cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.2tk0q/1
title: Hardy-etal_2017_MEPS_M12165

description: We include three sets of data. (1) Raw FASTQ files with all primers and adaptors trimmed using the software GENEIOUS 8.1.5; (2) FASTA files of filtered Illumina NGS reads, the "FabunX" in the file title refers to the number corresponding to 1% of total unique sequences and thus the percentage of sequences that were filtered out if they clustered at lower than this density in order to be conservative in avoiding sources of sequencing error. See methods in the manuscript for further details. (3) Details of prey identified in each sample, including GenBank accession numbers, bit scores and the percentage match over the length of the sequence.
DOI: 10.5061/dryad.3479v/2
title: site_data

description: Pool dimensions, coordinates and hydrology for each site. Coordinates are Universal Transverse Mercator in meters. Mean pool depth are the same values as those in the capture history file. Pool surface area is shown in meters square. Mean_no_drying_events_y are the mean number of times a pool reached zero depth per year, and max_drying_length_d is the maximum number of consecutive days a pool dried during the study.
DOI: 10.5061/dryad.45sg0/1
title: data_manuscript.tar
DOI: 10.5061/dryad.45sg0/2
title: py_manuscript_dryad_version.tar

description: Contains the python files that produce all figures in the manuscript and the python files on which these files depend.
DOI: 10.5061/dryad.4j8pq/1
title: MacGregoretal_ChemicalsData

description: Raw abundance and relative abundance data for 21 lipophilic compounds in the femoral secretions of male wall lizards. For data on the morphology and reproductive success of the enclosure males see MacGregor et al. 2017. Functional Ecology.
DOI: 10.5061/dryad.4qq6v/1
title: Biodiversity and Forest Structure at George Lake PSP

description: Data from a permanent sampling plot (PSP) in central Alberta (Canada). All live and dead stems with DBH &gt; 1.0 cm were identified and mapped within a 1 Ha (100m x 100m) plot. The plot was subdivided into 25 non-overlapping subplots (20m x 20m) and stem data summarized at this level. In addition, from each of these 25 subplots, biodiversity data (ground-dwelling spiders and carabid beetles, foliage-dwelling spiders, and understory vascular plants) were collected. The data consists of six spreadsheets. The first sheet contains univariate summaries of forest structure for each subplot (live and dead stem density and basal area, and in three DBH classes: DBH1: 1.0-4.9 cm; DBH2: 5-20 cm; DBH3: &gt; 20 cm). The second sheed contains multivariate summaries of forest structure for each subplot (live and dead stem density and basal area by species). The remaining sheets contain raw abundances (ground-dwelling spiders and carabid beetles, and foliage-dwelling spiders) or percent cover (understory vascular plants) for species collected and/or observed in each of the 25 subplots.
DOI: 10.5061/dryad.545q0/2
title: Hepatitis B vaccination survey, FRSC, Kaduna, Nigeria-Dataset

description: This is the dataset of the survey of hepatitis B vaccination coverage, and knowledge and socio-demographic determinants of uptake in members of Federal Road Safety Corps, Kaduna State, Nigeria. Data were collected using structured self-administered questionnaire from 17th June to 22nd July, 2015. Dataset contains cleaned data in the Statistical Package for Social Sciences (SPSS) software version 21.
DOI: 10.5061/dryad.5gc82/1
title: COPDindspon_mapping_DRYAD

description: Metadatafile for Comparing microbiota profiles in induced and spontaneous sputum samples in COPD patients, allowing rerun of analysis.
DOI: 10.5061/dryad.5gc82/2
title: COPDindspon_commands_DRYAD

description: Command file for correct sample selection and creation of sub populations as in article: Comparing microbiota profiles in induced and spontaneous sputum samples in COPD patients.
DOI: 10.5061/dryad.5gc82/3
title: uc_fast_params

description: Parameter file necessary for OTU-picking.
DOI: 10.5061/dryad.5gn79/1
title: Ron et al. 2017 JE data

description: plot level, habitat level and regional level species diversity for plots of four different soil depths
DOI: 10.5061/dryad.5m582/1
title: The role of livestock intensification and landscape structure in maintaining tropical biodiversity

