cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.cj32g/1
title: Santamaria_etal_2016_Part1

description: Thanks for your interest in our research on Ligia isopods from the region between Central California and Central Mexico, including the Gulf of California. Herein you will find all picture files used for the morphometrics analyses. Due to the large size of our pictures, we have uploaded them as four separate zip files. You may download each and extract to the same folder.
DOI: 10.5061/dryad.cj32g/2
title: Santamaria_etal_2016_Part2
DOI: 10.5061/dryad.cj32g/3
title: Santamaria_etal_2016_Part3
DOI: 10.5061/dryad.cj32g/4
title: Santamaria_etal_2016_Part4
DOI: 10.5061/dryad.h40d8/1
title: mRNA transcription of candidate genes for thermal adaptation in the crimson-spotted rainbowfish.

description: Total mRNA was extracted from laboratory bred and reared individuals (F1); parents were wild-caught and originated from the Brisbane River.  At 6 months of age, individuals from each family group were subjected to one of two thermal treatments for a duration of 80 days.  Rearing tank (Tank), sex (Sex), thermal treatment group (Treat) individual identifier (animal), parents (DAM & SIRE) and full-sib family group (Fam) are provided for each individual.  Immediately following thermal treatment, fish were euthanized and total mRNA extracted from liver tissues.Transcript abundance was estimated via quantitative real-time PCR.  LinRegPCR was used to convert raw CT values into estimates of initial/starting mRNA concentrations (N0).  Initial mRNA concentrations were standardized relative to the geometric mean of two reference genes (geomean.REFS).  Standardized values of candidate genes occupy the final 12 columns; gene symbols (column headings) are the same as those used in the accompanying article (McCairns et al. 2016).
DOI: 10.5061/dryad.hf46s/1
title: Raw Genotyping Data

description: Data from: Shannon et al. (2015) Genetic structure in village dogs reveals a Central Asian domestication origin. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.v9t5h
DOI: 10.5061/dryad.hf46s/2
title: Imputed Data (.tfam)
DOI: 10.5061/dryad.hf46s/3
title: Imputed Data (.tped)
DOI: 10.5061/dryad.j803j/1
title: "This file contains the genotypes for 26 microsatellite loci and 1385 individuals collected in 25 populations of blue tit (Cyanistes caeruleus)"

description: Data file contains  genotyping of 1385 individuals at 26 microsatellite loci classified in two groups by considering whether they are located into  genomic regions that are actively (TL; 12 loci: Cca-Tgu28,	PIJ14,	Tg05-053,	Tg05-046,	CcaTgu15,	Tg13-017,	CcaTgu19,	CcaTgu11,		CcaTgu8,	Tgu07,	CcaTgu14,	CcaTgu7) or not (NTL; 14 loci: PK11,		Pca3,	Pca9,	Pocc1,	Pocc6,	Pat-mp2-43,	PK12,	Ase18,	Pdo5,	Pca7,	Pca4,	Pca2,	Mcyμ4,	Pca8) transcribed to RNA. These individuals were captured in 25 populations located in fragmented  woodlands scattered within an area of 1200 km2 in Montes de Toledo, central of Spain.
DOI: 10.5061/dryad.k5n98/1
title: Summary statistics and ancillary data of published single driver-response relationships in pelagic marine ecosystems

description: We created a database of published single driver-response relationships in marine pelagic ecosystems that were deemed significant based on p values ≤ 0.05 or were included in best-fit models identified through model selection. Multiple summary statistics were recorded (when available) in the database in an effort to explore variation in driver-response relationships in the present study and to be made available for researchers for future studies. The summary statistics include published or derived shapes of the relationships (linear, non-linear or specific functional forms), sample size, quantitative estimates of ecological thresholds, p values, R^2, deviance explained, correlation and regression coefficients, and model covariates (if multivariate model). In addition, we collected ancillary data on study characteristics to explore the variation in driver-response relationships and to identify the most robust papers with respect to statistical methods. The ancillary data in our database include ecosystem type (enclosed bay or sea, coastal pelagic, continental shelf and continental slope/oceanic), local region, ocean basin, large marine ecosystem, temporal scale of study, functional level (i.e., individual, population, community) and species trophic level (TL 1-4) of ecological response, primary productivity (mgC/mg2/day) and the statistical methods used by the authors. Estimates of species trophic level and primary productivity were obtained from the Sea Around Us Project (http://www.seaaroundus.org/). See Supplement Table S1 for additional description of data columns. The references in the database are cross-referenced with Table S1 Literature Cited.docx.
DOI: 10.5061/dryad.k6tq2/10
title: Progressive Concatenation Data and Results

