cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.31g05/30
title: LIB0168 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.31g05/31
title: LIB0167 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.31g05/32
title: LIB0173 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.3cn95/1
title: Ngorongoro_Base_Case

description: Model code for Ngorongoro in base case.
DOI: 10.5061/dryad.3cn95/2
title: Serengeti_Base_Case

description: Model code for Serengeti in base case.
DOI: 10.5061/dryad.3cn95/3
title: Uncertainty_Analysis_Reintroduction

description: Model code for uncertainty analysis varying reintroduction in Ngorongoro and Serengeti
DOI: 10.5061/dryad.3cn95/5
title: Uncertainty_Serengeti

description: Model code for uncertainty analysis in Serengeti.
DOI: 10.5061/dryad.4ck36/1
title: Frequency of episodes of positive selection

description: Branch length, branching time and frequency of episodes of positive selection, per tree edge, found in either entire phylogeny (smaller set of COGs) or in individual clades (large sets of COGs).
DOI: 10.5061/dryad.5rq71/1
title: Data (Carrier and Cunningham)

description: Each folder of this excel file contains subject data for one experiment.
DOI: 10.5061/dryad.67cq5/2
title: TPM_table

description: TPM file of each transcript for each sample
DOI: 10.5061/dryad.6h3q7/1
title: RaxML_inputs

description: Input phylip files (.phy) and partition files (_part.txt) used for maximum likelihood tree generation in RaxML for various data sets (mt=mitochondrial, nuc=nuclear, ry=ry-coded, m3=mitochondrial third codon positions, loops=mitochondrial rRNA loops). Note that RY coded bases are given by a 0 (R) or 1 (Y).
DOI: 10.5061/dryad.6h3q7/2
title: MrBayes_inputs

description: Input nexus files (.nex) used for Bayesian phylogenetic inference for various datasets (mt=mitochondrial, nuc=nuclear, nt=standard coded (nucleotide), ry=ry-coded, m3=mitochondrial third codon positions, loops=mitochondrial rRNA loops)
DOI: 10.5061/dryad.6h3q7/3
title: Nuclear_sequence_alignments

description: Non-partitioned multiple sequence alignments for various nuclear loci in FASTA format (.fasta).
DOI: 10.5061/dryad.6h3q7/4
title: MCMCTree_inputs

description: Inputs in phylip format (.phy) for molecular dating analysis conducted in MCMCTree for several datasets (mt=mitochondrial, nuc=nuclear, nt=standard coded (nucleotide), ry=ry-coded, m3=mitochondrial third codon positions). Note that RY-coded data are represented by R and Y.  Tree topologies (.trees) used as input are shown: for mitochondrial and combined mitochondrial/nuclear datasets, two topologies were tested, one in which moa/tinamous are sister to the remaining notopalaeognathae, and one where rheas are sister to the remaining notopalaeognathae. For the nuclear dataset, the topology derived from phylogenetic inference on the nuclear data alone was used. MCMCTree control files (.ctl) are not shown as parameters used are described in text.
DOI: 10.5061/dryad.6h3q7/5
title: FASTQ

description: Total shotgun NGS (combined Ion Torrent Proton, Ion Torrent PGM, and MiSeq data as well as enriched and non-enriched libraries) reads (trimmed, quality filtered and unfiltered) in FASTQ format (.fastq).
DOI: 10.5061/dryad.7309b/1
title: Sample E889, concentration=0.63 Billon/ml
DOI: 10.5061/dryad.7309b/2
title: Sample E889, concentration=0.84 Billon/ml
DOI: 10.5061/dryad.7309b/3
title: Sample E889, concentration=1.27 Billon/ml
DOI: 10.5061/dryad.7309b/4
title: Sample E889, concentration=1.45 Billon/ml
DOI: 10.5061/dryad.7309b/5
title: Sample E889, concentration=1.69 Billon/ml
DOI: 10.5061/dryad.7309b/6
title: Sample E889, concentration=2.54 Billon/ml
DOI: 10.5061/dryad.7309b/7
title: Sample E889, concentration=2.03 Billon/ml
DOI: 10.5061/dryad.7309b/8
title: Sample E890, concentration=0.65 Billon/ml
DOI: 10.5061/dryad.7920c/1
title: Tillage x Fertility Crop Yields 1970-2015, Soils, and Plant Tissue

