cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.t1p7c/21
title: Dataset 7.9 Spleen matrix.isoforms.counts

description: Dataset 7 contains the raw gene/transcript counts data for each frog tissue sample (Experiment B, n = 61) resulting from allocation of sequence reads to genes from the transcriptome assemblies. These data are contained in Dataset 7, as 12 individual tab-separated text files (.txt) [Data Citation 1]. The four files for each tissue type (skin, liver and spleen) represent raw (1) counts, (2) TMM.EXPR files, (3) TPM.not_cross_norm files, and (4) normalisation information (as per the standard output from RSEM). The first row of these files (1-3 above) represents frog ID, and the first element of all subsequent rows represents transcript/isoform ID.
DOI: 10.5061/dryad.t1p7c/22
title: Dataset 7.10 Spleen matrix.isoforms.TMM.EXPR

description: Dataset 7 contains the raw gene/transcript counts data for each frog tissue sample (Experiment B, n = 61) resulting from allocation of sequence reads to genes from the transcriptome assemblies. These data are contained in Dataset 7, as 12 individual tab-separated text files (.txt) [Data Citation 1]. The four files for each tissue type (skin, liver and spleen) represent raw (1) counts, (2) TMM.EXPR files, (3) TPM.not_cross_norm files, and (4) normalisation information (as per the standard output from RSEM). The first row of these files (1-3 above) represents frog ID, and the first element of all subsequent rows represents transcript/isoform ID.
DOI: 10.17632/mcw3bhc4yn.1
title: Data for: Regulation of hyaluronan biosynthesis and clinical impact of excessive hyaluronan production

description: This review addresses the molecular mechanisms that regulate hyaluronan biosynthesis at both transcriptional and posttranslational levels, as well as the roles of hyaluronan deficiency or overproduction in various diseases, such as multiple myeloma, aggressive breast carcinomas, metabolic diseases and virus infection. Such knowledge may be use to devise methods for diagnosis or treatment of diseases.
DOI: 10.5061/dryad.0n5f66n/1
title: Nouvelle base de données sur validation critères SpA VERSION 1
DOI: 10.5061/dryad.0n5f66n/2
title: Different subtypes of Spondyloarthritis in the  University  Hospital of Kinshasa and  Provincial General Hospital of Kinshasa
DOI: 10.5061/dryad.1q89d/1
title: Sinitsa, Nesin, Data Matrix for Gliridae genera