description: Matrices and RAxML result files from progressive concatenation analyses presented in order of slow- to fast-evolving loci.
DOI: 10.5061/dryad.k6tq2/11
title: RAxML Concatenated

description: Data matrices and results from all RAxML analyses of concatenated datasets described in the study
DOI: 10.5061/dryad.k6tq2/12
title: RAxML_single_genes

description: Results for each of 1,080 single gene RAxML analyses
DOI: 10.5061/dryad.k6tq2/4
title: Jackknife

description: Results of 108-locus and 20-locus jackknife analyses. See Figure 3.
DOI: 10.5061/dryad.k6tq2/5
title: Data Matrices

description: All concatenated matrices in PHYLIP and NEXUS formats. The names of the concatenated matrices correspond to Table 1.
DOI: 10.5061/dryad.k6tq2/6
title: Orthologous Groups

description: Trimmed alignments for each of 1,161 orthologous groups recovered from OrhtologID analyses of gene models from the 36 metazoan and outgroup genomes.
DOI: 10.5061/dryad.k6tq2/7
title: OrthologID Output

description: Data partitions from OrthologID aligned and in NEXUS format. "full" dataset includes all orthologs recovered and "m27" includes only partitions present in at least 27 taxa.
DOI: 10.5061/dryad.k6tq2/8
title: PartitionFinder Results

description: Control files, data and results for all PartitionFinder analyses on concatenated matrices conducted in the study.
DOI: 10.5061/dryad.k6tq2/9
title: PhyloBayes Results

description: Results of all PhyloBayes analyses conducted in the study including Bayesien posterior densities and traces of selected parameters as well as consensus trees.
DOI: 10.5061/dryad.k83b3/1
title: raw SNP data_Rahmani sheep
DOI: 10.5061/dryad.m24n2/1
title: craigsgrowl-gurnard
DOI: 10.5061/dryad.m24n2/2
title: craigsgrunt-gurnard
DOI: 10.5061/dryad.q42b2/1
title: Phylogenetic tree of the 34 vole species used in the comparative analysis.
DOI: 10.5061/dryad.q42b2/2
title: Supplementary References
DOI: 10.5061/dryad.q42b2/3
title: Ecological and morphological information (raw dataset)
DOI: 10.5061/dryad.r6fr1/1
title: Pinus phenotypic data and locality descriptions

description: Phenotypes (serotiny and tree diameter) and locality descriptors (stand, coordinates, etc) for 367 Pinus halpensis and 194 Pinus pinster individuals from SE Spain. Please note: these data are a subset of the dataset originally collected by Hernández-Serrano et al. (2013) Fire structures pine serotiny at different scales. American Journal of Botany 100, 2349-2356.
DOI: 10.5061/dryad.r6fr1/2
title: Gmatrix_P.halepensis

description: Tab-delimited text file with symetrical matrix showing pairwise relatedness estimates for 367 individuals of Pinus halepensis. Diagonal estimates are included. Estimates are based on 251 SNPs and were estimated with the synbreed package in R.
DOI: 10.5061/dryad.r6fr1/3
title: Gmatrix P.pinaster

description: Tab-delimited text file with symetrical matrix showing pairwise relatedness estimates for 194 individuals of Pinus pinaster. Diagonal estimates are included. Estimates are based on 251 SNPs and were estimated with the synbreed package in R.
DOI: 10.5061/dryad.t24pq/1
title: Dobson & Auld AmNat code

