cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.89nj3/1
title: Baseline data for all volunteers in study

description: As reported in Table 1
DOI: 10.5061/dryad.89nj3/2
title: Experiment_Figure_2

description: As reported in Figure 2 - relationship between the carbon score of alveolar macrophages from volunteers and the macrophage function: oxidative burst; proteolysis; phagocytosis. Activity indices are calculated as described in the manuscript.
DOI: 10.5061/dryad.89nj3/3
title: Experiment_Figure_3

description: As reported in Figure 3 - the effect of pre-existing (in vivo) alveolar carbon exposure with subsequent (in vitro) wood smoke particulate exposure
DOI: 10.5061/dryad.89nj3/4
title: Experiment_Figure_4

description: As reported in Figure 4 - the effect of in vitro exposure of alveolar macrophages to BSO 0.2mM as measured by total and oxidised glutathione concentrations in the cell lysate
DOI: 10.5061/dryad.8n2f4/1
title: Data of soil core experiment

description: First three headers contain sample and treatment descriptors (ID, and the two factors; litter age, old_litter=y means old litter, n=new litter, and turning, turned=y means turned cores, n=static cores). All other headers describe various measured response variables that are self-explanatory in combination with the paper.
DOI: 10.5061/dryad.8sp95/1
title: Evisonetal_2015_JEB

description: Survival data and spore counts
DOI: 10.5061/dryad.968t3/4
title: Online Appendix of Least Square Dating article (LSD, To et al. Syst Biol 2015)

description: This Online Appendix contains the detailed description of our algorithms and their properties, and additional figures and tables.
DOI: 10.5061/dryad.9j850/1
title: C. elegans slug invasion experiment

description: Experimental analysis of the model nematode C. elegans to invade and persist slug intestines. Field-collected slugs of the genus Arion were exposed to red fluorescent nematodes to find out whether C. elegans can be taken up by the slugs and then survive the slug's intestines. The table shows the original data, including the week of the slug experiment; the day after exposure when the slug was analysed; the part of the slug, which was checked (either intestine or the remainder of the body); the developmental stage of the nematode found in or on the slug; the worm count category (0=0 worms; 1=1-10; 2=11-30; 3=31-50; 4&gt;50) for either the red fluorescent C. elegans (labelled IS274), non-red-fluorescent Caenorhabditis worms, and also other nematodes.
DOI: 10.5061/dryad.9j850/2
title: C. elegans-slug feces experiment

description: Experimental analysis of the ability of the model nematode to survive the passage of Arion slugs and be excreted with the slug feces. Single slugs of the genus Arion (first column of table) were exposed to red fluorescent C. elegans (labelled IS274). After defined hours of initial exposure (second column of table), the feces of the slugs were collected (third column of table) and inspected for the presence of the red fluorescent nematodes. The table shows the worm count categories, ranging from 0 (=0 worms), 1 (=1-10 worms), 2 (=11-30 worms), 3 (=31-50 worms), to 4 (&gt;50 worms).
DOI: 10.5061/dryad.b2c23/1
title: Full general simulation R script

description: Simulation model R script.  Includes host-parasite encounter for different infective stage aggregation levels, condition-linked immunity (CLI)/removal of parasites, deaths of lowest condition hosts, and generalized linear models analyzing host condition-parasitism relations at the population and sample level.  Data output from running the model is approximately 1.4 GB.
DOI: 10.5061/dryad.d5p60.2/10.2
title: Movie 9

description: Shows posterior view from stage 12 to stage 18.  30.5 hours elapsed time.  Shows posterior neural tube closure, and the enclosure of the blastopore within it.  8 min per frame, 15 frames per second. Scale bar is 1 mm.
DOI: 10.5061/dryad.d5p60.2/11.2
title: Confocal Stack 1

description: An overview of the region around the dorsal blastopore lip and vegetal pole, dorsal at the top left, ventral at the bottom.  Stack progresses from mid-sagittally fractured face to lateral.  Shows that most of the larger vegetal endodermal cells have already involuted (in addition to one abnormally large cell), and that the tissues involuting around the dorsal lip are interdigitated, with no discrete epithelial layer.  Confocal slices are 17 μm apart.
DOI: 10.5061/dryad.d5p60.2/12.2
title: Confocal Stack 2

