, J.R., Palmer, T.M., Morris, W.F., and Doak, D.F. in press. Aridity weakens population-level effects of multiple species interactions on Hibiscus meyeri. Proceedings of the National Academy of Sciences-USA.<br>See the "list of datasheets" word document in this collection for information about specific files.
DOI: 10.6084/m9.figshare.5660542
title: Dataset: The role of isolation on contrasting phylogeographic patterns in two cave crustaceans.

description: Alignment files (NEXUS format) and phylogenetic tree files (Newick format) resulting from the study "The role of isolation on contrasting phylogeographic patterns in two cave crustaceans" published in BMC Evolutionary Biology.
DOI: 10.6084/m9.figshare.5660542.v1
title: Dataset: The role of isolation on contrasting phylogeographic patterns in two cave crustaceans.

description: Alignment files (NEXUS format) and phylogenetic tree files (Newick format) resulting from the study "The role of isolation on contrasting phylogeographic patterns in two cave crustaceans" published in BMC Evolutionary Biology.
DOI: 10.6084/m9.figshare.5660503
title: Inference on the Gamma Distribution

description: This study develops inferential procedures for a gamma distribution. Based on the Cornish–Fisher expansion and pivoting the cumulative distribution function, an approximate confidence interval for the gamma shape parameter is derived. The generalized confidence intervals for the rate parameter and other quantities such as mean are explored. The proposed generalized inferential procedures are extended to construct prediction limits for a single future measurement and for at least <i>p</i> of <i>m</i> measurements at each of <i>r</i> locations. The performance of the proposed procedures is evaluated using Monte Carlo simulation. The simulation results show that the proposed procedures are very satisfactory. Finally, three real examples are used to illustrate the proposed procedures. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5660473
title: Initial germ cell to somatic cell ratio impacts the efficiency of SSC expansion <i>in vitro</i>

description: Spermatogonial Stem Cell (SSC) expansion <i>in vitro</i> remains a major challenge in efforts to preserve fertility among pubertal cancer survivor boys. The current study focused on innovative approaches to optimize SSC expansion. Six- to eight-week-old CD-1 murine testicular samples were harvested by mechanical and enzymatic digestion. Cell suspensions were incubated for differential plating (DP). After DP, we established two experiments comparing single vs. repetitive DP (S-DP and R-DP, respectively) until passage 2 (P2) completion. Each experiment included a set of cultures consisting of 5 floating-to-attached cell ratios (5, 10, 15, 20, and 25) and control cultures containing floating cells only. We found similar cell and colony count drops during P0 in both S- and R-DP. During P2, counts increased in S-DP in middle ratios (10, 15, and especially 20) relative to low and high ratios (5 and 25, respectively). Counts dropped extensively in R-DP after passage 2. The superiority of intermediate ratios was demonstrated by enrichment of GFRα1 by qPCR. The optimal ratio of 20 in S-DP contained significantly increased proportions of GFRα1-positive cells (25.8±5.8%) as measured by flow cytometry compared to after DP (1.9±0.7%, <i>p</i>&lt;0.0001), as well as positive immunostaining for GFRα1 and UTF1, with rare Sox9-positive cells. This is the first report of the impact of initial floating-to-attached cell ratios on SSC proliferation <i>in vitro</i>. <b>Abbreviations</b>: SSC: spermatogonial stem cells; DP: differential plating; NOA: non-obstructive azoospermia; MACS: magnetic-activated cells sorting; FACS: fluorescence-activated cells sorting
DOI: 10.6084/m9.figshare.5660473.v1
title: Initial germ cell to somatic cell ratio impacts the efficiency of SSC expansion <i>in vitro</i>