description: A total of 58 dental characters were scored with all characters equally weighted and treated as unordered. Skeletal characters were not included since cranial and postcranial remains are only known for three extinct taxa, namely G. majori (Vianey-Liaud 1989), V. pannonicus and putative Vasseuromys from St.-Gérand-le-Puy (Vianey-Liaud 1985). The best-known basal glirid Gliravus majori (Stehlin & Schaub, 1951) and primitive leithiine Oligodyromys planus Bahlo, 1975 from the late Rupelian of Heimersheim serving as the outgroup. Apart from V. tectus sp. now. from the late Miocene (late Tortonian) of Palievo in Ukraine the ingroup taxa include all the ten currently recognized species of Vasseuromys. These are: V. autolensis (Cuenca Bescos, 1985) from the early Miocene (early Aquitanian) of Autol 1, Spain; V. bacchius (Martínez-Salanova, 1987) from the early Miocene (late Aquitanian) of Fuenmayor 2, Spain; V. bergasensis Ruiz-Sánchez et al., 2014 from the latest Oligocene (late Chattian) of Bergasa, Spain; V. cristinae Ruiz-Sánchez et al., 2012a from the early Miocene (late Burdigalian) of Pico del Fraile 2, Spain; V. duplex Ünay, 1994 from the early Miocene (late Aquitanian) of Harami 1, Turkey; V. elegans Wu, 1993 from the early Miocene (middle Burdigalian) of Stubersheim 3, Germany; V. pannonicus from the late Miocene (late Tortonian) of Kohfidisch, Austria; V. priscus de Bonis, 1973 from the early Miocene (early Aquitanian) of Moissac 1, France; V. rambliensis Ruiz-Sánchez et al., 2012b from the early Miocene (middle Burdigalian) of Pico del Fraile 1, Spain; and the type species, V. rugosus Baudelot & de Bonis, 1966 from the early Miocene (early Aquitanian) of Laugnac, France. The type species of Ramys, R. multicrestatus (de Bruijn, 1966b) from the early Tortonian of Pedregueras 2A and R. perezi Álvarez-Sierra, 1986 from Ampudia 9 were also included in the analysis to test the monophyly of the concerned genus. Ramys gipanensis Nesin, 2004, a poorly-known species from the middle Tortonian of Mikhailovka 1 was not included in the analysis to minimize the impact of missing data on the present analysis. Microdyromys complicatus de Bruijn, 1966a from the late Langhian of Armantes 7/E and Microdyromys koenigswaldi de Bruijn, 1966a from the early Langhian of Valdemoros 3B/E serve as representatives of basal Glirinae, whereas Peridyromys murinus (Pomel, 1853) from the late Aquitanian of Langy/F serves as representative of basal Seleviniini. Gliruloides zhoui Wu et al., 2016, a putative Vasseuromys-related glirid from the late Oligocene of Tieersihabahe and Saerduoyila assemblages of northern Junggar Basin was included in the analysis to clarify its systematics. The ingroup also includes extant species of Leithiinae (Dryomys nitedula, Myomimus roachi) and Glirinae (Grirulus japonicus) to assess the position of Vasseuromys and some other fossil taxa (Gliruloides, Ramys) with respect to these potentially related genera.
DOI: 10.5061/dryad.1q89d/2
title: Sinitsa_Nesin_Appendix S1

description: Characters for phylogenetic analysis.
DOI: 10.5061/dryad.1q89d/3
title: Sinitsa_Nesin_Appendix S2

description: Character-taxon matrix used for phylogenetic analysis. A, (01); B, (12); C ,(23)
DOI: 10.5061/dryad.1qt0k/10
title: Probes for Anchored Hybrid Enrichment

description: Alignments and probe sequences used for anchored hybrid enrichment of anurans. Alignments are labeled by locus number and include sequences for Xenopus tropicalis (ind 1), Pseudacris feriarum (ind 2), Pseudacris nigrita (ind 3), Rana sphenocephala (ind 4). The 120-bp probe sequences and associated names are provided in "Amp2_XenRanNigFer.txt" and the key file associates the probe name with the locus number, species (ind 1-4), and site within the alignment.
DOI: 10.5061/dryad.1qt0k/12
title: ASTRAL2_Locus-Selection

description: Gene trees and output files from Astral species tree analyses. Loci were ranked based on informative sites and bootstrap support, and analyses were conducted with the "best" 20, 40, 80, 160, and all loci, as well as all loci removing outliers based on tree distance.
DOI: 10.5061/dryad.1qt0k/13
title: SVDQuartets

description: Input files and resulting trees from SVDQuartets species tree analyses.
DOI: 10.5061/dryad.1qt0k/14
title: Supporting Information

description: Supporting information including supplementary methods on probe design and supplementary tables and figures.
DOI: 10.5061/dryad.1qt0k/9
title: Phylogeographic Concordance Factor analyses

description: Phylogeographic Concordance Factor analyses and results.  Includes SNAPP results for nuclear datasets, *BEAST results for mitochondrial datasets, (4-region and 5-region models for each), and PCF results.  Note that Lithobates sphenocephalus (Lsp) = Rana sphenocephala.
DOI: 10.5061/dryad.212q7/1
title: Dataset for Microbial Mitigation-Exacerbation Continuum

description: Germination and biomass data
DOI: 10.5061/dryad.22796f6/1
title: Egernia stokesii MHC I and II genotypes and alleles 2012-13

description: Egernia stokesii were sampled across three populations in the Flinders Ranges of South Australia during the Austral summer of 2012-13. The data file contains genotypes for 66 lizards for MHC I (35 alleles) and 34 lizards for MHC II (5 alleles).
DOI: 10.5061/dryad.22796f6/2
title: Egernia stokesii microsatellite genotypes 2012-13

