cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.559cs/1
title: Meta-analysis_PRs_IRs

description: Published studies that recorded biodiversity of PRs and IRs. For each replicated study (i.e. with n &gt; 1): 
•	We extracted means (i.e. P_M and Int_M), SDs (i.e. P_SD and Int_SD), and number of sites (i.e. P_N and Int_N).
•	We obtained information on site. In particular, we considered the following 6 factors, each with several levels within: climate, sampling season, habitat, longitudinal zonation, level of anthropogenic disturbance, and taxonomic group (see Table 1 and Appendix S3).
DOI: 10.5061/dryad.60210/1
title: SNP data

description: Here we provide the SNP table generated with MaizeSNP50 BeadChip and Infinium HD Assay (Illumina, San Diego, CA, USA). Only SNPs with a  GenTrain score of larger than 0.7 were retained (GenomeStudio V2009.1). The table lists the genotypes of 142 plant individuals (maize, teosinte and maize-teosinte hybrids) for each SNP Id (ID). The table contains 41,784 SNPs. Missing data is indicated by NA.
DOI: 10.5061/dryad.6f356/1
title: Results_IPTG_control

description: Table with read numbers for each clone for experiment plus/minus IPTG control shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6f356/2
title: Results_Exp1

description: Table with read numbers for each clone for experiment 1 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6f356/3
title: Results_Exp2

description: Table with read numbers for each clone for experiment 2 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6f356/4
title: Results_Exp3

description: Table with read numbers for each clone for experiment 3 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6t442/1
title: Clutch monitoring data

description: Summary of fates of embryos from male removal experiment.
DOI: 10.5061/dryad.6t442/2
title: Sequence metadata

description: Metadata for all sequences contained in adjoining sequence (.fastq) file.
DOI: 10.5061/dryad.6tv0f/1
title: Velthuisetal2017Ecosphere

description: Datasets and R scripts
DOI: 10.5061/dryad.70bh0/1
title: Data from: Frequent misdirected courtship in a natural community of colorful Habronattus jumping spiders

description: This file includes behavioral data collected on Habronattus jumping spiders from focal observations in the field.
DOI: 10.5061/dryad.796t8/1
title: DATA_MS#ECS16-0660

description: Database on the impacts of overabundant Greater Snow Geese on sympatric species, with a focus on shorebirds.
DOI: 10.5061/dryad.7jv49/1
title: Evolution 17-0280.R1 Rapkin et al

description: Feeding data and pedigree information for the three experiments conducted in Rapkin et al "Little evidence for intralocus sexual conflict over the optimal intake of nutrients for lifespan and reproduction in the black field cricket Teleogryllus commodus". The sheet called 'Landscapes' contains data from Experiment 1. The sheet called 'IASC' contains data from Experiment 2.The sheet called 'Choice' contains data from Experiment 3.
DOI: 10.5061/dryad.8p689/6
title: Livestock population census data

description: The file contains livestock population census data from all the villages and communities in the seven study sites. Data are given by livestock species by each village. Column names are self explanatory.
DOI: 10.5061/dryad.cb13r/1
title: Plant species by site matrix

description: This file contains the matrix of species abundances across sites used to conduct all analyses. The column "LOT" refers to the individual vacant lot, "TYPE" refers to whether the surveyed area was present in the building footprint section (BF) or remnant garden section (RG), and the remaining columns all refer to observed species (or genera) observed at each site, with estimates of their percentage cover.
DOI: 10.5061/dryad.cb13r/2
title: VacantLots_DemolitionDate

description: This file continues the estimated year of demolition for the vacant lots. Column "Code" refers to the id number which links the demolition date to the species x site matrix, "Address" is the street address in Baltimore, MD, USA where the vacant lot resides, "Source" refers to whether the date of demolition was estimated from demolition records from the Baltimore City Archives or from high resolution aerial photographs, "Demolition date" is the year in which the vacant lot was created, and "TimeSinceDemolition" are the number of years between demolition and when vegetation was surveyed (2012).
DOI: 10.5061/dryad.cb13r/3
title: Species_x_TraitsMatrix

