cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.ff574/2
title: Carbohydrates and Biomass_Loranger2017

description: Carbohydrates and Biomass_Loranger2017.txt = Tab-delimited text file. Non-structural carbohydrate concentrations and biomass of plant parts (roots, stems, leaves) of tree seedlings at alpine treeline elevation in the French Alps. Seedlings were planted in spring 2013 and harvested in autumn 2013 and spring 2014.
ID = Sample ID from carbohydrate extraction
Season = sampling season: S13 = September 2013, M14 = May 2014
Block = experimental block 
Treat = treatments: C = Control = bare-ground plots; Sh = shading = covered by shade roofs; V = full vegetation, V2 = intermediate vegetation
Species: Lar = Larix decidua; Pic = Picea abies; Sor = Sorbus aucuparia; Pin = Pinus cembra; Pinu = Pinus uncinata
Ind = seedling number in the plot
Part = seedling part: L = leaves, S = stem, R = roots
MassSm = mass of extraction sample (mg)
MassPt = mass of seedling part (mg)
Glu = glucose concentration (mg/g)
Fru = fructose concentration (mg/g)
Sac = saccharose concentration (mg/g)
Mal = maltose concentration (mg/g)
Total_SC = total soluble sugar concentration (mg/g)
Starch = starch concentration (mg/g)
Total_NSC = total non-structural carb. Concentration (mg/g)
DOI: 10.5061/dryad.ff574/3
title: Mortality_Loranger2017_13-14

description: Mortality_Loranger2017_13-14.csv = Comma-delimited CSV. Seedling mortality in tree seedlings at alpine treeline elevation in the French Alps. Seedlings were planted in spring 2013 and mortality was registered in September 2013 and April-May 2014, after snowmelt. The first registration was April 16th in Block 1, in the other blocks the registration was later, as snow melted later.
Season = grouping of data collections into two seasons: May14 = Spring (16 April to late May) 2014, Sept 13 = 2 Sept 2013 
Block = experimental block
Treat = treatments: C = Control = bare-ground plots; Sh = shading = covered by shade roofs; V = full vegetation, V2 = intermediate vegetation.
Species: Lar = Larix decidua; Pic = Picea abies; Sor = Sorbus aucuparia; Pin = Pinus cembra; Pinu = Pinus uncinata
Planted = number of seedlings planted
DeadOn = number of dead seedlings not counting those damaged by breakage or herbivory
DeadAl	= number of dead seedlings
DOI: 10.5061/dryad.ht369/1
title: CDPOP_simulationoutput_files_Placeholder

description: CDPOP simulation output files for one replicate run of "truth" R100N50_10U and the corresponding cost-distance matrices.
DOI: 10.5061/dryad.ht369/2
title: CDmatrices

description: This file contains all cost-distance matrices used in simulations and analyses.
DOI: 10.5061/dryad.ms75s/1
title: Chenoweth et al 2017. Roy_Soc_Open_Science.R

description: R Code for the calculation of most in-text results, Tables 1 and 2 and the production of Figure 3.
DOI: 10.5061/dryad.ms75s/2
title: BehaveNewData2

description: This dataframe includes the combinations of predictors necessary for creation of Figure 3.  The models created by Chenoweth_et_al_2017_Roy_Soc_Open_Sci.R provides the predicted probabilities of humpback whale sighting based on these predictors.
DOI: 10.5061/dryad.p7c77/2
title: Dmel_3reps_F0F59_majorChr_downsampled

description: Sync file of allele coverage for Drosophila melanogaster SNPs in major chromosome arms (X, 2L, 2R, 3L, 3R). Columns in this sync file correspond to chromosome, position, base, Dmel _A_F0, Dmel _B_F0, Dmel _C_F0, Dmel _A_F59_Hot, Dmel _B_F59_Hot, Dmel _C_F59_Hot. Nomenclature of the samples is as follows: e.g. species_replicate_generation_selection regime. Species: Dmel (Drosophila melanogaster), replicate: letters (A-Z), generation: F#, # indicating the number of generations, and selection regime: Hot. Format specification of sync file is described in Kofler et al., PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq).
 Bioinformatics 2011;27:3435-3436. See main publication for additional information about data processing, SNP calling and filtering.
DOI: 10.5061/dryad.p7m1v/1
title: Inputs and code for landscape genetic model selection methods comparison

