cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.k6j0h.2/6.2
title: S1 fungus_uclust_R_script_nonrarefied

description: The HTML outputs of the R scripts using the non-rarefied UCLUST datasets
DOI: 10.5061/dryad.k6j0h.2/7.2
title: S1 fungus_uclust_R_script_rarefied

description: The HTML outputs of the R scripts using the rarefied UCLUST datasets
DOI: 10.5061/dryad.k6j0h.2/8.2
title: Mapping files

description: Mapping files to link MID sequences to sample metadata. Used in the QIIME split_libraries.py script
DOI: 10.5061/dryad.k7jm5hp/1
title: Mathematica Notebook Fitness landscapes statistics and adaptive walk

description: This notebook allows to replicate the data analyses corresponding to the section of the manuscript called "The shape of the codon fitness landscape with and without synonymous effects". Please note that the data set necessary to run the analyses is obtained through the R notebooks also available within this repository.
DOI: 10.5061/dryad.k7jm5hp/2
title: R notebooks for data formatting, data normalisation and statistical analyses

description: These R notebooks were done using R studio. They allow 1) to format the data sets after running empiricIST; 2) to do data normalisation for all the analyses performed in the manuscript; 3) to perform all statistical analyses and create the plots for the manuscript. Please note that these notebooks assume that you have run the empiricIST in the data set (the empiricIST is available at https://github.com/Matu2083/ empiricIST). The data analysed here, as indicated in the manuscript, is available from the publication: Bank C, Hietpas RT, Wong A, Bolon DN, Jensen JD (2014). A Bayesian MCMC approach to assess the complete distribution of fitness effects of new mutations: Uncovering the potential for adaptive walks in challenging environments. Genetics 196: 841–852.
DOI: 10.5061/dryad.kp275f9/2
title: IndividualScores

description: CSV file containing the data to calculate means, SD, effect sizes and used for the t.test, the binomial tests, and Fig. 2.
DOI: 10.5061/dryad.kp275f9/3
title: EffectHands

description: CSV file used for the analyses to check the effect of the state of the arms on monkeys' choices.
DOI: 10.5061/dryad.kp275f9/4
title: TTest_BinomialTest_BoxPlot_Placì

description: R code used to calculate means, SD, effect sizes, t-tests, binomial tests and plot Fig. 2.
DOI: 10.5061/dryad.kp275f9/5
title: EffectHands_Placì

description: R code to test the effect of the state of the arms on monkeys' choices.
DOI: 10.5061/dryad.kp275f9/6
title: LearningCurves_Placì

description: R code to test whether monkeys learnt to associate a proportion to a favourable sample across trials and to plot Fig. S1 of the supplementary material.
DOI: 10.5061/dryad.n720m21/1
title: TopicalData

description: csv file of the entire raw data set used in the topical treatment analysis
DOI: 10.5061/dryad.n720m21/2
title: InjectionData

description: csv file of the microinjection via ocellus data
DOI: 10.5061/dryad.qb3sq2s/1
title: Culmen and Wing Measurements

description: Measurements of wing length and culmen length from 35 museum specimens from the Cornell Museum of Vertebrates as well as from the live putative hybrid individual. Abbreviations: GWWA, golden-winged warbler, BWWA, blue-winged warbler, CSWA, chestnut-sided warbler. Measurements for wing are from an unflattened wing to the nearest 0.5 mm. Measurements for culmen are from the tip of the nares to the end of the bill, to the nearest 0.1mm.
DOI: 10.5061/dryad.s4t435r/1
title: Abalone dataset

description: Abalone dataset includes 4177 samples, and each sample is composed of seven continuous input attributes, one nominal attribute and one integer output.
DOI: 10.5061/dryad.s4t435r/2
title: Boston house price dataset

description: Boston house price dataset includes 506 samples, and each sample comprises of 12 continuous input attributes, one binary-valued attribute and one continuous output
DOI: 10.5061/dryad.s4t435r/3
title: Auto MPG dataset

description: Auto MPG dataset includes 398 samples, and each sample is composed of seven inputs (four continuous ones and three multivalued discrete ones) and one continuous output (the fuel consumption).
DOI: 10.5061/dryad.tc0184k/1
title: Data Analysis

