cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5925208.v1
title: Supplementary Datafile2 from Trade-off between fertility and predation risk drives a geometric sequence in the pattern of group sizes in baboons

description: Fertility data
DOI: 10.6084/m9.figshare.5925199.v1
title: Supplementary Datafile1 from Trade-off between fertility and predation risk drives a geometric sequence in the pattern of group sizes in baboons

description: Group size data
DOI: 10.6084/m9.figshare.5944033
title: Illustrative code for linear regression model from Bayesian model evidence as a practical alternative to deviance information criterion.

description: Computer code written to C++ for the linear regression model
DOI: 10.6084/m9.figshare.5944042
title: Illustrative code for mixed model from Bayesian model evidence as a practical alternative to deviance information criterion.

description: Computer code written to C++ for the mixed model
DOI: 10.6084/m9.figshare.5944033.v2
title: Illustrative code for linear regression model from Bayesian model evidence as a practical alternative to deviance information criterion.

description: Computer code written to C++ for the linear regression model
DOI: 10.6084/m9.figshare.5944045
title: Illustrative code for epidemiological models from Bayesian model evidence as a practical alternative to deviance information criterion.

description: Computer code written to C++ for the epidemiological models
DOI: 10.6084/m9.figshare.5944033.v1
title: Illustrative code for linear regression model from Bayesian model evidence as a practical alternative to deviance information criterion

description: Computer code written to C++ for the linear regression model
DOI: 10.6084/m9.figshare.5944042.v1
title: Illustrative code for mixed model from Bayesian model evidence as a practical alternative to deviance information criterion

description: Computer code written to C++ for the mixed model
DOI: 10.6084/m9.figshare.5944045.v2
title: Illustrative code for epidemiological models from Bayesian model evidence as a practical alternative to deviance information criterion.

description: Computer code written to C++ for the epidemiological models
DOI: 10.6084/m9.figshare.5944063
title: PBDB and GLS data from Lepidosaurian diversity in the Mesozoic–Palaeogene: the potential roles of sampling biases and environmental drivers.

description: Data used in the SQS and GLS analyses, plus references
DOI: 10.6084/m9.figshare.5944045.v1
title: Illustrative code for epidemiological models from Bayesian model evidence as a practical alternative to deviance information criterion

description: Computer code written to C++ for the epidemiological models
DOI: 10.6084/m9.figshare.5944051
title: Code for removing unneeded taxa from PBDB data from Lepidosaurian diversity in the Mesozoic–Palaeogene: the potential roles of sampling biases and environmental drivers.

description: Short R code and lists of trace fossils, marine taxa, and egg taxa that were removed from our data before analysis
DOI: 10.6084/m9.figshare.5944063.v2
title: PBDB and GLS data from Lepidosaurian diversity in the Mesozoic–Palaeogene: the potential roles of sampling biases and environmental drivers.

description: Data used in the SQS and GLS analyses, plus references
DOI: 10.6084/m9.figshare.5944051.v2
title: Code for removing unneeded taxa from PBDB data from Lepidosaurian diversity in the Mesozoic–Palaeogene: the potential roles of sampling biases and environmental drivers.

description: Short R code and lists of trace fossils, marine taxa, and egg taxa that were removed from our data before analysis
DOI: 10.6084/m9.figshare.5944051.v1
title: Code for removing unneeded taxa from PBDB data from Lepidosaurian diversity in the Mesozoic–Palaeogene: the potential roles of sampling biases and environmental drivers

description: Short R code and lists of trace fossils, marine taxa, and egg taxa that were removed from our data before analysis
DOI: 10.6084/m9.figshare.5944063.v1
title: PBDB and GLS data from Lepidosaurian diversity in the Mesozoic–Palaeogene: the potential roles of sampling biases and environmental drivers

description: Data used in the SQS and GLS analyses, plus references
DOI: 10.6084/m9.figshare.5956735
title: Character matrix and phylogenetic distance data from Patterns of divergence in the morphology of ceratopsian dinosaurs: sympatry is not a driver of ornament evolution.

description: Excel file listing character states for each species used in study, and phylogenetic distance data for all pairwise comparisons.
DOI: 10.6084/m9.figshare.5956735.v2
title: Character matrix and phylogenetic distance data from Patterns of divergence in the morphology of ceratopsian dinosaurs: sympatry is not a driver of ornament evolution.

