cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/yf4p68ngm4.1
title: Data for: Vegetation change and evolutionary response of the large mammal fauna during the Mid-Pleistocene Transition in north temperate East Asia

description: Sediment core Tianjin-G3 (117°25′59.5″N, 38°49′57.6″E) was drilled in the eastern part of the North China Plain, close to Bohai Bay. The core is 250 m in length and the recovery ratio is 90.0%, which meets the requirements for magnetostratigraphic study. The lithology consists of river and lake facies with varying amounts of clay, silt, and silty sand. Typical marine facies are present at depth of 5.0-18 m, representing a marine transgression from 8000-5000 cal yr BP which is widely represented in east China. Pollen samples were collected from the interval 0-250 m depth of the Tianjin-G3 core. 100 g of sample was used for pollen analysis and pretreatment consisted of the following stages: 1) Addition of hydrochloric acid to remove carbonates; 2) flotation with 2.0 second-class heavy liquid flotation (with ZnCl2 and KI-ZnI2); 3) addition of a 1:9 solution of concentrated sulfuric acid and acetic anhydride; 4) suspension in glycerol and mounting on microscope slides. At least three pollen slides were produced and checked for each sample. Pollen counting was conducted with an OLYMPUS biological photomicroscope at ×400 magnification. Fossil pollen grains were identified via comparison with published photomicrographs and modern pollen reference slides. The total pollen count exceeded 150 grains in most samples, 167 grains per sample in average. The samples below 170 meter failed to yield sufficient pollen grains for analysis.
DOI: 10.5061/dryad.0d377r6/1
title: Fulmar tracking data

description: The spreadsheet contains the fulmar tracking data used for the study, collected on Eynhallow (Scotland) in July 2009. The data were filtered and interpolated at a 10-minute resolution using R, as described in the paper. The data set includes: the bird and trip ID numbers, the longitude and latitude coordinates of a bird at each time step of a trip, the corresponding date and time, the step length (in degrees), the bearing (measured from 0 radians), and the closest boat's longitude, latitude and distance (in km) from the bird.
DOI: 10.5061/dryad.1255834/1
title: Corticosterone, oxidative stress and ornament data for yellowthroats
DOI: 10.5061/dryad.1tm23sk/1
title: Selected song data for four Old world leaf warbler species

description: Measurements of song duration, number of total song elements and number of different song elements for Phylloscopus xanthoschistos, Seicercus whistleri, Seicercus burkii and Seicercus affinis
DOI: 10.5061/dryad.2c8f32s/1
title: SES BoF

description: Time series data for Bay of Fundy social ecological system
DOI: 10.5061/dryad.2c8f32s/2
title: SES LC

description: Time series data for Lake Champlain social-ecological system
DOI: 10.5061/dryad.2c8f32s/3
title: SES BC

description: Time series data for Interior BC social-ecological system
DOI: 10.5061/dryad.3b21m43/1
title: FitnessDataSummary

description: This is a .csv file containing all the data from each colony competition. The first line contains self-explanatory column headers.
DOI: 10.5061/dryad.3bc76.2
title: Data from: Adaptive evolution and segregating load contribute to the genomic landscape of divergence in two tree species connected by episodic gene flow
DOI: 10.5061/dryad.3bc76.2/1.2
title: it_s1_10_10_29808

description: Joint SFS between P. alba and P. tremula in Italy made with dadi from Pool-seq data, 24 individuals for each species downsampled to 10 diploid individuals, 29808 SNP
DOI: 10.5061/dryad.3bc76.2/2.2
title: RAD_it_s1

description: Joint SFS for 20 P. alba and24 P. tremula in Italy  for RAD-seq data made with dadi, downsampled to 15 and 15 individuals for a total of 8876 SNPs.
DOI: 10.5061/dryad.3bc76.2/3.2
title: script_inference_anneal2_newton_mis_0

description: Script allowing to carry out demographic models comparisons using ∂a∂i on genomic data.
DOI: 10.5061/dryad.4c57d0f/6
title: Index 2 barcodes

