cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5746857
title: ArbourZanno_ESM8_discrete_results.xlsx from The evolution of tail weaponization in amniotes

description: Weaponry, for the purpose of intraspecific combat or predator defence, is one of the most widespread animal adaptations, yet the selective pressures and constraints governing its phenotypic diversity and skeletal regionalization are not well understood. Here, we investigate the evolution of tail weaponry in amniotes, a rare form of weaponry that nonetheless evolved independently among a broad spectrum of life including mammals, turtles and dinosaurs. Using comparative methods, we test for links between morphology, ecology and behaviour in extant amniotes known to use the tail as a weapon, and in extinct taxa bearing osseous tail armaments. We find robust ecological and morphological correlates of both tail lashing behaviour and bony tail weaponry, including large body size, body armour and herbivory, suggesting these life-history parameters factor into the evolution of antipredator behaviours and tail armaments. We suggest that the evolution of tail weaponry is rare because large, armoured herbivores are uncommon in extant terrestrial faunas, as they have been throughout evolutionary history.
DOI: 10.6084/m9.figshare.5746857.v1
title: ArbourZanno_ESM8_discrete_results.xlsx from The evolution of tail weaponization in amniotes

description: Weaponry, for the purpose of intraspecific combat or predator defence, is one of the most widespread animal adaptations, yet the selective pressures and constraints governing its phenotypic diversity and skeletal regionalization are not well understood. Here, we investigate the evolution of tail weaponry in amniotes, a rare form of weaponry that nonetheless evolved independently among a broad spectrum of life including mammals, turtles and dinosaurs. Using comparative methods, we test for links between morphology, ecology and behaviour in extant amniotes known to use the tail as a weapon, and in extinct taxa bearing osseous tail armaments. We find robust ecological and morphological correlates of both tail lashing behaviour and bony tail weaponry, including large body size, body armour and herbivory, suggesting these life-history parameters factor into the evolution of antipredator behaviours and tail armaments. We suggest that the evolution of tail weaponry is rare because large, armoured herbivores are uncommon in extant terrestrial faunas, as they have been throughout evolutionary history.
DOI: 10.6084/m9.figshare.5746836
title: MATLAB code from Dynamics of flexural gravity waves: from sea ice to Hawking radiation and analogue gravity

description: MATLAB code to perform the time-domain simulation
DOI: 10.6084/m9.figshare.5746836.v1
title: MATLAB code from Dynamics of flexural gravity waves: from sea ice to Hawking radiation and analogue gravity

description: MATLAB code to perform the time-domain simulation
DOI: 10.6084/m9.figshare.5746803
title: Robotic crab choice data from Robotic crabs reveal that female fiddler crabs are sensitive to changes in male display rate

description: Data used in this study.
DOI: 10.6084/m9.figshare.5746803.v1
title: Robotic crab choice data from Robotic crabs reveal that female fiddler crabs are sensitive to changes in male display rate

description: Data used in this study.
DOI: 10.6084/m9.figshare.5746797
title: Supplementary Table 1 from High-quality fossil dates support a synchronous, Late Holocene extinction of devils and thylacines in mainland Australia

description: Details of new and previously published ages of mainland thylacines and devils analysed in this study
DOI: 10.6084/m9.figshare.5746797.v1
title: Supplementary Table 1 from High-quality fossil dates support a synchronous, Late Holocene extinction of devils and thylacines in mainland Australia

description: Details of new and previously published ages of mainland thylacines and devils analysed in this study
DOI: 10.6084/m9.figshare.5746755
title: Additional datasets from "Genetic connectivity from the Arctic to the Antarctic: Sclerolinum contortum and Nicomache lokii (Annelida) are both widespread in reducing environments"

description: Haplotype alignments of COI, 16S, COB and 28S for Sclerolinum contortum and Nicomache lokii used for population genetic analyses <br>Concatenated alignments for Sclerolinum contortum and Nicomache lokii (with and without outgroups) used for species delimitation and phylogenetic analyses
DOI: 10.6084/m9.figshare.5746755.v1
title: Additional datasets from "Genetic connectivity from the Arctic to the Antarctic: Sclerolinum contortum and Nicomache lokii (Annelida) are both widespread in reducing environments"

