cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.exgyju
title: Occurrence Download

description: A dataset containing 977 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Euodynerus quadrifasciatus (Fabricius, 1793)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 977 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0086702-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.h617h/4
title: Count Tables in R

description: R script for counting differentially expressed and up- or down-regulated contigs for a given category. Useful for interpreting expression changes for multiple unique contigs within a category (i.e. multiple proteins of an ion channel). Written by Lara McGrath. For more information, email Lara McGrath at lara.l.mcgrath [at] gmail.com
DOI: 10.5061/dryad.hs26b/1
title: Flowering time, microsatellite and MS-AFLP data from apomictic dandelion

description: Apomictic clone members from common dandelion microspecies Taraxacum officinale 'Alatum' screened under common greenhouse environments for variation in microsatellites, methylation-sensitive AFLPs and flowering time.
DOI: 10.5061/dryad.m3913/1
title: Atlantic cod microsatellite genotype data

description: Genotype data for 8 microsatellite loci in 15 Atlantic cod samples
DOI: 10.5061/dryad.md40s/1
title: no allelopathy model data

description: Species abundance and resource use data from model runs with various levels of gamma.
DOI: 10.5061/dryad.md40s/2
title: allelopathy model data

description: Species abundance, resource use and antimicrobial production data from model runs with various levels of gamma.
DOI: 10.5061/dryad.md40s/3
title: script for both models with annotation

description: R script for models.
DOI: 10.5061/dryad.nc637/1
title: Sultaire_et_al_Data

description: This file is a CSV file containing the survey data for two time periods and the covariate data used in analysis.
DOI: 10.5061/dryad.nk513/1
title: Data A1.

description: Microsoft Excel workbook with data used in the evaluation of methods to combine proxy data across multiple survey sites within a single population of Chinook salmon (Oncorhynchus tshawytscha) and then calibrate to mark-recapture estimates of total population size.  Each sheet contains a given population’s mark-recapture point estimate and standard error through time.  The peak count recorded during at various sites (s1, s2, …) within the population are also given.  Fractional peak counts were imputed from a longer time series of counts that extends beyond the years mark-recapture studies were performed.
DOI: 10.5061/dryad.pg470/1
title: Alignments

description: Alignments in nexus format of DNA barcode datasets assembled and used in this study.
DOI: 10.5061/dryad.pg470/2
title: Python scripts

description: Python scripts used in study to generate results and posterior predictive simulations. Information about usage can be found in the header of each file.
DOI: 10.5061/dryad.q3b49/1
title: Alignment CAD_wingless

description: Alignment of concatenated wg and CAD sequences of Vatesus beetles.
DOI: 10.5061/dryad.q3b49/2
title: Alignment COI

description: Alignment of COI sequences of Vatesus beetles.
DOI: 10.5061/dryad.q3b49/3
title: CAD_Wingless phylogenetic tree

description: Newick tree file of concatenated wg and CAD sequences of Vatesus beetles.
DOI: 10.5061/dryad.q3b49/4
title: COI phylogenetic tree

description: Newick tree file of COI sequences of Vatesus beetles.
DOI: 10.5061/dryad.q5g33/1
title: Loricariinae rtn4 GBdef SFM

description: Alignment of f-rtn4r maker for 321 loricariids. Data are as deposited in GenBank.
DOI: 10.5061/dryad.q771r.3
title: Data from: RAD genotyping reveals fine-scale genetic structuring and provides powerful population assignment in a widely distributed marine species, the American lobster (Homarus americanus).
DOI: 10.5061/dryad.q771r.3/1.3
title: 10156 SNPs identified for Homarus americanus

description: VCF output of the 10156 SNPs identified for Homarus americanus through a RAD sequencing protocol.
DOI: 10.5061/dryad.q771r.3/2.3
title: 8411snps-586ind

description: Data containing 8411 SNPs successfully genotyped in 586 lobsters.
DOI: 10.5061/dryad.q7810/1
title: Material Examined