description: These data represent crop yield data from 1970 to 2015 for the long-term Tillage x Fertility trial started by Dr. George Kapusta at the Southern Illinois University Belleville Research Center in Belleville, IL. Some other agronomic data are also included.
DOI: 10.5061/dryad.7920c/2
title: TxF soils increment data 1990 and 2013

description: These data were used for the Cook and Trlica 2016 publication. Soil plow layer (0-15 cm) was constructed from 5-cm increments. Metadata is included with the yield README file.
DOI: 10.5061/dryad.84655/1
title: JS1

description: M. luteus var. luteus inbred line EY7 - petal transcriptome "T2" - sample JS1
DOI: 10.5061/dryad.84655/2
title: JS2

description: M. guttatus inbred line IM767 - petal transcriptome "T2" - sample JS2
DOI: 10.5061/dryad.84655/3
title: JS3

description: M. guttatus inbred line  IM767 - leaf transcriptome "T2" - sample JS3
DOI: 10.5061/dryad.84655/4
title: JS4

description: M. luteus var. luteus inbred line EY7 - calyx transcriptome "T2" - sample JS4
DOI: 10.5061/dryad.84655/5
title: JS5

description: M. guttatus inbred line IM767 - stem transcriptome "T2" - sample JS5
DOI: 10.5061/dryad.84655/6
title: JS6

description: M. luteus var. luteus inbred line EY7 - leaf transcriptome "T2" - sample JS6
DOI: 10.5061/dryad.84655/7
title: JS7

description: M. guttatus inbred line IM767 - calyx transcriptome "T2" - sample JS7
DOI: 10.5061/dryad.8902n/6
title: FigS6mrcMnlnd
DOI: 10.5061/dryad.8902n/7
title: FigS7timetree
DOI: 10.5061/dryad.9jn6r.3
title: Data from: Buchnera has changed flatmate but the repeated replacement of co-obligate symbionts is not associated with the ecological expansions of their aphid hosts
DOI: 10.5061/dryad.9jn6r.3/1.3
title: bacterial16SMiseqCinarafastq1
DOI: 10.5061/dryad.9jn6r.3/2.3
title: bacterial16SMiseqCinarafastq2
DOI: 10.5061/dryad.9jn6r.3/3.3
title: Appendix 1

description: Appendix 1 includes collection details for aphid samples and GenBank accession numbers
DOI: 10.5061/dryad.9jn6r.3/4.3
title: Appendix 2

description: Appendix 2 shows a contingency table reporting bacterial sequence occurrences across aphid samples
DOI: 10.5061/dryad.9jn6r.3/5.3
title: Appendix 3

description: Appendix 3 includes a summary of the number of reads and unique sequences per sample
DOI: 10.5061/dryad.d2kv0/3
title: Reservoir Greenhouse Gas Fluxes and Potential Predictor Variables

description: This data file contains reservoir greenhouse gas emission estimates as well as categorical and continuous data for tested predictors of these fluxes. There is one row reserved for each reservoir included in the study. The associated references for this data are included in a second spreadsheet tab.
DOI: 10.5061/dryad.g12f9/1
title: Crop-to-wild_gene_flow_and_its_consequences_data
DOI: 10.5061/dryad.g5065/1
title: T.velutinus.SSR10

description: Genotypes for individual beetles collected from all study sites. Scores are the 10 SSRs.
DOI: 10.5061/dryad.j4d10/1
title: winner_loser_data
DOI: 10.5061/dryad.k4p7d.2
title: Data from: Male risk-taking is related to number of mates in a polygynous bird.
DOI: 10.5061/dryad.k4p7d.2/1.2
title: visibility_data