description: Haplotype alignments of COI, 16S, COB and 28S for Sclerolinum contortum and Nicomache lokii used for population genetic analyses <br>Concatenated alignments for Sclerolinum contortum and Nicomache lokii (with and without outgroups) used for species delimitation and phylogenetic analyses
DOI: 10.6084/m9.figshare.5746740
title: Dataset: 5D imaging of freezing emulsions with solute effects

description: Welcome to this dataset ! <br><br>This dataset and code were used and developed for the paper "5D imaging of freezing emulsions with solute effects", by Dmytro Dedovets, Cécile Monteux, and Sylvain Deville, published in Science, April 20, 2018.<br><br>The paper is here: http://science.sciencemag.org/content/360/6386/303<br><br>The Python code has been developed to analyse the confocal images obtained during the freezing of emulsions. <br><br>If you want to use this code and the data we provided, you should organise your files as follows. Create a main directory with 2 subdirectory:<br>- "code": put the three notebooks here. Create a folder inside called "functions". In this functions folder, you need to put the detect peak script which you can find here http://nbviewer.jupyter.org/github/demotu/BMC/blob/master/notebooks/DetectPeaks.ipynb<br>- "data": put the data here<br><br>The dataset consists in image stacks (8.7Gb total). For each interface velocity, we have two sequences: one with the fluorescent channel of the liquid (filename ends with "-solute"), and a second one with the fluorescent channel of the droplet. We analyse both sequences separately in the code.<br><br>We tested the following interface velocities: 1, 2, 3, 4, 5, 6, 8, and 10 microns/s, for a temperature gradient of 5°C/mm.<br><br>When you start the notebook, another directory ("Results") will be created, and all the .csv files and figures generated will be saved there.<br><br>We are not Python experts, but the code runs relatively fast. The whole analysis for one sequence runs in a few minutes on a 2016 MacBook Pro (3,3 GHz Intel Core i7).<br><br>We still work actively on the code to improve it, so any feedback and suggestions are warmly welcome. Please keep in touch with us if you want to discuss anything.<br><br>-Sylvain Deville<br>Laboratoire de Synthèse et Fonctionnalisation des Céramiques, Cavaillon, France<br>Email: sylvain.deville@saint-gobain.com, also on twitter @DevilleSy<br><br>
DOI: 10.6084/m9.figshare.5746740.v1
title: Dataset: 5D imaging of freezing emulsions with solute effects

description: Welcome to this dataset ! <br><br>This dataset and code were used and developed for the paper "5D imaging of freezing emulsions with solute effects", by Dmytro Dedovets, Cécile Monteux, and Sylvain Deville, published in Science, April 20, 2018.<br><br>The paper is here: http://science.sciencemag.org/content/360/6386/303<br><br>The Python code has been developed to analyse the confocal images obtained during the freezing of emulsions. <br><br>If you want to use this code and the data we provided, you should organise your files as follows. Create a main directory with 2 subdirectory:<br>- "code": put the three notebooks here. Create a folder inside called "functions". In this functions folder, you need to put the detect peak script which you can find here http://nbviewer.jupyter.org/github/demotu/BMC/blob/master/notebooks/DetectPeaks.ipynb<br>- "data": put the data here<br><br>The dataset consists in image stacks (8.7Gb total). For each interface velocity, we have two sequences: one with the fluorescent channel of the liquid (filename ends with "-solute"), and a second one with the fluorescent channel of the droplet. We analyse both sequences separately in the code.<br><br>We tested the following interface velocities: 1, 2, 3, 4, 5, 6, 8, and 10 microns/s, for a temperature gradient of 5°C/mm.<br><br>When you start the notebook, another directory ("Results") will be created, and all the .csv files and figures generated will be saved there.<br><br>We are not Python experts, but the code runs relatively fast. The whole analysis for one sequence runs in a few minutes on a 2016 MacBook Pro (3,3 GHz Intel Core i7).<br><br>We still work actively on the code to improve it, so any feedback and suggestions are warmly welcome. Please keep in touch with us if you want to discuss anything.<br><br>-Sylvain Deville<br>Laboratoire de Synthèse et Fonctionnalisation des Céramiques, Cavaillon, France<br>Email: sylvain.deville@saint-gobain.com, also on twitter @DevilleSy<br><br>
DOI: 10.6084/m9.figshare.12051915.v3
title: Single-cell transcriptomics of mesenchymal stem/stromal cells from human umbilical cord