description: Collection information for the specimens examined in the taxonomic revision of Myriophora.
DOI: 10.5061/dryad.qk300/1
title: Spatial data range map construction files

description: This file contains all the shape files, and all scripts for their generation, for all species of New World snakes analysed in this manuscript
DOI: 10.5061/dryad.r1s8g/1
title: AFSC triennial and NWFSC annual shelf-slope bottom trawl surveys (spatially-restricted)

description: A subset of locations and species obtained from the Alaska Fisheries Science Center triennial shelf survey (1977-2004) and Northwest Fisheries Science Center annual shelf-slope survey (2003-2013).  Please see ReadMe.txt for more details
DOI: 10.5061/dryad.sk7q8/14
title: Maxonia apiifolia2

description: SEM spore photo of Maxonia apiifolia. Voucher: Jamaica, Maxon 2822 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.sk7q8/15
title: Maxonia apiifolia3

description: SEM spore photo of Maxonia apiifolia. Voucher: Panama, Croat 17202 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.sk7q8/16
title: Maxonia apiifolia4

description: SEM spore photo of Maxonia_apiifolia. Voucher: Jamaica Maxon 2284 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.sk7q8/17
title: Maxonia apiifolia5

description: SEM spore photo of Maxonia_apiifolia. Voucher: Jamaica Maxon 2284 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.sk7q8/18
title: Maxonia apiifolia6

description: SEM spore photo of Maxonia_apiifolia. Voucher: Jamaica Maxon 2822 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.sk7q8/19
title: Olfersia alata2

description: SEM spore photo of Olfersia_alata. Voucher: Cuba, Wright 784 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.sk7q8/20
title: Olfersia alata3

description: SEM spore image of Olfersia alata. Voucher:_Cuba, Wright 784 (NY). Scale bar = 10 micrometers.
DOI: 10.5061/dryad.tn6vn/4
title: fITS7.ITS4.Mock.fasta

description: Fasta file containing repetitiveness sequences of OTUs described using the primer pair fITS7-ITS4.
DOI: 10.5061/dryad.tn6vn/5
title: ITS3KYO2.ITS4KYO3.Mock.fasta

description: Fasta file containing repetitiveness sequences of OTUs described using the primer pair ITS3KYO2-ITS4KYO3.
DOI: 10.5061/dryad.tn6vn/6
title: Mock.Community.fasta.Rep

description: Fasta File containing Sanger sequences fungal isolates used as a the Mock Community. Sequences are the rRNA region from the forward primer ITS1F and the reverse primer LR3. Label for each sequences includes river in which each culture was isolated on Coiba Island, Panama.
DOI: 10.5061/dryad.tn6vn/8
title: mothur.commands.annotated

description: A list of mothur commands used for these analyses along with annotations regarding what these commands are doing.
DOI: 10.5061/dryad.1032r/1
title: R code to analyze data

description: R code to read and analyze data to estimate band retention rate
DOI: 10.5061/dryad.2306t/1
title: Cell trajectories in no flow

description: A Matlab structure for each organism contains measured cell trajectories in a no flow condition. These data were used in the production of Figure 1.
DOI: 10.5061/dryad.2306t/2
title: x Positions of cells

description: A Matlab structure for each organism contains the x positions of identified cells in the microchannel. Each structure contains the flowrate and the x positions measured at that flow rate. These data were used in producing the cell concentration profiles in Figure 2.
DOI: 10.5061/dryad.2306t/3
title: Cell orientations

description: Matlab structures contain the positions and angular orientations of cells for CCMP 452 and CCMP1320 in different flow conditions. Positions are given in pixels. Pixel size is 17 microns. For CCMP 452, a magnification of 6x was used. For CCMP 1320, a magnification of 15x was used. Area of cells is given in pixels. Note that the mean shear in the channel is half of the flow rate.
DOI: 10.5061/dryad.2306t/4
title: Cell trajectories in flow