description: Excel file listing character states for each species used in study, and phylogenetic distance data for all pairwise comparisons.
DOI: 10.6084/m9.figshare.5956735.v1
title: Character matrix and phylogenetic distance data from Patterns of divergence in the morphology of ceratopsian dinosaurs: sympatry is not a driver of ornament evolution

description: Excel file listing character states for each species used in study, and phylogenetic distance data for all pairwise comparisons.
DOI: 10.6084/m9.figshare.5970232
title: Electronic Supplementary Material 2: Summary of 407 genes associated to subclinical atherosclerosis-DMRs, including gene location, reported interactions with BED effector proteins and associated ANN scores from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle aged men: pilot results from the Aragon Workers Health Study.

description: We explored the association of metal levels with subclinical atherosclerosis and epigenetic changes in relevant biological pathways. Whole blood DNA Infinium Methylation 450 K data were obtained from 23 of 73 middle age men without clinically evident cardiovascular disease who participated in the Aragon Workers Health Study in 2009 (baseline visit) and had available baseline urinary metals and subclinical atherosclerosis measures obtained in 2010–2013 (follow-up visit). The median metal levels were 7.36 µg g<sup>−1</sup>, 0.33 µg g<sup>−1</sup>, 0.11 µg g<sup>−1</sup> and 0.07 µg g<sup>−1</sup>, for arsenic (sum of inorganic and methylated species), cadmium, antimony and tungsten, respectively. Urine cadmium and tungsten were associated with femoral and carotid intima-media thickness, respectively (Pearson's <i>r</i> = 0.27; <i>p</i> = 0.03 in both cases). Among nearest genes to identified differentially methylated regions (DMRs), 46% of metal-DMR genes overlapped with atherosclerosis-DMR genes (<i>p</i> in silico protein-to-protein interaction networks among proteins encoded by 162 and 108 genes attributed to atherosclerosis- and metal-DMRs, respectively, with proteins known to have a role in atherosclerosis pathways, we observed hub proteins in the network associated with both atherosclerosis and metal-DMRs (e.g. <i>SMAD3</i> and <i>NOP56</i>), and also hub proteins associated with metal-DMRs only but with relevant connections with atherosclerosis effectors (e.g. <i>SSTR5</i>, <i>HDAC4</i>, <i>AP2A2</i>, <i>CXCL12</i> and <i>SSTR4</i>). Our integrative <i>in silico</i> analysis demonstrates the feasibility of identifying epigenomic regions linked to environmental exposures and potentially involved in relevant pathways for human diseases. While our results support the hypothesis that metal exposures can influence health due to epigenetic changes, larger studies are needed to confirm our pilot results.This article is part of a discussion meeting issue ‘Frontiers in epigenetic chemical biology’.
DOI: 10.6084/m9.figshare.5970226
title: Electronic Supplementary Material 3: Protein coding genes associated to subclinical atherosclerosis-DMRs included in the ANN analysis. from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle aged men: pilot results from the Aragon Workers Health Study.

description: The ANN predictive score is expressed in percentage and reflects the relatedness between a given protein and reported atherosclerosis protein effectors or its motives (ANN score&gt; 76% indicates a strong relatedness with an uncertainty p-value of &lt;0.05; ANN score 40-75% indicates medium-strong relatedness with an uncertainty p-value of 0.05 - 0.25; ANN score &lt;40% indicates weak relatedness with an uncertainty p-value &gt; 0.25).
DOI: 10.6084/m9.figshare.5970226.v2
title: Electronic Supplementary Material 3: Protein coding genes associated to subclinical atherosclerosis-DMRs included in the ANN analysis. from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle aged men: pilot results from the Aragon Workers Health Study.

description: The ANN predictive score is expressed in percentage and reflects the relatedness between a given protein and reported atherosclerosis protein effectors or its motives (ANN score&gt; 76% indicates a strong relatedness with an uncertainty p-value of &lt;0.05; ANN score 40-75% indicates medium-strong relatedness with an uncertainty p-value of 0.05 - 0.25; ANN score &lt;40% indicates weak relatedness with an uncertainty p-value &gt; 0.25).
DOI: 10.6084/m9.figshare.5970232.v2
title: Electronic Supplementary Material 2: Summary of 407 genes associated to subclinical atherosclerosis-DMRs, including gene location, reported interactions with BED effector proteins and associated ANN scores from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle aged men: pilot results from the Aragon Workers Health Study.