description: Mesenchymal stem/stromal cells (MSCs) demonstrate great therapeutic potential in regenerative medicine. However, the differences between the transcriptome of MSCs from umbilical cord tissue and in vitro cell culture at single-cell level remain elusive. We obtained a large-scale single-cell transcriptome of total 19221 single cells from human umbilical cord Wharton's jelly tissue and the matched culture-expanded MSCs from three donors to provide a high quality transcriptomic profiling dataset at single-cell resolution, which is a valuable resource for dissecting the MSCs heterogeneity, cell fate decision in native tissue niche and in vitro culture environment for specific lineages.
DOI: 10.6084/m9.figshare.5746581
title: fullsizeoutput_7d.jpeg

description: 狐尾花 奥森 啥的<br>
DOI: 10.17608/k6.auckland.5746506
title: Samoan artefact provenance data

description: Table of provenance data for ceramic and lithic artefacts from Samoa.
DOI: 10.17608/k6.auckland.5746506.v1
title: Samoan artefact provenance data

description: Table of provenance data for ceramic and lithic artefacts from Samoa.
DOI: 10.6084/m9.figshare.5746467
title: Additional file 3: Table S3. of Identifying biomarkers of breast cancer micrometastatic disease in bone marrow using a patient-derived xenograft mouse model

description: Complete list of transcripts with significantly different expression between DTCs and primary tumors, and metastasis and primary tumor by microarray analysis. (XLSX 532 kb)
DOI: 10.6084/m9.figshare.5746467.v1
title: Additional file 3: Table S3. of Identifying biomarkers of breast cancer micrometastatic disease in bone marrow using a patient-derived xenograft mouse model

description: Complete list of transcripts with significantly different expression between DTCs and primary tumors, and metastasis and primary tumor by microarray analysis. (XLSX 532 kb)
DOI: 10.6084/m9.figshare.5746455
title: Additional file 1: Table S1. of Identifying biomarkers of breast cancer micrometastatic disease in bone marrow using a patient-derived xenograft mouse model

description: Assay ids of the Taqman probes used in the study. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5746455.v1
title: Additional file 1: Table S1. of Identifying biomarkers of breast cancer micrometastatic disease in bone marrow using a patient-derived xenograft mouse model

description: Assay ids of the Taqman probes used in the study. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.5746446
title: Additional file 9: Table S5. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Putative novel genes identified in the Uruguayan strains by assembly of the unmapped reads. (ODS 14 kb)
DOI: 10.6084/m9.figshare.5746446.v1
title: Additional file 9: Table S5. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Putative novel genes identified in the Uruguayan strains by assembly of the unmapped reads. (ODS 14 kb)
DOI: 10.6084/m9.figshare.5746443
title: Additional file 3: Table S3. of Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

description: List of features of the tools analysed by multiple correspondence analysis. Abbreviations: N, no; Y, yes. (XLSX 12ย�kb)
DOI: 10.6084/m9.figshare.5746443.v1
title: Additional file 3: Table S3. of Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

description: List of features of the tools analysed by multiple correspondence analysis. Abbreviations: N, no; Y, yes. (XLSX 12ย�kb)
DOI: 10.6084/m9.figshare.5746440
title: Additional file 8: Table S4. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: List of the over represented genes found in the 23 Uruguayan M. bovis strains. (ODS 18 kb)
DOI: 10.6084/m9.figshare.5746440.v1
title: Additional file 8: Table S4. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: List of the over represented genes found in the 23 Uruguayan M. bovis strains. (ODS 18 kb)
DOI: 10.6084/m9.figshare.5746437
title: Additional file 2: Table S2. of Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

description: Enriched data and their main metabolite identifiers for ORA analysis. (XLSX 9ย�kb)
DOI: 10.6084/m9.figshare.5746437.v1
title: Additional file 2: Table S2. of Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

