cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.k8fg7/1
title: Dargentetal2015_demasculinization

description: The file contains data on the experiment for which it was collected ("Experiment"), the id of each individual guppy used ("id"), their population of origin ("population"), the hormone treatment that they received ("treatment": COm= control males, COf=control females, xAn=demasculinized males, fe=feminized males), the initial mass of individuals in grms ("startweight"), the initial standard length of individuals in mm ("startsl"), the mass of individuals on the day of infection ("0weight"), the standard length of individuals on the day of infection ("0sl"), the parasite load on the day of infection ("day0") and consecutive days 6 ("day6"), 8 ("day8"), and 10 ("day10"), the sex of the fish ("sex") and whether they were outliers or not ("outliers").
DOI: 10.5061/dryad.k8fg7/2
title: Dargentetal2015-demascSurv

description: The file contains data on the id of the individual guppy ("id"), the hormone treatment that they received ("treatment"), their survival status on day 0 to 13 ("sur[day]"), whether the individual was an outlier ("outlier"), whether the individual was an outlier for the survival analysis ("outliersur"), the day in which we recorded them as dead ("deathday"), their maximum number of parasites during infection ("peakpara"), and whether they survived until the end experimental period or died ("status"). (For experiment 2 only).
DOI: 10.5061/dryad.kd564/1
title: Simulation code (C++)

description: This C++ code performs coevolutionary simulations as described within the paper.
DOI: 10.5061/dryad.pd256/2
title: Contests dataset

description: Data on each contestant, including: sex, residency status (resident/intruder), winner status (winner/loser), body length, body mass, maximum strike force, and number of strikes delivered during the contest.
DOI: 10.5061/dryad.pd256/3
title: Morphology & force dataset

description: Data for each individual used in morphology and force correlations, including: sex, body length, body mass, carapace length, merus length, saddle length, dactyl heel width, and maximum strike force.
DOI: 10.5061/dryad.pd256/4
title: Supplementary video 1

description: Video showing contest behaviours
DOI: 10.5061/dryad.pd256/5
title: Supplementary video 2

description: Video showing contest behaviours
DOI: 10.5061/dryad.q28b2/1
title: happy_families

description: Behavioural and fitness data collected from fruit flies placed in the following treatments 1) “related pair”, a single male from the same familial lineage as the target female; 2) “unrelated pair”, a single male from a different familial lineage than the target female; 3) “all related”, three males related to each other (same familial lineage) and to the target female; 4) “males related”, three males related to each other but from a different familial lineage than the target female; and 5) “all unrelated”, three males unrelated (different familial lineages) to either each other or to the target female.
DOI: 10.5061/dryad.q28b2/2
title: synthetic_dataset

description: A synthetic dataset containing the fighting rate values for each of the familial lineages that were represented in the male combinations for every all unrelated vial; this was accomplished using our observations made for males from the appropriate corresponding males related vials. The three values (corresponding to the three males in an unrelated trio) in this synthetic dataset were ranked from most aggressive to least aggressive. The fighting rate in the corresponding "all unrelated" vial is also included.
DOI: 10.5061/dryad.q2h4s/16
title: Movie S2
DOI: 10.5061/dryad.q2h4s/17
title: Movie S3
DOI: 10.5061/dryad.q2h4s/18
title: Movie S4
DOI: 10.5061/dryad.q2h4s/19
title: Movie S5

description: .mov file generated in QuickTime 7 Pro. File may be viewed in QuickTime Player 7.
DOI: 10.5061/dryad.q2h4s/20
title: Movie S6
DOI: 10.5061/dryad.q2h4s/21
title: Movie S7
DOI: 10.5061/dryad.q2h4s/22
title: Table S1
DOI: 10.5061/dryad.q2h4s/23
title: Table S2
DOI: 10.5061/dryad.rm5dr/1
title: Endiandra globosa and Endiandra discolour chloroplast genome and reads

description: (1.) Folder contains chloroplast reads extracted from each population of Endiandra species studied. For example, “enddis BS” folder contains chloroplast reads for the E. discolour Big Scrub population. Abbreviations of the populations are explained in Figure 1 of the paper. (2.) The GenBank files contain partial chloroplast genomes of Endiandra globosa and E. discolour which were used in analysing within and among population genetic variation. Annotations are included.
DOI: 10.5061/dryad.sd1dt/1
title: Frost_278_SNPs_Genotyping_Rawdata_Kovi_et_al_2015_frontiers_Plantscience