description: Egernia stokesii were sampled across three populations in the Flinders Ranges, South Australia during the Austral summer of 2012-13. The data file contains microsatellite genotypes (11 loci) for 66 lizards.
DOI: 10.5061/dryad.286gn/10
title: FIGS2

description: Divergence time estimations for subtribe Panicinae. Maximum clade credibility (MCC) tree of Panicoideae obtained from BEAST analyses with ndhF sequences using the uncorrelated lognormal relaxed clock model and secondary calibrations based on external angiosperm fossils together with the phytolith microfossils of Poaceae (calibration scheme 2, see materials and methods). Only subtribe Paniceae is shown in detail; for the remaining clades see Fig. S1. Posterior probabilities ≥ 0.9 are shown on the branches and horizontal bars on the nodes indicate the 95% HPD of ages. Vertical bars indicate sections within Panicum. Paniceae 1 refers to tribe Paniceae excluding subtribes Cenchrinae, Melinidinae, and Panicineae. Mya, million years ago; Pli, Pliocene; Plei, Pleistocene. Results from divergence time estimation based only on external angiosperm fossils calibration are shown in Fig. 2.
DOI: 10.5061/dryad.286gn/11
title: FigS3

description: Ancestral range estimation (ARE) on the Panicinae chronogram using the BayArea+J model in BioGeoBEARS. Pie charts at nodes show the relative probability of the possible states (areas or combination of areas) before the instantaneous speciation event, whereas those on branches represent probability of the descendant lineage immediately after speciation. Boxes to the left of taxon names indicate areas of tip species.
DOI: 10.5061/dryad.286gn/12
title: Table S1

description: Areas and dispersal probabilities used in BioGeoBEARS analyses of subtribe Panicinae.
DOI: 10.5061/dryad.286gn/13
title: TableS2

description: Number of biogeographical events estimated in the history of the subtribe Panicinae using biogeographical stochastic mapping. Event counts were averaged across 1000 BSMs and are presented here with the standard deviations in parentheses. Total event counts are given for range-expansion events (anagenetic dispersal) (a), founder events (cladogenetic dispersal) (b), and Sympatry speciation events (c).
DOI: 10.5061/dryad.286gn/7
title: Panicinae_CAL1_MCCT_BEAST_Pruned

description: Maximum clade credibility (MCC) tree of Panicoideae obtained from BEAST analyses with the ndhF sequences, using the uncorrelated lognormal relaxed clock model and secondary calibrations based only on external angiosperm fossils (calibration scheme 1); and pruned to include only the subtribe Panicinae. This tree was used in the biogeographic analyses with the package BioGeoBEARS 0.2.1
DOI: 10.5061/dryad.286gn/8
title: Panicinae(BEAST)CAL1_1000trees

description: 1000 trees randomly subsampled from the posterior distribution of chronograms obtained in BEAST analyses under the calibration scheme 1, and pruned to include only the subtribe Panicinae. These trees were used in the analyses of the evolution of life history in the subtribe Panicinae.
DOI: 10.5061/dryad.286gn/9
title: FIGS1

description: Maximum clade credibility (MCC) tree of Panicoideae obtained from BEAST analyses with the ndhF sequences, using the uncorrelated lognormal relaxed clock model and secondary calibrations based on external angiosperm fossils together with the phytolith microfossils of Poaceae (calibration scheme 2, see materials and methods). Red boxes indicate phylogenetic placement of Panicum species recovered outside subtribe Panicinae. Posterior probability ≥ 0.9 are shown on the branches and horizontal bars on the nodes indicate the 95% HPD of ages. Subtribe Panicinae are shown in detail in Fig. S2. Mya, million years ago; Pli, Pliocene; Plei, Pleistocene. Results from divergence time estimation based only on external angiosperm fossils calibration are shown in Fig. 1.
DOI: 10.5061/dryad.4g48r/1
title: KraftBE_Data

