cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.416sp/3
title: Full_Cammoor-Stimpsons_network

description: Social network from Stimpsons-Cammoor
DOI: 10.5061/dryad.b0r5q/1
title: DataS1

description: In accordance with the data policy at PloS Biology, the dataset used to reach the main conclusions drawn in this study is available as an Excel File.
DOI: 10.5061/dryad.cj64p/1
title: MitchellPRSBFig2data

description: Data from Figure 2
DOI: 10.5061/dryad.cj64p/2
title: MithellPRSBdataFig3

description: Data from Figure 3
DOI: 10.5061/dryad.cj64p/3
title: MitchellPRSBFigure4data

description: Data for Figure 4
DOI: 10.5061/dryad.cj64p/4
title: MitchellPRSBFig5data

description: Data for Fig 5
DOI: 10.5061/dryad.416sp/4
title: Full_Higgins_asoc

description: Information for all individuals detected at Higgins Copse
DOI: 10.5061/dryad.416sp/5
title: Full_Higgins_diffusions

description: Information on the 3 diffusion experiments run at Higgins Copse
DOI: 10.5061/dryad.416sp/6
title: Full_Higgins_network

description: Social network for Higgins Copse
DOI: 10.5061/dryad.rc917/1
title: NGS shotgun data from Pachytila belcheri

description: These are the 454 sequencing reads generated from two Pachyptila belcheri individuals (Kerguelen Archepelago) from which the 26 microsatellite loci used in this study were isolated.
DOI: 10.5061/dryad.rc917/2
title: Prions_Msat_genotypes_by_Species_Final

description: These are the genotypes for the 25 unlinked microsatellite loci analysed in this paper. The Excel file is in "Covert" format, divided into species populations for easy conversion into any other data format.
DOI: 10.5061/dryad.rc917/3
title: Tree files and pairwise distance matrices

description: These are the MEGA input distance matrices for Fst and DC distances calculated from 25 microsatellite loci. Also included are the newick format tree files for each matric. These are the trees presented in Figure 2A and B.
DOI: 10.5061/dryad.rc917/4
title: Cytochrome B ALignment and Tree
DOI: 10.5061/dryad.cp0p5/1
title: Landmarks, stature, and masculinity ratings for 45 human faces

description: Females_21_70lms.txt: x and y coordinates of 70 landmarks measured on 21 female faces (21x140 data matrix)Males_24_70lms: x and y coordinates of 70 landmarks measured on 24 male faces (24x140 data matrix)Scale_factor_females.txt: scale factor of landmark coordinates for the female faces. Scale_factor_males.txt: scale factor of landmark coordinates for the male faces. Body_height_males_cm.txt: Measures of stature for the 24 male individuals (in cm).Perceived_masculinity.txt: Average masculinity ratings for the 24 male faces (range from 0 to 80).
DOI: 10.5061/dryad.0vk92.2
title: Data from: Methods for the quantitative comparison of molecular estimates of clade age and the fossil record
DOI: 10.5061/dryad.0vk92.2/1.2
title: ClarkeBoyd_readme

description: This text file describes the complete set of supplementary data files and explains in more detail how to implement the metrics we describe.
DOI: 10.5061/dryad.0vk92.2/2.2
title: Table_2_Calculations

description: This file contains the raw data and calculations used to produce the values of WSS, SEA, and MDI reported in Table 2 (from analysis of the Tinn and Oakley [2008] ostracod dataset.
DOI: 10.5061/dryad.0vk92.2/3.2
title: CLARKEBOYDonlineAPPENDIX1

description: This file contains the fossil ages and their associated references for the analysis of Sphenisciformes.
DOI: 10.5061/dryad.0vk92.2/4.2
title: Table_3_Calculations

description: This file contains the raw data and calculations used to produce the values of WSS, SEA, and MDI reported in Table 3 from analysis of the sphenisciform dataset.
DOI: 10.5061/dryad.0vk92.2/5.2
title: Table_5_MDI_Calculations

description: This file contains the raw data and calculations used to produce the values of MDI reported in Table 5 from analysis of the data presented in Sauquet et al. (2012). There are three sheets in this file. The ‘MDI Scores’ sheet contains a table of the final scores reported in Table 5, while the ‘MDI Calculations’ sheet contains the formulae used to derive those values. The ‘Molec Data’ sheet contains the raw data used in the calculations.
DOI: 10.5061/dryad.0vk92.2/6.2
title: Ostracod_Tree_Fossils_Only

description: This is the file used by the ASCC program (see citation in paper) to calculate the MIG values for the ostracod dataset reported in Table 4. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/10.2
title: Penguin_Tree_Rag1_Only