description: Matrix of functional traits collected for all the species surveyed within the vacant lots. Traits which are categorical (presence/absence) are indicated with 1/0 designations. For continuous traits, terminal velocity is measured in m/sec, specific leaf area (SLA) is in m, Height is in m and seed mass is in g/1000 seeds. Sources for each trait are described within the accompanying paper, in Table 1. Missing data is indicated with by "NA".
DOI: 10.5061/dryad.f5d20/10
title: L3_x10_cpl_eng

description: Sample 3, image 3
DOI: 10.5061/dryad.f5d20/11
title: L3-2_x10_cpl_eng

description: Sample 3, image 4
DOI: 10.5061/dryad.f5d20/12
title: L4_2_x4_cpl_eng

description: Sample 4, image 1
DOI: 10.5061/dryad.f5d20/13
title: L4_4x10_cpl_eng

description: Sample 4, image 2
DOI: 10.5061/dryad.f5d20/14
title: L4-2_x10_cpl_eng

description: Sample 4, image 3
DOI: 10.5061/dryad.f5d20/15
title: L5_x4_cpl_eng

description: Sample 5, image 1
DOI: 10.5061/dryad.f5d20/7
title: L2-2_x4_cpl_eng

description: Sample 2, image 4
DOI: 10.5061/dryad.f5d20/8
title: L3_x4_cpl_eng

description: Sample 3, image 1
DOI: 10.5061/dryad.f5d20/9
title: L3_x4_ppl_eng

description: Sample 3, image 2
DOI: 10.5061/dryad.f6h25/1
title: Count data entered into Excel

description: Count data entered into Excel from handwritten data sheets. Ready for conversion into proportion data for analyses. Scanned data sheets (visit-by-visit data) are available upon request.
DOI: 10.5061/dryad.h35fj/1
title: deer_data

description: This table contains the GPS locations of roe deer associated with habitat variables and temporal variables that were used to build a habitat model (RSF) for roe deer. The table is divided into used (actual) deer locations and random locations (loc_id=NA) in a ratio of 1:10 (column "use"). The table also includes an animal id. Swisstopo in the column headers refers to the source of the environmental variables. Cover swisstopo is a dummy variable for open/cover. Slope_sq and altitude_sq are the squared slope and altitude variables. Aspect swisstopoS is the southern exposition. Hum_indx is a composite of road_dist and house density. The 8 temporal variables are time harmonics of a Fourier transform for time of day (tsin, tcos, tsin2, tcos2; period of 24) and day of year(ytsin, ytcos, ytsin2, ytcos2; period of 365) All continuous variables in this table are mean centered and standardized to a SD=1. For information on the raw data or for R-code used to run the models please contact the data owner.
DOI: 10.5061/dryad.k648s/1
title: raw data for charts in figures

description: This file contains real time PCR data for all the figures and western blot band quantification in figure 2.
DOI: 10.5061/dryad.q8m4f/1
title: 1NP-1_S1_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/2
title: 1NP-1_S1_L001_R1_001.fastq
DOI: 10.5061/dryad.q8m4f/3
title: 1NP-1_S1_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/4
title: 1NP-2_S2_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/5
title: 1NP-2_S2_L001_R1_001.fastq
DOI: 10.5061/dryad.q9k8r/10
title: SSH front locations 2002

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/11
title: SSH front locations 2003

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/3
title: SSH front locations 1995

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/4
title: SSH front locations 1996

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/5
title: SSH front locations 1997

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/6
title: SSH front locations 1998

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/7
title: SSH front locations 1999

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/8
title: SSH front locations 2000

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/9
title: SSH front locations 2001