description: Simulated landscapes, distance matrices, R code, and CDPOP simulation outputs are included in the zip file.
DOI: 10.5061/dryad.qj163/1
title: KlefothEtAl_data
DOI: 10.5061/dryad.s653s/1
title: OIKOS_04208_EM_DataDryad

description: Description of the dataset used in Bergeron et al. Ecosystem memory of wildfires affects resilience of boreal mixedwood biodiversity after retention harvest, Oikos, doi: 10.1111/oik.04208. More details are given in the associated README file and Appendix 1 oik.04208 at www.oikosjournal.org/readers/appendix.
DOI: 10.12751/g-node.f53069
title: Social interactions promote adaptive resource defence

description: Supplement to: Kleineidam CJ, Heeb EL, Neupert S (2017) Social interactions promote adaptive resource defence. Video files of single trials. Videos were recorded at 300 frames per sec.
DOI: 10.5061/dryad.2dg71/1
title: Data from: Vascular Disease in COPD: Systemic and Pulmonary expression of PARC (Pulmonary and Activation-Regulated Chemokine)

description: Raw data from Vascular Disease in COPD: Systemic and Pulmonary expression of PARC (Pulmonary and Activation-Regulated Chemokine).
DOI: 10.5061/dryad.394hm/1
title: Puttick_et_al_2017

description: Example R code to date trees, run analysis of phylogenetic signal of extinction, and run analysis of length and extinction
DOI: 10.5061/dryad.394hm/2
title: Puttick_et_al_2017_functions

description: R functions
DOI: 10.5061/dryad.394hm/4
title: ageStages

description: Ages of taxa used to date phylogenies
DOI: 10.5061/dryad.394hm/5
title: hedmanTrees

description: Dated trees using the Hedman method
DOI: 10.5061/dryad.394hm/6
title: mblTrees

description: Dated trees using the mbl method in Newick format
DOI: 10.5061/dryad.44sv0/1
title: SourceCode

description: Source code for the simulation of multi-locus introgression during secondary contacts. After decompression, add the file present at https://github.com/timotheenivalis/CodeAllForward/blob/master/MersenneTwister.h to the directory. The program can then be compiled, for instance, with g++ -o AllForward -O2 *.cpp
DOI: 10.5061/dryad.44sv0/2
title: AllForward executable

description: Executable binary of the simulation program.
DOI: 10.5061/dryad.55bp8/22
title: mapped_streamfunction_abs_all_sources_2007

description: The absolute geostrophic streamfunction on depth surfaces for the year 2007 (including annual and semi-annual harmonics), caluculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/23
title: mapped_streamfunction_abs_all_sources_2008

description: The absolute geostrophic streamfunction on depth surfaces for the year 2008 (including annual and semi-annual harmonics), caluculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/24
title: mapped_streamfunction_abs_all_sources_2009

description: The absolute geostrophic streamfunction on depth surfaces for the year 2009 (including annual and semi-annual harmonics), calculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/25
title: mapped_streamfunction_abs_all_sources_2010

description: The absolute geostrophic streamfunction on depth surfaces for the year 2010 (including annual and semi-annual harmonics), caluculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/26
title: mapped_streamfunction_abs_all_sources_2011

description: The absolute geostrophic streamfunction on depth surfaces for the year 2011 (including annual and semi-annual harmonics), caluculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/27
title: mapped_streamfunction_abs_all_sources_2012

description: The absolute geostrophic streamfunction on depth surfaces for the year 2012 (including annual and semi-annual harmonics), caluculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/28
title: mapped_streamfunction_abs_all_sources_2013