description: R script used to analyze the data in the accompanying files for the associated manuscript.
DOI: 10.5061/dryad.tc0184k/2
title: LarvalData

description: CSV file of larval data. Described in accompanying text file.
DOI: 10.5061/dryad.tc0184k/3
title: PupalData

description: CSV file of pupal data. Described in accompanying text file.
DOI: 10.5061/dryad.tc0184k/4
title: Survival7d

description: CSV file of survival data for larva exposed to 7 days of temperature treatment. Described in accompanying text file.
DOI: 10.5061/dryad.vn3v97q/1
title: Raw data

description: N and P content in three major organs in nine Picea taxa
DOI: 10.17632/5h29dd6p3x.1
title: SOD-like Activity Assay Data of Three New Manganese(III)-Salen-4,4’-Bipyridine Complexes
DOI: 10.17632/5zb4vbvmx7.1
title: Data for: Machine learning approaches for petrographic classification of carbonate-siliciclastic rocks using well logs and textural information

description: The database obtained from Fournier (2009) combines (1) ultrasonic measurements of P- and S-wave velocities at various effective pressures, (2) density and porosity measurements, (3) quantitative mineralogic analyses using X-ray diffraction (XRD), (4) detailed petrographic studies of thin sections, and (5) critical porosity and elastic properties of microporous mixed carbonate-siliciclastic rocks. Fournier, F., & Borgomano, J. (2009). Critical porosity and elastic properties of microporous mixed carbonate-siliciclastic rocks. Geophysics, 74, E93–E109.
DOI: 10.17632/ncjdgvrzs7.1
title: Data for: Cortisol response to stress in schizophrenia: evidence for associations with oxytocin, social support and social functioning
DOI: 10.5061/dryad.0b3k209/1
title: Data_Ingroup-Outgroup_Bioassay

description: Data and R-script used for analysis of the ingroup-outgroup bioassay
DOI: 10.5061/dryad.0b3k209/2
title: Data_Odour_Source_Preference_Pilot_Study

description: Data and R-script used for analysis of the odour source preference pilot study
DOI: 10.5061/dryad.0b3k209/3
title: Data_Intensity_Scores

description: Data and R-script used for analysis of the influence of odour intensity
DOI: 10.5061/dryad.0f8p4c5/1
title: Herbivore_Detections

description: Herbivore detections captured with trail cameras during sod trials
DOI: 10.5061/dryad.0f8p4c5/2
title: Sod_Data

description: Sod data results from experimental herbivore exclosures
DOI: 10.5061/dryad.0f8p4c5/3
title: Seed_Addition_Cover_Estimates

description: Grass cover in experimental herbivore exclosures from direct seeding experiment
DOI: 10.5061/dryad.17qn634/1
title: Immune gene expression in larvae with and without parents

description: Data used to compare gene expression of larvae, measured with qRT-PCR, when parents are present and when they are absent. Used to generate fig 2 in Ziadie et al.
DOI: 10.5061/dryad.17qn634/2
title: Ziadie_fig3_gene_expression

description: Expression of pgrp-sc2, thaumatin and defensin under different social conditions for females.
DOI: 10.5061/dryad.17qn634/3
title: Ziadie_fig4_gene_expression

description: Gene expression data, used to generate figure 4, measured by qRT-PCR.
DOI: 10.5061/dryad.17qn634/4
title: Ziadie_fig5_6_7_maternal_selection

description: Fitness effects in offspring arising from immune gene expression in mother during parenting.
DOI: 10.5061/dryad.45g90h4/1
title: Data and R codes for Global pattern of nest predation is disrupted by climate change in shorebirds

description: All data files (*26*) are in one zip folder (3 scripts, *21* dataset files, 1 file with phylogenetic trees, 1 file with all variables description). Choose one of the commented scripts (Models, Figures, SuppFigures) and run it. It will use all needed data.
DOI: 10.5061/dryad.4m485m0/1
title: Round 1 Freetext responses

description: Compiled free text responses from Round 1
DOI: 10.5061/dryad.4m485m0/2
title: Round 2 Combined Responses

description: Round 2 electronic and paper responses of candidate actions
DOI: 10.5061/dryad.4m485m0/3
title: Round 3 Scoring Sheet_Combined Electronic and Paper