description: Number of visible males and females before, during, and after a synchronous fleeing event.
DOI: 10.5061/dryad.k4p7d.2/2.2
title: fleeing_probability_data

description: Predictors of fleeing probability in male weavers
DOI: 10.5061/dryad.r9g5c/1
title: data

description: data.mat contains a cell array called subjects. Each cell represents a different observer. Each cell has two structures, fixation and saccade for corresponding conditions. Within each structure, there are several fields having the RAW as well as processed response data and stimulus conditions in each and every trial. Due to the large size, only the saccade events during each trial are included in each structure. Below we explain what each field represents.
DOI: 10.5061/dryad.r9g5c/2
title: Plots

description: A script for generating the figures in the paper.
DOI: 10.5061/dryad.sq1v7/19
title: ML6740 V1691 107_001

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/20
title: ML6740 V1691 123 reconstructed

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/21
title: ML6740 V1691 123 reconstructed

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/22
title: ML6740 V1691 123 reconstructed

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/23
title: ML6740 V1691 123 reconstructed_000

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/24
title: ML6740 V1691 126 reconstructed

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/25
title: ML6740 V1691 126 reconstructed

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/26
title: ML6740 V1691 126 reconstructed

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.sq1v7/27
title: ML6740 V1691 126 reconstructed_000

description: Raw geolocator file - last number indicates the logger identity
DOI: 10.5061/dryad.v8r1p/1
title: exposure
DOI: 10.5061/dryad.v8r1p/2
title: susceptibility
DOI: 10.5061/dryad.v8r1p/3
title: noparasite
DOI: 10.5061/dryad.vr954/1
title: Plateosaurus cranium model

description: Model of the cranium of Plateosaurus produced for this study.
DOI: 10.5061/dryad.vr954/2
title: Supporting Information

description: Supporting information for "Comparative cranial myology and biomechanics of Plateosaurus and Camarasaurus and evolution of the sauropod feeding apparatus". Includes additional details and views of the osteological and myological virtual reconstructions and additional finite-element modelling results.
DOI: 10.5061/dryad.vr954/3
title: Plateosaurus mandible model

description: Model of the mandible of Plateosaurus produced for this study
DOI: 10.5061/dryad.vr954/4
title: Camarasaurus skull model

description: Model of the skull of Camarasaurus produced for this study
DOI: 10.5061/dryad.00vg4/4
title: CytbSPrey

description: Partial Cytochrome b sequences obtained from sequencing of the amplification of the DNA from excrement with specific primers for arthropodes.
DOI: 10.5061/dryad.151r7/1
title: Kekäläinen & Evans Data

description: This file contains the original data of the article
DOI: 10.5061/dryad.15d2p/1
title: Master ZIP File (Contains data, script, metadata)

description: This ZIP folder contains all datasets associated with the publication (.csv format), metadata (.rtf), and R analysis script (.R). Descriptions of datasets are included in metadata.
DOI: 10.5061/dryad.2hf40/6
title: FUNECO_605_SerendipitaITS1-4

description: Sequence data: locus ITS
DOI: 10.5061/dryad.2hf40/7
title: FUNECO_605_SerendipitaLSU

description: Sequence data: locus LSU
DOI: 10.5061/dryad.2hf40/8
title: FUNECO_605_StarbeastXML

description: Starbeast XML files for four species delimitation hypotheses: T=2, T=3, T=7, and T=8
DOI: 10.5061/dryad.31g05/33
title: LIB0149 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.31g05/34
title: LIB0186 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.31g05/35
title: LIB0185 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.31g05/36
title: LIB0150 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.31g05/37
title: DNA3205 de novo assembly

description: List of contigs generated from the de novo assembly in CLC Genomics Workbench
DOI: 10.5061/dryad.482tn/1
title: Wave-ripple and hydrodynamical data for a coarse-sand beach
DOI: 10.5061/dryad.50n8j/1
title: Large Images shown in the comparative figure of the tracheobronchial juncture