description: Barcode file to demultiplex Index 2 in STACKS
DOI: 10.5061/dryad.4c57d0f/7
title: Index 12 barcodes

description: Barcode file to demultiplex Index 12 in STACKS
DOI: 10.5061/dryad.4c57d0f/8
title: Index 2 sequence file

description: Sequence data for 40 individuals of 3 flicker taxa in fastq format
DOI: 10.5061/dryad.4c57d0f/9
title: Index 12 sequence file

description: Sequence data for 40 individuals of 3 flicker taxa in fastq format
DOI: 10.5061/dryad.4j1qt/5
title: ENSEMBLsim_dataset

description: The ENSEMBLsim simulated dataset examined in this study.
DOI: 10.5061/dryad.4j1qt/6
title: SuppMaterial_SuperMSA

description: Supplementary figures, tables, and text
DOI: 10.5061/dryad.56hk7t5/1
title: 10.1111jav.01710_nest_Data
DOI: 10.5061/dryad.56hk7t5/2
title: 10.1111jav.01710_Environmental_Data
DOI: 10.5061/dryad.5gd00/1
title: Phylotranscriptomics of Cypripedioideae
DOI: 10.5061/dryad.5k45n83/1
title: GomezUchidaEtal2018Dryad

description: This dataset corresponds to multilocus genotypes for non-native Chinook Salmon from Pacific and Atlantic Ocean basins (ordered from North to South)  screened for 172 single nucleotide polymorphisms (coded A=1, C=2, G=3, T=4). Each allele (A1 or A2) is found in a separate column (two columns per SNP locus). Metadata for sampling location and individual ID are provided.
DOI: 10.5061/dryad.5nq06fj/1
title: OK Rhoades Am Nat data

description: Data from choice preference laboratory experiment with eight species of mobile invertebrate herbivores.
DOI: 10.5061/dryad.6cm5d7f/1
title: tree seedling responses to environmental factors at alpine and arctic treeline

description: Includes data collected from studies on tree seedling survival, growth and germination at alpine and Arctic treelines. Includes means, standards and sample size for control and treatment of various field manipulations as well as various moderators. Also includes data from a wider range of papers that can be used to evaluate if tree seedlings and seed germination responds positively, negatively or neutrally to a range of environmental factors.
DOI: 10.5061/dryad.77g469g/1
title: Figure 1 Data

description: Data displayed in Figure 1 of manuscript
DOI: 10.5061/dryad.77g469g/2
title: Figure 2 Data

description: Data displayed in Figure 2 of manuscript
DOI: 10.5061/dryad.77g469g/3
title: Figure 3 Data

description: Data displayed in Figure 3 of manuscript
DOI: 10.5061/dryad.77g469g/4
title: Figure 4 Data

description: Data displayed in Figure 4 of manuscript
DOI: 10.5061/dryad.83nj1/1
title: Weekly mean temperature at 2.5 arc-minutes

description: Raster brick of weekly mean temperature calculated as the average of the daily mean temperature (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named tmean_wk151025 has mean temperature for the week that starts on October 25, 2015.
DOI: 10.5061/dryad.83nj1/2
title: Weekly minimum temperature at 2.5 arc-minutes

description: Raster brick of weekly minimum temperature calculated as the average of the daily minimum temperature (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named tmin_wk151025 has minimum temperature for the week that starts on October 25, 2015.
DOI: 10.5061/dryad.83nj1/3
title: Weekly maximum temperature at 2.5 arc-minutes

description: Raster brick of weekly maximum temperature calculated as the average of the daily maximum temperature (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named tmax_wk151025 has maximum temperature for the week that starts on October 25, 2015.
DOI: 10.5061/dryad.83nj1/4
title: Weekly relative humidity at 2.5 arc-minutes

description: Raster brick of weekly average relative humidity calculated as the average of the daily mean relative humidity (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named rh_wk151025 has average relative humidity for the week that starts on October 25, 2015.
DOI: 10.5061/dryad.968nq8n/2
title: CLCA code