description: Round 3 combined paper and electronic responses assessing actions not previously meeting consensus
DOI: 10.5061/dryad.4m485m0/4
title: Superconsensus (Round 3)

description: Summary of candidate actions meeting inclusion criteria after round 3
DOI: 10.5061/dryad.5618c1m/1
title: Becker et al PBZ tree

description: Phylogenetic tree of bat and bird species included in the analyses derived from the Open Tree of Life (ott_id in CSV).
DOI: 10.5061/dryad.5618c1m/2
title: Becker et al PBZ data CSV

description: Individual effect size records and metadata (e.g., species order, assay type, sample type, total CFU, BKA covariate assessed).
DOI: 10.5061/dryad.6839bg5/1
title: Halodule wrightii Microsatellite Scores

description: This file contain a dataset with microsatellite allele scores to accompany the 2017 ms A map-based approach to assessing genetic diversity, structure, and connectivity in the seagrass Halodule wrightii.
DOI: 10.5061/dryad.6839bg5/2
title: Halodule wrightii Genclone-formatted microsatellite scores

description: This zip file contains Genclone-formatted datasets to accompany the 2017 ms A map-based approach to assessing genetic diversity, structure, and connectivity in the seagrass Halodule wrightii.
DOI: 10.5061/dryad.6gb3977/1
title: C. israelensis genotypes from Atlit and Habonim

description: Microsatellite genotypes of all the nests in Atlit and Habonim populations of Cataglyphis israelensis
DOI: 10.5061/dryad.6gb3977/2
title: C_israelensis CHC profiles

description: Cuticular hydrocarbons' composition for samples in Atlit and Habonim; Cataglyphis israelensis
DOI: 10.5061/dryad.6gb3977/3
title: atlit and habonim nest locations

description: GPS positioning for nests of C. israelensis in Atlit and Habonim
DOI: 10.5061/dryad.7cr0q/1
title: Genome coordinates used for G-Phocs analysis

description: Oryza sativa japonica reference genome coordinates used for the G-Phocs analysis. Coordinates are listed in BED format.
DOI: 10.5061/dryad.7cr0q/2
title: 4D site in phylip format

description: Concatenated four-fold degenerate sites for all species used in the study. Data is in phylip format and was used for estimating species phylogeny using Raxml for tree building. Names of species were shortened and corresponds to: NIV, O. nivara; PUN, O. punctata; RUF, O. rufipogon; SAA_DJ123, Oryza sativa aus cv. DJ123; SAA_KASALATH, Oryza sativa aus cv. Kasalath; SAI, Oryza sativa indica cv. 93-11; SAI_IR64, Oryza sativa indica cv. IR64; SAJ, Oryza sativa japonica
DOI: 10.5061/dryad.895pn6p/1
title: Osmia experiment dataset

description: Data from: Combined exposure to sublethal concentrations of an insecticide and a fungicide affect feeding, ovary development and longevity in a solitary bee
DOI: 10.5061/dryad.8jk03jd/1
title: Type I IFN gene signature - a tool to stratify high vs low-risk TB uveitis?

description: The excel file contains all data from 103 subjects (as described in table 1 of the manuscript). All 2dCt value from all 35 genes are noted
DOI: 10.5061/dryad.8kc1n09/1
title: Summary of raw data presented in manuscript.

description: This Excel document includes the raw data for all analyses presented in the manuscript including algal biomass, bacterial abundance, fungal biomass, production rates of algae, bacteria, and fungi, microbial production responses to DCMU manipulations, bulk litter carbon:nitrogen and carbon:phosphorus contents, and leaf disk dry mass to calculate decomposition rates over time. Bold column headings indicate sampling date, light treatment, leaf species, stream/splitplot, and the response with units indicated.
DOI: 10.5061/dryad.93tj942.1
title: Data from: Effect on electrospun fibers by synthesis of high branching poly-lactic (PLA)
DOI: 10.5061/dryad.93tj942.1/1.1
title: Effect on electrospun fibers by synthesis of high branching PLA

