cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6002408
title: GeCKOv2 Data

description: Data files related to GeCKOv2 data set as used in JACKS 2018 paper
DOI: 10.6084/m9.figshare.6002408.v1
title: GeCKOv2 Data

description: Data files related to GeCKOv2 data set as used in JACKS 2018 paper
DOI: 10.6084/m9.figshare.6002402
title: Yusa V1.0 Data

description: data files used to generate results in JACKS 2019 paper
DOI: 10.6084/m9.figshare.6002402.v1
title: Yusa V1.0 Data

description: data files used to generate results in JACKS 2018 paper
DOI: 10.6084/m9.figshare.6002402.v3
title: Yusa V1.0 Data

description: data files used to generate results in JACKS 2019 paper
DOI: 10.6084/m9.figshare.6002402.v2
title: Yusa V1.0 Data

description: data files used to generate results in JACKS 2019 paper
DOI: 10.6084/m9.figshare.6002378
title: Appraisal models of intercultural communication apprehension - online supplemental material

description: Online supplemental materials include: frequency and percentage of each type of interaction partner in the recalled interactions; descriptive statistics of variables and results of anova; an example of mplus code; details of testing measurement invariance.
DOI: 10.6084/m9.figshare.6002378.v1
title: Appraisal models of intercultural communication apprehension - online supplemental material

description: Online supplemental materials include: frequency and percentage of each type of interaction partner in the recalled interactions; descriptive statistics of variables and results of anova; an example of mplus code; details of testing measurement invariance.
DOI: 10.6084/m9.figshare.6002369
title: Funders List Open Access Monographs in Media Studies (updated version)

description: This list is meant as a resource for researchers in film and media studies to help them find their way to open access funding at their national research council or institutional funding body.<br>The list has been developed for the project: www.oamediastudies.com
DOI: 10.6084/m9.figshare.6002369.v1
title: Funder List Open Access Monographs in Media Studies (updated version)

description: This list is meant as a resource for researchers in film and media studies to help them find their way to open access funding at their national research council or institutional funding body.<br>The list has been developed for the project: www.oamediastudies.com
DOI: 10.6084/m9.figshare.6002273
title: Structural and diffusion-weighted images of the adolescent brain

description: Diffusion weighted data (DWI volumes, bval and bvec files per subject) processed via ExploreDTI, and unprocessed structural images (T1) from typically-developing participants (late childhood to adolescence).<br>Subjects are the same as the NODDI measures of brain development dataset.
DOI: 10.6084/m9.figshare.6002273.v1
title: Structural and diffusion-weighted images of the adolescent brain

description: Diffusion weighted data (DWI volumes, bval and bvec files per subject) processed via ExploreDTI, and unprocessed structural images (T1) from typically-developing participants (late childhood to adolescence).<br>Subjects are the same as the NODDI measures of brain development dataset.
DOI: 10.6084/m9.figshare.6002219
title: Quantum chemical insight into molecular structure, density functional theory calculations, vibrational dynamics, natural population analysis, Hirshfeld analysis, and molecular docking approach to chalcone 1-4-bromophenyl-3-(2-methoxyphenyl)prop-2-en-1-one

description: The structure of the novel chalcone 1-4-bromophenyl-3-(2-methoxyphenyl)prop-2-en-1-one has been characterized by Fourier transform infrared and Fourier transform Raman. Density functional theory with Becke, 3-parameter, Lee-Yang-Parr functional was used for the optimization of geometry. The comprehensive assignments of the vibrational spectra have been performed with the aid of normal coordinate analysis. Stability of the molecule and intra/intermolecular charge transfer have been analyzed using natural bond orbital analysis. The existence of intermolecular C-H⋯O, blueshifted hydrogen bond was investigated by bond length variation. Hirshfeld and two-dimensional fingerprint plot analyses have been performed to study the nature of interactions present in the molecule. The docked complex gives a constancy of −8.2 kcal/mol toward the androgen receptor.
DOI: 10.6084/m9.figshare.6002219.v1
title: Quantum chemical insight into molecular structure, density functional theory calculations, vibrational dynamics, natural population analysis, Hirshfeld analysis, and molecular docking approach to chalcone 1-4-bromophenyl-3-(2-methoxyphenyl)prop-2-en-1-one