description: The City Local Clustering Algorithm (CLCA) code is in FORTRAN 90 and it was implemented with OpenMP for parallel programming. We also provide the compilation and run script.
DOI: 10.5061/dryad.fq7gv88/2
title: Gene phylogenies based on Maximum_likelihood

description: Phylogenetic analyses of 146 orthogroups comprising genes that function in nitrogen-fixing root nodulation in legumes (Legume symbiosis genes), and 415 orthogroups comprising Parasponia genes that are expressed higher in nodules than in roots (Nodule enhanced genes). Amino acid sequence alignments were generated using MAFFT version 7.017. Analyses were performed using RAxML version 8.2.11 setting gamma-distributed rate variation, estimating optimal models of amino acid sequence evolution (PROTGAMMAAUTO), and running 100 fast bootstrap replicates to assess clade support.
DOI: 10.5061/dryad.fq7gv88/3
title: Draft genomes of Parasponia and Trema species

description: Draft genome assemblies of Parasponia rigida, Parasponia rugosa, Trema levigata, and Trema orientalis accession RG16 based on  medium-coverage sequence data. Read data are available at GenBank under bioprojects PRJNA272486 (P. rigida), PRJNA272880 (P. rugosa) PRJNA38059 (T. levigata), and PRJNA272878 (T. orientalis RG16). Assembly was performed with the iterative de Bruijn graph assembler IDBA-UD version 1.1.1, iterating from 30-mers to 120-mers, with incremental steps of 20.
DOI: 10.5061/dryad.fq7gv88/4
title: Phylogenetic analyses of Cannabaceae

description: Nucleotide alignments were generated using MAFFT version 7.017. The first phylogenetic reconstruction of Cannabaceae (MarkerData) was based on four plastid markers with five optimal partitions and models of sequence evolution: atpB-rbcL combined with trnL-F (GTR+I+G); first codon position of rbcL (GTR+I+G); second position of rbcL (SYM+I+G); third position of rbcL (GTR+G); rps16 (GTR+G). The second phylogenetic reconstruction of Cannabaceae (GenomeData) was based on whole chloroplast genomes with eight optimal partitions and models of sequence evolution: tRNA sequence (HKY+I), rRNA sequence (GTR+I), long single copy region (LSC) coding sequence (GTR+I+G), LSC non-coding sequence (GTR+G), short single copy region (SSC) coding sequence (GTR+G), SSC non-coding sequence (GTR+G), inverted repeat region (IR) coding sequence (GTR+G), and IR non-coding sequence (GTR+G).
DOI: 10.5061/dryad.fq7gv88/5
title: Orthogroup inference

description: Orthogroups were inferred with OrthoFinder version 0.4.0. Since orthogroups are defined as the set of genes that are descended from a single gene in the last common ancestor of all the species being considered, they can comprise orthologous as well as paralogous genes. Our analysis included proteomes of selected species from the Eurosid clade: Arabidopsis thaliana (Brassicaceae, Brassicales) and Eucalyptus grandis (Myrtaceae, Myrtales) from the Malvid clade; Populus trichocarpa (Salicaeae, Malpighiales), legumes Medicago truncatula, and Glycine max (Fabaceae, Fabales), Fragaria vesca (Rosaceae, Rosales), P. andersonii, and T. orientalis (Cannabaceae, Rosales) from the Fabid clade. Sequences were retrieved from phytozome (www.phytozome.net).
DOI: 10.5061/dryad.gd8gp17/1
title: Speciation in the presence of gene flow_DArTseq_Report-DE15-1659

description: DArTseq analysis of six Eucalyptus species from south-eastern Australia. The file comprises two datasets: Silico DArTs (presence/absence markers) and SNPs. The SNPs are presented in both single line format and two line format.
DOI: 10.5061/dryad.kv206p0/1
title: Juvenile mortality performance data
DOI: 10.5061/dryad.q968v83/1
title: Southern Regional Performance Nursery phenotypic data 1992-2015