description: The absolute geostrophic streamfunction on depth surfaces for the year 2013 (including annual and semi-annual harmonics), caluculated using the TEOS-10 routine gsw_geo_strf_dyn_height (McDougall & Barker 2011).
DOI: 10.5061/dryad.55bp8/30
title: mapped_streamfunction_abs_gamma_all_sources_26_2005

description: The absolute geostrophic streamfunction on isopycnal surfaces for the year 2005 (including annual harmonics but NO semi-annual harmonics due to file size constraints), caluculated using the TEOS-10 routine gsw_geo_strf_isopycnal that implements the approximate streamfunction of (McDougall & Klocker 2010).
DOI: 10.5061/dryad.55bp8/31
title: mapped_streamfunction_abs_gamma_all_sources_26_2006_no_cycle

description: The absolute geostrophic streamfunction on isopycnal surfaces for the year 2006 (including annual harmonics but NO semi-annual harmonics due to file size constraints), caluculated using the TEOS-10 routine gsw_geo_strf_isopycnal that implements the approximate streamfunction of (McDougall & Klocker 2010).
DOI: 10.5061/dryad.58c8v/3
title: relatedness data

description: Genetic relatedness data
DOI: 10.5061/dryad.58c8v/4
title: video data

description: Behavioural data from video recordings
DOI: 10.5061/dryad.5d5b3/2
title: Individual fastq files for Anopheles nili from Cameroon
DOI: 10.5061/dryad.60k68.2
title: Data from: Adaptation of Drosophila to a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles
DOI: 10.5061/dryad.60k68.2/1.2
title: Description of Bioinformatic Analysis Pipeline

description: Text file containing general remarks and description of the most important tools used in the analysis pipeline
DOI: 10.5061/dryad.60k68.2/2.2
title: scripts

description: Zipped folder, which contains the most important python scripts used in the analysis pipeline
DOI: 10.5061/dryad.60k68.2/3.2
title: BF15.vcf

description: Total set of SNPs identified in the populations used for the comparison of base and generation 15 provided in the *.vcf file format
DOI: 10.5061/dryad.60k68.2/4.2
title: BF37.vcf

description: Total set of SNPs identified in the populations used for the comparison of base and generation 37 provided in *.vcf file format
DOI: 10.5061/dryad.65q64/1
title: Contacts.tar

description: Archive contains 16 .txt files. Each file represents a time-ordered edgelist representing pairwise physical contacts between ants. Files are named according to the identity of the colony ('col2' represents colony number 2), and the replicate number ('Rep_1' is the first replicate). See Readme.txt for description of the file contents.
DOI: 10.5061/dryad.6f8f0/4
title: Spike counts: moving grating stimuli

description: Spike counts for each electrode from marmoset area MT recorded while the anaesthetised animal was shown moving dot field stimuli. All data is stored in Matlab data (.mat) files that were created with Matlab 2013a
DOI: 10.5061/dryad.7002q/1
title: Internal competition assay

description: Multiparasitism assay investigating internal competition between two parasitoid when attacking aphid with different resistance traits.
DOI: 10.5061/dryad.7002q/2
title: Small cage competition assay

description: Smaller scale competition assays to complement our larger cage studies but with much greater replication,allowing us to determine if the presence of a competitor affected the pattern of parasitism of the parasitoids relative to our no competition experiment
DOI: 10.5061/dryad.7002q/3
title: Small cage no competition

description: Parasitism assays performed in the absence of competition to determine patterns of parasitism of each wasp species in response to different proportions of resistant and susceptible aphids.
DOI: 10.5061/dryad.70c58/1
title: Extrafloral nectar secretion of buds, flowers, and fruits of Turnera velutina