description: Matlab structures contain measured cell trajectories at the flow rate corresponding to a mean channel shear of 2.5 s^-1. These trajectories were used to produce the angular velocity plots in Figure 4.
DOI: 10.5061/dryad.261v1/1
title: Data from: How Well Can We Detect Shifts in Rates of Lineage Diversification? A Simulation Study of Sequential AIC Methods

description: The supplemental data archives include trees and stem ages simulated under constant-rate birth-death processes for four different simulation experiments (simulation_1, simulation_2, simulation_3 and simulation_4), as well as a src folder which contains scripts for simulation and conducting the analyses.
DOI: 10.5061/dryad.261v1/2
title: Supplemental Material

description: Supplemental material, including descriptions and results from supplemental simulation studies.
DOI: 10.5061/dryad.2d6h4/2
title: climate_ICTP

description: One of the A1B climate files that we used to simulate Kalkalpen National Park. The spatial location of the climate tables was defined in the file "environment".
DOI: 10.5061/dryad.2d6h4/3
title: climate_REMO

description: One of the A1B climate files that we used to simulate Kalkalpen National Park. The spatial location of the climate tables was defined in the file "environment".
DOI: 10.5061/dryad.2d6h4/4
title: environment

description: The environment defines the climate table to be used as well as soil conditions. The spatial location for each id can be found in the file "resource_units".
DOI: 10.5061/dryad.2d6h4/5
title: resource units

description: Contains the locations of resource units (see file "environment").
DOI: 10.5061/dryad.2d6h4/6
title: stand polygons

description: Spatial layer for the initialization of trees and saplings (see files trees 1999 and saplings 1999).
DOI: 10.5061/dryad.2d6h4/7
title: trees 1999

description: Tree vegetation within stand polygons (see file "stand polygons" for polygon locations).
DOI: 10.5061/dryad.2d6h4/8
title: saplings 1999

description: Sapling vegetation within stand polygons (see file "stand polygons" for polygon locations).
DOI: 10.5061/dryad.2d6h4/9
title: taxonomic groups

description: Inventory data for species numbers of taxonomic groups as well as associated climate and tree vegetation. Inventories were conducted in Bavaria.
DOI: 10.5061/dryad.300k7/1
title: GarciaComasetal_ProcB_Dataset

description: Samples were collected in the field during cruises across the East China Sea. 'PPBR' corresponds to Predator-Prey Biomass Ratio. 'Predator' corresponds to mesozooplankton excluding carnivore species (water column sampled with a net of 330 µm mesh size; 1.6 m mouth diameter). 'Prey' corresponds to nano-microplankton (sampled from 10-m below the detected cola to surface with Niskin bottles). Individual size was obtained with the ZooSCAN for mesozooplankton, and the FlowCAM for nano-microplankton. Size diversity corresponds to the continuous version of the Shannon index. SST and SSS correspond to sea surface temperature and salinity, respectively. Nutrient concentrations are integrated above the mixed layer depth.
DOI: 10.5061/dryad.4qf2h/1
title: Assembly

description: The file contains fasta sequence of high quality transcripts obtained after three step of stringent filtering.
DOI: 10.5061/dryad.4qf2h/2
title: annotations

description: The file contains annotations for high quality transcripts by BLASTX, InterProScan, GO and Enzymes terms.
DOI: 10.5061/dryad.4qf2h/3
title: RSEM.tar

description: The folder contains RSEM output files for each sample.
DOI: 10.5061/dryad.4qf2h/4
title: differential_expression.tar

description: The folder contains files for differential expression analysis between heat and cold treatments from two regions (hoje and nora).
DOI: 10.5061/dryad.4r1f0/1
title: Tpop_T11_top6perfam

description: Pedigree and EBVs for Scots pine case study, for branch-and-bound optimization by OPSEL
DOI: 10.5061/dryad.4r1f0/2
title: Resende_BP

description: Pedigree and EBVs for loblolly pine case study for branch-and-bound optimization by OPSEL
DOI: 10.5061/dryad.52504/2
title: Neighbor-joining phylogenetic trees