description: Included original data information (collected in the field, analyzed with satellite imagery and statistical modeling. We also shows a description of abbrevations mentioned in Alvarado et al. (2017) JAE
DOI: 10.5061/dryad.61622/1
title: Data for genetic analyses of deep-sea stony corals

description: In this file, it contains the information of sampling information and data for genetic analyses (sequences and microsatellite) of Goniocorella dumosa, Madrepora oculata, Solenosmilia variabilis
DOI: 10.5061/dryad.649nk/1
title: Explanation of the data organization and characteristics

description: Matlab file containing summary information about each individual mouse used in the study, namely: in which experiment the mice were used (hM4D with reversals, photometry with reversal, photometry with surprise outcomes), to which group they belong (experimental or control, based on genotype, type of virus injected and drug received), list of the days considered for analysis, types of data collected (e.g. photometry, licking),information about how the individual day data files relate to the reversal day, some experimental conditions used in the photometry study.
DOI: 10.5061/dryad.649nk/2
title: hf3_D10_alldata

description: hM4Di experiment - mouse 10
DOI: 10.5061/dryad.649nk/3
title: hf3_D11_alldata

description: hM4Di experiment - mouse 11
DOI: 10.5061/dryad.649nk/4
title: hf3_D12_alldata

description: hM4Di experiment - mouse 12
DOI: 10.5061/dryad.6tv76/1
title: EggToAdultViability

description: Number of flies emerging from 20 eggs. This trait was measured in a high number of replicate populations reared at different population sizes, different thermal regimes and tested at different test regimes.
DOI: 10.5061/dryad.76bn8/1
title: TLG_Vocal_learning_via_social_reinforcement

description: This file contains the data and MATLAB code used to fit the regression models in "Vocal learning via social reinforcement by infant marmoset monkeys (2017) Takahashi DY, Liao DA, Ghazanfar AA, Current Biology.
DOI: 10.5061/dryad.8p9j6/1
title: SNP polymorphisms among the Oryza population

description: This hapmap file is generated from Genotyping-by-Sequencing, a Next-Generation-Sequencing method. Single nucleotide polymorphisms recorded in this file are called from the sequencing data with the standard Tassel pipeline. Each of the 51934 rows is for one SNP locus, with the first 11 columns describing the ID, alleles, chromosome positions and other features of the locus, and the rest columns recording the SNP alleles of the panel of Oryza samples included.
DOI: 10.5061/dryad.952j3/1
title: Environmental effects of face preferences in Vanuatu
DOI: 10.5061/dryad.9n0p1/1
title: Skull and Forearm Measurements of Florida and Bahamas Tadarida brasiliensis

description: This is a file of the raw data and averages for each skull measurement and the forearm measurement used in this paper. The Individual IDs are the Florida Museum of Natural History catalogue numbers. The measurements are a subset of those used in Freeman (1981) and are labelled based on the number labels provided in Freeman (1981).
DOI: 10.5061/dryad.9n0p1/2
title: Microsatellite Allele Calls

description: The allele calls are provided in the input format for Migrate-n. The first line indicates the number of populations (2) and the number of loci used (9). The second line provides the repeat length for each locus. The third lines begins the information for population 1, which is the Little Bahama Bank & Florida individuals (56 individuals sampled). The first 10 spaces of each line following the 3rd line (until the 2nd population is reached) is the locality from which the individuals was collected, the Florida Museum of Natural History catalogue number, and the sex. The spaces immediately following the first 10 spaces begin the allele call information. The allele calls for a single individual at a single locus are separated by a period. Missing data is indicated by a question mark.
DOI: 10.5061/dryad.d3r64/1
title: Geographical structure of endosymbiotic bacteria hosted by Bathymodiolus mussels at eastern Pacific hydrothermal vents

description: Sampling region of Bathymodiolus thermophilus and B. antarticus sulfur-oxidizing gammaproteobacteria
EPR, East Pacific Rise
GAR, Galapagos Rift
PAR, Pacific-Antartic Ridge

Information of population and geographic groups
population	group
(HA) 11N 	EPR
(HB) 9N  	EPR
(HI) GAR 	EPR
(HC) 7S  	EPR
(HD) 11S 	EPR
(HE) 17S 	EPR
(HF) 23S 	EPR
(HG) 32S 	PAR
(HH) 38S 	PAR