description: This file contains the raw data.  Data for state variables (which have durations) is expressed in milliseconds. Data for behavioral events are expressed as integer counts.
DOI: 10.5061/dryad.4tq73/1
title: ultrasound_data_deidentified_2015_may

description: De-identified raw data transcribed from data collection forms.  This file is fully cleaned by and analyzed by Stata .do and .ado files included in the "ultrasound_do_files" and "ultrasound_ado_files" zips. See READ ME for further details.
DOI: 10.5061/dryad.4tq73/2
title: ultrasound_do_files

description: This zip file contains all Stata .do files required to clean and analyze the raw data file and to produce the tables in the manuscript. See the README for instructions on how to run them on your machine.
DOI: 10.5061/dryad.4tq73/3
title: ultrasound_ado_files

description: These supplementary .ado files are required by some of the .do files, and should be placed in the same folder as the .do files.
DOI: 10.5061/dryad.4vh37hn/1
title: analyses of pilferage among years and species

description: analyses of pilferage among years and species
DOI: 10.5061/dryad.4vh37hn/2
title: Fate among years and species and relationship between pilferage and seed fates

description: Scatter-hoarding and lader-hoarding among years and species, and relationship between pilferage and seed fates.
DOI: 10.5061/dryad.4vh37hn/3
title: storagetime among years and species

description: Survival time of cached seeds among years and species, and the relationship between pilferage and seed survival time.
DOI: 10.5061/dryad.5sk60/1
title: Male clonal recog data- Dryad

description: Raw data for male and female preferences in Poecilia latipinna and Poecilia formosa
DOI: 10.5061/dryad.64149/3
title: Raw.Data.1940.thalli.119.locations

description: Raw data for 1940 lichen thalli from 119 sampling locations across Europe
DOI: 10.5061/dryad.6fj3v/1
title: Supplementary Data

description: This file contains supplementary data for the manuscript. The images herein are also included below in .tif format.
DOI: 10.5061/dryad.6fj3v/2
title: XRD diffractogram of water based synthesis

description: XRD diffractogram of water based synthesis. Corresponds to figure (a) in the supplementary data document.
DOI: 10.5061/dryad.6fj3v/3
title: XRD diffractogram of DMF based synthesis

description: XRD diffractogram of DMF based synthesis. Corresponds to figure (b) in the supplementary data document.
DOI: 10.5061/dryad.6fj3v/4
title: XRD diffractogram of THF based synthesis

description: XRD diffractogram of THF based synthesis. Corresponds to figure (c) in the supplementary data document.
DOI: 10.5061/dryad.8bk0rf3/1
title: Hystrix@NWA_DRYAD-DATA

description: metadata README file describing each data file for DRYAD submission to accompany Underwood et al (Submitted to Molecular Ecology 2018) Genetic signatures through space, time and multiple disturbances in a ubiquitous brooding coral
DOI: 10.5061/dryad.8bk0rf3/2
title: Underwood_hystrix@NWA_DRYAD-DATA_coral-cover

description: includes data on % percentage coral cover of Seriatopora corals at each site at Scott Reef
DOI: 10.5061/dryad.8bk0rf3/3
title: Underwood_hystrix@NWA_DRYAD-DATA_genotypes

description: includes microsatellite genotypes of all genets of S. hystrix from northwest Australia in GenAlex format
DOI: 10.5061/dryad.8bk0rf3/4
title: Underwood_hystrix@NWA_DRYAD-DATA_mtDNA-haplotypes

description: includes GenBank Accession Numbers for new mtDNA sequences for S. hystrix individuals from northwest Australia
DOI: 10.5061/dryad.8bk0rf3/5
title: Underwood_hystrix@NWA_DRYAD-DATA_site-coords

description: includes latitude and longitude in decimal degrees of each site, region, system and Reef of S. hystrix collections
DOI: 10.5061/dryad.9bb60/1
title: DeSimone et al dataset 2014-2016 grouped by nest

description: These are data on tree swallows and their associated blowfly parasites, in which each row represents one nest.  One sheet includes the data, the other sheet includes the descriptions of variables.
DOI: 10.5061/dryad.9bb60/2
title: DeSimone et al dataset 2014-2016 grouped by nestling