description: Spermatogonial Stem Cell (SSC) expansion <i>in vitro</i> remains a major challenge in efforts to preserve fertility among pubertal cancer survivor boys. The current study focused on innovative approaches to optimize SSC expansion. Six- to eight-week-old CD-1 murine testicular samples were harvested by mechanical and enzymatic digestion. Cell suspensions were incubated for differential plating (DP). After DP, we established two experiments comparing single vs. repetitive DP (S-DP and R-DP, respectively) until passage 2 (P2) completion. Each experiment included a set of cultures consisting of 5 floating-to-attached cell ratios (5, 10, 15, 20, and 25) and control cultures containing floating cells only. We found similar cell and colony count drops during P0 in both S- and R-DP. During P2, counts increased in S-DP in middle ratios (10, 15, and especially 20) relative to low and high ratios (5 and 25, respectively). Counts dropped extensively in R-DP after passage 2. The superiority of intermediate ratios was demonstrated by enrichment of GFRα1 by qPCR. The optimal ratio of 20 in S-DP contained significantly increased proportions of GFRα1-positive cells (25.8±5.8%) as measured by flow cytometry compared to after DP (1.9±0.7%, <i>p</i>&lt;0.0001), as well as positive immunostaining for GFRα1 and UTF1, with rare Sox9-positive cells. This is the first report of the impact of initial floating-to-attached cell ratios on SSC proliferation <i>in vitro</i>. <b>Abbreviations</b>: SSC: spermatogonial stem cells; DP: differential plating; NOA: non-obstructive azoospermia; MACS: magnetic-activated cells sorting; FACS: fluorescence-activated cells sorting
DOI: 10.6084/m9.figshare.5660470
title: Bat flies infected with Laboulbeniales at Reserve Natural Cerro Chucantí

description: Overview of studied bat flies. Bat fly species sampled from Chucantí during this study, with the prevalence of Laboulbeniales infections and indication of parasite species.
DOI: 10.6084/m9.figshare.5660470.v1
title: Bat flies infected with Laboulbeniales at Reserve Natural Cerro Chucantí

description: Overview of studied bat flies. Bat fly species sampled from Chucantí during this study, with the prevalence of Laboulbeniales infections and indication of parasite species.
DOI: 10.6084/m9.figshare.5660467
title: List of bat fly species at Reserva Natural Cerro Chucantí

description: List of bat fly species collected during this study, with indication of their bat host species and number of infected bats, the number of collected bat flies (N), and the specificity index (SI) = the percentage of total bat flies of a single species found on one host. * = non-primary association.
DOI: 10.6084/m9.figshare.5660467.v1
title: List of bat fly species at Reserva Natural Cerro Chucantí

description: List of bat fly species collected during this study, with indication of their bat host species and number of infected bats, the number of collected bat flies (N), and the specificity index (SI) = the percentage of total bat flies of a single species found on one host. * = non-primary association.
DOI: 10.6084/m9.figshare.5660461
title: List of bat species at Reserva Natural Cerro Chucantí

description: List of bat species captured at Chucantí Nature Reserve in the Darién Province, Panama. For each species, number of captured individuals (N), average forearm length (in mm), and average body mass (in g) are provided. Recaptures are not included in sample sizes or averages. Photos: Danny Haelewaters and Annabel Dorrestein.
DOI: 10.6084/m9.figshare.5660461.v1
title: List of bat species at Reserva Natural Cerro Chucantí

description: List of bat species captured at Chucantí Nature Reserve in the Darién Province, Panama. For each species, number of captured individuals (N), average forearm length (in mm), and average body mass (in g) are provided. Recaptures are not included in sample sizes or averages. Photos: Danny Haelewaters and Annabel Dorrestein.
DOI: 10.6084/m9.figshare.5660398
title: Allometric Trophic Niche Network model outputs and processing code from: On the prevalence and dynamics of inverted trophic pyramids and otherwise top-heavy communities

description: This zip file contains raw and processed data files from Allometric Trophic Niche Network modeling. Details of the models are in the paper's methods or supplements.
DOI: 10.6084/m9.figshare.5660398.v1
title: Allometric Trophic Niche Network model outputs and processing code

description: This zip file contains raw and processed data files from Allometric Trophic Niche Network modeling. Details of the models are in the paper's methods or supplements.
DOI: 10.6084/m9.figshare.5660398.v2
title: Allometric Trophic Niche Network model outputs and processing code from: On the prevalence and dynamics of inverted trophic pyramids and otherwise top-heavy communities

description: This zip file contains raw and processed data files from Allometric Trophic Niche Network modeling. Details of the models are in the paper's methods or supplements.
DOI: 10.6084/m9.figshare.5660179
title: Supporting Material

description: Synthetic gene regulation for independent external induction of the Saccharomyces cerevisiae pseudohyphal growth phenotype supporting material.
DOI: 10.6084/m9.figshare.5660179.v1
title: Supporting Material

description: Synthetic gene regulation for independent external induction of the Saccharomyces cerevisiae pseudohyphal growth phenotype supporting material.
DOI: 10.6084/m9.figshare.5659480
title: Data - Plos One 10.1371/journal.pone.0188779