description: The lateral blastopore lip, from the parasagittally fractured face to lateral.  Animal to the upper right, vegetal to the lower left.  Shows that the tissue involuting around the lip is 2-3 cell layers thick, interdigitated, with no discrete epithelial layer.  Confocal slices are 7 μm apart.
DOI: 10.5061/dryad.d5p60.2/13.2
title: Confocal Stack 3

description: Same embryo as in Confocal 2, centered more vegetally, and progressing further laterally.  Shows that the entire vegetal endoderm is now internal, with the “vegetal” surface of the embryo being covered by cells that are much smaller than the initial vegetal endoderm cells, which can be seen inside the embryo.  Confocal slices are 7 μm apart.
DOI: 10.5061/dryad.d5p60.2/7.2
title: Movie 6

description: Shows gastrulation from approx. stage 11 to 13 (45 hours elapsed time), showing the inversion of the blastopore. This movie is comprised of time-lapse sequences of two different embryos, spliced together (between frame 61 and 62) to give a more complete view of gastrulation. 10 minutes per frame, 15 fps. Scale bar is 1 mm.
DOI: 10.5061/dryad.d5p60.2/8.2
title: Movie 7

description: Shows gastrulation from late stage 11 through neurulation from a posterior view (74 hours elapsed time). Shows inversion of the blastopore and it’s enclosure at the posterior end of the neural folds.  10 minutes per frame, 15 fps. Scale bar is 1 mm.
DOI: 10.5061/dryad.d5p60.2/9.2
title: Movie 8

description: Shows an anterior view of gastrulation from stage 13 through stage 20.  48.4 hours elapsed time.  Spinning due to ciliary flow begins near end of movie. 8 minutes per frame, 15 fps. Scale bar is 1 mm.
DOI: 10.5061/dryad.dv0qt.1
title: Data from: The effect of trait type and strength of selection on heritability and evolvability in an island bird population
DOI: 10.5061/dryad.dv0qt.2/1.2
title: Explanation of phenotypic traits for Savannah sparrows
DOI: 10.5061/dryad.dv0qt.2/2.2
title: Phenotypic traits for female Savannah sparrows
DOI: 10.5061/dryad.dv0qt.2/3.2
title: Phenotypic traits for male Savannah sparrows
DOI: 10.5061/dryad.dv0qt.2/4.2
title: SAVS pedigree
DOI: 10.5061/dryad.k7c64/1
title: Alternative reproductive tactics in female striped mice - primary field data
DOI: 10.5061/dryad.k7c64/2
title: Multiply imputed data set 1
DOI: 10.5061/dryad.k7c64/3
title: Multiply imputed data set 2
DOI: 10.5061/dryad.p3c75/2
title: StandardNetwDryad

description: Network-level characteristics for the standardized networks
DOI: 10.5061/dryad.p3c75/3
title: GuildDryad

description: Degree and d' for each insect species in the study networks
DOI: 10.5061/dryad.p3c75/4
title: FamiliPlantsDryad

description: Degree and d' for the plant species in the study networks
DOI: 10.5061/dryad.pj073/1
title: Linearisation Data

description: Measurements of grey standards taken by cameras and spectroradiometers to determine how linear the camera response is.
DOI: 10.5061/dryad.pj073/2
title: Cone Catch Colour Testing Photos

description: Photographs of colour samples (colour pastels) of known reflectance used to compare spectrometer and camera cone-catch estimates between cameras and spectrometer. .mspec files are included for compatibility with the image analysis toolbox.
DOI: 10.5061/dryad.pj073/3
title: Pastel Reflectance Spectra

description: Reflectance spectra of the colour pastels used as colour samples.
DOI: 10.5061/dryad.pj073/4
title: Image Analysis Toolbox user guide

description: This is the original user guide that may become obsolete as the toolbox is improved. Please see www.jolyon.co.uk or www.sensoryecology.com for the latest version.
DOI: 10.5061/dryad.pn10j/1
title: Experiment 1 (glochidia infections)