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.r1s5d/1
title: Longevity and parasite load measurements of mosquitoes originating from different selection lines

description: The data file contains longevity and parasite load measurements of mosquitoes originating from different selection lines and tested on two food levels. The variables are: Individual, food level during evolution, parasite regime during evolution, tested food level, replicate, adult longevity and spore counts.
DOI: 10.5061/dryad.r62f0/1
title: Genome_Biol_2017_datasets

description: Zip archive containing four .txt files: 3 tab-delimited datasets and a README (readme also uploaded separately). full_dataset.txt contains methylation and other information from A. thaliana generated as part of this study, full_distachyon_Bd1_1_data.txt contains data from B. distachyon generated by Eichten et al. 2016 (Genome Res.), and full_maize_B73_data.txt contains data from Z. mays generated by Li et al. 2015 (Plant Physiol.). Datasets contain all data used to generate Fig. 5 and Fig. S11. Details on each field in each file found in README.
DOI: 10.5061/dryad.sf1s3/1
title: Data for Dugas et al. O. pumilio begging

description: Each analysis in the manuscript is on its own tab in this file.
DOI: 10.5061/dryad.t6m9m.1
title: Data from: Impact of predicted precipitation scenarios on multitrophic interactions
DOI: 10.5061/dryad.t6m9m.1/1.1
title: Controlled environment and field experimental data

description: Data file containing all data reported in the paper including plant, soil and insect data from controlled environment and field experiments. First spreadsheet in the data file contains a key to explain all abbreviations used throughout the file.
DOI: 10.5061/dryad.t6m9m.2
title: Data from: Impact of predicted precipitation scenarios on multitrophic interactions
DOI: 10.5061/dryad.t6m9m.2/1.2
title: Controlled environment and field experimental data

description: Data file containing all data reported in the paper including plant, soil and insect data from controlled environment and field experiments. First spreadsheet in the data file contains a key to explain all abbreviations used throughout the file.
DOI: 10.5061/dryad.vk037/1
title: Matlab run file for model

description: This is the Matlab code for the main run file which calls on other function files and runs them based on the parameter values provided. It may be used to run phage_host_evolve_nested.m or phage_host_evolve_oneone.m
DOI: 10.5061/dryad.vk037/2
title: ODEs for nested model

description: This file contains the Matlab code required to numerically solve the equations from the model with the nested infection pattern. It can be run using the file run_model.m (provided in the data package)
DOI: 10.5061/dryad.vk037/3
title: ODEs for one to one model

description: This file contains the Matlab code for the model with a one to one infection pattern. It can be run using the file run_model.m (provided in the data package).
DOI: 10.5061/dryad.vk037/4
title: Calculating phage and host evolutionary steps

description: This file contains the Matlab code for calculating the number of evolutionary steps occurring in the bacteria and phage populations at each time step of the simulation.
DOI: 10.5061/dryad.vk037/5
title: Data for making Figure 1 in paper

description: Matlab code output that can be used to generate the plots in Figure 1 in the main paper
DOI: 10.5061/dryad.vk037/6
title: Data for making Figure 3 in paper

description: Matlab code output that can be used to make the plots in Figure 3 in the main paper.
DOI: 10.5061/dryad.vk037/7
title: Parameter changes for figures

description: This file lists all the different parameter changes (to the values given in the table in the main paper) that are required to make all the figures in the main paper and supplementary material.
DOI: 10.5061/dryad.vk037/8
title: Data for making Figure 2 in the paper

description: This file contains the Matlab code output which was used to plot the graphs in Figure 2 in the main paper.
DOI: 10.5061/dryad.3kj10/1
title: Turunen_etal_2017_Journal_of_Applied_Ecology

description: Environmental and biological variables.
DOI: 10.5061/dryad.3sm11/1
title: Experimental data of cell sizes

description: Each file contains the time at line 2 and a list of cell areas in microns, as obtained from processing of the digital images.
DOI: 10.5061/dryad.3sm11/2
title: C codes for simulating developing and homeostatic tissue

description: These are source codes for simulating homeostatic tissue cultures. Purely dividing regime can be set by putting apoptotic rates to zero. Includes parameter file, source codes and makefile. Needs gsl libraries, and standard C libraries.
DOI: 10.5061/dryad.4r5p1/1
title: Trimmed_SE_Trinity

description: Fasta file with the Trinity assembly for Sinningia eumorpha
DOI: 10.5061/dryad.4r5p1/2
title: Trimmed_SM_Trinity

