cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.mp0df/3
title: CSIRO museum egg color data

description: This workbook contains data related to the museum egg color analyses and only includes data from the eggs at the CSIRO museum in Canbera, ACT, Australia or eggs from the field in Sydney, NSW and Canberra, ACT that were blown prior to measuring. The first sheet contains the average spectrophotometric data at each wavelength for each clutch and koel egg, which was used to determine the color catch cone values (second sheet). The second sheet contains the color catch cone values for all four avian color cones (VS, SWS, MWS, LWS) and the double cone for luminance. These color catch cone values were used in the discriminate function analysis to determine if koels exhibit host-specific races in color and the color catchcone values were also used to calculate Just Notcieable Differences (JNDs) to compare egg colors and luminances between species. For more information about each clutch, please see the supplemental material in the manuscript. For more information about the analyses, please see the Methods and Results section in the manuscript.
DOI: 10.5061/dryad.mp0df/4
title: Field eggs color data

description: This workbook contains data related to the color data for eggs collected fresh from the field from Sydney, NSW, Australia and Canberra, ACT, Australia. Species measured include the Noisy Friarbird, Magpie-lark, Red Wattlebird, and Pacific Koel eggs from Red Wattlebird nests. Eggs were measured from 2013-2015. The first sheet contains the average spectrophotometric data for each wavelength from 300-700 nm, which was used to calculate the color catchcone values (second sheet). The second sheet contains the color catchcone values for the four avian color cones (VS, SWS, MWS, and LWS) and the double cone for luminance. Catchcone values were used to calculate Just Noticeable Differences to compare egg colors and luminance values between species. For more information about each clutch, please see the supplemental material in the manuscript. For more information about the analyses, please see the Methods and Results section in the manuscript.
DOI: 10.5061/dryad.nm13c/1
title: paper data and analysis code

description: The Zip file contains all of the data and the R language code.
DOI: 10.5061/dryad.nq3fp/1
title: Bergeron_Fuller_Actual.reflectance_Guide.reflectance_RGBvalues

description: This excel file contains 3 sheets.  The first sheet contains the average reflectance values from 300 to 750 nm (in 5nm steps) for the 'actual birds' from a museum.  The second sheet contains the average reflectance values from 300 to 750 nm (in 5nm steps) for 'field guide' birds.  The third sheet contains the average RGB values for the 'actual birds' from a museum.  For each data type (actual reflectance, field guide reflectance, RGB), the sheets contain data for the same combination of species, sex, and patch type (e.g., wing, tail, etc.).
DOI: 10.5061/dryad.nq3fp/2
title: ReflectanceSpectra.Actual.v.Guide

description: This powerpoint file contains graphs showing the actual and field guide reflectance for all 73 species-sex-patch combinations.
DOI: 10.5061/dryad.nq3fp/3
title: Supplemental_Hue_Analyses

description: This is an additional analysis of variation in animal coloration. In the original manuscript, we analyzed all of the data across all 73 combinations of species-sex-patch type.  Here, we performed a more difficult analysis and analyzed only the reflectance curves from a single hue type (e.g., red).
DOI: 10.5061/dryad.nr2m3/1
title: Griffon vulture coloration and nest sunlight exposure

description: Four excel sheets: 1. Variables: variable descriptions. 2.Exposure-color: general database. 3. Melanin-color: melanin and color data of feathers. 4. Reflectance: reflectance spectra of light for mean values of visual color scores (Figure S1).
DOI: 10.5061/dryad.p48k7/3
title: climate

description: Climatic data for each plot in the seed sowing experiment. Mean: winter precipitation, summer precipitation, January temp, July temp and annual temperature.
DOI: 10.5061/dryad.p48k7/4
title: common garden 2

description: Second seed sowing experiment (2012). Includes 2 x propagule pressure treatments (25 and 250 seeds per 25 x 25 cm plot) and 2 disturbance treatments (u = control, d= all vegetation removed from plot with mattock prior to sowing)
DOI: 10.5061/dryad.p48k7/5
title: germination

description: viability data for seed used in seed sowing experiments
DOI: 10.5061/dryad.p48k7/6
title: seed_weight

description: Seed weight data for seeds used in sowing experiments
DOI: 10.5061/dryad.p48k7/7
title: species