description: This is a zip file containing the data as a website. Download and open zip file then launch the index file in a browser. Data also available at http://www.jsg.utexas.edu/syrinx-evolution/
DOI: 10.5061/dryad.50tq3/1
title: BadiRate_analysis
DOI: 10.5061/dryad.50tq3/2
title: convergence_detection
DOI: 10.5061/dryad.50tq3/3
title: gene_model
DOI: 10.5061/dryad.50tq3/4
title: genome_sequence
DOI: 10.5061/dryad.50tq3/5
title: GO_annotation
DOI: 10.5061/dryad.5sf19/1
title: Skull and cervical vertebrae of Magericyon anceps

description: Full rotation of 3D articulated model of skull and cervical vertebrae of Magericyon anceps
DOI: 10.5061/dryad.7309b/10
title: Sample E890, concentration=1.11 Billon/ml
DOI: 10.5061/dryad.7309b/11
title: Sample E890, concentration=0.97 Billon/ml
DOI: 10.5061/dryad.7309b/12
title: Sample E890, concentration=1.30 Billion/ml
DOI: 10.5061/dryad.7309b/13
title: Sample E890, concentration=1.56 Billion/ml
DOI: 10.5061/dryad.7309b/14
title: Sample E890, concentration=1.95 Billion/ml
DOI: 10.5061/dryad.7309b/15
title: Sample E769, concentration=0.51 Billion/ml
DOI: 10.5061/dryad.7309b/16
title: Sample E769, concentration=0.85 Billion/ml
DOI: 10.5061/dryad.7309b/17
title: Sample E769, concentration=1.27 Billion/ml
DOI: 10.5061/dryad.7309b/9
title: Sample E890, concentration=0.49 Billon/ml
DOI: 10.5061/dryad.7920c/3
title: TxF Corn plant tissue 1990 and 2014

description: These data were analyzed for the Cook and Trlica 2016 publication. Metadata are found in the yield README file.
DOI: 10.5061/dryad.7920c/4
title: TxF historic soils composites 1978 1983 1990 1999 2011 2013

description: These data were NOT included in the Cook and Trlica 2016 publication. Curation for the historic soils data was imperfect and any use of this data should be considered not completely reliable. A thorough explanation of data processing and data issues is included in the README file. The composite samples were for the most part collected and analyzed at 0-15 cm soil cores.
DOI: 10.5061/dryad.84655/10
title: Mg_T1

description: Mimulus guttatus inbred line CG - transcriptome T1 - complete annotated transcriptome
DOI: 10.5061/dryad.84655/11
title: Ml_T1

description: Mimulus luteus var. luteus inbred line EY7 - transcriptome T1 - complete annotated transcriptome
DOI: 10.5061/dryad.84655/12
title: Mg_T1_RPKM

description: M. guttatus inbred line CG - transcriptome T1 - RPKM expression report plus raw counts
DOI: 10.5061/dryad.84655/13
title: Ml_T1_RPKM

description: M. l. luteus inbred line EY7 - transcriptome T1 - RPKM expression report plus raw counts
DOI: 10.5061/dryad.84655/8
title: JS8

description: M. luteus var. luteus inbred line EY7 - leaf transcriptome "T2" - sample JS8
DOI: 10.5061/dryad.84655/9
title: JS9

description: M. luteus var. luteus inbred line EY7 - stem transcriptome "T2" - sample JS9
DOI: 10.5061/dryad.8f6d2/1
title: Supplementary File 1

description: Summary of results.
DOI: 10.5061/dryad.8f6d2/2
title: Supplementary File 2

description: Raw data used in study.
DOI: 10.5061/dryad.dt115/1
title: Fitness data for both LB and Minimal Glucose surviving populations

description: This file contains the final density, maximum growth rate, and Colony Forming Unit data for all the surviving population from both LB and minimal glucose lines.
DOI: 10.5061/dryad.dt115/2
title: Maximum likelihood mutation rate estimates