description: This file contains the supplementary data of the article published at Plos One "Topical use and systemic action of green and roasted coffee oils and ground oils in a cutaneous incision model in rats".All relevant information, such as methodology, results and discussion can be found with the corresponding author (Bruno G Lania) or at Plos One website and others website in which this journal in indexed.<br>10.1371/journal.pone.0188779
DOI: 10.6084/m9.figshare.5659480.v1
title: Data - Plos One 10.1371/journal.pone.0188779

description: This file contains the supplementary data of the article published at Plos One "Topical use and systemic action of green and roasted coffee oils and ground oils in a cutaneous incision model in rats".All relevant information, such as methodology, results and discussion can be found with the corresponding author (Bruno G Lania) or at Plos One website and others website in which this journal in indexed.<br>10.1371/journal.pone.0188779
DOI: 10.6084/m9.figshare.5659465
title: Simulation with strong gravitational source

description: Simulation with strong gravitational source
DOI: 10.6084/m9.figshare.5659465.v1
title: Simulation with strong gravitational source

description: Simulation with strong gravitational source
DOI: 10.6084/m9.figshare.5659390
title: ADw

description: Ala-dipeptide in explicit water molecules.AMBER parm99SB for peptide, tip3p for water molecule.10ns simulation (NPT constatnt) after equilibration.Gromacs was used.
DOI: 10.6084/m9.figshare.5659390.v1
title: ADw

description: Ala-dipeptide in explicit water molecules.AMBER parm99SB for peptide, tip3p for water molecule.10ns simulation (NPT constatnt) after equilibration.Gromacs was used.
DOI: 10.6084/m9.figshare.5659330
title: The fascicle diameter

description: <br>The quantitative data relating to the fascicle diameter measurements of the respective specimenn in each age group are contained in a MS Excel file, ANALYSIS_FASCICLES_DIAM-ALL_SCI_DATA.xls. <br>The file contains eight worksheets corresponding to the respective age groups, namely 'mtt01', 'mtt02', 'mtt04', 'mtt11', 'mtt23', 'mtt29', 'mtt31' and 'mtt35'. <br>The column descriptions for each worksheet are as follows:COLUMN A: File name of the individual specimenCOLUMN B: Fascicle Diameter (micrometer)COLUMN C: Standard error of mean (micrometer)<br>
DOI: 10.6084/m9.figshare.5659330.v1
title: The fascicle diameter

description: <br>The quantitative data relating to the fascicle diameter measurements of the respective specimenn in each age group are contained in a MS Excel file, ANALYSIS_FASCICLES_DIAM-ALL_SCI_DATA.xls. <br>The file contains eight worksheets corresponding to the respective age groups, namely 'mtt01', 'mtt02', 'mtt04', 'mtt11', 'mtt23', 'mtt29', 'mtt31' and 'mtt35'. <br>The column descriptions for each worksheet are as follows:COLUMN A: File name of the individual specimenCOLUMN B: Fascicle Diameter (micrometer)COLUMN C: Standard error of mean (micrometer)<br>
DOI: 10.6084/m9.figshare.5659129
title: Snaphots of simulation without gravity

description: Simulations of a wind eroding a gas blob<br>
DOI: 10.6084/m9.figshare.5659129.v1
title: Snaphots of simulation without gravity

description: Simulations of a wind eroding a gas blob<br>
DOI: 10.6084/m9.figshare.5659090
title: Snapshot files for the collision without gravity

description: Snapshot files of the simulation of a collision between a star and a protostar<br>
DOI: 10.6084/m9.figshare.5659090.v1
title: Snapshot files for the collision without gravity

description: Snapshot files of the simulation of a collision between a star and a protostar<br>
DOI: 10.6084/m9.figshare.5659048
title: Crop traits drive soil carbon sequestration under organic farming

description: The two datasets available were used to compare soil organic carbon stocks and soil organic carbon sequestration rates (Dataset S1) and soil respiration (Dataset S2) in organic vs. conventional farming systems across a global meta-analysis.<br>
DOI: 10.25381/cput.5658970.v1
title: Metagenomic data of free cyanide and thiocyanate degrading bacterial communities