description: All code (in R), including graphing. Tinn-R file, but should open in Notepad, Wordpad, etc..
DOI: 10.5061/dryad.01jc1/1
title: Raw data for Fewer new species colonize at low frequency N addition

description: Raw data for "Fewer new species colonize at low frequency N addition in a temperate grassland"
DOI: 10.5061/dryad.1004f/1
title: Chemical defence in avian brood parasites_raw data

description: Raw data obtained from the study
DOI: 10.5061/dryad.186m0/2
title: FIRST Paired Teaching Practice Survey Data

description: The associated data file contains results from the Teaching Practice Survey which we designed for use in the Paired Study to assess the frequency with which faculty reported using active, learner-centered practices in their courses. This data set consists of data from 11 of the pairs. For complete survey questions and scales see Supplementary Materials S2 in the associated publication (Derting et al. 2016).
DOI: 10.5061/dryad.186m0/3
title: FIRST Paired ATI Survey 22 Questions

description: The associated data file contains responses to 22 items of the Approaches to Teaching Inventory. See more about the 16-item and 22-item versions of the instrument in K. Trigwell, M. Prosser, Development and use of the approaches to teaching inventory. Educ Psychol Rev 16, 409-424 (2004).and in K. Trigwell, M. Prosser, P. Ginns, Phenomenographic pedagogy and a revised Approaches to teaching inventory. Higher Educ Res Dev 24, 349-360 (2005).This data file contains results from 20 complete faculty pairs using the 22-item ATI.
DOI: 10.5061/dryad.186m0/4
title: FIRST ETQ and SE Paired Study Surveys

description: The associated data file contains results from Paired Study Participant responses to the Experience of Teaching Questionnaire (ETQ). The ETQ is described in M. Prosser, K. Trigwell, Relations between perceptions of the teaching environment and approaches to teaching. Br. J. Educ. Psychol. 67, 25-35 (1997). Data set also includes results of Self Efficacy survey questions as described in S. Lindblom-Ylanne, K. Trigwell, A. Nevgi, P. Ashwin, How approaches to teaching are affected by discipline and teaching context. Stud Higher Educ 31, 285-298 (2006). This data set consists of data from 20 of the study pairs.
DOI: 10.5061/dryad.186m0/5
title: LSQ Student Data Paired Study

description: The associated data file contains results from the Learning and Studying Questionnaire (LSQ) survey. See information for published questionnaire in: N. Entwistle, V. McCune, J. Hounsell, "Approaches to Studying and Perceptions of University Teaching-Learning Environments: Concepts, Measures and Preliminary Findings. Enhancing Teaching-Learning Environments in Undergraduate Courses Project," (2002). Rows are survey responses by individual students for the 10 scales of the LSQ survey. Data file contains student data from 13 instructor pairs.
DOI: 10.5061/dryad.186m0/6
title: ETLQ Student Data Paired Study

description: The associated data file contains results from the Experiences of Teaching and Learning (ETLQ) survey. See information for both published questionnaires in: N. Entwistle, V. McCune, J. Hounsell, "Approaches to Studying and Perceptions of University Teaching-Learning Environments: Concepts, Measures and Preliminary Findings.  Enhancing Teaching-Learning Environments in Undergraduate Courses Project," (2002). Rows are survey responses by individual students for the 19 scales of the ETLQ survey. Data file contains student responses from 11 instructor pairs.
DOI: 10.5061/dryad.186m0/8
title: Percent Average Bloom's Taxonomy Goals

description: The associated data file contains the average of the percent Bloom score (Bloom’s Taxonomy categories 1-6) for course goals as stated in syllabi. We scored stated course goals into cognitive skill categories and calculated the proportion of course goals assigned to each Bloom’s category (see Derting et al. 2016 for details). This data set consists of data from 14 FIRST Faculty and 12 non-FIRST Faculty.
DOI: 10.5061/dryad.1k01d/1
title: SMRs for pneumonia death

description: Dataset containing area, week from earthquake, observed number of pneumonia deaths, expected number of pneumonia deaths, standardized mortality ratios and p value
DOI: 10.5061/dryad.2p7ns/1
title: Genotypes and hybridization intensities for 522 reference samples.