description: Two hundred and seventy-eight Lolium perenne genic SNP markers distributed across the seven linkage groups [LG1 (37); LG2 (57); LG3 (32); LG4 (40); LG5 (39); LG6 (37); and LG7 (36)] were genotyped using Sequenom MassARRAY iPLEX platform. The 'Genotype' column indicates the population labels used during the analyses. For each SNP marker, one column with a unique label (i.e. marker name) indicate the two alleles. Missing data are labelled '0'.
DOI: 10.5061/dryad.sd1dt/2
title: Frost_genotype_filtering_231SNPs_Kovi_et_al_frontiers_Plantscience

description: Two hundred and thirty one SNPs were obtained for data analysis after removing eleven SNPs which failed in genotyping and twenty-seven SNPs with missing data &gt; 5%  from the initial genotyping dataset. Of the remaining 231 SNPs, 181 SNPs (78.3%), 162 SNPs (70.1%), and 180 SNPs (77.9 %) were polymorphic across the HF (High frost), LF (Low frost) and US (Unselected) populations, respectively. Missing data is represented as "0".
DOI: 10.5061/dryad.sd1dt/3
title: frost_structure_excludinghomozygous_outlierSNPs_linkedmarkers_Kovi_et_al_2015_frontiers_Plantscience

description: Structure input file, after discarding 94 SNP markers closely linked with a minimum distance of 2 cM and 32 outlier SNP markers from the analysis. In total, 105 SNP markers were used to estimate the population structure using linkage model.
DOI: 10.5061/dryad.1pd88/1
title: Life history and microsatellite data

description: Contains four workbooks, with two types of data for two lakes. Those workbooks called "life_table" contain the results of our Pb exposure life history experiment. Each row represents one individual, which was kept in its own jar. Columns identify each clone, clone age, and Pb treatment. The columns labeled with day numbers give the number of live births counted on that day. Deaths are recorded as NAs: the first NA appears on the day that an animal was found dead. The workbooks called "msats" contain the microsatellite data retrieved from sedimentary eggs. Each row represents one egg. A column gives the year the egg was produced, and for Greifensee, another column gives the species identity. The remainder of the columns give the diploid microsatellite genotype of each egg. The names of the columns correspond to the names of the markers.
DOI: 10.5061/dryad.302jc/1
title: GAGE ET AL OPEN SCIENCE POLYANDRY BENEFITS IN SALMON RAW DATA

description: Raw study data in excel
DOI: 10.5061/dryad.3447g/3
title: KRAS ARMS results

description: KRAS ARMS results
DOI: 10.5061/dryad.3f2t2/10
title: chr8.all.filter
DOI: 10.5061/dryad.3f2t2/11
title: chr9.all.filter
DOI: 10.5061/dryad.3f2t2/12
title: chr10.all.filter
DOI: 10.5061/dryad.3f2t2/13
title: chr11.all.filter
DOI: 10.5061/dryad.3f2t2/14
title: chr12.all.filter
DOI: 10.5061/dryad.3f2t2/15
title: chr13.all.filter
DOI: 10.5061/dryad.3f2t2/16
title: chr14.all.filter
DOI: 10.5061/dryad.3f2t2/8
title: chr6.all.filter
DOI: 10.5061/dryad.3f2t2/9
title: chr7.all.filter
DOI: 10.5061/dryad.3hp15/1
title: Dougherty_etal_RawData

description: Raw data associated with Dougherty et al. Journal of Applied Ecology, including sample locations, baited trap catches of crayfish, qPCR values, Sanger sequencing confirmation, and Secchi disk depth measurements for study lakes.
DOI: 10.5061/dryad.4061p/1
title: data_experiment_1

description: basic data: Data on each copepod used in the experiment. latency: results for each copepod on each day for how long it took to resume moving after a simulated predator attack. Behavioral data: Data on the position of each copepod during each two second interval and whather or not it moved for all days on which behavior was recorded
DOI: 10.5061/dryad.4061p/2
title: data_experiment_2