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values for the sphenisciform dataset reported in Table 4. File contains the tree topology and age ranges used for all taxa and nodes, with node ages set equal to the molecular-based ages obtained by Baker et al. (2006) using only the Rag1 dataset.
DOI: 10.5061/dryad.0vk92.2/11.2
title: Sauquet_Scenario_1_Beast

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values reported in Table 5 for scenario 1 of the Sauquet et al. (2012) study using the program BEAST. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/12.2
title: Sauquet_Scenario_3_Beast

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values reported in Table 5 for scenario 3 of the Sauquet et al. (2012) study using the program BEAST. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/13.2
title: Sauquet_Scenario_4_Beast

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values reported in Table 5 for scenario 4 of the Sauquet et al. (2012) study using the program BEAST. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/14.2
title: Sauquet_Scenario_6_Beast

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values reported in Table 5 for scenario 6 of the Sauquet et al. (2012) study using the program BEAST. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/7.2
title: Penguin_Tree_Fossils_Only

description: This is the file used by the ASCC program (see citation in paper) to calculate the MIG values for the sphenisciform dataset reported in Table 4. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/8.2
title: Penguin_Tree_Combined

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values for the sphenisciform dataset reported in Table 4. File contains the tree topology and age ranges used for all taxa and nodes, with node ages set equal to the molecular-based ages obtained using by Baker et al. (2006) using the combined mtDNA and Rag1 dataset.
DOI: 10.5061/dryad.0vk92.2/9.2
title: Penguin_Tree_mtDNA_Only

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values for the sphenisciform dataset reported in Table 4. File contains the tree topology and age ranges used for all taxa and nodes, with node ages set equal to the molecular-based ages obtained by Baker et al. (2006) using only the mtDNA dataset.
DOI: 10.5061/dryad.4s90s/1
title: Spider behaviours in response to insecticide exposure
DOI: 10.5061/dryad.0vk92.1
title: Data from: Methods for the quantitative comparison of molecular estimates of clade age and the fossil record
DOI: 10.5061/dryad.0vk92.2/15.2
title: Sauquet_Scenario_1_ML

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values reported in Table 5 for scenario 1 of the Sauquet et al. (2012) study using the program r8s. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.0vk92.2/16.2
title: Sauquet_Scenario_4_ML

description: This is the file used by the ASCC program (see citation in paper) to calculate the DIG values reported in Table 5 for scenario 4 of the Sauquet et al. (2012) study using the program r8s. File contains the tree topology and age ranges used for all taxa and nodes.
DOI: 10.5061/dryad.81nk5/1
title: datatryad

description: This is the data collected from field plots.
DOI: 10.5061/dryad.67s40.1
title: Data from: Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity
DOI: 10.5061/dryad.9g5fp/1
title: Cophylogeny reconstruction via an approximate Bayesian computation - Supplementary Material

description: Supplementary material for the work "Cophylogeny reconstruction via an approximate Bayesian computation". It brings the description of datasets and additional experiments which make part of this work.
DOI: 10.5061/dryad.9g5fp/2
title: Cophylogeny reconstruction via an approximate Bayesian computation - Biological datasets

description: This file contains the nexus files of the biological datasets which were analysed in this work.
DOI: 10.5061/dryad.2jv17/1
title: PlethHead-SVL-Data

description: Head shape and body size data (species means) for 42 species of Plethodon salamander
DOI: 10.5061/dryad.2jv17/2
title: Plethodon Phylogeny

description: Plethodon phylogeny (from Wiens et al. 2006)
DOI: 10.5061/dryad.2jv17/3
title: Type I Error Simulation Script

description: R script for simulating data to evaluate Type I error rates of two multivariate phylogenetic comparative method approaches
DOI: 10.5061/dryad.2jv17/4
title: Simulation support scripts

description: Support scripts for Type I error simulations
DOI: 10.5061/dryad.b1296/1
title: Table S7: Willow trait REML models