description: Neighbor-joining phylogenetic trees based on 16 nuclear (nuSSR) and 5 chloroplast (cpSSR) simple sequence repeat loci
DOI: 10.5061/dryad.52504/3
title: Input files used for phylogenetic analyses in POPULATIONS

description: Input files used for neighbor-joining phylogenetic analyses implemented in the program POPULATIONS based on 16 nuclear (nuSSR) and 5 chloroplast (cpSSR) simple sequence repeat loci
DOI: 10.5061/dryad.52504/4
title: Input files used for PCAs on genetic and environmental data

description: Input files for PCA analyses based on genetic (16 nuclear simple sequence repeat loci) and climatic data (Bio2, Bio3, Bio8, Bio13, Bio14, Bio15, and Bio18)
DOI: 10.5061/dryad.52504/5
title: Climate layers used for MAXENT analyses

description: Climate layers (asc. files) for the present and the last glacial maximum (LGM) used for MAXENT analyses. Two climate models (CCSM and MIROC) were used for projections to the LGM.
DOI: 10.5061/dryad.52504/6
title: Occurrence data used for MAXENT and ENMTOOLS analyses

description: Occurrence data for the six studied species (Quercus berberidifolia, Quercus durata, Quercus cornelius-mulleri, Quercus john-tuckeri, Quercus dumosa and Quercus pacifica) used for MAXENT and ENMTOOLS analyses.
DOI: 10.5061/dryad.52504/7
title: Input files used for STRUCTURE analyses

description: Input files used for Bayesian analyses of genetic structure implemented in the program STRUCTURE. There is one file for each studied species (Quercus berberidifolia, Quercus durata, Quercus cornelius-mulleri, Quercus john-tuckeri, Quercus dumosa and Quercus pacifica) and the different hierarchical analyses performed for different subsets of species.
DOI: 10.5061/dryad.52582/1
title: Palaeoxonodon ooliticus NMS G.2015.17.10 movie rendering

description: Movie rendering of Palaeoxonodon ooliticus NMS G. 2015.17.10.
DOI: 10.5061/dryad.52582/2
title: Palaeoxonodon ooliticus NMS G.2015.17.10 PLY file

description: 3D surface file of Palaeoxonodon ooliticus NMS G.2015.17.10 in PLY format.
DOI: 10.5061/dryad.52582/3
title: Palaeoxonodon ooliticus NMS G.2015.17.10 PLY (dentary only)

description: 3D surface file of Palaeoxonodon ooliticus NMS G.2015.17.10 in PLY format (dentary only)
DOI: 10.5061/dryad.52582/4
title: Palaeoxonodon ooliticus NMS G.2015.17.10 PLY (dentition only)

description: 3D surface file of Palaeoxonodon ooliticus NMS G.2015.17.10 in PLY format (dentition only)
DOI: 10.5061/dryad.5jq64/1
title: Mitochondrial haplotypes and microsatellite genotypes of tree frog samples from the Hyla arborea / Hyla orientalis hybrid zone in Poland

description: The file shows the mitochondrial haplotype (Hyla arborea or orientalis) and microsatellite genotypes of all samples included in the publication. NA: missing data. See the method section of the publication for further details
DOI: 10.5061/dryad.6b1h8/3
title: Larval performances