description: Zip file containing the entry data used for the publication Genomic analysis and prediction within a US public collaborative winter wheat regional testing nursery. The ZIP file comprises of a list of all entries used, the raw phenotypes for all entries, a key for location codes, and a key for state codes.
DOI: 10.5061/dryad.rc41072/1
title: barn swallow eggshell pigmentation

description: data collected in the field and associated laboratory analyses
DOI: 10.5061/dryad.sg095/1
title: Raw-Data in Xlsx format

description: Data are organised according to Figures and Supplementary Figures
DOI: 10.5061/dryad.vt1qd42/1
title: Banded mongoose scent presentation data for Dryad

description: The data file contains data collected from presentations of banded mongoose (Mungos mungo) anal gland secretion to familiar and unfamiliar conspecifics in Mweya (Uganda) in 2014. Response variables are: (1) Total marks: the number of scent marks deposited on or around the odour (within 30 cm), including urinating, depositing faeces and anal marking. (2) Contact: the time (s) spent inspecting the odour (nose within 30 cm). (3) Duration: the time (s) before returning to foraging behaviour, defined here as digging in topsoil/dung or vegetation or eating food items. Explanatory variables are shortened as follows: Recip = Recipient, and Odour = Odour Donor. The Age, Sex (1 = female, 0 = male), Pack (social group code), ID (identity code of the individual mongoose), and the Relatedness between the donor and recipient (calculated using up to 43 microsatellite loci).
DOI: 10.5061/dryad.1s37q/1
title: Minion Barcodes

description: Minion Barcodes generated in the study
DOI: 10.5061/dryad.1s37q/2
title: Dataset C

description: Files for Dataset C
DOI: 10.5061/dryad.1s37q/3
title: Dataset B

description: Files for Dataset B
DOI: 10.5061/dryad.1s37q/4
title: Dataset A

description: Files for Dataset A
DOI: 10.5061/dryad.1s37q/5
title: README

description: Descriptions of files in this repository
DOI: 10.5061/dryad.26c4s35/1
title: Sample data for the Python TableOne package

description: This is an example dataset intended only for demonstrating the Python tableone package. It comprises a single CSV file containing sample data collected from 1000 patients admitted to intensive care units at a hospital in the United States. The variables are: age; systolic blood pressure, weight, type of intensive care unit, mechanical ventilation flag, length of stay, and hospital mortality. The data is a subset of the 2012 PhysioNet Challenge Data (https://physionet.org/challenge/2012/), which is itself a subset of the MIMIC-III dataset (https://www.nature.com/articles/sdata201635).
DOI: 10.5061/dryad.345kq81/1
title: Raw data file Brooks & Crowe March 2018
DOI: 10.5061/dryad.3bc76.2/4.2
title: dadi_define_models

description: Definition of the different 38 models of divergence used in our inferences with ∂a∂i. 

We corrected a typo in the definition of five models: IM2N2M2Pex; AM2N2M2Pex; PAM2N2M2Pex; SC2N2M2Pex; PSC2N2M2Pex. Parameters nu1 and nu2 were replaced by nua1 and nua2 in the more ancient time
DOI: 10.5061/dryad.3bc76.2/5.2
title: DoS

description: Direction of selection (DoS) script:
DOI: 10.5061/dryad.55304br/1
title: Harris et al. 2018 - age, condition, dominance and eye comb size data

description: Data collected in the field from 5 protected lek sites in central Finland (centred around Petäjävesi: lat. 62°25′N, long. 25°18′E) from January-May, 2001-13 and 2015. Behavioural measures were then calculated at a later date. Legend included within database.
DOI: 10.5061/dryad.5gh4486/1
title: Environement_Fitness_analysis3

description: An excel file with soil moisture, herbivory, and survival data collected in every experimental block across all sites in the reciprocal transplant. Soil moisture and proportion surviving was measured repeatedly each week in each block throughout the duration of the reciprocal transplant.
DOI: 10.5061/dryad.5gh4486/2
title: All Pop F4_R2