description: These are data on tree swallows and their associated blowfly parasites, in which each row represents one nestling.  One sheet includes the data, the other sheet includes the descriptions of variables.
DOI: 10.5061/dryad.hq301/1
title: Leaf defenses and plant growth

description: Data on concentration of total leaf phenolics and plant growth (diameter at breast height) for six species of tropical trees planted at the UADY Tree Diversity Experiment in southern Mexico.
DOI: 10.5061/dryad.m8t72.1/3.1
title: Sequence Raw Data - Part 3

description: Third part of a file containing the raw illumina sequencing data regarding Tadarida teniotis diet described in Mata et al.
DOI: 10.5061/dryad.m8t72.1/5.1
title: Sample Sheet

description: Sample sheet of the illumina sequencing data regarding Tadarida teniotis diet described in Mata et al.
DOI: 10.5061/dryad.m8t72/6
title: Diet analysis dataset

description: Data used for analysis. Contains all the prey identified in the diet per sample, as well as the characteristics of the prey and the samples.
DOI: 10.5061/dryad.qb5j6/1
title: MATLAB_FS_Movie_Database

description: .zip package containing .mat files with all the tracking data and derivatives - for all high-speed movies analyzed using the FishTracker. See the included Readme files for further details.
DOI: 10.5061/dryad.qb5j6/2
title: Derived_data_angles_headings

description: Excel-file that contains the derived data from the Fishtracker MATLAB program (Voesenek et al., 2016). See the included Readme files for further details.
DOI: 10.5061/dryad.r9n52/1
title: Point sampling data

description: Data generated from point-sampling aerial imagery to obtain an estimate of seagrass cover over time
DOI: 10.5061/dryad.r9n52/2
title: Balgowlah shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Balgowlah' (BG) in Sydney Harbour
DOI: 10.5061/dryad.r9n52/3
title: Barrenjoey Head Shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Barrenjoey Head' (BH) in Pittwater
DOI: 10.5061/dryad.r9n52/4
title: Burraneer Bay Shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Burraneer Bay' (BB) in Port Hacking
DOI: 10.5061/dryad.r9n52/5
title: Dolans Bay Shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Dolans Bay' (DB) in Port Hacking
DOI: 10.5061/dryad.r9n52/6
title: Gunnamatta Bay Shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Gunnamatta Bay' (GB) in Port Hacking
DOI: 10.5061/dryad.r9n52/7
title: Kurnel East Shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Kurnell East' (KE) in Botany Bay
DOI: 10.5061/dryad.r9n52/8
title: Kurnel West Shapefiles

description: Shapefiles and images for the Posidonia australis meadow located at site 'Kurnell West' (KW) in Botany Bay
DOI: 10.5061/dryad.t04k1/1
title: Materials and General Methods

description: A general description of the methods and materials used for prepare the photoelectrode and the dye sensitized solar cell as well.
DOI: 10.5061/dryad.t1p7c/23
title: Dataset 7.11 Spleen matrix.isoforms.TPM.not_cross_norm

description: Dataset 7 contains the raw gene/transcript counts data for each frog tissue sample (Experiment B, n = 61) resulting from allocation of sequence reads to genes from the transcriptome assemblies. These data are contained in Dataset 7, as 12 individual tab-separated text files (.txt) [Data Citation 1]. The four files for each tissue type (skin, liver and spleen) represent raw (1) counts, (2) TMM.EXPR files, (3) TPM.not_cross_norm files, and (4) normalisation information (as per the standard output from RSEM). The first row of these files (1-3 above) represents frog ID, and the first element of all subsequent rows represents transcript/isoform ID.
DOI: 10.5061/dryad.t1p7c/24
title: Dataset 7.12 Spleen matrix.isoforms.TPM.not_cross_norm.TMM_info