description: This file contains the maximum likelihood estimates of mutation rates obtained by using the fluctuation analysis approach for both the LB and minima glucose populations that survived, as well as, the populations that went extinct.
DOI: 10.5061/dryad.g2k05/1
title: data for Buzatto et al 2016

description: This data file contains all the information used in our analyses for the manuscript entitled "Sperm competition and the evolution of precopulatory weapons: testis size and amplexus position, but not arm strength, affect fertilization success in a chorusing frog". Each row of this data set refers to a male that participated in a group spawning of the Australian quacking frog 'Crinia georgiana'. Each row has a group spawning ID, the male ID, the female ID, female mass (g), number of males participating in this group spawning, clutch size (number of eggs laid) and spawning time in seconds. The rows also have attributes of these males: number of offspring sired, total body mass (g), soma mass (body mass minus testes mass; g), testes mass (mg), relative testes mass (corrected for body size; mg), snout-vent length (mm), arm girth (mm), relative arm girth (corrected for body size; mm), whether the male amplexed the female in the group spawning, and his main amplexus position (see text). Finally, the proportions of spawning time that each male spent on each possible amplexus position (dorsal, ventral, lateral, amplexing another male, cloaca facing the female's head and not amplexed) are also given.
DOI: 10.5061/dryad.g5065/2
title: TV_gene_flow

description: Sampled landscapes, surface metrics measured, and genetic distance measured between beetle populations. This data file is used for the GAMM model.
DOI: 10.5061/dryad.j6p0b/1
title: Productivity_Spp_Comp_Burkepile_et_al_JoE

description: This file contains data for plant species composition, productivity, and light availability from a herbivore exclusion experiment conducted across a productivity gradient in Kruger National Park, South Africa
DOI: 10.5061/dryad.k4p7d.1
title: Data from: Male risk-taking is related to number of mates in a polygynous bird.
DOI: 10.5061/dryad.k4p7d.2/3.2
title: order_of_return_data

description: Predictors of male order of return following a synchronous fleeing event in male weaverbirds.
DOI: 10.5061/dryad.mp6d3/1
title: Ruwanza & Shackleton Raw data

description: Excel file with two folders. the first folder reports on the soil nutrients characteristics at each sample. The second folder reports on the plant dimensions per sample site. Each column has a descriptive header and the units are displayed.
DOI: 10.5061/dryad.n04r6/1
title: Chimpanzee and human asymmetry data

description: Five files including: the chimpanzee pedigree, two files listing interlandmark distances (one for chimpanzees and one for humans), and two files including asymmetric components of shape variation (one file for chimpanzees and one for humans).
DOI: 10.5061/dryad.n5r49/2
title: PaHMM-Tree supplementary material

description: Supplementary figures
DOI: 10.5061/dryad.ns92q/1
title: Soil carbon response to woody plant encroachment

description: Please see the metadata tab in the excel file for data description.
DOI: 10.5061/dryad.p2224/1
title: Basson_et_al_Func_Ecol_code files

description: This zip folder contains the fortran and execution files needed to run the thermoregulation simulations. The read me file provides some guidelines.
DOI: 10.5061/dryad.pq62q/1
title: Fungal DNA and Alkaloid concentrations

description: File containing Fungal DNA concentrations from qPCR analyses and alkaloid concentrations from UPLC-MS analyses for all samples.
DOI: 10.5061/dryad.pq62q/2
title: Herbivore numbers for aphids and locusts

description: File containing herbivore numbers of the aphid and locust treatment over 18 study weeks
DOI: 10.5061/dryad.q8c13/1
title: Metadata_Comida

description: Phenotypic and geographic data for the Comida lake-stream pair
DOI: 10.5061/dryad.q8c13/2
title: Metadata_Farewell

description: Phenotypic and geographic data for the Farewell lake-stream pair.
DOI: 10.5061/dryad.q8c13/3
title: Metadata_Roberts