description: We explored the association of metal levels with subclinical atherosclerosis and epigenetic changes in relevant biological pathways. Whole blood DNA Infinium Methylation 450 K data were obtained from 23 of 73 middle age men without clinically evident cardiovascular disease who participated in the Aragon Workers Health Study in 2009 (baseline visit) and had available baseline urinary metals and subclinical atherosclerosis measures obtained in 2010–2013 (follow-up visit). The median metal levels were 7.36 µg g<sup>−1</sup>, 0.33 µg g<sup>−1</sup>, 0.11 µg g<sup>−1</sup> and 0.07 µg g<sup>−1</sup>, for arsenic (sum of inorganic and methylated species), cadmium, antimony and tungsten, respectively. Urine cadmium and tungsten were associated with femoral and carotid intima-media thickness, respectively (Pearson's <i>r</i> = 0.27; <i>p</i> = 0.03 in both cases). Among nearest genes to identified differentially methylated regions (DMRs), 46% of metal-DMR genes overlapped with atherosclerosis-DMR genes (<i>p</i> in silico protein-to-protein interaction networks among proteins encoded by 162 and 108 genes attributed to atherosclerosis- and metal-DMRs, respectively, with proteins known to have a role in atherosclerosis pathways, we observed hub proteins in the network associated with both atherosclerosis and metal-DMRs (e.g. <i>SMAD3</i> and <i>NOP56</i>), and also hub proteins associated with metal-DMRs only but with relevant connections with atherosclerosis effectors (e.g. <i>SSTR5</i>, <i>HDAC4</i>, <i>AP2A2</i>, <i>CXCL12</i> and <i>SSTR4</i>). Our integrative <i>in silico</i> analysis demonstrates the feasibility of identifying epigenomic regions linked to environmental exposures and potentially involved in relevant pathways for human diseases. While our results support the hypothesis that metal exposures can influence health due to epigenetic changes, larger studies are needed to confirm our pilot results.This article is part of a discussion meeting issue ‘Frontiers in epigenetic chemical biology’.
DOI: 10.6084/m9.figshare.5970235
title: Electronic Supplementary Material 4: Summary of genes associated to metal-DMR, gene location, reported interactions with BED effector proteins and associated ANN scores. from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle aged men: pilot results from the Aragon Workers Health Study.

description: We explored the association of metal levels with subclinical atherosclerosis and epigenetic changes in relevant biological pathways. Whole blood DNA Infinium Methylation 450 K data were obtained from 23 of 73 middle age men without clinically evident cardiovascular disease who participated in the Aragon Workers Health Study in 2009 (baseline visit) and had available baseline urinary metals and subclinical atherosclerosis measures obtained in 2010–2013 (follow-up visit). The median metal levels were 7.36 µg g<sup>−1</sup>, 0.33 µg g<sup>−1</sup>, 0.11 µg g<sup>−1</sup> and 0.07 µg g<sup>−1</sup>, for arsenic (sum of inorganic and methylated species), cadmium, antimony and tungsten, respectively. Urine cadmium and tungsten were associated with femoral and carotid intima-media thickness, respectively (Pearson's <i>r</i> = 0.27; <i>p</i> = 0.03 in both cases). Among nearest genes to identified differentially methylated regions (DMRs), 46% of metal-DMR genes overlapped with atherosclerosis-DMR genes (<i>p</i> in silico protein-to-protein interaction networks among proteins encoded by 162 and 108 genes attributed to atherosclerosis- and metal-DMRs, respectively, with proteins known to have a role in atherosclerosis pathways, we observed hub proteins in the network associated with both atherosclerosis and metal-DMRs (e.g. <i>SMAD3</i> and <i>NOP56</i>), and also hub proteins associated with metal-DMRs only but with relevant connections with atherosclerosis effectors (e.g. <i>SSTR5</i>, <i>HDAC4</i>, <i>AP2A2</i>, <i>CXCL12</i> and <i>SSTR4</i>). Our integrative <i>in silico</i> analysis demonstrates the feasibility of identifying epigenomic regions linked to environmental exposures and potentially involved in relevant pathways for human diseases. While our results support the hypothesis that metal exposures can influence health due to epigenetic changes, larger studies are needed to confirm our pilot results.This article is part of a discussion meeting issue ‘Frontiers in epigenetic chemical biology’.
DOI: 10.6084/m9.figshare.5970232.v1
title: Electronic Supplementary Material 2: Summary of 407 genes associated to subclinical atherosclerosis-DMRs, including gene location, reported interactions with BED effector proteins and associated ANN scores from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle age men: pilot results from the Aragon Workers Health Study