description: The structure of branching PLA was confirmed by IR, 1H-NMR, GPC and DSC.The different surface morphology of films was characterized by atomic force microscope (AFM), it is found that high branching PLA has higher pores forming ability, and its porous nanofibers were prepared by electrospinning (SEM). The adsorption of silver ion (Ag+) results showed that porous nanofibers of the high branching PLA had a high adsorption of Ag+. The high branching PLA has a potential possibility as scaffold for tissue engineering or antibacterial dressing
DOI: 10.5061/dryad.93tj942.2
title: Data from: Effect on electrospun fibers by synthesis of high branching poly-lactic (PLA)
DOI: 10.5061/dryad.93tj942.2/1.2
title: Effect on electrospun fibers by synthesis of high branching PLA

description: The structure of branching PLA was confirmed by IR, 1H-NMR, GPC and DSC.The different surface morphology of films was characterized by atomic force microscope (AFM), it is found that high branching PLA has higher pores forming ability, and its porous nanofibers were prepared by electrospinning (SEM). The adsorption of silver ion (Ag+) results showed that porous nanofibers of the high branching PLA had a high adsorption of Ag+. The high branching PLA has a potential possibility as scaffold for tissue engineering or antibacterial dressing
DOI: 10.5061/dryad.93tj942/1
title: Effect on electrospun fibers by synthesis of high branching PLA

description: The structure of branching PLA was confirmed by IR, 1H-NMR, GPC and DSC.The different surface morphology of films was characterized by atomic force microscope (AFM), it is found that high branching PLA has higher pores forming ability, and its porous nanofibers were prepared by electrospinning (SEM). The adsorption of silver ion (Ag+) results showed that porous nanofibers of the high branching PLA had a high adsorption of Ag+. The high branching PLA has a potential possibility as scaffold for tissue engineering or antibacterial dressing
DOI: 10.5061/dryad.d53pg0j/1
title: data for XRD pattern for different photoelectrode in Figure 1
DOI: 10.5061/dryad.d53pg0j/2
title: UV data
DOI: 10.5061/dryad.d53pg0j/3
title: i-t data
DOI: 10.5061/dryad.d53pg0j/4
title: EIS data
DOI: 10.5061/dryad.f0s23r8/51
title: Donor 131 - Bw6

description: fcs files for ABC donor 131
DOI: 10.5061/dryad.f0s23r8/52
title: Donor 166 - Bw6

description: fcs files for ABC donor 166
DOI: 10.5061/dryad.f0s23r8/53
title: Donor 196 - Bw6

description: fcs files for ABC donor 196
DOI: 10.5061/dryad.f0s23r8/54
title: Donor 201 - Bw6

description: fcs files for ABC donor 201
DOI: 10.5061/dryad.f0s23r8/55
title: Donor 206 - Bw6

description: fcs files for ABC donor 206
DOI: 10.5061/dryad.f0s23r8/56
title: W6/32 and Tapasin Intracellular Staining

description: This data corresponds to Figure 4 A and B. These are the fcs files for the flow cytometry experiments.
DOI: 10.5061/dryad.f0s23r8/57
title: Shannon Entropy calculations

description: This data corresponds to Figure 7. It consists of the excel spreadsheet for the Shannon Entropy calculations.
DOI: 10.5061/dryad.f0s23r8/58
title: Donor8: Bw4 Stability

description: Data corresponding to HLA-Bw4 stability for Donor 8.
DOI: 10.5061/dryad.f0s23r8/59
title: Donor14: Bw4 Stability

description: Data corresponding to HLA-Bw4 stability for Donor 14.
DOI: 10.5061/dryad.f4t990h/1
title: Mating experiment and Inter-species variation in Tetragnatha spiders

description: This excel file contains the mating experiment data (chelicera length, body weight and copulatory success) of Tetragnatha praedonia and the data on cheliceral length, carapace width, sexual dimorphism index (SDI) and relative chelicera data of 15 species of Tetragnatha spiders.
DOI: 10.5061/dryad.fm15b38/1
title: proc_B_hubs_phenotypic_data

description: Excel data file containing all the raw data for the phenotypic tests. All sequence data in the MS are already publically available.
DOI: 10.5061/dryad.g8g7r71/2
title: PloSOne Gastric acid paper