description: Dataset with leaf values of the proportion of nectaries with reward, volume (microlitre), concentration (micrograms/microlitre), sugar content (microgram) on individuals (indnora) from different genotypes (fam).
DOI: 10.5061/dryad.7g877/10
title: GPC outgroup used for gammaMap analyses.
DOI: 10.5061/dryad.7g877/11
title: Lassa virus Nigerian NP strains used for gammaMap analyses.
DOI: 10.5061/dryad.7g877/12
title: Lassa virus Non Nigerian NP strains used for gammaMap analyses.
DOI: 10.5061/dryad.7g877/13
title: NP outgroup used for gammaMap analyses.
DOI: 10.5061/dryad.7g877/14
title: Lassa virus Nigerian L strains used for gammaMap analyses.
DOI: 10.5061/dryad.7g877/8
title: Lassa virus Nigerian GPC strains used for gammaMap analyses.
DOI: 10.5061/dryad.7g877/9
title: Lassa virus Non Nigerian GPC strains used for gammaMap analyses.
DOI: 10.5061/dryad.7kb06/1
title: Spatial storage W3

description: Data are density (CFU per ml).
DOI: 10.5061/dryad.7nt8f/10
title: SeqCap_3.zip
DOI: 10.5061/dryad.7nt8f/11
title: SeqCap_4.zip
DOI: 10.5061/dryad.7nt8f/12
title: SeqCap_5.zip
DOI: 10.5061/dryad.7nt8f/13
title: SeqCap_6.zip
DOI: 10.5061/dryad.7nt8f/14
title: SeqCap_7.zip
DOI: 10.5061/dryad.7nt8f/7
title: RNAseq_7
DOI: 10.5061/dryad.7nt8f/8
title: SeqCap_1.zip
DOI: 10.5061/dryad.7nt8f/9
title: SeqCap_2.zip
DOI: 10.5061/dryad.801v4/1
title: temporal_1

description: MATLAB file to plot the modulated output of the data generated in the FEMSIM files.
DOI: 10.5061/dryad.801v4/2
title: Neff_vs_Lambda_H2O_fs_mode_neffr

description: Dispersion data file for application in the temporal_1.m program file.
DOI: 10.5061/dryad.801v4/3
title: Neff_vs_Lambda_H2O_fs_mode_neffr

description: plot file of the Neff_vs_Lambda_H2O_fs_mode_neffr.pde data file.
DOI: 10.5061/dryad.801v4/4
title: neff_vs_lambda_ana_1_new_fs_mode_neffr

description: Dispersion data file for analyte cover in sense ring
DOI: 10.5061/dryad.802q5/1
title: Genotype file (4123 SNPs)

description: Genotypic data at 4,123 SNPs for 427 individuals of P. margaritifera from the Fiji Islands
DOI: 10.5061/dryad.9m6vp/1
title: Moth captures (1962-2009) at seven sites in Hungary

description: The count of individuals of each species at each site and year.
DOI: 10.5061/dryad.c4g76/1
title: Pfennigwerth_plant_traits

description: This file contains data on the following plant traits measured on Rhododendron maximum seedlings in an 11-month plant-soil feedback experiment: leaf budbreak phenology, aboveground biomass, belowground biomass, total biomass, root-to-shoot ratio, and specific leaf area.
DOI: 10.5061/dryad.c4g76/2
title: Pfennigwerth_feedback_calculations

description: This file contains data on two types of plant-soil feedback calculations analyzed from an 11-month greenhouse experiment with Rhododendron maximum seedlings. Feedbacks were calculated as ln(biomass.home/biomass.away), where home is Rhododendron-conditioned soil, and away is either hemlock-conditioned soil or interspace soil.
DOI: 10.5061/dryad.ms75s/3
title: HatcheryObs

description: This dataframe provides observations from all five hatchery release sites over six years.  The raw data has been filtered as described in the methods section of the manuscript.
DOI: 10.5061/dryad.ms75s/4
title: Releases.Sum

description: This dataframe provides the Julian Day of the first and last releases from all five hatchery release site in all six years.  This dataframe is required by Chenoweth et al 2017.  Roy_Soc_Open_Science.R
DOI: 10.5061/dryad.n78s4/1
title: Count behavioral data from videos