description: Species, subspecies and variety of the 25 taxa used in the seed sowing experiments. Species ID field links to other data sets in this package.
DOI: 10.5061/dryad.r2n70/44
title: ML tree, mitochondrial dataset 106 taxa, RAxML GTR+G
DOI: 10.5061/dryad.r2n70/45
title: ML tree, mitochondrial dataset 106 taxa, RAxML MTREV+G
DOI: 10.5061/dryad.s066f/1
title: Alteration of plant-species assemblages can decrease the transmission potential of malaria mosquitoes

description: Survival of male and female Anopheles gambiae mosquitoes in sugar-rich and sugar-poor mesocosms without access to blood (4 replicates of each), and one replicate without access to blood (bloodless) time to death and censor data (e.g., accidental deaths) are included. Daily biting rates, insemination proportions, and fecundity per female were also calculated for the 4 replicates.
DOI: 10.5061/dryad.tj1ss/2
title: Metadata for Eucalyptus microcarpa samples

description: Metadata regarding sampling locations and samples belonging to each site
DOI: 10.5061/dryad.tj1ss/3
title: README file

description: README file for Eucalyptus microcarpa SNP data
DOI: 10.17632/fpp3px78jh.1
title: Data for: Efficient removal of benzene in air at atmospheric pressure using a side-on type 172 nm Xe2 excimer lamp

description: Supporting Materials of this paper.
DOI: 10.17632/fpp3px78jh.2
title: Data for: Efficient removal of benzene in air at atmospheric pressure using a side-on type 172 nm Xe2 excimer lamp

description: Supporting Materials of this paper.
DOI: 10.5061/dryad.133nq/1
title: Supplementary Data

description: 2D and 3D morphological data of the examined juvenile ammonite (Cephalopoda) Kosmoceras shell (Jurassic, Callovian) from NE-Germany.
DOI: 10.5061/dryad.133nq/2
title: Supplementary Figure 1
DOI: 10.5061/dryad.133nq/3
title: Supplementary Figure 2
DOI: 10.5061/dryad.133nq/4
title: Supplementary Figure 3
DOI: 10.5061/dryad.133nq/5
title: Supplementary Figure 4
DOI: 10.5061/dryad.133nq/6
title: Supplementary Figure 5
DOI: 10.5061/dryad.2q2s4/1
title: Supplementary data set 1.

description: FLMNH specimen lots from UF locality YN020 that were studied as part of this investigation, including species assignment, catalog number, and number of specimens in each lot.
DOI: 10.5061/dryad.2q2s4/2
title: Supplementary data set 2.

description: Shell measurement data for individual specimens; * indicates a measurement impacted by slight damage to specimen, ** indicates a measurement captured from a digital image.
DOI: 10.5061/dryad.2q2s4/3
title: Supplementary data set 3.

description: Supplementary data set 3. Subsutural flexure measurement data for individual specimens.
DOI: 10.5061/dryad.2tm29.2
title: Data from: Landscape features along migratory routes influence adaptive genomic variation in anadromous steelhead (Oncorhynchus mykiss)
DOI: 10.5061/dryad.2tm29.2/2.2
title: All landscape variable values

description: Measurements for all landscape variables both at natal site and along migration paths for every collection locality.
DOI: 10.5061/dryad.2tm29.2/3.2
title: Full RAD Loci Stats

description: Large table including stats for each RAD locus globally and by population. The RAD sequence, mapping position to the O. mykiss assembly, and outlier classification are included for each locus. Additionally, the genotype success rate, observed heterozygosity, expected heterozygosity, minor allele frequency, and HWE corrected P.val (FDR) are included globally and for each population.
DOI: 10.5061/dryad.2tm29.2/4.2
title: Top BLAST hits

description: Top BLAST hits for loci identified by the majority of outlier tests (3/4) and GEA analyses (2/3). For each SNP, the environmental association and category (if applicable) are included. Additionally, the top BLAST hit and nearest gene (within 10 kb) are included with their GO terms.
DOI: 10.5061/dryad.2tm29.2/5.2
title: Individual Read Statistics

description: Read statistics for each individual after process_radtags was performed.
DOI: 10.5061/dryad.3h185/1
title: WenNakhleh-SI