description: These are data for study participants enrolled in the study. Unique identity numbers are in the first column while variables are indicated in the first row.
DOI: 10.5061/dryad.k6j0h.1/3.1
title: Bioinformatic command script

description: An example bioinformatic script
DOI: 10.5061/dryad.k6j0h.1/4.1
title: S1 fungus_CROP_R_script_nonrarefied

description: The HTML outputs of the R scripts using the non-rarefied CROP datasets
DOI: 10.5061/dryad.k6j0h.1/5.1
title: S1 fungus_CROP_R_script_rarefied

description: The HTML outputs of the R scripts using the rarefied CROP datasets
DOI: 10.5061/dryad.k6j0h.1/6.1
title: S1 fungus_uclust_R_script_nonrarefied

description: The HTML outputs of the R scripts using the non-rarefied UCLUST datasets
DOI: 10.5061/dryad.k6j0h.1/7.1
title: S1 fungus_uclust_R_script_rarefied

description: The HTML outputs of the R scripts using the rarefied UCLUST datasets
DOI: 10.5061/dryad.mr2687q/1
title: Sup meterials_IEG & mirror aggression_ProcRSB_revised
DOI: 10.5061/dryad.n4m40vm/1
title: fatty_acid_oribatid_mites

description: Fatty acid data (NLFAs) of oribatid mites from Spiekeroog, Germany
DOI: 10.5061/dryad.n4m40vm/2
title: MeanDensity_oribatid_mites_artificial_islands
DOI: 10.5061/dryad.n4m40vm/3
title: MeanDensity_oribatid_mites_salt_marsh
DOI: 10.5061/dryad.n4m40vm/4
title: stable_isotopes_oribatid_mites
DOI: 10.5061/dryad.p546pb2/1
title: Data from: Consequences of swamp forest fragmentation on assemblages of vascular epiphytes and climbing plants: evaluation of the metacommunity structure

description: Appendix. Nestedness matrices of species composition (in rows) of vascular epiphytes (n = 16 species) and climbing plants (n = 15 species) in 30 fragments of swamp forest (in columns)
DOI: 10.5061/dryad.qb3sq2s/2
title: Five nuclear alignment files

description: Nucleotide alignments in "FASTA" format from five regions that differ between golden-winged and blue-winged warblers obtained from Sanger sequencing. Each file contains a short sequence for four individuals, two with sequence from chestnut-sided warblers (with associated Cornell University Museum of Vertebrates [CUMV] tissue numbers), one sequence from the putative hybrid, and one from Vermivora warblers. The Vermivora warbler sequence is a consensus sequence from the 24 resequenced genomes presented in Toews et al. 2016 (Current Biology) using the "mpileup" command in SAMTOOLS.
DOI: 10.5061/dryad.t31q738/1
title: Raw data

description: Raw data for Figure 1-3
DOI: 10.5061/dryad.t76fk80.2/17.2
title: figures_data_SFS_Rscripts

description: Files to make figures of SFS and scripts to compute the SFS too. The SFS are done from files in "1000G_Nb_derAll.zip". For further details, see README file
DOI: 10.5061/dryad.t775334/1
title: Appendix_S2_Datasets

description: File contains two dataset each presented in a separated sheet accompanied with a readme sheet.
DOI: 10.5061/dryad.tc0184k/5
title: ThirdMassData

description: CSV file of third instar mass data. Described in accompanying text file.
DOI: 10.5061/dryad.v23s994/1
title: TB_SEAGRASS_TRANSECT_DATASET_thru_2015

description: ArcGIS 9.3 compatible geodatabase containing Tampa Bay seagarss transect data collected from 1997-2015. The geodatabase contains transect and discrete point, route-event features collected by partner agencies of the Tampa Bay Estuary Program. Updated databases are maintained here: https://tbeptech.org/data/gis-data/31-tbep-tech-databases .
DOI: 10.5061/dryad.v2k2607/1
title: InputData

description: These are the data to be input for the R code. Contains all data analyzed in the paper
DOI: 10.5061/dryad.v2k2607/2
title: R code for analyzing data