description: The structure of the novel chalcone 1-4-bromophenyl-3-(2-methoxyphenyl)prop-2-en-1-one has been characterized by Fourier transform infrared and Fourier transform Raman. Density functional theory with Becke, 3-parameter, Lee-Yang-Parr functional was used for the optimization of geometry. The comprehensive assignments of the vibrational spectra have been performed with the aid of normal coordinate analysis. Stability of the molecule and intra/intermolecular charge transfer have been analyzed using natural bond orbital analysis. The existence of intermolecular C-H⋯O, blueshifted hydrogen bond was investigated by bond length variation. Hirshfeld and two-dimensional fingerprint plot analyses have been performed to study the nature of interactions present in the molecule. The docked complex gives a constancy of −8.2 kcal/mol toward the androgen receptor.
DOI: 10.6084/m9.figshare.6002204
title: Statistics of SNP detection and annotation

description: The details of the detected SNPs using SAMtools and subsequent annotation using ANNOVAR are displayed herein, including upstream, exonic, intronic, splicing, downstream, and intergenic SNPs, point mutations, and genome-wide heterozygosity rate.[BH1] [BH1]Must upload, also, to Figshare.
DOI: 10.6084/m9.figshare.6002195
title: Statistics of enzymatic digestion.

description: The details of enzymatic digestion among clean reads, including the number of pair-ended clean reads, the number of enzyme-catched reads, the number of completely cut reads, the ratio of enzyme-catched reads to total clean reads, and the ratio to completely cut reads to total clean reads.
DOI: 10.6084/m9.figshare.6002195.v1
title: Statistics of enzymatic digestion.

description: The details of enzymatic digestion among clean reads, including the number of pair-ended clean reads, the number of enzyme-catched reads, the number of completely cut reads, the ratio of enzyme-catched reads to total clean reads, and the ratio to completely cut reads to total clean reads.
DOI: 10.6084/m9.figshare.6002186
title: Statistics of mapping rate, depth and coverage, plus tag-related statistics

description: The mapping statistics are displayed herein including the number of clean reads mapped to the reference genome assembly, the total effective reads in clean data, the number of unique tags, the number of tags with depth &gt; 4, the ratio of the reference genome assembly mapped reads to the total sequenced clean reads, the average depth of mapped reads at each site, the percentage coverage with more than one read at each site and ≥4X coverage at each site.
DOI: 10.6084/m9.figshare.6002186.v1
title: Statistics of mapping rate, depth and coverage, plus tag-related statistics

description: The mapping statistics are displayed herein including the number of clean reads mapped to the reference genome assembly, the total effective reads in clean data, the number of unique tags, the number of tags with depth &gt; 4, the ratio of the reference genome assembly mapped reads to the total sequenced clean reads, the average depth of mapped reads at each site, the percentage coverage with more than one read at each site and ≥4X coverage at each site.
DOI: 10.6084/m9.figshare.6002177
title: Statistics of reference genome

description: The details of the sugar beet reference genome used for alignment are displayed herein including the total number of the assembled genomic sequences, the total length of the assembled genomic sequence, the percentage GC content, the proportion of unknown sequence, the length of the scaffold N50 and scaffold N90.
DOI: 10.6084/m9.figshare.6002174
title: Statistics of sequencing data

description: The details of each sequencing run are displayed herein including number and length of sequence, number and length of valid sequences following quality control, the ratio of clean data to raw data, the overall error rate, the percentage of bases with higher Phred score than 20 and 30, and percentage GC content.
DOI: 10.6084/m9.figshare.6002174.v1
title: Statistics of sequencing data

description: The details of each sequencing run are displayed herein including number and length of sequence, number and length of valid sequences following quality control, the ratio of clean data to raw data, the overall error rate, the percentage of bases with higher Phred score than 20 and 30, and percentage GC content.
DOI: 10.6084/m9.figshare.6002057
title: Targeted deep sequencing of the <i>PEAR1</i> locus for platelet aggregation in European and African American families