description: Fasta file with Trinity assembly for Sinningia magnifica
DOI: 10.5061/dryad.4r5p1/3
title: newBLASTX_allgenesSESM

description: BlastX for all genes assembled for S. eumorpha (SE_) and S. magnifica (SM_)
DOI: 10.5061/dryad.5706p/2
title: simulation-study-code

description: Code used to perform the simulations
DOI: 10.5061/dryad.5b743/1
title: Data table for Fig 1 b,c,d & Fig 2a in paper_ step-wise procedure to estimate ET from daily soil water content

description: This data file has the information of daily soil water of miscanthus (G6) for the year 2012 (as in fig 1 b,c,d) that demonstrates the step-wise procedure for water use calculation from daily soil water content. Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/10
title: Data table for Fig S2_ Drained upper limit

description: This data table has information of drained upper limit (DUL) of the soil profile (0-150 cm) at the start of the growing season in each year based on TDR measurements. Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/2
title: Data table for Fig 1 b, c, d & Fig 2a_ daily soil water content of different crops

description: This data file has information on the daily soil water content of different crops based on TDR measurements.  Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/3
title: Data table for Fig 1a & 2a_ Precipitation

description: This data file has the information of daily precipitation (mm) recorded at the LTER station, KBS Hickory Corners, Michigan. Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/4
title: Data table for Fig 2b_ Maximum Biomass of  switchgrass, miscanthus, prairie and grass mixture

description: This data table has the information of maximum biomass for switchgrass (G5), miscanthus (G6), native grass mixture (G7), and restored prairie (G10). Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/5
title: Data table for Fig 2b_ Maximum Biomass of corn

description: This data table has the information of maximum biomass for corn (G1). Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/6
title: Data table for Fig 2b_ Maximum Biomass of Poplar

description: This data table has the information of maximum biomass for hybrid poplar (G8) and made available from Poplar growth curves. Each column in the data file has been described in a separate Readme.txt file.
DOI: 10.5061/dryad.5b743/7
title: Data table for Fig 2c_WUE-biomass of all crops

description: This data table has the information of calculated WUE-maximum biomass (kg/ha/mm) for different crops. Each column in the data file has been described in a separate Readme.txt file
DOI: 10.5061/dryad.6f356/5
title: Results_Exp4

description: Table with read numbers for each clone for experiment 4 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6f356/6
title: Results_Exp5

description: Table with read numbers for each clone for experiment 5 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6f356/7
title: Results_Exp6

description: Table with read numbers for each clone for experiment 6 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6f356/8
title: Results_Exp7

description: Table with read numbers for each clone for experiment 7 shown in Table 1 of the paper. Further Tabs in the file include the respective DeSeq2 statistics for each sampled timepoint.
DOI: 10.5061/dryad.6t442/3
title: Sequences

description: Raw, demultiplexed sequence reads collected from swabs of eggs and adults during male removal experiment.
DOI: 10.5061/dryad.81081/1
title: Popat_et_al_data
DOI: 10.5061/dryad.8jf2k/1
title: Shall area and aspect ratio of G. puncticulata and T. crassaformis

description: Shell size and shape of the planktonic foraminifera species Globoconella puncticulata and Truncorotalia crassaformis are presented, with sample ID. Sample age as determined by the age model by Bolton et al., 2010 (Paleoceanography).
DOI: 10.5061/dryad.dh0dv/1
title: README

description: Description of supporting files
DOI: 10.5061/dryad.dh0dv/2
title: True_trees

description: 1000 simulated 32-tip pectinate trees.
DOI: 10.5061/dryad.f5d20/16
title: L5_x10_cpl_eng

description: Sample 5, image 2
DOI: 10.5061/dryad.f5d20/17
title: L6_2_x10_cpl_eng

description: Sample 6, image 1
DOI: 10.5061/dryad.f5d20/18
title: L6_2x40_cpl_eng

description: Sample 6, image 2
DOI: 10.5061/dryad.f5d20/19
title: L6_x4_cpl_eng

description: Sample 6, image 3
DOI: 10.5061/dryad.f5d20/20
title: L6-3_x4_cpl_eng