description: basic data: Data on each copepod used in the experiment. latency: results for each copepod on each day for how long it took to resume moving after a simulated predator attack. Behavioral data: Data on the position of each copepod during each two second interval and whather or not it moved for all days on which behavior was recorded
DOI: 10.5061/dryad.4p57t/1
title: Siepielski et al predator cue data

description: This file contains the raw data from the experiments described in the paper. All data columns are described in the file.
DOI: 10.5061/dryad.56986/1
title: Fig 4A markers

description: This data set contains 16077 markers which was aligned to unique positions of A, B and C genomes (ABC-markers), respectively, and was used to construct the phylogenetic tree in Figure 4A
DOI: 10.5061/dryad.56986/2
title: Fig4B markers

description: This data set contains 3296 A genome specific markers of three A-genome containing species, and was used to construct the phylogenetic tree in Figure 4B
DOI: 10.5061/dryad.56986/3
title: Fig. 4 Phylogenetic tree of the three A genome contained species B. rapa, B. juncea and B. napus

description: Figure 4 Phylogenetic tree of the three A genome contained species B. rapa, B. juncea and B. napus(A) Evaluated with a set of markers (16,077) which was aligned to unique positions of A, B and C genomes (ABC-markers), respectively; the figure shown B. juncea being separated from other two species. (B), Evaluated with a subset of markers (3,296) which were uniquely aligned to A genome; the figure shown a close relationship between B. juncea and B. rapa, and together separated from B. napus. 26 accessions of the three Brassica species, i.e, B. rapa, B. juncea and B. napus, were used.
DOI: 10.5061/dryad.56986/5
title: Genotype that used for Additional file 5
DOI: 10.5061/dryad.5md80/11
title: A5 Late ontogeny_12 June_Long_pt 2

description: Late ontogeny colony_12 June 2014_Long_pt 2   First image at 16 minutes post-feeding, subsequent images at 10 sec intervals. Exposure = 5 sec. The short exposure was used to quantify the luminosity of the fed polyp. Scale: 5.97 µm/pixel.  To meet upload specs, tiff files from this study have been divided into 2 folders- this is part 2.
DOI: 10.5061/dryad.5md80/12
title: A6 Medusa-bearing Colony_3 Oct_Short

description: Medusae-bearing colony_3 Oct_Short First image at 21 minutes post-feeding, subsequent images at 10 sec intervals. Exposure = 0.5 sec. The short exposure was used to quantify the luminosity of the fed polyp. Scale: 3.6 µm/pixel.
DOI: 10.5061/dryad.5md80/13
title: A7 Medusa-bearing Colony_3 Oct_Long_pt 1

description: Medusae-bearing colony_3 Oct_Long_pt 1   First image at 21 minutes post-feeding, subsequent images at 10 sec intervals. Exposure = 2 sec. The long exposure was used to quantify the luminosity of the unfed polyps and hydrorhiza. Scale: 3.6 µm/pixel.To meet upload specs, tiff files from this study have been divided into 2 folders- this is part 1.
DOI: 10.5061/dryad.5md80/14
title: A7 Medusa-bearing Colony_3 Oct_Long_pt 2

description: Medusae-bearing colony_3 Oct_Long_pt 2   First image at 21 minutes post-feeding, subsequent images at 10 sec intervals. Exposure = 2 sec. The long exposure was used to quantify the luminosity of the unfed polyps and hydrorhiza. Scale: 3.6 µm/pixel.To meet upload specs, tiff files from this study have been divided into 2 folders- this is part 2.
DOI: 10.5061/dryad.5md80/15
title: A8 Cut Stolon study_1 March

description: Cut stolon experiment_1 Mar    First image at 35 minutes post-feeding, subsequent images at 1 hour intervals. Exposure for frames 1-5 = 4 sec, exposure for remaining frames = 8 sec. Scale: 3.26 µm/pixel.
DOI: 10.5061/dryad.5md80/16
title: A9 Fed Polyp_10 Sept

description: Fed Polyp_10 Sept    First image at 15 minutes post-feeding, subsequent images at 10 second intervals. Exposure = 4 sec. Scale: 3.08 µm/pixel.
DOI: 10.5061/dryad.5md80/17
title: C1 Replicate Early ontogeny_1 Oct_Short