description: The data presented in this article contains the bacterial community structure of the free cyanide (CN- ) and thiocyanate (SCN- ) degrading organisms that were isolated from electroplating wastewater and synthetic SCN- containing wastewater. PCR amplifi- cation of the 16S rRNA V1-V3 regions was undertaken using the 27F and 518R oligonucleotide primers following the metacommunity DNA extraction procedure. The PCR amplicons were processed using the illuminas reaction kits as per manufacturer's instruction and sequenced using the illuminas MiSeq-2000, using the MiSeq V3 kit. The data was processed using bioinformatics tools such as QIIME and the raw sequence files are available via NCBI's Sequence Read Archive (SRA) database. & 2017 Published by Elsevier Inc. This is an open access article under the CC BY license
DOI: 10.6084/m9.figshare.5658946
title: Caring for musicians’ ears: insights from audiologists and manufacturers reveal need for evidence-based guidelines

description: <i>Objective</i>: This study investigated clinical care delivered to musicians in Australia by audiologists and manufacturers of musicians’ hearing protectors (MHP). <i>Design</i>: Audiologists with experience treating musicians were invited to complete a survey on their service delivery. A second survey was administered to manufacturers of MHPs. <i>Study sample</i>: Four manufacturers of MHP and 31 audiologists completed the surveys. Post hoc analyses were performed comparing the responses of audiologists with more versus less clinical experience; and those with and without musical training. <i>Results</i>: There was considerable variation in the audiological care provided to musicians. Only one-third of audiologists performed pure-tone audiometry prior to MHP fitting, and there was little consistency across the sample in relation to impression taking, preferred attenuation or selection of canal length. There was also significant variation in the manufacturers’ approach to MHP, each of whom provided different recommendations regarding preferred impression techniques and material viscosity. <i>Conclusions</i>: The results of this study reveal lack of consistency across the hearing healthcare sector with respect to care of musicians’ hearing, with potential to impact upon the satisfaction with, and usage of, MHP. There is need for evidence-based, best practice guidelines and training to support clinical audiologists in providing optimal care.
DOI: 10.6084/m9.figshare.5658946.v1
title: Caring for musicians’ ears: insights from audiologists and manufacturers reveal need for evidence-based guidelines

description: <i>Objective</i>: This study investigated clinical care delivered to musicians in Australia by audiologists and manufacturers of musicians’ hearing protectors (MHP). <i>Design</i>: Audiologists with experience treating musicians were invited to complete a survey on their service delivery. A second survey was administered to manufacturers of MHPs. <i>Study sample</i>: Four manufacturers of MHP and 31 audiologists completed the surveys. Post hoc analyses were performed comparing the responses of audiologists with more versus less clinical experience; and those with and without musical training. <i>Results</i>: There was considerable variation in the audiological care provided to musicians. Only one-third of audiologists performed pure-tone audiometry prior to MHP fitting, and there was little consistency across the sample in relation to impression taking, preferred attenuation or selection of canal length. There was also significant variation in the manufacturers’ approach to MHP, each of whom provided different recommendations regarding preferred impression techniques and material viscosity. <i>Conclusions</i>: The results of this study reveal lack of consistency across the hearing healthcare sector with respect to care of musicians’ hearing, with potential to impact upon the satisfaction with, and usage of, MHP. There is need for evidence-based, best practice guidelines and training to support clinical audiologists in providing optimal care.
DOI: 10.6084/m9.figshare.5658943
title: Four-to-one coarse-grained polarisable water model for dissipative particle dynamics

description: An accurate description of long-ranged electrostatics in molecular simulations necessitates the solvent models that respond in accordance with the local electric fields. Given this fact, many polarisable versions of water models exist for molecular dynamics simulations. However, there is only one model of water which is polarisable available for dissipative particle dynamics (DPD) simulations, and it is based on three-to-one coarse-graining scheme. The recent coarse-grained models of lipids meant for biomembrane studies using DPD are MARTINI-like models and have level of coarse-graining four-to-one. So a polarisable model of water needed to study the biological processes in conjunction with these lipid models should also be of the same degree of coarse-graining. Therefore, we present a DPD model of polarisable water with degree of coarse-graining four-to-one. By reflecting the positions of two Drude oscillators, the model responds to local electric fields, setting up induced polarisation locally. The model parameters are to reproduce the relative dielectric permittivity and compressibility of water at room temperature. The validity and applicability of the water model have been ascertained through in-silico evidences presented.