description: Enriched data and their main metabolite identifiers for ORA analysis. (XLSX 9ย�kb)
DOI: 10.6084/m9.figshare.5746431
title: Additional file 1: Table S1. of Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

description: Full list of significant metabolites of the five datasets used in the present study (adjusted P-value
DOI: 10.6084/m9.figshare.5746431.v1
title: Additional file 1: Table S1. of Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data

description: Full list of significant metabolites of the five datasets used in the present study (adjusted P-value
DOI: 10.6084/m9.figshare.5746422
title: Additional file 5: Table S3. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Resulting blastn of all non-pe/ppe coding sequences against M. bovis AF2122/97. (ODS 24 kb)
DOI: 10.6084/m9.figshare.5746422.v1
title: Additional file 5: Table S3. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Resulting blastn of all non-pe/ppe coding sequences against M. bovis AF2122/97. (ODS 24 kb)
DOI: 10.6084/m9.figshare.5746416
title: Additional file 4: Table S2. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Details of the 163 MTBC strains downloaded from NCBI and the 23 Uruguayan strains from this study, used to resolve a phylogenetic tree out of their core genomes. (ODS 34 kb)
DOI: 10.6084/m9.figshare.5746416.v1
title: Additional file 4: Table S2. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Details of the 163 MTBC strains downloaded from NCBI and the 23 Uruguayan strains from this study, used to resolve a phylogenetic tree out of their core genomes. (ODS 34 kb)
DOI: 10.6084/m9.figshare.5746413
title: Additional file 1: of Huge fetal hepatic Hemangioma: prenatal diagnosis on ultrasound and prognosis

description: Description of the data and materials of 6 cases with huge hepatic hemangiomas. (XLSX 21Â kb)
DOI: 10.6084/m9.figshare.5746413.v1
title: Additional file 1: of Huge fetal hepatic Hemangioma: prenatal diagnosis on ultrasound and prognosis

description: Description of the data and materials of 6 cases with huge hepatic hemangiomas. (XLSX 21Â kb)
DOI: 10.6084/m9.figshare.5746383
title: Additional file 2: Table S1. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: M. bovis strains isolated from a bovine host in Uruguay. (ODS 26 kb)
DOI: 10.6084/m9.figshare.5746383.v1
title: Additional file 2: Table S1. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: M. bovis strains isolated from a bovine host in Uruguay. (ODS 26 kb)
DOI: 10.6084/m9.figshare.5746341
title: Additional file 13: Table S8. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Details on the distinctive characteristics defining each of the three groups described in this study: URY1, URY2 and URY3. (ODS 250 kb)
DOI: 10.6084/m9.figshare.5746341.v1
title: Additional file 13: Table S8. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Details on the distinctive characteristics defining each of the three groups described in this study: URY1, URY2 and URY3. (ODS 250 kb)
DOI: 10.6084/m9.figshare.5746326
title: Additional file 3: of Insights into the molecular regulation of monolignol-derived product biosynthesis in the growing hemp hypocotyl

description: provides the proteomics data from gel-based and gel-free experiments. (XLS 116 kb)
DOI: 10.6084/m9.figshare.5746326.v1
title: Additional file 3: of Insights into the molecular regulation of monolignol-derived product biosynthesis in the growing hemp hypocotyl

description: provides the proteomics data from gel-based and gel-free experiments. (XLS 116 kb)
DOI: 10.6084/m9.figshare.5746308
title: Additional file 1 of Bayesian uncertainty analysis for complex systems biology models: emulation, global parameter searches and evaluation of gene functions

description: R code to reproduce the 1D example model output, discrepancy, emulation and history matching plots of Figs.Â 1, 2, 4, and 5 respectively. (R 11 kb)
DOI: 10.6084/m9.figshare.5746308.v1
title: Additional file 1 of Bayesian uncertainty analysis for complex systems biology models: emulation, global parameter searches and evaluation of gene functions