description: We explored the association of metal levels with subclinical atherosclerosis and epigenetic changes in relevant biological pathways. Whole blood DNA Infinium Methylation 450 K data were obtained from 23 of 73 middle age men without clinically evident cardiovascular disease who participated in the Aragon Workers Health Study in 2009 (baseline visit) and had available baseline urinary metals and subclinical atherosclerosis measures obtained in 2010–2013 (follow-up visit). The median metal levels were 7.36 µg g<sup>−1</sup>, 0.33 µg g<sup>−1</sup>, 0.11 µg g<sup>−1</sup> and 0.07 µg g<sup>−1</sup>, for arsenic (sum of inorganic and methylated species), cadmium, antimony and tungsten, respectively. Urine cadmium and tungsten were associated with femoral and carotid intima-media thickness, respectively (Pearson's <i>r</i> = 0.27; <i>p</i> = 0.03 in both cases). Among nearest genes to identified differentially methylated regions (DMRs), 46% of metal-DMR genes overlapped with atherosclerosis-DMR genes (<i>p</i> in silico protein-to-protein interaction networks among proteins encoded by 162 and 108 genes attributed to atherosclerosis- and metal-DMRs, respectively, with proteins known to have a role in atherosclerosis pathways, we observed hub proteins in the network associated with both atherosclerosis and metal-DMRs (e.g. <i>SMAD3</i> and <i>NOP56</i>), and also hub proteins associated with metal-DMRs only but with relevant connections with atherosclerosis effectors (e.g. <i>SSTR5</i>, <i>HDAC4</i>, <i>AP2A2</i>, <i>CXCL12</i> and <i>SSTR4</i>). Our integrative <i>in silico</i> analysis demonstrates the feasibility of identifying epigenomic regions linked to environmental exposures and potentially involved in relevant pathways for human diseases. While our results support the hypothesis that metal exposures can influence health due to epigenetic changes, larger studies are needed to confirm our pilot results.This article is part of a discussion meeting issue ‘Frontiers in epigenetic chemical biology’.
DOI: 10.6084/m9.figshare.5970235.v2
title: Electronic Supplementary Material 4: Summary of genes associated to metal-DMR, gene location, reported interactions with BED effector proteins and associated ANN scores. from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle aged men: pilot results from the Aragon Workers Health Study.

description: We explored the association of metal levels with subclinical atherosclerosis and epigenetic changes in relevant biological pathways. Whole blood DNA Infinium Methylation 450 K data were obtained from 23 of 73 middle age men without clinically evident cardiovascular disease who participated in the Aragon Workers Health Study in 2009 (baseline visit) and had available baseline urinary metals and subclinical atherosclerosis measures obtained in 2010–2013 (follow-up visit). The median metal levels were 7.36 µg g<sup>−1</sup>, 0.33 µg g<sup>−1</sup>, 0.11 µg g<sup>−1</sup> and 0.07 µg g<sup>−1</sup>, for arsenic (sum of inorganic and methylated species), cadmium, antimony and tungsten, respectively. Urine cadmium and tungsten were associated with femoral and carotid intima-media thickness, respectively (Pearson's <i>r</i> = 0.27; <i>p</i> = 0.03 in both cases). Among nearest genes to identified differentially methylated regions (DMRs), 46% of metal-DMR genes overlapped with atherosclerosis-DMR genes (<i>p</i> in silico protein-to-protein interaction networks among proteins encoded by 162 and 108 genes attributed to atherosclerosis- and metal-DMRs, respectively, with proteins known to have a role in atherosclerosis pathways, we observed hub proteins in the network associated with both atherosclerosis and metal-DMRs (e.g. <i>SMAD3</i> and <i>NOP56</i>), and also hub proteins associated with metal-DMRs only but with relevant connections with atherosclerosis effectors (e.g. <i>SSTR5</i>, <i>HDAC4</i>, <i>AP2A2</i>, <i>CXCL12</i> and <i>SSTR4</i>). Our integrative <i>in silico</i> analysis demonstrates the feasibility of identifying epigenomic regions linked to environmental exposures and potentially involved in relevant pathways for human diseases. While our results support the hypothesis that metal exposures can influence health due to epigenetic changes, larger studies are needed to confirm our pilot results.This article is part of a discussion meeting issue ‘Frontiers in epigenetic chemical biology’.
DOI: 10.6084/m9.figshare.5970226.v1
title: Electronic Supplementary Material 3: Protein coding genes associated to subclinical atherosclerosis-DMRs included in the ANN analysis. from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle age men: pilot results from the Aragon Workers Health Study