description: Replicate_Early Ontogeny_1 Oct_Short     First image at 25 minutes post-feeding, subsequent images at 10 second intervals. Exposure = 0.5 sec. Scale: 6.74 µm/pixel. The short exposure may be used to quantify the luminosity of the fed polyp.
DOI: 10.5061/dryad.5md80/18
title: C2 Replicate_Early ontogeny_1 Oct_Long

description: Replicate_Early Ontogeny_1 Oct_ Long      First image at 25 minutes post-feeding, subsequent images at 10 second intervals. Exposure = 2 sec. Scale: 6.74 µm/pixel. The long exposure may be used to quantify the luminosity of unfed polyps and hydrorhiza.
DOI: 10.5061/dryad.5md80/19
title: C3 Replicate_Mid Ontogeny_2 July_short

description: Replicate_Mid-Ontogeny_2 Jul_Short      First image at 24 minutes post-feeding, subsequent images at 9 second intervals. Exposure = 0.5 sec. Scale: 6.74 µm/pixel. The short exposure may be used to quantify the luminosity of the fed polyp.
DOI: 10.5061/dryad.7dv96/3
title: Supplemental_Files

description: Tissue mix sequence countsCustom BLAST databaseModel system species sequences
DOI: 10.5061/dryad.98d35/1
title: OpenDX script for analysis of gap junction channel electrostatics

description: The script can be processed by OpenDX. It will read pymol-generated.dx files that contain electrostatic potentials at defined grid points. There will be a graphical output along with a table (z-data) containing electrostatic potentials along the z-axis. To run, replace three instances of "PATH" with your working directory.
DOI: 10.5061/dryad.98d35/2
title: Homology model of the Cx50 gap junction channel.

description: This is a PDB file containing a homology model of the Cx50 gap junction channel, that was used for electrostatic calculations with the "Advanced Poisson-Boltzmann Solver" integrated into the molecular graphics program, PyMol.
DOI: 10.5061/dryad.b3q08/1
title: ZanneTyson1YearDecay&PlantTraitsMetadata

description: These are mass loss data for leaves, fine branches and stems for 21 species from Tyson Research Center, MO, USA.
DOI: 10.5061/dryad.b3q08/2
title: ZanneTysonPlantTraits

description: These are leaf and wood plant traits data for 21 species from Tyson Research Center, MO, USA.
DOI: 10.5061/dryad.c510p/1
title: Larue et al. Floral scent emissions of Achillea millefolium and Cirsium arvense

description: Floral scent compounds emitted by Achillea millefolium and Cirsium arvense as well scent emissions of flowers after application of the floral extracts. Shown are emission rates of each compound [ng hr-1 dry weight-1].
DOI: 10.5061/dryad.cg4qp.1
title: Data from: Conserved class of queen pheromones stops social insect workers from reproducing
DOI: 10.5061/dryad.cg4qp.2
title: Data from: Conserved class of queen pheromones stops social insect workers from reproducing
DOI: 10.5061/dryad.cg4qp.2/1.2
title: Bioassay and comparative analysis data

description: B terrestris bioassays.txt: Bombus terrestris bioassay data; Cataglyphis iberica bioassays.txt: Cataglyphis iberica bioassay data; V vulgaris bioassays.txt: Vespula vulgaris bioassay data; character states.csv: character matrix used in the comparative analysis; phylogeny.nex: phylogeny used for the comparative analysis (in Nexus/Mesquite format)
DOI: 10.5061/dryad.dj050/2
title: microsatellite genotypes_Amelanopus

description: genotypes across 22 microsatellite markers for A.melanopus collected in the Keppel Islands
DOI: 10.5061/dryad.dj050/3
title: Fig2_assignment data

description: parentage assignment data used to create Figure 2 dispersal map
DOI: 10.5061/dryad.dj050/4
title: Fig3_connection frequency data

description: frequency data used to create Figure 3
DOI: 10.5061/dryad.dj050/5
title: Fig4_colony level dispersal data

description: assignment data used to create Figure 4
DOI: 10.5061/dryad.dj050/6
title: Fig5_dispersal distance data