description: Raw data from Experiment 1 (glochidia infections), see Readme file for details
DOI: 10.5061/dryad.pn10j/2
title: Experiment 2 (mussel choice)

description: Data from mussel behavioral discrimination experiment
DOI: 10.5061/dryad.pn10j/3
title: Experiment 3a (impact on Danubian fish)

description: experimental data on population impacts of A. woodiana invasion for Danubian populations of R. amarus
DOI: 10.5061/dryad.q0pv7/1
title: ABU baseline

description: Data of baseline/pre-intervention period
DOI: 10.5061/dryad.q0pv7/2
title: ABU intervention

description: Comparison baseline to intervention
DOI: 10.5061/dryad.q3hs1/1
title: Guerra2015HDY_qPCR

description: This Excel file contains the Cq values obtained for every target in each sample analyzed. From the Cq values, ratios for each target were obtained using relative quantification methods (please refer to the ReadMe file for details).
DOI: 10.5061/dryad.qm1v0/10
title: All_genes_Tree

description: Aphidiinae (Hymenoptera) Maximum Likelihood Tree based on these seven genes: Cytochrome c oxidase I, Cytochrome B, rRNA 16S, rRNA 28S, Long wavelength Rhodopsin, Arginine Kinase and Elongation factor 1 α.
DOI: 10.5061/dryad.qm1v0/8
title: LWRh

description: Long wavelength Rhodopsin alignement: (Hymenoptera: Aphidiinae)
DOI: 10.5061/dryad.qm1v0/9
title: COI_Tree

description: COI Tree: (Hymenoptera: Aphidiinae)
DOI: 10.5061/dryad.rp7qv.1
title: Data from: Maximum likelihood inference of small trees in the presence of long branches
DOI: 10.5061/dryad.rp7qv.2
title: Data from: Maximum likelihood inference of small trees in the presence of long branches
DOI: 10.5061/dryad.rp7qv.2/6.2
title: Supplementary Methods - 3rd Revision
DOI: 10.5061/dryad.rp7qv.2/7.2
title: Supplementary Figures - 2nd Revision
DOI: 10.5061/dryad.v46f0/1
title: Mitochondrial cytochrome oxidase subunit II (COII) alignment

description: Aligned nucleotide sequences of the mitochondrial cytochrome oxidase subunit II genes of higher termites
DOI: 10.5061/dryad.v46f0/2
title: Phylogenetic tree of higher termites based on the COII gene

description: Maximum likelihood phylogenetic tree of mitochondrial cytochrome oxidase subunit II genes from higher termites.
DOI: 10.5061/dryad.v46f0/4
title: Distribution of OTUs among the bacterial gut communities in higher termites

description: Table summarizing the distribution of operational taxonomic units defined at 99% sequence similarity of the 16S rRNA gene among the samples.
DOI: 10.5061/dryad.46pb3/1
title: Landscape characteristics associated with livestock farms in the United States

description: This data describes the environmental or anthropogenic features occurring at locations where livestock farms are either present or absent in the conterminous United States. The spatial coordinates of locations have been removed so they do not contain any personally identifiable information. Please see accompanying ReadMe file for definitions of field names.
DOI: 10.5061/dryad.4gh70/1
title: Genotype and phenotype primary data

description: Files include genotype (*_gens.ped & *_gens.map) and phenotype (*_phens.txt) for the GWAS and single marker association analysis (SMA). In GWAS file,  the alleles are recoded as 1 and 2. In SMA file, a total of nine mutations were genotyped. All missing data of genotype files are recoded as 0, and missing data of phenotype files as NA.
DOI: 10.5061/dryad.4mp00/1
title: NGS resolution of Core Goodeniaceae data files

description: See "Dryad Description" file inside zip folder.
DOI: 10.5061/dryad.6g9b7/1
title: Al Hayek et al. - DataArchiving
DOI: 10.5061/dryad.7950f/1
title: Species Names

description: Names for all the species in both experiments and the abbreviated name found in the other data files.
DOI: 10.5061/dryad.7950f/2
title: Recruitment Observations

description: Data for observational recruitment surveys in 2010 and 2012. Each row are the number of Saccharina sessilis recruits found on the substrate listed in the "Substrate" column, within a 0.25 cm2 quadrat.
DOI: 10.5061/dryad.7950f/3
title: Regional Interaction Experiment