description: The ANN predictive score is expressed in percentage and reflects the relatedness between a given protein and reported atherosclerosis protein effectors or its motives (ANN score&gt; 76% indicates a strong relatedness with an uncertainty p-value of &lt;0.05; ANN score 40-75% indicates medium-strong relatedness with an uncertainty p-value of 0.05 - 0.25; ANN score &lt;40% indicates weak relatedness with an uncertainty p-value &gt; 0.25).
DOI: 10.6084/m9.figshare.5970235.v1
title: Electronic Supplementary Material 4: Summary of genes associated to metal-DMR, gene location, reported interactions with BED effector proteins and associated ANN scores. from <i>In silico</i> epigenetics of metal exposure and subclinical atherosclerosis in middle age men: pilot results from the Aragon Workers Health Study

description: We explored the association of metal levels with subclinical atherosclerosis and epigenetic changes in relevant biological pathways. Whole blood DNA Infinium Methylation 450 K data were obtained from 23 of 73 middle age men without clinically evident cardiovascular disease who participated in the Aragon Workers Health Study in 2009 (baseline visit) and had available baseline urinary metals and subclinical atherosclerosis measures obtained in 2010–2013 (follow-up visit). The median metal levels were 7.36 µg g<sup>−1</sup>, 0.33 µg g<sup>−1</sup>, 0.11 µg g<sup>−1</sup> and 0.07 µg g<sup>−1</sup>, for arsenic (sum of inorganic and methylated species), cadmium, antimony and tungsten, respectively. Urine cadmium and tungsten were associated with femoral and carotid intima-media thickness, respectively (Pearson's <i>r</i> = 0.27; <i>p</i> = 0.03 in both cases). Among nearest genes to identified differentially methylated regions (DMRs), 46% of metal-DMR genes overlapped with atherosclerosis-DMR genes (<i>p</i> in silico protein-to-protein interaction networks among proteins encoded by 162 and 108 genes attributed to atherosclerosis- and metal-DMRs, respectively, with proteins known to have a role in atherosclerosis pathways, we observed hub proteins in the network associated with both atherosclerosis and metal-DMRs (e.g. <i>SMAD3</i> and <i>NOP56</i>), and also hub proteins associated with metal-DMRs only but with relevant connections with atherosclerosis effectors (e.g. <i>SSTR5</i>, <i>HDAC4</i>, <i>AP2A2</i>, <i>CXCL12</i> and <i>SSTR4</i>). Our integrative <i>in silico</i> analysis demonstrates the feasibility of identifying epigenomic regions linked to environmental exposures and potentially involved in relevant pathways for human diseases. While our results support the hypothesis that metal exposures can influence health due to epigenetic changes, larger studies are needed to confirm our pilot results.This article is part of a discussion meeting issue ‘Frontiers in epigenetic chemical biology’.
DOI: 10.6084/m9.figshare.5970829
title: Normalized Cq values from Expression patterns of cryptochrome genes in avian retina suggest involvement of Cry4 in light-dependent magnetoreception.

description: Normalized Cq values for all experiments are provided.
DOI: 10.6084/m9.figshare.5970829.v2
title: Normalized Cq values from Expression patterns of cryptochrome genes in avian retina suggest involvement of Cry4 in light-dependent magnetoreception.

description: Normalized Cq values for all experiments are provided.
DOI: 10.6084/m9.figshare.5973013
title: Data and mathematica notebooks for plotting figures from Language learning with communication between learners from Language acquisition with communication between learners.

description: Data and mathematica notebooks for plotting figures from Language learning with communication between learners
DOI: 10.6084/m9.figshare.5970829.v1
title: Normalized Cq values from Expression patterns of cryptochrome genes in avian retina suggest involvement of Cry4 in light-dependent magnetoreception (cryptochrome expression in zebra finches)

description: Normalized Cq values for all experiments are provided.
DOI: 10.6084/m9.figshare.5973013.v2
title: Data and mathematica notebooks for plotting figures from Language learning with communication between learners from Language acquisition with communication between learners.

description: Data and mathematica notebooks for plotting figures from Language learning with communication between learners
DOI: 10.6084/m9.figshare.5973013.v1
title: Data and mathematica notebooks for plotting figures from Language learning with communication between learners from Language acquisition with communication between learners

description: Data and mathematica notebooks for plotting figures from Language learning with communication between learners
DOI: 10.6084/m9.figshare.5982133
title: README from Social enforcement depending on the stage of colony growth in an ant.

description: README for Behavioural observations
DOI: 10.6084/m9.figshare.5982124
title: Behavioural observations from Social enforcement depending on the stage of colony growth in an ant.

description: Data for behavioural observations