description: The file ‘Larval performances’ contains the data from the ‘reciprocal transplant’ experiment. - The first column, called ‘ID_Larvae’, corresponds to the unique identifer of each sampled larvae . - The second column, entitled ‘ID_cage’, corresponds to the numerical identifier from each experimental cage. - The third column, entitled ‘replicates’, corresponds to the numerical identifier of the replicate of each experimental set-up. There were 4 replicates by experimental set-up (two by cage). - The fourth column, entitled ‘Plants_species’, corresponds to the host plant on which the larvae developed.  - The fifth column, entitled ‘Ostrinia_species’, refer to O. nubilalis (ECB) and O. scapulalis (ABB) species used in the experiment. - the sixth column, entitled ‘Deposit_Date’, corresponds to the deposit date of the egg masses on the plants in the cages. - the seventh column, called ‘Sampling_Date’, corresponds to the date of larval sampling after their development (several weeks after deposit). - the eighth column, called ‘Larval_Instar’, corresponds to the larval stage at time of sampling. There are five larval instars, which are numbered from 1 to 5. - the ninth column, called ‘Weight’, corresponds to the larval weight at the time of sampling. The values are given in mg. ‘NA’ is for the weights inferior to the balance minimal detection threshold. - the tenth called ‘Sex’, corresponds to sex of each individual: female or male.
DOI: 10.5061/dryad.86fj0/4
title: 4_Genome_Wide_RAD_Data_Lake_NID
DOI: 10.5061/dryad.86fj0/5
title: 5_Genome_Wide_RAD_Data_Lake_BOH
DOI: 10.5061/dryad.9fp8k.2
title: Data from: A tool for determining duration of mortality events in archaeological assemblages using extant ungulate microwear
DOI: 10.5061/dryad.9fp8k.2/1.2
title: DATASET 1 - EXTANT UNGULATES

description: Dataset of tooth microwear patterns in large samples of 10 extant ungulate populations with good records of thedate and conditions of death.
DOI: 10.5061/dryad.9fp8k.2/2.2
title: DATASET 2 - ARCHAEOLOGICAL SAMPLES

description: Dataset of tooth microwear patterns in archaeological samples of ungulates from five Middle and Late Pleistocene localities in Europe.
DOI: 10.5061/dryad.cp4mb/1
title: Region21_Mulitiple_alignment

description: (ndhI-ndhG) Plastid sequences containing high sequence divergence that could be suitable for phylogenetic analyses at the species level in Begonia. Short (804 bp), Sanger-sequence-able region with average pairwise identity of 86.7%.  Bayesian inference phylogenetic reconstruction analysed under a GTR+I+G model performed in MrBayes, with 13 taxa rooted on B.varipeltata.
DOI: 10.5061/dryad.cp4mb/2
title: Region24_multiple_alignment

description: (rpoB–psbD) Plastid sequences containing high sequence divergence that could be suitable for phylogenetic analyses at the species level in Begonia. Medium length (1360 bp), with average pairwise identity of 93.9%.  Bayesian inference phylogenetic reconstruction analysed under a GTR+I+G model performed in MrBayes, with 16 taxa rooted on B.bogneri.
DOI: 10.5061/dryad.cp4mb/3
title: Whole_plastid_alignment

description: The draft sequence generated for B. peltata was used as a reference to map each set of assembled contigs for all sixteen Begonia species (including B. peltata). Plastid genome contigs were aligned to B. peltata using MAFFT v6.717 (Multiple Alignment using Fast Fourier Transform) (30) applying the iterative refinement method (FFT-NS-i) and using default parameter settings (gap opening penality: 1.53, offset-value: 0.0) and then visually inspected and manually adjusted in the software program Geneious Pro 5.6.3 (http://www.geneious.com/).
DOI: 10.5061/dryad.d15v3/1
title: 174_coding_noncoding_genes

description: 174 regions including 79 coding genes and 95 non-coding regions
DOI: 10.5061/dryad.d15v3/2
title: 79genes_concatenated

description: 79 coding genes
DOI: 10.5061/dryad.d15v3/3
title: 56genes-less-90

description: 56 coding genes with the sequence identity less than 90%
DOI: 10.5061/dryad.d15v3/4
title: 16mitogenes-modified

description: 16 mitochondrial genes
DOI: 10.5061/dryad.g393r
title: Data from: The decline in fitness with inbreeding: evidence for negative dominance-by-dominance epistasis in Drosophila melanogaster
DOI: 10.5061/dryad.g393r/1
title: Sharp and Agrawal JEB data

description: In each family group ("family_ID") fitness was assessed at multiple inbreeding levels ("inbreeding_coef", F) by scoring the number of phenotypically wild-type flies ("wt_flies") relative to the number of flies of a standard genotype ("std_flies").
DOI: 10.5061/dryad.h3r11/1
title: Hennin 2016 - WWSC Data