description: Supplementary Information
DOI: 10.5061/dryad.3j218/1
title: iqtree_ml

description: RADseq aDNA phylogeny
DOI: 10.5061/dryad.3j218/2
title: iqtree_ultrafast_bootstrap_consensus

description: RADseq aDNA ultrafastbootstraps
DOI: 10.5061/dryad.3j218/3
title: FigTree_xDNA_gapped_and_ungapped_data_included

description: RADseq xDNA chronogram
DOI: 10.5061/dryad.3j218/4
title: FigTree_mcmctree_independent_rates

description: RADseq aDNA chronogram
DOI: 10.5061/dryad.3j218/5
title: iqtree_chrX

description: RADseq xDNA phylogeny
DOI: 10.5061/dryad.3r44n/1
title: SRJS_invert_wide

description: Contains a copy of the benthic macroinvertebrate data accompanying Cook et al. (in press) organized by sampling site and event. Columns denote taxon-specific codes, and the data matrix is filled with observed macroinvertebrate densities (counts/m2). Sampling occurred every other month, and spanned June 2014 to April 2016.
DOI: 10.5061/dryad.5428h/1
title: Data
DOI: 10.5061/dryad.5428h/2
title: Meta_analysis_controlled
DOI: 10.5061/dryad.54qt7/1
title: database (well-being of students in Nice)
DOI: 10.5061/dryad.5j13n/1
title: EMPIRICAL allele frequencies and genetic parameters
DOI: 10.5061/dryad.5j13n/2
title: SIMULATION allele frequencies and genetic parameters
DOI: 10.5061/dryad.7v37m/1
title: Minias et al. RAW DATA

description: Individual leukocyte profiles, body mass, and fat scores of 415 shorebirds from 19 species captured during autumn migration through Central Europe.
DOI: 10.5061/dryad.82nt3/4
title: Osteolaemus mtDNA sample localities

description: Geographic coordinates for each sample used in the mtDNA analysis and for sequences available in the associated fasta file.
DOI: 10.5061/dryad.82nt3/5
title: Mecistops microsatellite genotypes

description: Microsatellite genotypes for all individuals used in the analysis.  Sample localities are located after the last genotype.
DOI: 10.5061/dryad.82nt3/6
title: Osteolaemus microstaellite genotypes

description: Microsatellite genotypes for all individuals used in the analysis.  Sample localities are located after the last genotype.
DOI: 10.5061/dryad.84655.1/1.1
title: JS1

description: M. luteus var. luteus inbred line EY7 - petal transcriptome "T2" - sample JS1
DOI: 10.5061/dryad.84655.1/10.1
title: Mg_T1

description: Mimulus guttatus inbred line CG - transcriptome T1 - complete annotated transcriptome
DOI: 10.5061/dryad.84655.1/2.1
title: JS2

description: M. guttatus inbred line IM767 - petal transcriptome "T2" - sample JS2
DOI: 10.5061/dryad.84655.1/3.1
title: JS3

description: M. guttatus inbred line  IM767 - leaf transcriptome "T2" - sample JS3
DOI: 10.5061/dryad.84655.1/4.1
title: JS4

description: M. luteus var. luteus inbred line EY7 - calyx transcriptome "T2" - sample JS4
DOI: 10.5061/dryad.84655.1/5.1
title: JS5

description: M. guttatus inbred line IM767 - stem transcriptome "T2" - sample JS5
DOI: 10.5061/dryad.84655.1/6.1
title: JS6

description: M. luteus var. luteus inbred line EY7 - leaf transcriptome "T2" - sample JS6
DOI: 10.5061/dryad.84655.1/7.1
title: JS7

description: M. guttatus inbred line IM767 - calyx transcriptome "T2" - sample JS7
DOI: 10.5061/dryad.84655.1/8.1
title: JS8

description: M. luteus var. luteus inbred line EY7 - leaf transcriptome "T2" - sample JS8
DOI: 10.5061/dryad.84655.1/9.1
title: JS9

description: M. luteus var. luteus inbred line EY7 - stem transcriptome "T2" - sample JS9
DOI: 10.5061/dryad.8v5p3/1
title: Table S1