description: Data for the regional interaction experiment (2008-2009). Each row is a single experimental plot, identified by Site, Cape, Treatment ("Trt") and the replicate ("Rep). Following these 4 plot identifiers are the estimated abundance of each species in plot at the end of the experiment (2009).
DOI: 10.5061/dryad.7950f/4
title: Wave Exposure Experiment

description: Data from the wave exposure experiment (2012-2013). Unlike regional interaction experiment, these data are repeated measures, where the abundance of species was measured at each time point listed in "Date". After 8 plot identifiers (using the same categories as in the regional interaction experiment), the abundance of each species is listed in wide format.
DOI: 10.5061/dryad.89nj3/5
title: Experiment_Figure_5

description: As reported in Figure 5 - The effect of woodsmoke particulates and LPS on ex vivo alveolar macrophages as measured by cytokine release into the cell culture supernatant by multiplex ELISA
DOI: 10.5061/dryad.9kb02/2
title: Complete genotype data_385individuals_300loci
DOI: 10.5061/dryad.b2hc1/1
title: Reads from HEK293-GFP-PBwt mapped to hg19+pb-ef1_neo.

description: Reads obtained from sequencing FLEA PCR products to amplify transposon reporter insertions in sample HEK293-GFP-PBwt, mapped to a hybrid genome consisting of hg19 and the reporter plasmid sequence. Reads were mapped with bwa-mem using default parameters.
DOI: 10.5061/dryad.b3bn2/1
title: Data for Mouse Phenome Database_Reed_Bachmanov_June_2015

description: Contains body composition data for consomic mice
DOI: 10.5061/dryad.cg5vp/1
title: Purves_main data

description: Main data file for Purves et al. Does white tail patch size indicate quality in male Cerulean Warblers (Setophaga cerulea)?
DOI: 10.5061/dryad.cg5vp/2
title: Purves_24 male subset

description: Tail white data for subsample of 24 males.
DOI: 10.5061/dryad.cg5vp/3
title: Purves_museum data

description: Data from Royal Ontario Museum specimens for right and left tail white comparison.
DOI: 10.5061/dryad.cg5vp/4
title: Purves_parasitemia data

description: Data for parasitemia repeatability calculation.
DOI: 10.5061/dryad.cg5vp/5
title: Purves_R code

description: R code for main analyses.
DOI: 10.5061/dryad.d5p60.1
title: Data from: Normal table of embryonic development in the four-toed salamander, Hemidactylium scutatum
DOI: 10.5061/dryad.f0090/1
title: data for culturally-transmitted neophobia

description: Tabs are data for conditioning and testing trials.
DOI: 10.5061/dryad.hm2jf/1
title: S. cerevisiae whole-genome SNP alignment

description: This is a gzip/tar compressed data archive containing the concatenated SNP alignment of S. cerevisiae. SNP alignments for each chromosome are also provided, together with the corresponding list of SNP positions.
DOI: 10.5061/dryad.hm2jf/2
title: S. cerevisiae (large dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure S3

description: This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the large dataset with S. paradoxus as outgroup, related to Figure S3. SNP alignments for each chromosome are also provided, together with the corresponding list of SNP positions.
DOI: 10.5061/dryad.hm2jf/3
title: S. cerevisiae (restricted dataset) whole-genome SNP alignment with outgroup S. paradoxus, related to Figure 3

description: This is a gzip/tar compressed data archive containing the concatenated SNP alignment of the restricted dataset with S. paradoxus as outgroup, related to Figure 3. SNP alignments for each chromosome are also provided, together with the corresponding list of SNP positions.
DOI: 10.5061/dryad.hm2jf/4
title: Structure input file used in Figure 2A

description: This is a gzip/tar compressed data archive containing the input file used to run Structure v2.3.4 (Pritchard et al. 2000), related to figure 2A. A list file with the positions of the parsimony informative sites used is also provided.
DOI: 10.5061/dryad.hm2jf/5
title: FineStructure input files used in Figure 2B