description: These are data from an experiment in captive white-winged scoters in which we manipulated corticosterone to examine the profile of release of corticosterone over time, the impact on the HPA axis and subsequent changes in mass and fattening.
DOI: 10.5061/dryad.m02hm/1
title: focal follow data

description: This are summary data of focal follows of island scrub-jays, during which we recorded foraging events (frg), acorn foraging events (acorn), caching events (cac), aggressive displacements (dis), calculated their hourly rates (ffh, fah, fch, fdh), the Julian date (day), acorn counts per plot (count.y), study plot (plot), calendar week (week), and proportions of acorns cached.
DOI: 10.5061/dryad.m02hm/2
title: Pesendorfer_etal_ISSJ_caches

description: Caching observations. Includes individual, plot, year, caching distance, acorn count on the plot, and calendar week.
DOI: 10.5061/dryad.m64qc/1
title: tseng-oconnor-rawdata_fordryad

description: excel data file, 3 data sheets, 1 sheet with file and experiment description
DOI: 10.5061/dryad.q771r.3/10.3
title: Assignment results for regions using THL method (50% of individuals)
DOI: 10.5061/dryad.q771r.3/11.3
title: Assignment results for sites using THL method (50% of individuals)
DOI: 10.5061/dryad.q771r.3/3.3
title: FST_GEOGRAPHICAL_DISTANCES

description: Geographic distances and FST values between each pair of sampling location
DOI: 10.5061/dryad.q771r.3/5.3
title: Assignment results for 20 samples using THL method
DOI: 10.5061/dryad.q771r.3/6.3
title: Assignment results for 36 samples using THL method
DOI: 10.5061/dryad.q771r.3/7.3
title: Assignment results for 50 samples using THL method
DOI: 10.5061/dryad.q771r.3/8.3
title: Assignment results for 100 samples using THL method
DOI: 10.5061/dryad.q771r.3/9.3
title: Assignment results for the sites using LOO method (1 individual for ranking)
DOI: 10.5061/dryad.rg58m/1
title: Metadata for all sections in dataset

description: Identifies the characteristics of each RCM en-face section in the dataset. A detailed description is included in the README.txt file.
DOI: 10.5061/dryad.rg58m/3
title: sections_500

description: This file contains the complete dataset of en-face sections at a resolution of 500x500 pixels. This file contains one dataset called 'sections' - this is a three dimensional array of uint8 values. The first axis is individual sections in the dataset. The second and third axes are the rows and columns of intensity values of that section.
DOI: 10.5061/dryad.sd40d/1
title: Mean tree growth and climatic data of the study sites
DOI: 10.5061/dryad.sd40d/2
title: Yearly tree growth and climate data
DOI: 10.5061/dryad.02jk0/1
title: PNAS_data
DOI: 10.5061/dryad.02jk0/2
title: PNAS_data_climatic
DOI: 10.5061/dryad.1032r/2
title: Data of band loss

description: Text file containing time between banding and recovery and whether one or both leg bands were retained.
DOI: 10.5061/dryad.172hm/1
title: Individual genotypes of European white-tailed eagles

description: This TAB-delimited text file contains genotypes from 11 nuclear microsatellite loci and approximate locations of white-tailed eagles from across Europe. Additionally, haplotypes from the mitochondrial control region based on 499 bp fragments are shown for each sequenced individual. Further details are described in the file.
DOI: 10.5061/dryad.1mh30/1
title: Ediacaran distributions in space and time_supplementary

description: Database tables of Ediacaran fossil occurrences, with additional tables describing the formatting of the database and a catalogue of geochronological data associated with fossiliferous Ediacaran strata. Also included are subsequent statistical analyses of the data-set using hierarchical cluster analysis and confidence intervals.
DOI: 10.5061/dryad.1p7sf/1
title: GWAS_SNP_Genotypes

description: SNP genotypes formatted as ped and map files for analysis using PLINK v1.7 or later.