Folder and file information:
FASTA folder - 2 folders containing multi loci DNA sequences of all the sampled individuals from 9 populations sorted by Population and Subpopulation (individual host mussel)

Arlequin input files (16S) folder - input files used for calculation molecular indices of 16S gene at two levels of Population and Subpopulation

Arlequin input files (Funtional genes, Subpopulation) folder - input files used for calculation molecular indices of functional genes at level of Subpopulation (individual host mussel)

Input files (Functional genetic data, Population) folder - input files used for calculation of molecular indices of functional genes at level of population, synonymous/nonsynonymous substitutions estimation, symbiont isolation-by-distance test, and nucleotide substitution rate, generating haplotype networks of functional genes

Polymorphic tables.xlsx - Polymorphic table of 16S and functional genes used in this study
DOI: 10.5061/dryad.d3r64/2
title: Networks with OTUs label

description: Sequence networks of six protein-coding genes of Bathymodiolus bacterial symbionts labeling with OTUs.
DOI: 10.5061/dryad.f84rk/3
title: Table 3
DOI: 10.5061/dryad.f84rk/4
title: Supplementary Text
DOI: 10.5061/dryad.f84rk/5
title: Table S1
DOI: 10.5061/dryad.f84rk/6
title: Table S2
DOI: 10.5061/dryad.f84rk/7
title: Table S3
DOI: 10.5061/dryad.f84rk/8
title: Table S4
DOI: 10.5061/dryad.g2j62/12
title: Read me (data file explanations)
DOI: 10.5061/dryad.g2j62/13
title: Simple MCMC function scripts

description: R syntax to define the MCMC functions to be used in other scripts
DOI: 10.5061/dryad.g2j62/2
title: Data on H7N9 cases in China

description: This data file contains information on 395 human cases of laboratory-confirmed H7N9 infection in China between Mar 2013 and Aug 2014.
DOI: 10.5061/dryad.g2j62/3
title: Table 1 scripts
DOI: 10.5061/dryad.g2j62/4
title: Table 2 scripts
DOI: 10.5061/dryad.g2j62/5
title: Table 3 scripts
DOI: 10.5061/dryad.g75j9/1
title: Data_MobulidFeedingMS_ChrisRohner
DOI: 10.5061/dryad.gh221/1
title: Tomograms of Vindhyan algae

description: The file is a ZIP archive of 28 tomograms in 3D-TIFF format. Details about the imaged specimens are in the associated ReadMe file.
DOI: 10.5061/dryad.h33db/1
title: Species height and trait data

description: This dataset contents information about species heights recorded at different time since fire sites in Myall Lakes National Park, New South Wales, Australia; Murray Sunset National Park, Victoria, Australia; and The Foothill Forests in Victoria Australia. It contains species names (Sp) which are abbreviated to the first three letters of Genus and species, Height in cm (Ht),  age of time-since-fire site (Yrs), seed mass (SDMASS), specific leaf area (SLA) and nitrogen (N); and the Site ID (Site).
DOI: 10.5061/dryad.k53b7/1
title: Soilfractionsdata

description: The raw data for the paper
DOI: 10.5061/dryad.k53b7/2
title: Rcode for the LME analysis
DOI: 10.5061/dryad.kd3p5/1
title: compiled abundance data drift experiment

description: Species abundances by treatment (community size), block and year
DOI: 10.5061/dryad.m2471/1
title: Canopy_Data_FINAL

description: Canopy tree reproduction data per plot in 8 liana-removal and 8 control plots (with lianas present) on Gigante Peninsula, Panama. There are 9 columns: plot number, treatment, year sampled, proportion of canopy covered by flowers, proportion of canopy covered by fruits, number of individuals with flowers, number of individuals with fruits, number of species with flowers, number of species with fruits.
DOI: 10.5061/dryad.m2471/2
title: Understorydata_Data_FINAL

description: Understory plant reproduction data per plot in 8 liana-removal and 8 control plots (with lianas present) on Gigante Peninsula, Panama. There are 9 columns: plot number, treatment, year sampled, mean number of flowers per understory plant, mean number of fruits per understory plant, number of individuals with flowers, number of individuals with fruits, number of species with flowers, number of species with fruits.
DOI: 10.5061/dryad.m2471/3
title: palm_data_FINAL