description: dispersal distance and frequency data used to create Figure 5
DOI: 10.5061/dryad.dn0qk/1
title: Publication trend data for Figure 1

description: File contains information on total number of articles published per year summed across all scientific disciplines, absolute number of papers on colour polymorphism published per year, relative scientific output on colour polymorphism (expressed as percentage of total research output). Data extracted from a topic search for ’colo*r polymorphism’ OR ’colo*r polymorphic’ conducted on 17 August 2015 from ISI Web of Science.
DOI: 10.5061/dryad.h61dj/1
title: Meta-analysis data and script

description: Two files related to the manuscript "Does intraspecific competition promote variation? A test via synthesis" by AW Jones and DM Post: 1) A file containing the raw data collected for the meta-analysis as well as data summaries. 2) An R script outlining the analyses performed on the data.
DOI: 10.5061/dryad.h75ht.2
title: Data from: Cyanobacteria and the Great Oxidation Event: evidence from genes and fossils
DOI: 10.5061/dryad.h75ht.2/1.2
title: Chroococcidiopsis sp.  PCC 8201

description: Protein sequences of Chroococcidiopsis sp. PCC 8201. Annotated with Prokka (http://www.vicbioinformatics.com/software.prokka.shtml).
DOI: 10.5061/dryad.h75ht.2/2.2
title: Geitlerinema sp. PCC 8501

description: Protein sequences of Geitlerinema sp. PCC 8501. Annotated with Prokka (http://www.vicbioinformatics.com/software.prokka.shtml).
DOI: 10.5061/dryad.h75ht.2/3.2
title: Leptolyngbya sp. PCC 73110

description: Protein sequences of Leptolyngbya sp. PCC 73110. Annotated with Prokka (http://www.vicbioinformatics.com/software.prokka.shtml).
DOI: 10.5061/dryad.h75ht.2/4.2
title: Chroococcidiopsis sp. PCC 7434

description: Protein sequences of Chroococcidiopsis sp. PCC 7434. Annotated with Prokka (http://www.vicbioinformatics.com/software.prokka.shtml).
DOI: 10.5061/dryad.hv333/8
title: Metadata by library

description: Metadata for each RNA-seq library used in this study, including the tissue and individual (see the metadata by individual file for more info on each individual) from which the library is derived, and the SRA accession numbers. Columns: "library_ID" (library identifier 2), "library_code" (library identifier 2), "individual_short" (individual ID, same as in metadata by individual file), "tissue_long" (name of tissue), "use_for_DE" (whether the sample was used for differential expression analysis (if TRUE) or only for annotation improvement (if FALSE), "Biosample_ID" (SRA Biosample identifier), "SRR_ID" (SRA run ID), "SRS_ID" (SRA sample ID), "sample".
DOI: 10.5061/dryad.hv333/9
title: tophat and cufflinks script

description: This script will download our RNA-seq data from SRA (using the SRR IDs that can be found in metadata by library), use Tophat to map it to the genome (genome fasta file should be in the working dir), and then run Cufflinks.
DOI: 10.5061/dryad.jd038/1
title: Data matrix including gene partitions

description: Data matrix in NEXUS format with 12 gene fragments (12S, 16S, 28S, CAD, COII, COI, CYTB, EF1aF2, Pol II, ATP6, ATP8, wg), 6568 characters, and 38 taxa
DOI: 10.5061/dryad.jd038/2
title: Data matrix including best-fit partitioning scheme found with PartitionFinder

description: Data matrix in NEXUS format with eight best-fit partitions, 6568 characters, and 38 taxa
DOI: 10.5061/dryad.jd038/3
title: Phylogeny from Bayesian analysis

description: Bayesian phylogeny estimated with the best-fit partitioning scheme for a concatenated 12-gene dataset
DOI: 10.5061/dryad.jm7v0/1
title: Sequence alignment of the entire genomic gene sequence Phospholipase A2 genes from pitvipers and viper outgroups

description: Full phospholipase A2 gene sequences amplified directly from genomic DNA of Asian pitvipers, including novel sequences sequenced for this study, in FASTA format.
DOI: 10.5061/dryad.ks97h/1
title: Growth and carbohydrates in temperate and Mediterranean treelines