description: Table S1. Samples of Ameivula ocellifera used in the present study (336 samples). A map code number (see Figure 1) is presented for each sample, along with locality, state, institution of origin, voucher number, laboratorial code number, geographic coordinates (longitude and latitude in decimal degrees), and GenBank accession numbers.
DOI: 10.5061/dryad.904kp/1
title: Becker et al data_PhilTransB

description: Site- (geography, livestock biomass, altitude, spatial coordinates) and individual-level data (demography, diet, immunity, infection) for vampire bats sampled for this study.
DOI: 10.5061/dryad.b43gf/1
title: Female Presenters

description: All presenters gender, site and type of round by year between 2011 and 2015
DOI: 10.5061/dryad.bp12s/1
title: Data Maitre et al Sci Rep 2017

description: Breeding experiments 1-3: sampling time (in dpf, i.e. das post fertilization), genetic sex, gonad phenotypes, biometry, and further treatments
DOI: 10.5061/dryad.bs54p/1
title: Stegonotus cucullatus head scale data

description: Morphometric and mark recapture data on lab-reared and wild slatey grey snakes.
DOI: 10.5061/dryad.c8f7r/8
title: Appendix 8
DOI: 10.5061/dryad.ck3dh/1
title: CTX-M9:meropenem acylenzyme run input file

description: Gromacs TPR for wild-type CTX-M9 in complex with meropenem
DOI: 10.5061/dryad.ck3dh/2
title: Binding pocket trajectories for CTX-M9

description: Gromacs trajectory files and reference PDB for drug binding pocket atoms, computed using TPR of the full solvated acylenzyme.  These trajectories were used for mutual information feature selection and decision tree calculation.
DOI: 10.5061/dryad.ck3dh/3
title: Binding pocket trajectories for CTX-M9 L48A

description: Gromacs trajectory files and reference PDB for drug binding pocket atoms, computed using TPR of the full solvated acylenzyme. These trajectories were used for mutual information feature selection and decision tree calculation.
DOI: 10.5061/dryad.ck3dh/4
title: Binding pocket trajectories for CTX-M9 T165W

description: Gromacs trajectory files and reference PDB for drug binding pocket atoms, computed using TPR of the full solvated acylenzyme. These trajectories were used for mutual information feature selection and decision tree calculation.
DOI: 10.5061/dryad.ck3dh/5
title: Binding pocket trajectories for CTX-M9 S281A

description: Gromacs trajectory files and reference PDB for drug binding pocket atoms, computed using TPR of the full solvated acylenzyme. These trajectories were used for mutual information feature selection and decision tree calculation.
DOI: 10.5061/dryad.ck3dh/6
title: CTX-M9 L48A:meropenem acylenzyme run input file

description: Gromacs TPR for CTX-M9 L48A in complex with meropenem
DOI: 10.5061/dryad.d52q0/2
title: mec170853-sup-0001-SupplementaryTables

description: Supplementary Tables S1, S2A, S2B, S2C, S3A, S3B, S3C, and S3D.
DOI: 10.5061/dryad.d52q0/3
title: mec170853-sup0002-commands

description: BLASTn script and R commands used in this study.
DOI: 10.5061/dryad.dn58p/10
title: Pst summary statistics (from 1000 bootstraps)

description: [output file] These summary statistics have been calculated from 1000 bootstrap replicates of the geometric morphometric dataset and subsequent Pst calculations. These summary statistics are used for Fst-Pst comparisons.
DOI: 10.5061/dryad.dn58p/11
title: Fst summary statistics (from 1000 bootstraps)

description: [output file] These summary statistics have been calculated from 1000 bootstrap replicates of AFLPsurv. These summary statistics are used for Fst-Pst comparisons.
DOI: 10.5061/dryad.dn58p/4
title: Raw amplified fragment length polymorphism dataset (NA = ?)