description: Understory plant reproduction data per plot in 8 liana-removal and 8 control plots (with lianas present) on Gigante Peninsula, Panama. There are 5 columns: plot number, treatment, year sampled, mean number of flower clusters per palm, mean number of fruit clusters per palm.
DOI: 10.5061/dryad.m53q0/1
title: Table  S1

description: The all data of the meta-analysis on starvation effects on nitrogen and carbon stable isotopes of animals
DOI: 10.5061/dryad.mf287/1
title: AllAnimalsDryad

description: A list of all digitized videos with maximum raw prey velocity values from each
DOI: 10.5061/dryad.mf287/2
title: AllAnimalsMaxDryad

description: A list of all the animals with morphological and genetic data. The prey velocity represents the highest value measured in any video of that animal. Prey velocity and protrusion are both listed before and after size correction.
DOI: 10.5061/dryad.mr720/1
title: Kinematic data

description: All kinematic data for predator-prey experiments.
DOI: 10.5061/dryad.mr720/2
title: Matlab code

description: All code for the experimental analysis and mathematical simulations.
DOI: 10.5061/dryad.nn831/1
title: 5 day and 23 day acclimation data

description: 5 day and 23 day developmental and adult acclimation data.
DOI: 10.5061/dryad.p42r8/2
title: transcriptome_genotype_data_for_DRYAD

description: This is a .csv fil with 288 lines of data (one for each marker with genotype data) and 14 columns (one for each sequenced male).The genotypes are coded as 0, 0.5, 1, NA
DOI: 10.5061/dryad.p8n59/1
title: 8100SNPs

description: Data set for all Amphirrhox longifolia populations.
DOI: 10.5061/dryad.p8n59/2
title: Input file for TREEMIX

description: Input file for TREEMIX analyses
DOI: 10.5061/dryad.p8n59/3
title: inputSPAGEDI

description: Input file for SPAGeDi
DOI: 10.5061/dryad.p8n59/4
title: Input file for Bayescan

description: Input file for Bayescan analysis
DOI: 10.5061/dryad.pn088/1
title: Source_codes_and_data.zip

description: The .zip folder includes source codes (one .hpp, one .cpp, one .r) and data (four .csv files) with a .doc README file.
DOI: 10.5061/dryad.vr3hk/6
title: Differences3days
DOI: 10.5061/dryad.vr3hk/7
title: SusceptibleChange
DOI: 10.5061/dryad.0164h/1
title: Presence of Trichoderma in leaf pieces carried or rejected by workers of leaf-cutting ants

description: Recognition of endophytic Trichoderma mycoparasites by leaf-cutting ants and their potential in a Trojan-horse management strategy - Rejected leaves were considered to be those scattered by the ants above or at the side of the nest entrances. Carried leaves were taken from ants as they were being transported to the nest.
DOI: 10.5061/dryad.12546.1
title: Data from: Phylogenomics reveals rapid, simultaneous diversification of three major clades of Gondwanan frogs at the Cretaceous–Paleogene boundary
DOI: 10.5061/dryad.12546.1/1.1
title: Phylogenetic matrix (164 species dataset)

description: Phylogenetic matrix containing aligned DNA sequences for 95 nuclear coding loci (88,302 bp) for 164 species of frogs, including details on character partitions and best-fit models of evolution for the partitions.
DOI: 10.5061/dryad.12546.1/2.1
title: Phylogenetic matrix (309 species dataset)

description: Phylogenetic matrix containing aligned DNA sequences for 95 nuclear coding loci (88,386 bp) for 309 species of frogs, including details on character partitions and best-fit models of evolution for the partitions.
DOI: 10.5061/dryad.12546.1/3.1
title: Maximum likelihood phylogeny of 309 species

description: Maximum likelihood phylogeny generated using partitioned analysis in RAxML for 309 species, including 145 species for which data were obtained via GenBank.
DOI: 10.5061/dryad.12546.1/4.1
title: Maximum likelihood phylogeny of 164 species

description: Maximum likelihood phylogeny generated using partitioned analysis in RAxML for 164 species.
DOI: 10.5061/dryad.12546.1/5.1
title: Chronogram of 309 species