description: Coronary artery disease (CAD) remains a major cause of mortality and morbidity worldwide. The aggregation of activated platelets on a ruptured atherosclerotic plaque is a critical step in most acute cardiovascular events like myocardial infarction. Platelet aggregation both at baseline and after aspirin is highly heritable. Genome-wide association studies (GWAS) have identified a common variant within the first intron of the platelet endothelial aggregation receptor1 (<i>PEAR1</i>), to be robustly associated with platelet aggregation. In this study, we used targeted deep sequencing to fine-map the prior GWAS peak and identify additional rare variants of <i>PEAR1</i> that account for missing heritability in platelet aggregation within the GeneSTAR families. In this study, 1709 subjects (1043 European Americans, EA and 666 African Americans, AA) from families in the GeneSTAR study were included. In vitro platelet aggregation in response to collagen, ADP and epinephrine was measured at baseline and 14 days after aspirin therapy (81 mg/day). Targeted deep sequencing of <i>PEAR1</i> in addition to 2kb of upstream and downstream of the gene was performed. Under an additive genetic model, the association of single variants of <i>PEAR1</i> with platelet aggregation phenotypes were examined. Additionally, we examined the association between the burden of <i>PEAR1</i> rare non-synonymous variants and platelet aggregation phenotypes. Of 532 variants identified through sequencing, the intron 1 variant, rs12041331, was significantly associated with all platelet aggregation phenotypes at baseline and after platelet inhibition with aspirin therapy. rs12566888, which is in linkage disequilibrium with rs12041331, was associated with platelet aggregation phenotypes but to a lesser extent. In the EA families, the burden of <i>PEAR1</i> missense variants was associated with platelet aggregation after aspirin therapy when the platelets were stimulated with epinephrine (p = 0.0009) and collagen (p = 0.03). In AAs, the burden of <i>PEAR1</i> missense variants was associated, to a lesser degree, with platelet aggregation in response to epinephrine (p = 0.02) and ADP (p = 0.04). Our study confirmed that the GWAS-identified variant, rs12041331, is the strongest variant associated with platelet aggregation both at baseline and after aspirin therapy in our GeneSTAR families in both races. We identified additional association of rare missense variants in <i>PEAR1</i> with platelet aggregation following aspirin therapy. However, we observed a racial difference in the contribution of these rare variants to the platelet aggregation, most likely due to higher residual missing heritability of platelet aggregation after accounting for rs12041331 in the EAs compared to AAs.
DOI: 10.6084/m9.figshare.6002057.v1
title: Targeted deep sequencing of the <i>PEAR1</i> locus for platelet aggregation in European and African American families

description: Coronary artery disease (CAD) remains a major cause of mortality and morbidity worldwide. The aggregation of activated platelets on a ruptured atherosclerotic plaque is a critical step in most acute cardiovascular events like myocardial infarction. Platelet aggregation both at baseline and after aspirin is highly heritable. Genome-wide association studies (GWAS) have identified a common variant within the first intron of the platelet endothelial aggregation receptor1 (<i>PEAR1</i>), to be robustly associated with platelet aggregation. In this study, we used targeted deep sequencing to fine-map the prior GWAS peak and identify additional rare variants of <i>PEAR1</i> that account for missing heritability in platelet aggregation within the GeneSTAR families. In this study, 1709 subjects (1043 European Americans, EA and 666 African Americans, AA) from families in the GeneSTAR study were included. In vitro platelet aggregation in response to collagen, ADP and epinephrine was measured at baseline and 14 days after aspirin therapy (81 mg/day). Targeted deep sequencing of <i>PEAR1</i> in addition to 2kb of upstream and downstream of the gene was performed. Under an additive genetic model, the association of single variants of <i>PEAR1</i> with platelet aggregation phenotypes were examined. Additionally, we examined the association between the burden of <i>PEAR1</i> rare non-synonymous variants and platelet aggregation phenotypes. Of 532 variants identified through sequencing, the intron 1 variant, rs12041331, was significantly associated with all platelet aggregation phenotypes at baseline and after platelet inhibition with aspirin therapy. rs12566888, which is in linkage disequilibrium with rs12041331, was associated with platelet aggregation phenotypes but to a lesser extent. In the EA families, the burden of <i>PEAR1</i> missense variants was associated with platelet aggregation after aspirin therapy when the platelets were stimulated with epinephrine (p = 0.0009) and collagen (p = 0.03). In AAs, the burden of <i>PEAR1</i> missense variants was associated, to a lesser degree, with platelet aggregation in response to epinephrine (p = 0.02) and ADP (p = 0.04). Our study confirmed that the GWAS-identified variant, rs12041331, is the strongest variant associated with platelet aggregation both at baseline and after aspirin therapy in our GeneSTAR families in both races. We identified additional association of rare missense variants in <i>PEAR1</i> with platelet aggregation following aspirin therapy. However, we observed a racial difference in the contribution of these rare variants to the platelet aggregation, most likely due to higher residual missing heritability of platelet aggregation after accounting for rs12041331 in the EAs compared to AAs.
DOI: 10.6084/m9.figshare.6002054
title: A comprehensive proteomics study on platelet concentrates: Platelet proteome, storage time and Mirasol pathogen reduction technology