description: This file is an Rdata file containing a single object, 'geno'.  That object contains genotypes and hybridization intensities for 522 samples used in this paper, of which 500 passed quality controls and were used for most of the analyses.  See the README file for further information.
DOI: 10.5061/dryad.325ts/1
title: data
DOI: 10.5061/dryad.35qv6/1
title: wormtracks data archive

description: All raw data, plus the main analysis program and spreadsheet.
DOI: 10.5061/dryad.3ck0v/10
title: GFOLD_summaryxlsx

description: Summary of GFOLD analysis of Tamalia differential gene expression
DOI: 10.5061/dryad.3ck0v/2
title: Groel

description: Alignment of the Buchnera Groel from Tamalia
DOI: 10.5061/dryad.3ck0v/3
title: pepck

description: Phosphoenolpyruvate carboxykinase  intron from Tamalia
DOI: 10.5061/dryad.3ck0v/4
title: RAxML_bestTree.nuclear3.reduced

description: Best tree from the maximum likelihood analysis of the 3 gene nuclear alignment
DOI: 10.5061/dryad.3ck0v/5
title: nuclear3_bayes.nex.con

description: Consensus tree from the Bayesian analysis of the 3 gene alignment
DOI: 10.5061/dryad.3ck0v/6
title: RAxML_bestTree.Groel

description: Best tree from the maximum likelihood analysis of the Tamalia groel
DOI: 10.5061/dryad.3ck0v/7
title: Groel_bayes.nex.con

description: Consensus tree from the Bayesian analysis of Tamalia groel
DOI: 10.5061/dryad.493b7/1
title: hamstr_all_taxa

description: Aligned phylip file for dataset 'HaMStR all taxa'
DOI: 10.5061/dryad.493b7/2
title: hamstr_best_coverage_taxa

description: Aligned phylip file for data matrix 'HaMStR best coverage taxa'
DOI: 10.5061/dryad.493b7/3
title: proteinortho

description: Aligned phylip file for dataset 'ProteinOrtho'
DOI: 10.5061/dryad.493b7/4
title: taxon_pruning_datasets

description: Experimental datasets with alternative taxon sampling and corresponding partition information files
DOI: 10.5061/dryad.493b7/5
title: trespex_datasets

description: Experimental phylogenomic datasets partitioned according to statistical tests implemented in program TreSpex
DOI: 10.5061/dryad.493b7/6
title: matrix_occupancy_datasets

description: Phylogenomic datasets generated to maximize overal matrix coverage and corresponding partition information
DOI: 10.5061/dryad.493b7/7
title: ribosomal_or_non_ribosomal_gene_datasets

description: Datasets with only non-ribosomal protein genes or only ribosomal protein genes
DOI: 10.5061/dryad.493b7/8
title: supplementary mrbayes files

description: MrBayes alignment files and run scripts
DOI: 10.5061/dryad.4jr00/5
title: Stable isotope values (C & N) from vegetation and fauna in two seagrass meadows in Denmark
DOI: 10.5061/dryad.4jr00/6
title: Seagrass and macroalgae data from seagrass meadows in Dalby Bay & Kertinge Nor, Denmark

description: Rawdata for calculation of Zostera marina above and below-ground biomass, leaf area index and growth. Biomass of macroalgae.
DOI: 10.5061/dryad.5h032/1
title: Twyford Mimulus guttatus aligned GBS SNPs for North American phylogeography

description: VCF file of reference-sequence aligned SNPs from a genotyping by sequencing experiment. Individual Mimulus samples were collected in the field, and SNP calls were made with the TASSEL-GBS pipeline.
DOI: 10.5061/dryad.5t32v/1
title: data_readme

description: A readme file explaining the information loaded to Dryad
DOI: 10.5061/dryad.5t32v/2
title: NL map file