description: Chronogram generated in MCMCTREE using the maximum likelihood phylogeny generated via RAxML for 309 species, including 145 species for which data were obtained via GenBank.
DOI: 10.5061/dryad.12546.2/5.2
title: Chronogram of 309 species

description: Chronogram generated in MCMCTREE using the maximum likelihood phylogeny generated via RAxML for 309 species, including 145 species for which data were obtained via GenBank.
DOI: 10.5061/dryad.12546.2/6.2
title: Chronogram of 164 species

description: Chronogram generated in MCMCTREE using the maximum likelihood phylogeny generated via RAxML for 164 species.
DOI: 10.5061/dryad.12546.2/7.2
title: Collection of maximum likelihood gene trees with bootstrap replicates

description: Maximum likelihood phylogeny generated via RAxML and associated nonparametric bootstrap replicates for each gene in our 95-locus dataset.
DOI: 10.5061/dryad.13m7r/1
title: 134_taxa_PCGRNA

description: 134_taxa_PCGRNA dataset for PhyloBayes analysis
DOI: 10.5061/dryad.13m7r/2
title: 134_taxa_PCG12RNA

description: 134_taxa_PCGRNA dataset for PhyloBayes analysis
DOI: 10.5061/dryad.13m7r/3
title: 134_taxa_AA

description: 134_taxa_AA dataset for PhyloBayes analysis
DOI: 10.5061/dryad.13m7r/4
title: 117_taxa_PCGRNA

description: PCGRNA dataset with the removal of 17 species according to the branch length and the heterogeneity in sequence divergence
DOI: 10.5061/dryad.13m7r/5
title: 117_taxa_PCG12RNA

description: PCG12RNA dataset with the removal of 17 species according to the branch length and the heterogeneity in sequence divergence
DOI: 10.5061/dryad.1jq96/1
title: Concatenated nuclear data matrix

description: ntax=182 includes S7 = 1-1179; ENC1 = 1180-2015; RAG1 = 2016-3475.
DOI: 10.5061/dryad.1jq96/2
title: Concatenated mitochondrial data matrix

description: ntax=259 includes Cytb = 1-1134; CO1 = 1135-1822.
DOI: 10.5061/dryad.1jq96/3
title: BEAST nuclear data matrix

description: Matrix used for BEAST analyses
DOI: 10.5061/dryad.1jq96/4
title: BEAST nuDNA tree

description: Dated tree used for downstream diversification and biogeographic analyses
DOI: 10.5061/dryad.24s3c/2
title: Mark_files

description: In Mark_files.zip, there are two files to be used in Mark program, although the extension will need to be changed to .inp. In both files, each row represents an individual. In the file Mark_file_3States, 0 indicated no capture; 1 = the individual was observed in the Swan Canning Riverpark; 2 = the individual was observed in the Cockburn Sound/Owen Anchorage; and 3 = the individual was observed in Gage Roads. In the file Mark_file_2States, 0 indicated no capture; A = the individual was observed in the Swan Canning Riverpark; B = the individual was observed in the Coastal waters (Cockburn Sound/Owen Anchorage and Gage Roads combined).
DOI: 10.5061/dryad.2bc7c/1
title: NextSeq_raw_fastq

description: Zipped file containing 24 raw fastq files of 11 butterfly species. A ddRAD library was prepared using PstI and MspI restriction enzymes, following the protocol of Peterson et al. 2012, and then sequenced on an Illumina NextSeq 500.
DOI: 10.5061/dryad.2bc7c/2
title: HiSeq_raw_fastq

description: Zipped file containing 24 raw fastq files of 11 butterfly species. A double enzyme GBS library was prepared using PstI and MspI restriction enzymes, following the protocol of Poland et al. 2012, and then sequenced on an Illumina HiSeq 2000.
DOI: 10.5061/dryad.2bc7c/3
title: all_5%_structure_input

description: Input file for STRUCTURE analysis of the HiSeq + NextSeq dataset filtered with a minor allele frequency of 5%.
DOI: 10.5061/dryad.2bc7c/4
title: processed nexus input files

description: Zipped file containing all 21 processed nexus files used for phylogenetic analyses
DOI: 10.5061/dryad.2ff04/1
title: Mackerel Fin CT Reconstruction

description: Contains data for a micro CT scan of a dissected Mackerel (S. japonicus) pectoral fin.
DOI: 10.5061/dryad.3mj97/1
title: Data for Experiment 1a