description: An excel file with survival, fruit number, flower size, flowering time, leaf shape, leaf area, and plant height collected for all F4 plants in all four reciprocal transplant sites. This file was used for the phenotypic selection analysis.
DOI: 10.5061/dryad.5gh4486/3
title: All Pop Parents_R4

description: An excel file with flower size, flowering time, leaf shape, leaf area, plant height, survival to flowering, and seed set for M. laciniatus and M. guttatus parental plants in each reciprocal transplant site.
DOI: 10.5061/dryad.6p6k79p/1
title: Data for salt cress

description: The filtered SNP data and database for deletious mutation
DOI: 10.5061/dryad.7g20t1k/1
title: Kuiper_Raw_Data_JAE_HiP_Elephamts

description: Raw data for vehicle based field observations of elephant individuals and groups
DOI: 10.5061/dryad.7q18vk6/1
title: Mishra et al_DryadData_Oikos

description: The file contains data from three experiments. For each experiment, there is data for dispersal propensity and temporal distribution of dispersers. All columns are labelled and self-explanatory. SEM = Standard Error.
DOI: 10.5061/dryad.821c3j3/2
title: Appendix S1
DOI: 10.5061/dryad.821c3j3/3
title: Appendix S3 (2)
DOI: 10.5061/dryad.821c3j3/4
title: Appendix S4
DOI: 10.5061/dryad.821c3j3/5
title: Appendix S5
DOI: 10.5061/dryad.83nj1/10
title: Gridded urban population in 2015 at 15 arc-seconds

description: Colombia urban population in 2015 obtained by multiplying WorldPop gridded population by urban extent binary raster file. the file in BIL format at a resolution of 15 arc-seconds.
DOI: 10.5061/dryad.83nj1/11
title: Gridded travel time at 30 arc-seconds

description: Colombia travel time (in minutes) to the nearest city of 50,000 or more population in year 2000. The file is in BIL format, at a resolution of 30 arc-seconds.
DOI: 10.5061/dryad.83nj1/12
title: Gridded gross cell product at 2.5 arc-minutes

description: Per capita gross cell product in 2005 $US for Colombia cropped to match all other raster outputs. The file is in BIL format, at a resolution of 2.5 arc-minutes (resampled from the original 60 arc-minutes raster file).
DOI: 10.5061/dryad.83nj1/24
title: Weekly precipitation at 2.5 arc-minutes

description: Raster brick of weekly total precipitation calculated as the total of the daily precipitation (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named precip_wk151025 has precipitation for the week that starts on October 25, 2015.
DOI: 10.5061/dryad.83nj1/5
title: Weekly MODIS Terra NDVI at 2.5 arc-minutes

description: Raster brick of weekly average NDVI from NASA's Terra satellite and MODIS sensor (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named ndvi_modis_terra_wk151025 has the NDVI values for the week that starts on October 25, 2015.
DOI: 10.5061/dryad.83nj1/6
title: Weekly MODIS Aqua NDVI at 2.5 arc-minutes

description: Raster brick of weekly average NDVI from NASA's Aqua satellite and MODIS sensor (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named ndvi_modis_aqua_wk151025 has average NDVI for the week starting on October 25, 2015.
DOI: 10.5061/dryad.83nj1/7
title: Aedes aegypti population at 2.5 arc-minutes

description: Raster brick of ratio of Aedes aegypti population to human population at each week of the year (a total of 52 weeks), in GRI format, at a resolution of 2.5 arc-minutes.
DOI: 10.5061/dryad.83nj1/8
title: Gridded population in 2015 at 3 arc-seconds

description: Colombia population in 2015. The file is in BIL format, at a resolution of 3 arc-seconds.
DOI: 10.5061/dryad.83nj1/9
title: Gridded births in 2015 at 3 arc-seconds