description: plink-style map file with marker locations for the NL dataset.The map file is in an amended plink format with chromosome in column 1, SNP name in column 2, cM position in column 3 (note this is different from defaul plink map files which have distances in Morgans) and genome order in column 4 (again this is different from the plink format which would usually have bp position in this column).Chromosome codings in the map file (column 1) are as follows:Chromosomes 1-15 and 17-28 are the corresponding chromosomes 1-15 and 17-28 in the great tit genomeChromosome 29 = chromosome 1AChromosome 30 = chromosome 4AChromosome 31 = Z chromosomeChromosome 32 = Linkage group LGE22
DOI: 10.5061/dryad.5t32v/3
title: NL genotype file

description: Genotypes for the 1,407 NL individuals.These are standard plink files (see http://pngu.mgh.harvard.edu/~purcell/plink/) where the first column gives a family id, the second column an individual id (in this case family id = individual id), the third and fourth columns are paternal and maternal IDs (here, left blank so that ids = 0 for both parents), column five has sex (1=male; 2=female; other=unknown) and finally column 6 phenotype (here all phenotypes = -9 for unknown). Columns 7 onwards contain genotype information for the SNPs listed (in order) in the .map file of the same name.
DOI: 10.5061/dryad.650c5.1
title: Data from: Body size as a driver of scavenging in theropod dinosaurs
DOI: 10.5061/dryad.650c5.2
title: Data from: Body size as a driver of scavenging in theropod dinosaurs
DOI: 10.5061/dryad.650c5.2/1.2
title: IBM_Energy_inputs

description: Energy input from scavenging as determined from Individual based model run in net logo
DOI: 10.5061/dryad.650c5.2/2.2
title: Theropod Scavenger Model

description: Net logo model of theropod scavenging for main model.
DOI: 10.5061/dryad.70f4t/1
title: Dataset from Tracking Time Evolution of Collective Attention Clusters in Twitter: Time Evolving Nonnegative Matrix Factorisation

description: This dataset contains tweets ID posted before and after one week Tohoku Earthquake and iPhone 4 announcement. We collected 11,418,600 tweets posted in the interval of301 from 4th March 2011 to 16th March and 2,319,874 tweets posted in the interval of from 1st June 2010 to 17th June 2010 by 438,464 users, which are mainly Japanese tweets, to know the dynamics in Twitter when Japan had huge earthquakes in 11th March 2011 and iPhone announcement in 7th June 2010.
DOI: 10.5061/dryad.7b253/1
title: Male call differences and female discrimination thresholds

description: excel file containing male call recordings, the analysis steps to compare call differences between nearest neighbour males, as well as female choice data that were the basis for determining female discrimination thresholds. Data file contains several sheets. Description of analysis and abbreviations given on the respective sheets.
DOI: 10.5061/dryad.c65d8/1
title: Rohwer etal_nest transplant data

description: Data for nest fate, number of young fledged, nest temperature and humidity, parental behaviour, incubation duration, ectoparasites, adult female and nestling corticosterone, and nestling growth rates for nests used in transplant experiments between a subarctic and temperate site.
DOI: 10.5061/dryad.cc0m7/1
title: APPENDIX S1

description: Appendix S1. Sample processing details.
DOI: 10.5061/dryad.cc0m7/2
title: APPENDIX S2

description: Appendix S2. Raw data set of all sporomorph counts. 'p' indicates taxa which are present within slides but not in counts. Sample heights provided.
DOI: 10.5061/dryad.cc0m7/3
title: APPENDIX S3

description: Appendix S3. Raw data set of all palynofacies counts. Sample heights provided.
DOI: 10.5061/dryad.cc0m7/4
title: APPENDIX S4

description: Appendix S4. Botanical affinities of sporomorphs. The ages (period) of deposits from which sporomorphs were recovered from are provided in the 'Reference' column. '-' indicates an unknown affinity or a lack of published information available. Adapted from Slater and Wellman (2015).
DOI: 10.5061/dryad.cc0m7/5
title: APPENDIX S5

description: Appendix S5. Non-metric multidimensional scaling axis scores of samples using relative abundance data (refers to Fig. 12A in the associated paper).
DOI: 10.5061/dryad.cc0m7/6
title: APPENDIX S6