description: See Readme file for information about all data in this deposit
DOI: 10.5061/dryad.3mj97/2
title: Data for Experiment 1b

description: See Readme file for information about all data in this deposit
DOI: 10.5061/dryad.3mj97/3
title: Data for Experiment 2

description: See Readme file for information about all data in this deposit
DOI: 10.5061/dryad.3s26k/1
title: Data for Botterill-James et al. Behavioral Ecology

description: Life history and behavioural data associated with all of the female broods
DOI: 10.5061/dryad.550sg/1
title: ReadMe

description: Full description of the uploaded data files
DOI: 10.5061/dryad.5gc82/4
title: COPD_BERGEN_Fastq175

description: Resulting Illumina fastq files from 175 sputum samples collected as part of the Bergen COPD Cohort Study (BCCS) and its adjunct Bergen COPD Exacerbation Study (BCES).
DOI: 10.5061/dryad.5j501/1
title: AP44

description: Anonymous nuclear marker, AP44, sequences
DOI: 10.5061/dryad.5j501/2
title: AP50

description: Anonymous nuclear marker, AP50, sequences
DOI: 10.5061/dryad.5j501/3
title: AP70

description: Anonymous nuclear marker, AP70, sequences
DOI: 10.5061/dryad.5j501/4
title: COI

description: COI mitochondrial sequences
DOI: 10.5061/dryad.5n36j/5
title: Wareolestes_NHMUKM36525_CTtifs

description: The .tif files of a microCT scan of Wareoeslestes rex NHMUK PV M.36525; the holotype molar.
DOI: 10.5061/dryad.5n36j/6
title: Wareolestes_NHMUKM36525_3Dmodel

description: A .stl 3D model of the holotype Wareolestes rex molar, NHMUK PV M.36525
DOI: 10.5061/dryad.5n36j/7
title: Wareolestes_NMSG2016.34.1_3Dmodel

description: A .stl 3D model of the Wareolestes rex dentary from Skye, Scotland: NMS G.2016.34.1
DOI: 10.5061/dryad.5n36j/8
title: Wareolestes_NMSG2016.34.1_3Dmodel_teeth

description: A .stl 3D model of the Wareolestes rex dentary from Skye, Scotland: NMS G.2016.34.1 - teeth only.
DOI: 10.5061/dryad.5n36j/9
title: Wareolestes_NMSG.2016.34.1_CT.bmp

description: The .bmp files of a microCT scan of Wareoeslestes rex NMS G.2016.34.1; the new dentary from the Kilmaluag, Isle of Skye. Downsampled to 8bit (original 16bit).
DOI: 10.5061/dryad.649nk/10
title: hf3_DR6_alldata

description: hM4Di experiment - mouse 6
DOI: 10.5061/dryad.649nk/11
title: hf3_DR7_alldata

description: hM4Di experiment - mouse 7
DOI: 10.5061/dryad.649nk/12
title: hf3_DR8_alldata

description: hM4Di experiment - mouse 8
DOI: 10.5061/dryad.649nk/13
title: hf3_DR9_alldata

description: hM4Di experiment - mouse 9
DOI: 10.5061/dryad.649nk/5
title: hf3_DR1_alldata

description: hM4Di experiment - mouse 1
DOI: 10.5061/dryad.649nk/6
title: hf3_DR2_alldata

description: hM4Di experiment - mouse 2
DOI: 10.5061/dryad.649nk/7
title: hf3_DR3_alldata

description: hM4Di experiment - mouse 3
DOI: 10.5061/dryad.649nk/8
title: hf3_DR4_alldata

description: hM4Di experiment - mouse 4
DOI: 10.5061/dryad.649nk/9
title: hf3_DR5_alldata

description: hM4Di experiment - mouse 5
DOI: 10.5061/dryad.7174h/1
title: Data Bundle Nature Communications

description: Data bundle including code supporting the publication: van Belzen, J., van de Koppel,, J., Kirwan, M.L., van der Wal, D., Herman, P.M.J., Dakos, V., Kefi, S., Scheffer, M., Guntenspergen, G.R., Bouma, T.J. (2017). Vegetation recovery in tidal marshes reveals critical slowing down under increased inundation. Nature Communications