description: This R script reproduces Table S7 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." This script contains all of the restricted maximum likelihood (REML) models and broad-sense heritability estimates of the 40 willow (Salix hookeriana) traits measured in this common garden experiment.
DOI: 10.5061/dryad.b1296/2
title: Table S4: Heatmap of willow phenotypic correlations

description: This R script reproduces Table S4 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." Specifically, this script calculates willow (Salix hookeriana) phenotypic correlations (Pearson's r) among the 40 traits measured in this common garden experiment. This script also generates a heat map for visualizing these correlations.
DOI: 10.5061/dryad.b1296/3
title: Fig. 3: Multipanel figure of genetic variation in willow traits

description: This script reproduces Fig. 3 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." Specifically, it calculates and plots the mean and standard error of several plant traits measured among the 26 willow genotypes used in this common garden experiment.
DOI: 10.5061/dryad.b1296/4
title: Fig. 2: Multipanel figure of herbivore guild responses to willow genotype

description: This R script reproduces Fig. 2 in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." Specifically, this script calculates and plots the mean and standard error of the abundance of each feeding guild occurring on the 26 willow genotypes measured in this common garden experiment.
DOI: 10.5061/dryad.b1296/10
title: Willow herbivore community and plant trait management script

description: This R script manages the herbivore community and plant trait data for the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly". This file is sourced in for all of the other R scripts associated with this manuscript so that all of the figures, tables, and analyses are reproducible.
DOI: 10.5061/dryad.b1296/11
title: Willow genotype, herbivore community, and plant trait data

description: Contains all of the data that is analyzed and reported in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
DOI: 10.5061/dryad.b1296/5
title: Fig. 1 & S6: Herbivore community responses to willow genotype

description: This R script reproduces Fig. 1 & S6 in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
DOI: 10.5061/dryad.b1296/6
title: Summary of results for herbivore community responses to willow genotype.

description: This R script runs one-way ANOVA, GLMs, and RDA models of herbivore community responses to willow genotype. These results are reported in the first 2 paragraphs of the Results section of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
DOI: 10.5061/dryad.b1296/7
title: Table 1 & 2: Phenotypic and genetic correlations of herbivore guild and species responses

description: This R script reproduces the results reported in Table 1 & 2 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly. Specifically, this script calculates Pearson correlations for phenotypic and genotypic correlations of herbivore community.
DOI: 10.5061/dryad.b1296/8
title: Table 3: willow traits that best predict herbivore community responses

description: This R script runs the forward model selection approach advocated by Blanchet et al. (2008, Ecology) to identify which willow traits best predict herbivore community responses. After identifying these traits, I then determined whether willow genotype still had a significant effect. These results are reported in Table 3 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
DOI: 10.5061/dryad.b1296/9
title: Table S5: Principal Component Analysis of willow phenolic compounds

description: This R script replicates the principal component analyses we performed on different classes of phenolic compounds (Table S5) in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." We explored different transformations (sqrt, log, log(x+1)) to linearize the relationships among leaf phenolic compounds. We then used scree plots and visual inspection of phenolic compound loadings to choose interpretable principal componenents. All PCs were performed on the correlation matrix to give equal weight to each phenolic compound.
DOI: 10.5061/dryad.23d30/1
title: JeanrayEtAl-Data-PlosOne

description: Images used in PLOS ONE article "Phenotype Classification of Zebrafish Embryos by Supervised Learning" in TIFF format (orginal images without any preprocessing). A readme file is added to describe all the subdirectories.
DOI: 10.5061/dryad.db1n0/1
title: Greineisen et al RSOS datafordryad

description: This is an excel file with three worksheets: A Read Me tab, a Study 1 tab, a Study 2 tab
DOI: 10.5061/dryad.dj2bf/2
title: grooming in 5 days per replicate
DOI: 10.5061/dryad.dj2bf/3
title: grooming in days per replicate
DOI: 10.5061/dryad.vr3h0/1
title: Temporal signal traits of planthopper male sexual signals