description: The file contains two sheets: 1. NSC shows total soluble carbohydrate, starch, and non structural carbohydrates  concentrations per mass unit (col I, J, K, respectively) and per volume unit (N, O, P, respectively) in three tissues (col D, new developing twings, stem sapwood, and branches) in early summer and early autumn (col E, spring and autumn, respectively) 6-8 adult trees of different species (lenga: Nothofagus pumilio, frangel: Kageneckia angustifolia, uncinata: Pinus uncinata, sylvestris: Pinus sylvestris) at three elevations (treeline, intermediate named as "inter", and closed or montane forest named as "low") of altitudinal gradients sampled in four locations of Chile (termas: Termas de Chillán, antillanca: Antillanca area within Puyehue National Park, castillo: Cerro Castillo Natural Reserve, in Patagonia, and farellones: Farellones in Central Chile) and Spain (pyrenees: Sierra de Cutas area in Spanish Central Pyrenees, and sierra: Sierra Nevada). First col indicates the climate for each location. 2. BAI refers to mean annual basal area increment of the last 10 years in 6-8 adult trees of different species (lenga: Nothofagus pumilio, frangel: Kageneckia angustifolia, uncinata: Pinus uncinata, sylvestris: Pinus sylvestris) at three elevations (treeline, intermediate named as "inter", and closed or montane forest named as "low") of altitudinal gradients sampled in four locations of Chile (termas: Termas de Chillán, antillanca: Antillanca area within Puyehue National Park, castillo: Cerro Castillo Natural Reserve, in Patagonia, and farellones: Farellones in Central Chile) and Spain (pyrenees: Sierra de Cutas area in Spanish Central Pyrenees, and sierra: Sierra Nevada). First col indicates the climate for each location.
DOI: 10.5061/dryad.m1s46/1
title: Fine root dynamics data sheat (Jamro et al. 2015)

description: Comma-separated values (CSV)
DOI: 10.5061/dryad.nm5ns/1
title: playbacktransects20132014 for Dryad

description: Data on detectability of bird song recordings in grasslands, in the presence and absence of noise
DOI: 10.5061/dryad.p00gd/1
title: Individual genotypes (17 microsatellites)

description: Individual genotype data assessed at 17 microsatellite loci
DOI: 10.5061/dryad.p00gd/2
title: Estimated SNP allele frequencies

description: SNP name, chromosome position on the female and male map (cM) and estimated allele A frequency of pooled DNA samples
DOI: 10.5061/dryad.p00gd/3
title: Kernel smoothing & permutation test R script

description: Custom-made R script to perform kernel smoothing and permutation tests
DOI: 10.5061/dryad.p19v8/1
title: Burial tolerance data for marine macroinvertebrates

description: Indexed spreadsheet
DOI: 10.5061/dryad.pj7hg/1
title: interspecificAssay_dataTable

description: Tab-delimited survival data for the interspecific assay of adult lifespan in Pristionchus nematodes.  Data for Table 1, Table 2, Table 3, Table 4, Table A2, Figure 2, Figure 3a, Figure 4, Figure A1.
DOI: 10.5061/dryad.pj7hg/2
title: intraspecificAssay_dataTable

description: Tab-delimited survival data for the intraspecific assay of adult lifespan (hermaphrodites only) for five Pristionchus pacificus strains.  Data for Table A1, Figure A3.
DOI: 10.5061/dryad.pj7hg/3
title: matedPexAssay_dataTable

description: Tab-delimited survival data for the assay of adult lifespan in mated Pristionchus exspectatus females.  Data for Figure 3b.
DOI: 10.5061/dryad.pj7hg/4
title: Pristionchus_phylogeny

description: Newick format trees used for penalized-likelihood branch scaling, ancestral character mapping of mating system, and Ornstein-Uhlenbeck analysis of lifespan evolution.  Data for Figure 1, Figure 4, and Table 4.
DOI: 10.5061/dryad.q2h4s/24
title: Table S3
DOI: 10.5061/dryad.qg3ft/1
title: Tree_for_submission
DOI: 10.5061/dryad.r7490/1
title: Morphometric data

description: Entire morphometric dataset collected from surgeonfish specimens.