description: [primary data file] This file contains the raw AFLP dataset with NA’s coded as ‘?’.
DOI: 10.5061/dryad.dn58p/5
title: Information on genetic diversity

description: [output file] This file contains results from analysis of the AFLP dataset with AFLPsurv. Some of the tests reported in the paper have been performed on this output file.
DOI: 10.5061/dryad.dn58p/6
title: Population pairwise Fst data

description: [output file] This file contains results from analysis of the AFLP dataset with AFLPsurv. These results have been used as input for the Fst-Pst comparisons.
DOI: 10.5061/dryad.dn58p/7
title: 1000 Bootstrap replicates on Population pairwise Fsts

description: [output file] This file contains results from analysis of the AFLP dataset with AFLPsurv. These results have been used to calculate 95 % confidence intervals on the Population pairwise Fst data.
DOI: 10.5061/dryad.dn58p/9
title: Geometric morphometric dataset

description: [primary data file] This file contains information on individual specimens and the coordinates from semilandmark morphometrics after Procrustes superimposition and semilandmark alignment with perpendicular projection. This dataset has been used as the dataset for all subsequent morphometric analyses including ordination and the calculation of population pairwise Psts.
DOI: 10.5061/dryad.dn7hv/1
title: OIK_04703_raw_data

description: Table containing information on interaction diversity measures in seed-dispersal networks of different habitat types on Mt. Kilimanjaro, Tanzania. We assesed Shannon interaction diversity, interaction evenness and Network specialization on a study plot level and collected data of environmental drivers, such as fruit diversity and fruit availability.
DOI: 10.5061/dryad.g9k46.3
title: Data from: Evaluating the accuracy of biodiversity changes through geological times: from simulation to solution
DOI: 10.5061/dryad.g9k46.3/1.3
title: Supplementary results S1-S21

description: Supplementary results and figures S1-S21 for Evaluating the accuracy of biodiversity changes through geological times: from simulation to solution
DOI: 10.5061/dryad.g9k46.3/2.3
title: R function. Evaluating the accuracy of biodiversity changes through geological times

description: Based on a presence/absence matrix, the function allows the back-transformation of this discretized dataset into a reconstructed continuous-time dataset. The function generates plots of taxonomic richness and Foote’s taxonomic rates variation through time and a list of the 3 different (richness, origination p rate and extinction q rate) datasets and the associated 95 % confidence interval.
DOI: 10.5061/dryad.g9k46.3/3.3
title: Supplementary Tables S1-S12

description: Pearson correlation coefficient between original, discretized and reconstructed richness and rates time series : Supplementary Tables S1-S12
DOI: 10.5061/dryad.g9k46.3/4.3
title: Reconstruction algorithm : the R function
DOI: 10.5061/dryad.j57p9/1
title: EvoStressTolerance.tar
DOI: 10.5061/dryad.k8m4v/2
title: Clinostomus_elongatus_cytb_seq_alignment

description: sequence alignment file of mitochondrial cytochrome b sequences from redside dace (Clinostomus elongatus), aligned using MEGA 6
DOI: 10.5061/dryad.k8m4v/3
title: Clinostomus_elongatus_microsatellite_genotypes

description: Excel spreadsheet of genotype data for 28 populations of Redside Dace (Clinostomus elongatus) genotyped at 10 microsatellite loci.  Details on sampling locations and site codes are provided in the manuscript text.
DOI: 10.5061/dryad.m2bq5/1
title: PrimaryDataAkutDB_Upload2017

description: This data is described in details by: Barfod C, Lauritzen MMP, Danker JK, Sölétormos G, Berlac PA, Lippert F, et al. The formation and design of the “Acute Admission Database”- a database including a prospective, observational cohort of 6279 patients triaged in the emergency department in a larger Danish hospital. Scand J Trauma Resusc Emerg Med [Internet]. 2012 Jan [cited 2013 Sep 8];20:29. Available from: http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=3403899&tool=pmcentrez&rendertype=abstract
DOI: 10.5061/dryad.p1h2b/1
title: Dorado-Correaetal.DATA.ducks.2017

description: Call characteristics of ducklings exposed to three different noise treatments.
DOI: 10.5061/dryad.r2n70/46
title: ML tree, mitochondrial dataset 95 taxa, RAxML GTR+G
DOI: 10.5061/dryad.r2n70/47
title: ML tree, mitochondrial dataset 95 taxa, RAxML MTREV+G
DOI: 10.5061/dryad.133nq/7
title: Supplementary Figure 6
DOI: 10.5061/dryad.2jj06/1
title: Svensson-IRD-growth

description: Treatment effects on growth rate and weight.
Species: sand goby Pomatoschistus minutus.
Three localities were used: Bökevik, a bay near Sven Lovén Centre for Marine Infrastructure, Kristineberg (Skagerrak, 58°14'55"N 11°26'51"E, salinity 16-35 PSU), Sandviken, a bay near the town of Västervik (Baltic Sea proper, 57°44'15"N 16°42'29"E, salinity 6-7.5 PSU) and the bays Svartvik and Byviken near the town of Härnösand (Gulf of Bothnia, 62°33'08"N 17°52'00"E and 62°35'22"N 17°54'38"E, salinity 3-5.5 PSU).