description: R code to reproduce the 1D example model output, discrepancy, emulation and history matching plots of Figs.Â 1, 2, 4, and 5 respectively. (R 11 kb)
DOI: 10.6084/m9.figshare.5746299
title: Additional file 11: Table S7. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: List of truncated genes for the Uruguayan strains studied. (ODS 20 kb)
DOI: 10.6084/m9.figshare.5746299.v1
title: Additional file 11: Table S7. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: List of truncated genes for the Uruguayan strains studied. (ODS 20 kb)
DOI: 10.6084/m9.figshare.5746293
title: Additional file 2: of Insights into the molecular regulation of monolignol-derived product biosynthesis in the growing hemp hypocotyl

description: provides the CNRQ from the RT-qPCR experiment used for the Fig. 4. (XLS 13 kb)
DOI: 10.6084/m9.figshare.5746293.v1
title: Additional file 2: of Insights into the molecular regulation of monolignol-derived product biosynthesis in the growing hemp hypocotyl

description: provides the CNRQ from the RT-qPCR experiment used for the Fig. 4. (XLS 13 kb)
DOI: 10.6084/m9.figshare.5746284
title: Additional file 1: Table S1. of Genetic variation associated with healthy traits and environmental conditions in Vaccinium vitis-idaea

description: Sampled V. vitis-idaea sites in Newfoundland and Labrador, Canada. Each site is coded by ecoregion, mean annual temperature, mean summer temperature, mean annual precipitation, mean annual runoff, surface water pH, surface water sensitivity to acid rain, and proximity to the coast (Government of Newfoundland and Labrador 1992, and Alam et al. 2016). Table S2. Number of methods (LFMM, SamBada and Chi^2) that predicted a significant association (p &lt; 0.01) between each SNP and biochemical/environmental variable. SNPs are the ones inferred to be significantly associated with a variable by at least two methods. Table S3. Number of SNPs in common between each pair of biochemical/environmental variables. Only SNPs inferred to be significantly associated with at least one variable by at least two methods are considered. Table S4. Moran.I test results per variable. Table S5. Data visualized in Fig. 4 Top. Table S6. Data visualized in Fig. 4 Bottom. (XLS 62 kb)
DOI: 10.6084/m9.figshare.5746284.v1
title: Additional file 1: Table S1. of Genetic variation associated with healthy traits and environmental conditions in Vaccinium vitis-idaea

description: Sampled V. vitis-idaea sites in Newfoundland and Labrador, Canada. Each site is coded by ecoregion, mean annual temperature, mean summer temperature, mean annual precipitation, mean annual runoff, surface water pH, surface water sensitivity to acid rain, and proximity to the coast (Government of Newfoundland and Labrador 1992, and Alam et al. 2016). Table S2. Number of methods (LFMM, SamBada and Chi^2) that predicted a significant association (p &lt; 0.01) between each SNP and biochemical/environmental variable. SNPs are the ones inferred to be significantly associated with a variable by at least two methods. Table S3. Number of SNPs in common between each pair of biochemical/environmental variables. Only SNPs inferred to be significantly associated with at least one variable by at least two methods are considered. Table S4. Moran.I test results per variable. Table S5. Data visualized in Fig. 4 Top. Table S6. Data visualized in Fig. 4 Bottom. (XLS 62 kb)
DOI: 10.6084/m9.figshare.5746272
title: Additional file 10: Table S6. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Regions with high SNP density. (ODS 24 kb)
DOI: 10.6084/m9.figshare.5746272.v1
title: Additional file 10: Table S6. of Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

description: Regions with high SNP density. (ODS 24 kb)
DOI: 10.6084/m9.figshare.5746251
title: Root-associated bacteria- Mendenhall, Tongass Ntl Forest

description: Sequences associated with alder and spruce root-associated bacterial communities
DOI: 10.6084/m9.figshare.5746251.v1
title: Root-associated bacteria- Mendenhall, Tongass Ntl Forest

description: Sequences associated with alder and spruce root-associated bacterial communities
DOI: 10.6084/m9.figshare.5746242.v2
title: The difference results of miRNA

description: Sequencing analysis of microRNA in Exosome from the mPFC brain region of mice with neuropathic pain mouse model
DOI: 10.6084/m9.figshare.5746242
title: The difference results of miRNA

description: Sequencing analysis of microRNA in Exosome from the mPFC brain region of mice with neuropathic pain mouse model