description: Appendix S6. Non-metric multidimensional scaling axis scores of samples using presence-absence data (refers to Fig. 12B in the associated paper).
DOI: 10.5061/dryad.cj32g/5
title: Symmetrical_Mexico

description: Morphometric dataset for all Ligia individuals used in the study.
DOI: 10.5061/dryad.f48f5/1
title: Supporting data

description: Original data for winter and breeding survival, and biometrics at recapture, in blue tits that hatched from clutches that had been incubated in one of three biologically relevant incubation temperatures.
DOI: 10.5061/dryad.gh350/1
title: Intergenomic interactions between mitochondrial and Y-linked genes shape male mating patterns and fertility in Drosophila melanogaster

description: Data was collected in the lab and analysed using R. Code was the letter identifier for each mitochondrial/y line combination. mtDNA = mitochondrial type, mtDup = the mitochondrial duplicate, yDup = Y line dulicate, Coevolved = denotes if the mito Y combination is co-evolved or not co-evolved.
DOI: 10.5061/dryad.gr020/1
title: Data regarding the paper "Conservation tillage mitigates the negative effect of landscape simplification on biological control" (Tamburini et al. 2015)

description: The excel file contains data regarding 1) the preliminary aphid survey in the fields, 2) the predation index for each of the exclusion treatment combination, 3) abundance of ground-dwelling predators (carabids, rove beetles and cursorial spiders), 4) abundance of vegetation-dwelling predators (ladybirds, hoverfly larvae and web spiders), 5) parasitism rate, 6) landscape composition.
DOI: 10.5061/dryad.hf46s/10
title: Samples Identifier File

description: List of all samples used, with their sample codes and breed
DOI: 10.5061/dryad.hf46s/4
title: HapFLK Results

description: HapFLK genome-wide results, chromosomes 1 to 38
DOI: 10.5061/dryad.hf46s/5
title: iHS Results

description: Normalized iHS results for chromosomes 1, 3, 4, 5, 10, 11, 15, 27, and 32
DOI: 10.5061/dryad.hf46s/6
title: nSL Results

description: Normalized nSL results for chromosomes 1, 3, 4, 5, 10, 11, 15, 27, and 32
DOI: 10.5061/dryad.hf46s/7
title: H Results

description: H results for chromosomes 1, 3, 4, 5, 10, 11, 15, 27, and 32
DOI: 10.5061/dryad.hf46s/8
title: pi, Tajima's D, and H12 Results

description: pi, Tajima's D, and H12 results for chromosomes 1, 3, 4, 5, 10, 11, 15, 27, and 32, for window sizes of 25, 51, 101, and 201
DOI: 10.5061/dryad.hf46s/9
title: CLR Results

description: CLR results for chromosomes 1, 3, 4, 5, 10, 11, 15, 27, and 32
DOI: 10.5061/dryad.j10r6/1
title: 1.gene_alignments

description: This package contains: 1) alignments for mtDNA (Dloop, and cytb concatenated with Dloop), 2) unphased alignments for the five nuclear markers (1 sequence per individual), and 3) phased alignments for the five nuclear markers (2 sequences per individual).
DOI: 10.5061/dryad.jg34q/1
title: Reindl et al. GATTeB data (SPSS file)

description: SPSS file containing children's data (2-3.5 years) on the GATTeB collected in a behavioral experiment in different testing locations (nurseries, lab, science museum).
DOI: 10.5061/dryad.k6tq2/13
title: Single Gene Alignments

description: Trimmed alignments for all 1080 loci in FASTA format.
DOI: 10.5061/dryad.k6tq2/14
title: Taxonomic Descriptions

description: This spreadsheet contains taxonomic information on the species used in the present study.
DOI: 10.5061/dryad.k6tq2/15
title: Topology_tests

description: Results of Bayesian tests of topology carried out in MrBayes. Subfolder names correspond to alternative topologies tested. See Table 2 and manuscript text for explanations.
DOI: 10.5061/dryad.mv346/1
title: RH_thresholds

description: RH thresholds and spore release
DOI: 10.5061/dryad.mv346/2
title: RH_wind_stability

description: Micrometeorological data on RH, wind speed and stability