description: Platelet concentrates (PCs) represent a blood transfusion product with a major concern for safety as their storage temperature (20–24°C) allows bacterial growth, and their maximum storage time period (less than a week) precludes complete microbiological testing. Pathogen inactivation technologies (PITs) provide an additional layer of safety to the blood transfusion products from known and unknown pathogens such as bacteria, viruses, and parasites. In this context, PITs, such as Mirasol Pathogen Reduction Technology (PRT), have been developed and are implemented in many countries. However, several studies have shown <i>in vitro</i> that Mirasol PRT induces a certain level of platelet shape change, hyperactivation, basal degranulation, and increased oxidative damage during storage. It has been suggested that Mirasol PRT might accelerate what has been described as the platelet storage lesion (PSL), but supportive molecular signatures have not been obtained. We aimed at dissecting the influence of both variables, that is, Mirasol PRT and storage time, at the proteome level. We present comprehensive proteomics data analysis of Control PCs and PCs treated with Mirasol PRT at storage days 1, 2, 6, and 8. Our workflow was set to perform proteomics analysis using a gel-free and label-free quantification (LFQ) approach. Semi-quantification was based on LFQ signal intensities of identified proteins using MaxQuant/Perseus software platform. Data are available via ProteomeXchange with identifier PXD008119. We identified marginal differences between Mirasol PRT and Control PCs during storage. However, those significant changes at the proteome level were specifically related to the functional aspects previously described to affect platelets upon Mirasol PRT. In addition, the effect of Mirasol PRT on the platelet proteome appeared not to be exclusively due to an accelerated or enhanced PSL. In summary, semi-quantitative proteomics allows to discern between proteome changes due to Mirasol PRT or PSL, and proves to be a methodology suitable to phenotype platelets in an unbiased manner, in various physiological contexts.
DOI: 10.6084/m9.figshare.6002054.v2
title: A comprehensive proteomics study on platelet concentrates: Platelet proteome, storage time and Mirasol pathogen reduction technology