description: CSV file giving details of paired camera trap song playback experiment, supporting the main results of the paper. Behavioral count measurements are given in columns M-Q. Numbers are numbers of videos (counts) in which the individual was observed performing a given behavior. "Top" means perching on top of the nestbox, "Look.in" means perching at the nestbox opening and looking inside, "Enter" means entering the nestbox, "Attack" means hitting the wooden dummy flycatcher with the beak, and "Video.Count" gives the total number of videos in which the individual was observed.
DOI: 10.5061/dryad.r6j80/1
title: sheep masses

description: Please see README.txt for a description and information about reusing the data.
DOI: 10.5061/dryad.r6j80/2
title: sheep masses with birth covariates

description: Please see README.txt for a description and information about reusing the data.
DOI: 10.5061/dryad.rm607/1
title: burtoniCOB

description: The nexus file alignment of the cytochrome b DNA sequences used in the MrBayes analyses. This includes the partical sequence from the 1891 Cumberland River specimen.
DOI: 10.5061/dryad.rm607/2
title: burtoniCOBnoCUMB

description: The nexus file alignment of the cytochrome b DNA sequences used in the MrBayes analyses. This DOES NOT include the partical sequence from the 1891 Cumberland River specimen.
DOI: 10.5061/dryad.rm607/3
title: logperchCOB2a

description: xml formatted file used in BEAST 1.8 to estimate time-calibrated phylogeny.
DOI: 10.5061/dryad.rm607/4
title: P_apina_localities

description: Sampling localities of specimens of Percina apina used in morphological analyses.
DOI: 10.5061/dryad.sq67g/11
title: all_mutations_rel606_global_rank_new_ecoli_remove_space.dat

description: Mutation effect prediction with the DCA model
DOI: 10.5061/dryad.sq67g/12
title: Nature_MutationList
DOI: 10.5061/dryad.sq67g/13
title: Table_K12_MAE_MutL_IND_DCA.txt
DOI: 10.5061/dryad.sq67g/14
title: Table_K12_MAE_MutT_IND_DCA.txt
DOI: 10.5061/dryad.sq67g/15
title: Table_REL606_LTEE_MMR_IND_DCA.txt
DOI: 10.5061/dryad.sq67g/16
title: Table_REL606_LTEE_MutT_IND_DCA.txt
DOI: 10.5061/dryad.sq67g/17
title: Table_REL606_LTEE_IND_DCA.txt
DOI: 10.5061/dryad.sq67g/18
title: Table_REL606_DivergenceED1a_restricted_IND_DCA.txt
DOI: 10.5061/dryad.t0910/1
title: RSPB-2017-0906_Data4Dryad

description: The R script is an example and not the entire analysis as it was batch processed (the simulation for the bootstrapping takes a lot of time and was sped up by running each trait on a separate CPU). All data files needed to run the R script are provided. Sequence alignments are also provided and refer to Bellwood et al. 2010. Evolutionary history of the butterflyfishes (f: Chaetodontidae) and the rise of coral feeding fishes. J. Evol. Biol. 23:335-349
DOI: 10.5061/dryad.1j6b0/1
title: 1 modifier locus, partial selfing

description: Simulation program: a single mutation modifier locus with an infinite number of possible alleles, no mutational bias, partial selfing
DOI: 10.5061/dryad.1j6b0/2
title: 1 modifier locus, partial asex

description: Simulation program: a single mutation modifier locus with an infinite number of possible alleles, no mutational bias, partial clonality
DOI: 10.5061/dryad.1j6b0/3
title: 1 modifier locus, partial selfing, mutational bias

description: Simulation program: a single mutation modifier locus with an infinite number of possible alleles and mutational bias, partial selfing
DOI: 10.5061/dryad.1j6b0/4
title: 1 modifier locus, partial asex, mutational bias

description: Simulation program: a single mutation modifier locus with an infinite number of possible alleles and mutational bias, partial clonality
DOI: 10.5061/dryad.1j6b0/5
title: Several modifier loci, partial selfing

description: Simulation program: several biallelic mutation modifier loci, partial selfing
DOI: 10.5061/dryad.24fb2/1
title: Data-Ikeda-Mol_Ecol
DOI: 10.5061/dryad.24r3m/1
title: Graf_et_al_Dataset