description: Dataset 7 contains the raw gene/transcript counts data for each frog tissue sample (Experiment B, n = 61) resulting from allocation of sequence reads to genes from the transcriptome assemblies. These data are contained in Dataset 7, as 12 individual tab-separated text files (.txt) [Data Citation 1]. The four files for each tissue type (skin, liver and spleen) represent raw (1) counts, (2) TMM.EXPR files, (3) TPM.not_cross_norm files, and (4) normalisation information (as per the standard output from RSEM). The first row of these files (1-3 above) represents frog ID, and the first element of all subsequent rows represents transcript/isoform ID.
DOI: 10.5061/dryad.t1p7c/25
title: Dataset 9 Metabolomics results data

description: Dataset 9 contains the metabolite accumulation data from skin and liver tissues for each frog from Experiment B (n = 61). These data have been scaled by dividing by the summed ion signal (total ion chromatogram). These data are contained as a single comma-separated file (.csv format) in Dataset 9 [Data Citation 1], with full descriptions of the column headers (and associated analyte data) contained in the associated readme file. Please see the associated metadata records in Supplementary File 1 for full details of study subjects and tissue samples collected for the metabolomics work.
DOI: 10.5061/dryad.vg089/1
title: Phenotypic data and indices of associated biotic communities for each focal plant

description: See readme file for description of each field.
DOI: 10.5061/dryad.vg089/2
title: Arthropod_counts_by_samplingevent_plant

description: Arthropod counts by taxon by sampling event. All fields self-explanatory, except "species_identifier", which refers to the unique numeric identifier given to a morphospecies
DOI: 10.5061/dryad.vg089/4
title: File mapping morphospecies to putative ecological guild
DOI: 10.5061/dryad.vg41250/1
title: Borgström et al_2018_data

description: Nematode and plant abundance data for experiment investigating the joint impacts of nitrogen and insect herbivory on grassland ecosystems.
DOI: 10.5061/dryad.0n5f66n/3
title: Demographic and clinical features of patients with axial Spondyloarthritis
DOI: 10.5061/dryad.12q6c78/1
title: Data
DOI: 10.5061/dryad.1h988/1
title: Male choice and female coloration
DOI: 10.5061/dryad.2tg34/1
title: Figure S1 - Partitioning Isoptera final

description: Figure S1. Partitioning the phylogeny of Dictyoptera into evolutionary scenarios. The null scenario is the entire dictyopteran tree. Then each time an evolutionary scenario is created, it consisted into a subclade and the rest of the tree composed of all dictyopterans without the subclade (i.e. here called the backbone). The numbers at nodes denotes all seven subclades. The first scenario excludes the entire termite (Isoptera, node 1). The second scenario excludes the Euisoptera (node 2). The third scenario excludes the Kalotermitidae + Neoisoptera (node 3). The fourth scenario excludes the Neoisoptera (node 4). The fifth scenario excludes the Neoisoptera minus the subfamily Rhinotermitinae (node 5). The sixth scenario excludes the Termitidae + Coptotermitinae + Heterotermitinae (node 6). The seventh scenario excludes the family Termitidae (node 7).
DOI: 10.5061/dryad.2tg34/14
title: Figure S12 - MuSSE hindgut microbiota rates Macrotermitinae

description: Results for the MuSSE analyses with the Macrotermitinae re-coded with ‘lower’ termites, due to their simple hindgut structure, along with plots of the differences in rates computed from the MCMC analyses using the best MuSSE model. The compound figure shows: 1) the differences between speciation rates as made by pair comparisons; 2) the differences between extinction rates; and 3) the differences between net diversification rates. Only the lineages with a complex hindgut structure have a significant different net diversification rates (i.e. no posterior distribution overlaps with the red line). Eusocial lineages with a complex hindgut structure diversified faster than other lineages (eusocial and non-eusocial organisms with simple hindgut structure)
DOI: 10.5061/dryad.2tg34/15
title: Figure S7 - Differences BiSSE MCMC

description: Differences between speciation (a), extinction (b), and net diversification rates (c), computed from the MCMC analyses using the best BiSSE model. No posterior distribution overlaps with the red line, indicating that the differences between all rates are significant. Eusocial lineages diversified faster than non-eusocial lineages.