description: These are attributes of planthopper male sexual signals collected from the island of Hawaii in a field laboratory using a laser vibrometer and an accelerometer. This file, "PatternElements.csv" , describes five signal characteristics: Inter-pulse Interval, Whir Length, Fast Pulse Rate, Slow Pulse Rate, and Ratio of Signals per Bout to the Interval between bouts. Please see the publication for a detailed description of how these data were recorded and scored, and Figure 1 within the publication for a graphical description of the characters. Signal characters with a "_corr" after their names indicates the that these signal traits were correlated to temperature in the original recording and and these columns represent the corrected data.
DOI: 10.5061/dryad.vr3h0/2
title: The signal trait "fundamental frequency" of planthopper male sexual signals

description: These recordings of planthopper male sexual signals were collected from the island of Hawaii in a field laboratory using a laser vibrometer and an accelerometer. This file, "FundamentalFreq.csv" , describes one signal characteristic: fundamental frequency. Please see the publication for a detailed description of how these data were recorded and scored, and Figure 1 within the publication for a graphical description of the character. The column "fund_corr" indicates the that this signal trait was correlated to temperature in the original recording and and this column represents the corrected data.
DOI: 10.5061/dryad.vr3h0/3
title: The signal trait "dominant frequency" of planthopper male sexual signals

description: These recordings of planthopper male sexual signals were collected from the island of Hawaii in a field laboratory using a laser vibrometer and an accelerometer. This file, "DominantFreq.csv", describes one signal characteristic: dominant frequency. Please see the publication for a detailed description of how these data were recorded and scored, and Figure 1 within the publication for a graphical description of the character.
DOI: 10.5061/dryad.2gm06/1
title: Information for Andrei et al. article

description: Information related to the article: "Contrasting taxonomic stratification of microbial communities in two hypersaline meromictic lakes" by Andrei et al.
DOI: 10.5061/dryad.d6b23.2
title: Data from: Abortion legislation, maternal healthcare, fertility, female literacy, sanitation, violence against women, and maternal deaths: a natural experiment in 32 Mexican states
DOI: 10.5061/dryad.dj2bf/1
title: grooming in 5 days per interaction
DOI: 10.5061/dryad.dj2bf/4
title: survival day 12
DOI: 10.5061/dryad.rf025/1
title: Growth data for New Zealand podocarp and angiosperm saplings

description: Sapling growth of 10 New Zealand podocarp and angiosperm tree species in relation to light availability.
DOI: 10.5061/dryad.sm925/1
title: Adaptation data - movement paths

description: Data files with for each subject folder, for each magnification condition ('small' = m = 0.5; zero = m = 1; large = m = 2) the input files with target locations and feedback availability and the output files with movement paths towards each target position. The last number in the output_condition_number filename correspond to the trial numbers in the input file.
DOI: 10.5061/dryad.g7356/1
title: 1.sff

description: See readme.txt
DOI: 10.5061/dryad.g7356/2
title: 2.sff

description: See readme.txt
DOI: 10.5061/dryad.g7356/3
title: 3.sff

description: See readme.txt
DOI: 10.5061/dryad.g7356/4
title: 4.sff

description: See readme.txt
DOI: 10.5061/dryad.qt4nf/1
title: Experiment 1: Parental care and the relationship between larval density and average larval mass

description: This file contains data from Experiment 1: Parental care and the relationship between larval density and average larval mass.  The columns are as follow: 1.  care:  Full = full parental care, No Care = no post-hatching care.  2.  reduced:  whether the brood was experimentally reduced, 0 = no, 1 = yes.  3.  brood_mass:  the total mass of the entire brood at dispersal in grams.  4.  carc_wt:  the mass of the breeding carcass in grams.  5.  no_larvae: the number of larvae at dispersal.  6.  density: the number of larvae at dispersal divided by the mass of the breeding carcass.  6.  avg_larval_mass: the average mass of larvae at dispersal (brood_mass / no_larvae).
DOI: 10.5061/dryad.qt4nf/2
title: Experiment 2: The effect of larval density on the ability of larvae to enter the carcass and carcass decomposition

description: These data are form experiment 2: The effect of larval density on the ability of larvae to enter the carcass and carcass decomposition.  The columns are as follow: 1.  pair: a unique identifier for the breeding pair.  2.  carc_wt: the mass of the breeding carcass in grams.  3.  manipulated_brood_size: the experimentally manipulated number of larvae on the carcass.  4.  density:  the density of larvae on the breeding carcass at manipulation (manipulated_brood_size / carc_wt).  5.  hole_at_manipulation: whether larvae were feeding within the carcass at the time of brood manipulation, 0 = no, 1 = yes.  6.  in_carcass: whether larvae were feeding within the carcass 90 hours after pairing, 0 = no, 1 = yes.  7.  mold_at_90_hrs: whether there was mold growing in the carcass 90 hours after pairing, 0 = no, 1 = yes.  8.  mold_at_114_hours: whether there was mold growing in the carcass 114 hours after pairing, 0 = no, 1 = yes.
DOI: 10.5061/dryad.qt4nf/3
title: Experiment 2: The relationship between larval density and average larval mass at 120 hours after paring.