description: Phenotypic and geographic data for the Roberts lake-stream pair.
DOI: 10.5061/dryad.q8c13/4
title: ReadMe Weber_data_Morph

description: Description of the contents of the three Metadata files.
DOI: 10.5061/dryad.q8c13/5
title: Zip folder containing genotype data

description: This is a Zip folder containing genotype data, SNP positional data within the genome, ecological and geographic and genetic distance matrices, and R code for BEDASSLE analyses.
DOI: 10.5061/dryad.s58qh/1
title: Fly tracking data from Corrales-Carvajal et al 2016

description: This package contains tracking data (head and body centroids) of single walking fruit flies (Drosophila melanogaster) in an arena (height = 2 mm, radius = 33 mm) containing 18 food patches: 9 patches of sucrose 180 g/L and 9 patches of yeast 180 g/L. This arena was designed based on the fly-bowl (Simon & Dickinson, 2010). The detailed information for the experimental condition of each fly is given (e.g. Genotype, mating status, metabolic state, etc). We provide all the tracking data that was used to generate all the results shown in Corrales-Carvajal et al 2016. More details about the tracking setup, foraging arena and experimental protocol can be found in the materials and methods of the associated publication.
DOI: 10.5061/dryad.sc38s/1
title: OTU_Table

description: A table of the number of sequences per sample of all consensus OTU sequences that matched a fungal taxon in the UNITE fungal database (as of 08/22/2016). Columns are fungal taxonomic names from UNITE database and rows are samples. Column 'core' is an internal sample designation during the field collection phase. Site 'p7' in the 'site' column pertains to 'Pipeline,' 'chagres' refers to 'Campo Chagres,' and 'roubik' refers to 'Santa Rita Ridge' site names from the accompanying manuscript.
DOI: 10.5061/dryad.sc38s/2
title: Soil_Nutrients

description: Soil nutrient values listed per sample. 'Core' column refers to an internal designation of samples during the field collection phase and corresponds to 'core' columns in accompanying data files. 'p7' in the 'site' column refers to the 'Pipeline' site, 'chagres' refers to the 'Campo Chagres' site, and 'roubik' refers to the 'Santa Rita Ridge' site from the manuscript.
DOI: 10.5061/dryad.sc38s/3
title: Tree_Neighborhoods

description: A matrix showing the relative abundance in total DBH (mm) of tree species within a 10-m radius of soil samples, per sample. 'Core' column refers to an internal sample designation during the field collection phase and corresponds to 'core' column in other data files. 'p7' in the 'Site' column refers to 'Pipeline,' 'chagres' refers to 'Campo Chagres,' and 'roubik' refers to 'Santa Rita Ridge' site from the manuscript. These data were calculated using tree census data from Condit, R., Pẽrez, R., Aguilar, S. & Lao, S. (2013b) Data from Tree Censuses and Inventories in Panama and are available online at the Smithsonian Tropical Research Institute data repository.
DOI: 10.5061/dryad.sq1v7/28
title: Cyprus wheatears tag effect

description: Data to examine tag effects - key within file
DOI: 10.5061/dryad.sq1v7/29
title: Wheatear Tag effect analysis

description: R script file to examine tag effects
DOI: 10.5061/dryad.t84p3/1
title: Genotypes of treegourd in Amazonia

description: This file was applied to run Structure analyses. The first column shows the labels of the samples which correspond to the Collection_codes in the passport (Table S1). The other columns indicate the 8 nuclear SSR loci analysed. The lines indicate the genotypes. Missing data was indicated as -9.
DOI: 10.5061/dryad.t84p3/2
title: Sequence_alignments_cp_treegourd

description: The sequence alignments are shown using the nexus format. This file was applied to estimate chloroplast diversity analysis and construct the haplotype network, performed respectively in DNAsp and POPART softwares. The labels of the samples correspond to the Sequencing_codes in the passport (Table S1).
DOI: 10.5061/dryad.th865/1
title: cohort SNP file

description: variant file of all strains, contains all single nucleotide polymorphic sites that are bi-allelic only.