description: Platelet concentrates (PCs) represent a blood transfusion product with a major concern for safety as their storage temperature (20–24°C) allows bacterial growth, and their maximum storage time period (less than a week) precludes complete microbiological testing. Pathogen inactivation technologies (PITs) provide an additional layer of safety to the blood transfusion products from known and unknown pathogens such as bacteria, viruses, and parasites. In this context, PITs, such as Mirasol Pathogen Reduction Technology (PRT), have been developed and are implemented in many countries. However, several studies have shown <i>in vitro</i> that Mirasol PRT induces a certain level of platelet shape change, hyperactivation, basal degranulation, and increased oxidative damage during storage. It has been suggested that Mirasol PRT might accelerate what has been described as the platelet storage lesion (PSL), but supportive molecular signatures have not been obtained. We aimed at dissecting the influence of both variables, that is, Mirasol PRT and storage time, at the proteome level. We present comprehensive proteomics data analysis of Control PCs and PCs treated with Mirasol PRT at storage days 1, 2, 6, and 8. Our workflow was set to perform proteomics analysis using a gel-free and label-free quantification (LFQ) approach. Semi-quantification was based on LFQ signal intensities of identified proteins using MaxQuant/Perseus software platform. Data are available via ProteomeXchange with identifier PXD008119. We identified marginal differences between Mirasol PRT and Control PCs during storage. However, those significant changes at the proteome level were specifically related to the functional aspects previously described to affect platelets upon Mirasol PRT. In addition, the effect of Mirasol PRT on the platelet proteome appeared not to be exclusively due to an accelerated or enhanced PSL. In summary, semi-quantitative proteomics allows to discern between proteome changes due to Mirasol PRT or PSL, and proves to be a methodology suitable to phenotype platelets in an unbiased manner, in various physiological contexts.
DOI: 10.6084/m9.figshare.6002054.v1
title: A comprehensive proteomics study on platelet concentrates: Platelet proteome, storage time and Mirasol pathogen reduction technology

description: Platelet concentrates (PCs) represent a blood transfusion product with a major concern for safety as their storage temperature (20–24°C) allows bacterial growth, and their maximum storage time period (less than a week) precludes complete microbiological testing. Pathogen inactivation technologies (PITs) provide an additional layer of safety to the blood transfusion products from known and unknown pathogens such as bacteria, viruses, and parasites. In this context, PITs, such as Mirasol Pathogen Reduction Technology (PRT), have been developed and are implemented in many countries. However, several studies have shown <i>in vitro</i> that Mirasol PRT induces a certain level of platelet shape change, hyperactivation, basal degranulation, and increased oxidative damage during storage. It has been suggested that Mirasol PRT might accelerate what has been described as the platelet storage lesion (PSL), but supportive molecular signatures have not been obtained. We aimed at dissecting the influence of both variables, that is, Mirasol PRT and storage time, at the proteome level. We present comprehensive proteomics data analysis of Control PCs and PCs treated with Mirasol PRT at storage days 1, 2, 6, and 8. Our workflow was set to perform proteomics analysis using a gel-free and label-free quantification (LFQ) approach. Semi-quantification was based on LFQ signal intensities of identified proteins using MaxQuant/Perseus software platform. Data are available via ProteomeXchange with identifier PXD008119. We identified marginal differences between Mirasol PRT and Control PCs during storage. However, those significant changes at the proteome level were specifically related to the functional aspects previously described to affect platelets upon Mirasol PRT. In addition, the effect of Mirasol PRT on the platelet proteome appeared not to be exclusively due to an accelerated or enhanced PSL. In summary, semi-quantitative proteomics allows to discern between proteome changes due to Mirasol PRT or PSL, and proves to be a methodology suitable to phenotype platelets in an unbiased manner, in various physiological contexts.
DOI: 10.5281/zenodo.4008305
title: Audience data from 17 research data repositories between 2015 and 2020

description: The file compiles audience data from 17 research data repositories between 2015 and 2020. It was generated as part of a study to quantify the consultation of data deposited in scientific repositories. This study gave rise to a paper at the seventh conference "Digital Document and Society" (Document numérique & Société), held on 28 and 29 September 2020 in Nancy (France). This table gathers the following information for each of the 17 repositories: Number of data available in the repository; Number of pages views per month and per year; Number of users per month and per year; Number of downloads per month and per year; Number of data citations in the scientific literature per year. The collection method is described in the above-mentioned paper.
DOI: 10.5281/zenodo.4008304
title: Audience data from 17 research data repositories between 2015 and 2020

description: The file compiles audience data from 17 research data repositories between 2015 and 2020. It was generated as part of a study to quantify the consultation of data deposited in scientific repositories. This study gave rise to a paper at the seventh conference "Digital Document and Society" (Document numérique & Société), held on 28 and 29 September 2020 in Nancy (France). This table gathers the following information for each of the 17 repositories: Number of data available in the repository; Number of pages views per month and per year; Number of users per month and per year; Number of downloads per month and per year; Number of data citations in the scientific literature per year. The collection method is described in the above-mentioned paper.