description: Several data collected in the field and the mesocosms with README on first sheet for 'Contrasting effects of aquatic subsidies on a terrestrial trophic cascade'
DOI: 10.5061/dryad.24r3m/2
title: Graf_et_al_R code

description: Provides the R code to run the analyses and to plot the results for 'Contrasting effects of aquatic subsidies on a terrestrial trophic cascade'
DOI: 10.5061/dryad.2m353/1
title: Kwan et al.,Dryad_data_Final

description: Due to anthropogenic CO<sub>2</sub> emissions and the subsequent process of ocean acidification (OA), open ocean surface CO<sub>2</sub> levels are projected to more than double to ~1,000 μatm, and pH to decrease by ~0.3 units by the year 2100. When exposed to these CO<sub>2</sub>/pH values, several fish species display abnormal behaviour in laboratory tests, an effect proposed to be linked to altered neuronal GABA<sub>A</sub> receptor function. This study examined the effects of constant and oscillating OA-like conditions on individual and group behaviour of juvenile blacksmith (<i>Chromis punctipinnis</i>), a social fish that regularly experiences CO<sub>2</sub>/pH fluctuations through kelp forest diurnal primary production and upwelling events. Blacksmiths were exposed to three treatments: control (pH ~7.92; pCO<sub>2</sub> ~540 μatm); constant acidification (pH ~7.72; pCO<sub>2</sub> ~920 μatm); and oscillating acidification (pH ~7.92, pCO<sub>2</sub> ~560 μatm (day), pH ~7.75, pCO<sub>2</sub> ~955 μatm (night)). After seven and eleven days, respectively, blacksmiths were administered individual light/dark preference and group shoaling tests, which are well-validated measures of anxiety-like behaviour and are modulated by GABA<sub>A</sub> receptors. In addition, to investigate potential interactions between OA and season of the year, the effect of CO<sub>2</sub>/pH on individual blacksmith behaviour was tested in January (16.50 ± 0.01<sup>o</sup>C) and September (23.10 ± 0.01 <sup>o</sup>C). While season had a significant effect on light/dark preference, oscillating acidification did not affect any behavioural parameter, suggesting blacksmiths are tolerant to projected future OA conditions.
DOI: 10.15156/bio/th074943
title: TH074943
title: Onobrychis

description: Here we present the novel 'taxon hypothesis' (TH) concept to accommodate fungal 'species hypothesis' (SH) into existing classification frameworks for taxonomic communication. As supplied with Digital Object Identifiers (DOIs), THs are flexible in time and enable direct cross-communication of higher level taxa along with evolving classification schemes. Every TH includes given number of SHs and consequently fixed number of fungal rDNA ITS sequences. DNA sequences generated by High-throughput or Sanger sequencing studies and identified against UNITE SHs will be automatically assigned to THs as well.
DOI: 10.15156/bio/th074944
title: TH074944
title: Candelaria

description: Here we present the novel 'taxon hypothesis' (TH) concept to accommodate fungal 'species hypothesis' (SH) into existing classification frameworks for taxonomic communication. As supplied with Digital Object Identifiers (DOIs), THs are flexible in time and enable direct cross-communication of higher level taxa along with evolving classification schemes. Every TH includes given number of SHs and consequently fixed number of fungal rDNA ITS sequences. DNA sequences generated by High-throughput or Sanger sequencing studies and identified against UNITE SHs will be automatically assigned to THs as well.
DOI: 10.15156/bio/th074945
title: TH074945
title: Bunodophoron

description: Here we present the novel 'taxon hypothesis' (TH) concept to accommodate fungal 'species hypothesis' (SH) into existing classification frameworks for taxonomic communication. As supplied with Digital Object Identifiers (DOIs), THs are flexible in time and enable direct cross-communication of higher level taxa along with evolving classification schemes. Every TH includes given number of SHs and consequently fixed number of fungal rDNA ITS sequences. DNA sequences generated by High-throughput or Sanger sequencing studies and identified against UNITE SHs will be automatically assigned to THs as well.