File: Svensson-IRD-growth.
Population: Harnosand (Härnösand), Vastervik (Västervik) and Kristineberg.
Treatment: Resident 6 PSU for Harnosand and Vastervik, 32 PSU for Kristineberg, immigrant 32 PSU for Harnosand and Vastervik, 6 PSU for Kristineberg.
Sex: Male or female.
Length March: total length in mm in March 2012.
Length Length May: total length in mm in May 2012.
Weight May: Total body weight (g) in may.
DOI: 10.5061/dryad.2tm29.1
title: Data from: Landscape features along migratory routes influence adaptive genomic variation in anadromous steelhead (Oncorhynchus mykiss)
DOI: 10.5061/dryad.2tm29.1/2.1
title: All landscape variable values

description: Measurements for all landscape variables both at natal site and along migration paths for every collection locality.
DOI: 10.5061/dryad.2tm29.1/3.1
title: Full RAD Loci Stats

description: Large table including stats for each RAD locus globally and by population. The RAD sequence, mapping position to the O. mykiss assembly, and outlier classification are included for each locus. Additionally, the genotype success rate, observed heterozygosity, expected heterozygosity, minor allele frequency, and HWE corrected P.val (FDR) are included globally and for each population.
DOI: 10.5061/dryad.2tm29.1/4.1
title: Top BLAST hits

description: Top BLAST hits for loci identified by the majority of outlier tests (3/4) and GEA analyses (2/3). For each SNP, the environmental association and category (if applicable) are included. Additionally, the top BLAST hit and nearest gene (within 10 kb) are included with their GO terms.
DOI: 10.5061/dryad.2tm29.1/5.1
title: Individual Read Statistics

description: Read statistics for each individual after process_radtags was performed.
DOI: 10.5061/dryad.2tm29.1/6.1
title: Pairwise FST Table

description: Pairwise population FST calculated by hierfstat. FST values are represented between each cluster (k=3), globally between populations, and between populations within each genetic cluster.
DOI: 10.5061/dryad.2tm29.2/6.2
title: Pairwise FST Table

description: Pairwise population FST calculated by hierfstat. FST values are represented between each cluster (k=3), globally between populations, and between populations within each genetic cluster.
DOI: 10.5061/dryad.3j218/10
title: nonrecal_filtered_chr1_final.vcf.gz_norepeat.vcf

description: HiSeqX aDNA vcf, repeats removed, chr1
DOI: 10.5061/dryad.3j218/11
title: nonrecal_filtered_chr2_final.vcf.gz_norepeat.vcf

description: HiSeqX aDNA vcf, repeats removed, chr2
DOI: 10.5061/dryad.3j218/12
title: nonrecal_filtered_chr3_final.vcf.gz_norepeat.vcf

description: HiSeqX aDNA vcf, repeats removed, chr3
DOI: 10.5061/dryad.3j218/13
title: nonrecal_filtered_chr4_final.vcf.gz_norepeat.vcf

description: HiSeqX aDNA vcf, repeats removed, chr4
DOI: 10.5061/dryad.3j218/14
title: nonrecal_filtered_chr5_final.vcf.gz_norepeat.vcf

description: HiSeqX aDNA vcf, repeats removed, chr5
DOI: 10.5061/dryad.3j218/15
title: nonrecal_filtered_chr6_final.vcf.gz_norepeat.vcf

description: HiSeqX aDNA vcf, repeats removed, chr6
DOI: 10.5061/dryad.3j218/6
title: boot_chrX

description: RADseq xDNA ultrafastbootstraps
DOI: 10.5061/dryad.3j218/7
title: Genotypes_only_male_chrX_based_on_allelic_depth

description: Script to generate a haploid chromosome X genotype from a vcf file based on allelic coverage. Command line format is in comments in the script.