description: Sample 6, image 4
DOI: 10.5061/dryad.f5d20/21
title: L6_2_x4_ppl_eng

description: Sample 7, image 1
DOI: 10.5061/dryad.f5d20/22
title: L6_3_x10_cpl_eng

description: Sample 7, image 2
DOI: 10.5061/dryad.f5d20/23
title: L6_4_x4_cpl_eng

description: Sample 7, image 3
DOI: 10.5061/dryad.f5d20/24
title: L8_x4_ppl_eng

description: Sample 8, image 1
DOI: 10.5061/dryad.h35fj/2
title: lynx_data

description: This table contains lynx steps associated with habitat variables and temporal variables that were used to build a step selection function model for lynx. The table is divided into used (actual) lynx steps and random steps in a ratio of 1:10 (column "use"). The random steps match to their corresponding location id in the used steps. Swisstopo in the column headers refers to the source of the environmental variables. Hum_indx is a composite of road_dist and house density. Prey_avail are the values of a deer RSF, which was used as a proxy for prey availability. Dist2 refers to the step length (distance between the previous and current location in meters). The 8 temporal variables are time harmonics of a Fourier transform for time of day (tsin, tcos, tsin2, tcos2; period of 24) and day of year(ytsin, ytcos, ytsin2, ytcos2; period of 365). All habitat variables were measured at the beginning of a step except for “hum_indx_loc2”, which was measured at the beginning of a step.  All continuous variables in this table are mean centered and standardized to a SD=1. For information on the raw data or for R-code used to run the models please contact the data owner.
DOI: 10.5061/dryad.m900b/1
title: NUE_plant trait data_for Dryad_27Sept2015

description: This dataset contains plot-level nutrient concentration data in leaf litter and fine roots for 18 plots of regenerating tropical dry forest in Guanacaste, Costa Rica.  The nutrients measured include: aluminum, calcium, potassium, magnesium, sodium, phosphorus, and nitrogen. In addition, we report concentrations of these same elements in branchwood of 31 species that are common in the plots.  All methods used to sample these tissues and quantify element concentrations are described in the paper.
DOI: 10.5061/dryad.nk08s/1
title: data_and_scripts

description: This folder contains the group t-stat brain images, subject-specific parameter estimates extracted from various regions of interest, relevant experimental parameters (e.g. timings between object presentations used in the regression), and Matlab scripts to reproduce all plots in Garvert et al. (2017).
DOI: 10.5061/dryad.q8m4f/10
title: 1X-1_S7_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/11
title: 1X-1_S7_L001_R1_001.fastq
DOI: 10.5061/dryad.q8m4f/12
title: 1X-1_S7_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/13
title: 1X-2_S8_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/14
title: 1X-2_S8_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/6
title: 1NP-2_S2_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/7
title: 1NP-3_S3_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/8
title: 1NP-3_S3_L001_R1_001.fastq
DOI: 10.5061/dryad.q8m4f/9
title: 1NP-3_S3_L001_R2_001.fastq
DOI: 10.5061/dryad.q9k8r/12
title: SSH front locations 2004

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/13
title: SSH front locations 2005

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/14
title: SSH front locations 2006

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/15
title: SSH front locations 2007

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/16
title: SSH front locations 2008

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/17
title: SSH front climatology 2009

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/18
title: SSH front locations 2010

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/19
title: SSH front locations 2011

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.q9k8r/20
title: SSH front locations 2012

description: Southern Ocean front locations obtained from AVISO gridded SSH using the WHOSE method.
DOI: 10.5061/dryad.r02h8/1
title: Miles et al (2017) Evoltuion_Display Complexity Data

description: Display complexity scores
DOI: 10.5061/dryad.r8d4q/10
title: UCE loci from genome-enabled samples.

description: UCE loci extracted from available genome-enabled Hymenoptera. Each UCE locus consists of a core region plus 400 bp of flanking DNA on either side. Includes a lastz match-counts database and fasta files for use with Phyluce.
DOI: 10.5061/dryad.r8d4q/2
title: Alignment supermatrices.

description: All alignment supermatrices from this study. In NEXUS format. Includes UCE locus character set information.