description: This is a gzip/tar compressed data archive containing the idfile, phase and recombination input files used to run FineSTRUCTURE Version 2.0.2 (Lawson et al. 2012), related to Figure 2B.
DOI: 10.5061/dryad.hm2jf/6
title: Raw results from VariScan, related to Table 3

description: This is a gzip/tar compressed data archive containing the results of Variscan v2.0 (Hutter et al. 2006) for the whole-genome alignments considered, related to Table 3.
DOI: 10.5061/dryad.hm2jf/7
title: dadi input file used to infer demographic history of Wine and MO populations

description: The joint allele frequency spectrum of Wine and Mediterranean oak (MO) populations used as input to run the demographic inference in dadi (Gutenkunst et al. 2009). Populations are defined as in the comment lines at the beginning of file.
DOI: 10.5061/dryad.j91v7.2
title: Data from: No enhancement of 24-hour visuomotor skill retention by post-practice caffeine administration
DOI: 10.5061/dryad.j91v7.2/10.2
title: Hussain&Cole2015_complexwaveform

description: This data file includes the force values for the complex waveform. This waveform was used to calculate RMSE between the depicted waveform and subject's tracking performance. The force values used for this calculation are in column three of this file.
DOI: 10.5061/dryad.j91v7.2/11.2
title: Hussain&Cole2015_AnalyzeTracking_new

description: This file includes a MATLAB analysis code that calculates root mean square error (RMSE) for each subject's tracking trajectory compared to the complex waveform. This code also calculates means and standard deviations for each subject for each block of practice.
DOI: 10.5061/dryad.j91v7.2/4.2
title: Hussain&Cole2015_CaffeineIntakeSurvey

description: This file includes the caffeine intake survey subjects completed.
DOI: 10.5061/dryad.j91v7.2/5.2
title: Hussain&Cole2015_CaffeineIntakeSurvey_KEY

description: This file includes the corresponding amounts of caffeine (estimated) in each item listed on the caffeine intake survey.
DOI: 10.5061/dryad.j91v7.2/6.2
title: Hussain&Cole2015_listoftrialstoremove

description: This file contains a list of trials that should be removed during analyses (i.e., data collection errors occurred during these trials).
DOI: 10.5061/dryad.j91v7.2/8.2
title: Hussain&Cole2015 Processed Data

description: This file includes all processed data (means, SDs, rate values, subject characteristics).
DOI: 10.5061/dryad.j91v7.2/9.2
title: Hussain&Cole2015_exponentialfits

description: This file includes all parameters from exponential fitting with the least-squares method.
DOI: 10.5061/dryad.k7c64/11
title: Multiply imputed data set 10
DOI: 10.5061/dryad.k7c64/4
title: Multiply imputed data set 3
DOI: 10.5061/dryad.k7c64/5
title: Multiply imputed data set 4
DOI: 10.5061/dryad.k7c64/6
title: Multiply imputed data set 5
DOI: 10.5061/dryad.k7c64/7
title: Multiply imputed data set 6
DOI: 10.5061/dryad.k7c64/8
title: Multiply imputed data set 7
DOI: 10.5061/dryad.k7c64/9
title: Multiply imputed data set 8
DOI: 10.5061/dryad.kv32b/1
title: Gonadal and stress hormone concentrations of urban European blackbirds

description: These data describe the levels of certain hormones in faeces and blood of adult urban European blackbirds (Turdus merula) and further conditions associated with the sampling.The samples were collected between March 2011 and May 2013 by Anja Russ, Terézia Lucenicová, Sarah Effertz, Rebecca Thier-Lange, Diana Höhlig, Simon Dietzel, Tobias Köhler, Alexandra Erbach, and Daniela Dunger.The analyses of hormone concentrations were conducted at the Institute of Physiological Chemistry, University of Leipzig, by Susanne Reitemeier, Anne Weissmann, and Jutta Gottschalk.These data have been collected with support of the research project „Birds in illuminated landscapes (BILL)“ funded by the German Federal Ministery of Education and Resarch (BMBF) under the grant: FKZ 033L038EPlease note: as decimal marker commas are used.
DOI: 10.5061/dryad.pn10j/4
title: Experiment 3b (impacts on Baltic fish)

description: experimental data on population impacts of A. woodiana invasion for Baltic populations of R. amarus
DOI: 10.5061/dryad.qd0c2/1
title: Brassicaceae species check-list

description: Brassicaceae species-checklist for cytogenetically investigated taxa and respective chromosome numbers (data export from BrassiBase: http://brassibase.cos.uni-heidelberg.de/).
DOI: 10.5061/dryad.qd0c2/2
title: Brassicaceae life-cycle data.