description: These data are from pairs in experiment 2 that had larvae 120 hours after pairing.  The columns are as follow:  1.  pair: a unique identifier for each breeding pair.  2.  manipulated_brood_size:  the experimentally manipulated number of larvae on the breeding carcass.  3.  carc_wt: the mass of the breeding carcass in grams.  4.  feeding_inside:  whether larvae were feeding in the carcass 120 hours after pairing, 0 = no, 1 = yes.  5.  brood_size_at_120_hours: the number of larvae on the breeding carcass 120 hours after pairing.  6.  brood_mass: the total mass of the brood in grams at 120 hours.  7.  average_larval_mass: the average mass of larvae on the breeding carcass 120 hours after pairing (brood_mass / brood_size_at_120_hours.
DOI: 10.5061/dryad.0ps2f/1
title: DeLisle&Rowe_parasitedata

description: Parasite loads of wild-caught male and female newts, from two years in a single population.
DOI: 10.5061/dryad.tc5g4/1
title: SUM159

description: Files are 16-bit tiffs (which means they will appear black if opened in Preview, Photoshop, or similar program). Each file is a Multi-plane tiff, containing three fluorescence channels:Channel 1 = DAPI (Sigma)Channel 2 = NF-kappaB (anti-p65; Abcam ab16502 / Alexa-488 anti-rabbit; Invitrogen)Channel 3 = DHE (dihydroethidium, hydroethidine; Sigma)File names refer to [row][column]-[field]See ReadMe file for culture and staining information.
DOI: 10.5061/dryad.tc5g4/2
title: ZR75.1

description: Files are 16-bit tiffs (which means they will appear black if opened in Preview, Photoshop, or similar program). Each file is a Multi-plane tiff, containing three fluorescence channels:Channel 1 = DAPI (Sigma)Channel 2 = NF-kappaB (anti-p65; Abcam ab16502 / Alexa-488 anti-rabbit; Invitrogen)Channel 3 = DHE (dihydroethidium, hydroethidine; Sigma)File names refer to [row][column]-[field]See ReadMe file for culture and staining information.
DOI: 10.5061/dryad.tc5g4/3
title: T47D

description: Files are 16-bit tiffs (which means they will appear black if opened in Preview, Photoshop, or similar program). Each file is a Multi-plane tiff, containing three fluorescence channels:Channel 1 = DAPI (Sigma)Channel 2 = NF-kappaB (anti-p65; Abcam ab16502 / Alexa-488 anti-rabbit; Invitrogen)Channel 3 = DHE (dihydroethidium, hydroethidine; Sigma)File names refer to [row][column]-[field]See ReadMe file for culture and staining information.
DOI: 10.5061/dryad.tc5g4/4
title: SUM149

description: Files are 16-bit tiffs (which means they will appear black if opened in Preview, Photoshop, or similar program). Each file is a Multi-plane tiff, containing three fluorescence channels:Channel 1 = DAPI (Sigma)Channel 2 = NF-kappaB (anti-p65; Abcam ab16502 / Alexa-488 anti-rabbit; Invitrogen)Channel 3 = DHE (dihydroethidium, hydroethidine; Sigma)File names refer to [row][column]-[field]See ReadMe file for culture and staining information.
DOI: 10.5061/dryad.tc5g4/10
title: MCF10A-no EGF

description: Files are 16-bit tiffs (which means they will appear black if opened in Preview, Photoshop, or similar program). Each file is a Multi-plane tiff, containing three fluorescence channels:Channel 1 = DAPI (Sigma)Channel 2 = NF-kappaB (anti-p65; Abcam ab16502 / Alexa-488 anti-rabbit; Invitrogen)Channel 3 = DHE (dihydroethidium, hydroethidine; Sigma)File names refer to [row][column]-[field]