description: Colombia births in 2015. The file is in BIL format, at a resolution of 3 arc-seconds.
DOI: 10.5061/dryad.8p81b6h/1
title: Berson and Simmons 2018_BehEco_Data

description: File containing the mating success, courtship rate, and cuticular hydrocarbon (CHC) data.
DOI: 10.5061/dryad.97c7v3k/1
title: Supplemental_tables_Chang_et_al
DOI: 10.5061/dryad.ck5p92b/1
title: Data

description: Behavioural response to leptin and ghrelin treatment in coal tits.
DOI: 10.5061/dryad.d359556/1
title: Verspoor et al 2018 Evolution Letters All Data

description: This file contains all the data used in the MS. The first worksheet contains background information, the second defines column headings. Sheets 3-6 are the data files. Each datafile has a description of the figures/analysis it was used in, and a brief description of the experiment.
DOI: 10.5061/dryad.h2j2466/1
title: Data Set

description: This file provides information about experimental design and minimal data set, data used to build graphs.
DOI: 10.5061/dryad.k30c2n0/1
title: R source code

description: Programming commands essential for replicating our geometric morphometric and statistical analyses are here given. The main source code (Bazzi et al_Dryad_MasterRScript) is accompanied by separate R scripts (functions and analytical loops) which can be sourced directly provided the working directory has been set.
DOI: 10.5061/dryad.k30c2n0/2
title: Bazzi et al_Data_Dryad_Supplementary_File_1

description: Extended experimental procedures, results, and discussion.
DOI: 10.5061/dryad.k30c2n0/3
title: Bazzi et al_Data_Dryad_Supplementary_File_2

description: Original occurrence dataset (metadata).
DOI: 10.5061/dryad.k30c2n0/4
title: Bazzi et al_Data_Dryad_Supplementary_File_3

description: Tps file containing two-dimensional landmark data.
DOI: 10.5061/dryad.k30c2n0/5
title: Bazzi et al_Data_Dryad_Supplementary_File_4

description: Sliders file.
DOI: 10.5061/dryad.m99v4.2
title: Data from: Next generation lineage discovery: a case study of tuberous Claytonia L.
DOI: 10.5061/dryad.mb7dd20/1
title: Acoustic variables
DOI: 10.5061/dryad.mb7dd20/2
title: Response to alarm calls
DOI: 10.5061/dryad.v382k/1
title: North American Male Eye and Antenna data set

description: The data in the table are the mean values for male eye and antenna measurements from 46 North American taxa
DOI: 10.5061/dryad.v382k/2
title: Male Eye and Antenna Morphology Worldwide data set

description: This file contains the large worldwide data set (N=106 lampyrid taxa and N=1 lycid taxon as outgroup) of male eye and antenna measurements (including Ohba's unscaled and scaled data).
DOI: 10.5061/dryad.v382k/3
title: Male-Female paired worldwide data

description: The data in the table are the mean measurement values for eye and antenna measurements of 28 male-female pairs of fireflies (ksh and Ohba data sets)
DOI: 10.5061/dryad.v382k/4
title: Data for PGLS analysis

description: Log transformed male eye, antenna and body size (pronotum) data of North American fireflies.
DOI: 10.17632/gjnk3kv487.1
title: Data for: Mechanical characterization of natural nano-structured zeolite/polyurethane filled 3D woven glass fiber composite sandwich panels

description: Flatwise compression and three point bending test results
DOI: 10.5061/dryad.0vt7nt0/1
title: Genome assembly and annotations for Sodalis lineage SAL1

description: Genome was assembled using metagenomic techniques and annotated using the RAST server.
DOI: 10.5061/dryad.0vt7nt0/2
title: Genome assembly and annotations for Sodalis lineage SAL2

description: Genome was assembled using metagenomic techniques and annotated using the RAST server.
DOI: 10.5061/dryad.0vt7nt0/3
title: Genome assembly and annotations for Sodalis lineage SLEU

description: Genome was assembled using metagenomic techniques and annotated using the RAST server.