description: Species list with data for Brassicaceae life cycle.
DOI: 10.5061/dryad.qd0c2/3
title: Brassicaceae genome size estimates

description: Species list for genome size estimates of Brassicaceae species.
DOI: 10.5061/dryad.qd0c2/4
title: Plant material sources

description: Sources of plant material and sequence data used for chloroplast genome analysis.
DOI: 10.5061/dryad.qd0c2/5
title: Alignments and partitions

description: NUCLEOTIDE ALIGNMENT(s) and annotattions/partitions
DOI: 10.5061/dryad.r5f7m/1
title: Pseudotontonia PIV data for fig 4.

description: micro-PIV data of flows created by Pseudotontonia during contraction of tail as seen in Figure 4.
DOI: 10.5061/dryad.r5f7m/2
title: Fig 3 data

description: Data used in Figure 3.
DOI: 10.5061/dryad.r5f7m/3
title: Video used in Fig 1.

description: Compressed AVI of Figure 1 data. Recorded at 1125 fps and played back at 30 fps.
DOI: 10.5061/dryad.rj5fk/1
title: Fig2 Five gene data matrix.nex

description: Five gene data set (nuclear SSU, nuclear LSU, plastid LSU, plastid psaA, plastid rbcL)
DOI: 10.5061/dryad.rj5fk/2
title: Fig2 Time-calibrated phylogenetic tree.tre

description: Figure 2. Time-calibrated phylogenetic tree for the Synurophyceae based on a five-genedataset.
DOI: 10.5061/dryad.s34n8/1
title: data submission

description: the file contains raw data used for the analysis
DOI: 10.5061/dryad.sj548/2
title: Unrooted Neighbor-joining tree

description: Neighbor-joining tree relating the 877 individuals from the 37 bovine populations. The phylogenetic tree was computed using 38597 SNPs. The genetic distance between each pair of individuals was estimated from the number of loci for which they differ.
DOI: 10.5061/dryad.v46f0/3
title: Bray-Curtis and UniFrac dissimilarities among the bacterial gut communities in higher termites

description: Community dissimilarity among the gut microbiota of higher termites based on the Bray-Curtis and weighted UniFrac metrics. Both distance matrices are available as different spreadsheets in this Excel document.
DOI: 10.5061/dryad.v46f0/5
title: Phylogenetic tree of 16S rRNA phylotypes from Fibrobacteres and TG3 in higher termites

description: Phylogenetic tree of 16S rRNA sequences representing OTUs from the phyla Fibrobacteres and TG3. The tip labels in the tree include each OTU's sample affiliation and relative abundance in that sample.
DOI: 10.5061/dryad.v46f0/6
title: Phylogenetic tree of 16S rRNA phylotypes from Treponema I in higher termites

description: Phylogenetic tree of 16S rRNA sequences representing OTUs from Treponema I. The tip labels in the tree include each OTU's sample affiliation and relative abundance in that sample.
DOI: 10.5061/dryad.017t8/2
title: matree.nwk

description: Data used for Figure 1C, "Evolutionary Tree of Malat1 in Mammals"
DOI: 10.5061/dryad.017t8/3
title: matree.pdf
DOI: 10.5061/dryad.017t8/4
title: matree.meg

description: Data used for Figure 1C, "Evolutionary Tree of Malat1 in Mammals". File created in MEGA 6.06
DOI: 10.5061/dryad.017t8/5
title: Figure 1
DOI: 10.5061/dryad.2h0v0/1
title: Wavelet RF Pulse Optimization Support Files

description: The radio frequency pulses used in the publication are included, along with anonymized DICOM images acquired with each of the RF pulses. The included DICOM images were used in the analysis presented in the published work.