description: R code for analyzing data. All analyses and figures are generated from this file.
DOI: 10.17632/z97gk2xcvn.1
title: Data for: Effects of Ultraviolet Wavelength and Intensity on AlGaN Thin Film Surfaces Irradiated Simultaneously with CF4 Plasma and Ultraviolet
DOI: 10.5061/dryad.085jj60/1
title: Effect sizes, and confidence intervals for meta-analysis

description: This file contains all the effect sizes, confidence intervals, and grouping variables that were used in the meta-analysis.
DOI: 10.5061/dryad.10351qn/1
title: STORM Localizations - Part 1/3

description: Zip file containing single molecule localization data from STORM. The zip file is divided into 3 volumes. Volume 1/3
DOI: 10.5061/dryad.10351qn/2
title: STORM Localizations - Part 2/3

description: Zip file containing single molecule localization data from STORM. The zip file is divided into 3 volumes. Volume 2/3
DOI: 10.5061/dryad.10351qn/3
title: STORM Localizations - Part 3/3
DOI: 10.5061/dryad.10351qn/4
title: ECIS - badp1

description: ECIS measurements of paracellular barrier function.
DOI: 10.5061/dryad.10351qn/5
title: TEM - b1KO

description: Transmission electron micrographs from WT and beta1KO mice.
DOI: 10.5061/dryad.10351qn/6
title: Patch Clamp

description: Patch clamp recordings of sodium currents and action potentials from isolated adult guinea pig ventricular myocytes.
DOI: 10.5061/dryad.10351qn/7
title: Smart Patch Clamp

description: Smart patch clamp recordings of sodium currents.
DOI: 10.5061/dryad.32tm1k4.1
title: Data from: Plasmodium vivax-like genome sequences shed new insights into Plasmodium vivax biology and evolution
DOI: 10.5061/dryad.32tm1k4.1/1.1
title: S1FigData_PvlkRAFdataset_1 samples Pvl01 to Pvl06

description: This archive contains the vcf files listing all the high quality positions kept to draw the reference allele frequency distribution for samples Pvl01 to Pvl06. Please see the Materials and methods section for a detailed description.
DOI: 10.5061/dryad.32tm1k4.1/2.1
title: S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

description: This archive contains the vcf files listing all the high quality positions kept to draw the reference allele frequency distribution for samples Pvl07 to Pvl09. Please see the Materials and methods section for a detailed description.
DOI: 10.5061/dryad.32tm1k4.1/3.1
title: S1FigData_PvlkRAFdataset_3 samples Pvl10 and Pvl11

description: This archive contains the vcf files listing all the high quality positions kept to draw the reference allele frequency distribution for samples Pvl10 and Pvl11. Please see the Materials and methods section for a detailed description.
DOI: 10.5061/dryad.32tm1k4.2
title: Data from: Plasmodium vivax-like genome sequences shed new insights into Plasmodium vivax biology and evolution
DOI: 10.5061/dryad.32tm1k4.2/1.2
title: S1FigData_PvlkRAFdataset_1 samples Pvl01 to Pvl06

description: This archive contains the vcf files listing all the high quality positions kept to draw the reference allele frequency distribution for samples Pvl01 to Pvl06. Please see the Materials and methods section for a detailed description.
DOI: 10.5061/dryad.32tm1k4.2/2.2
title: S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

description: This archive contains the vcf files listing all the high quality positions kept to draw the reference allele frequency distribution for samples Pvl07 to Pvl09. Please see the Materials and methods section for a detailed description.
DOI: 10.5061/dryad.32tm1k4.2/3.2
title: S1FigData_PvlkRAFdataset_3 samples Pvl10 and Pvl11

description: This archive contains the vcf files listing all the high quality positions kept to draw the reference allele frequency distribution for samples Pvl10 and Pvl11. Please see the Materials and methods section for a detailed description.
DOI: 10.5061/dryad.32tm1k4.2/4.2
title: PvivaxlikeGenomes.tar

description: The Pvl_genomeData folder contains the data of two genomes of Plasmodium vivax-like parasites (Pvl01 and Pvl06). Further information is included in the README within "PvivaxlikeGenomes.tar.gz"
DOI: 10.5061/dryad.34j84c0/1
title: Konrad_Sperm_Whale_PhotoID_Dominica_2005_2016

description: Identifiation data for sperm whales off Dominica 2005-2016