cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.hj0005k/1
title: AE_WP_Erythrophleum

description: Collected AE signals  and water potential used to construct an acoustic vulnerability curves for E. ivorense ansd E. suaveolens. The AE signals were cumulated over the measurement period, and averaged over 5 minutes. The endpoint of the VCAE was based on the local maximum in the third derivative, following the strongest decrease in the first derivative. Cumulative acoustic emissions were then rescaled between zero and the defined endpoint to obtain a relative percentage of cavitation-related AE (%). The continuous water potential x-axis of the VCAE was obtained from a segmented linear regression relation between point measurements of xylem water potential, and xylem shrinkage monitored by dendrometers.
DOI: 10.5061/dryad.k7505mn/12
title: EF_AHE_data

description: This file contains the exon-based reference loci from the E. sinensis genome, and the key mapping the final 410 exon-based loci (folder GHI_Data_matrices) to the 352 AHE targets.
DOI: 10.5061/dryad.k7505mn/13
title: BC_Transcriptome_data

description: This file contains the assembled transcriptome reads for 4 species (across multiple life stages) used to develop anchored enrichment probes.
DOI: 10.5061/dryad.k7505mn/14
title: README

description: Description of all files associated with this paper, in all subfolders in this repository.
DOI: 10.5061/dryad.k7505mn/8
title: D_Probe_design

description: This file contains the probe sequences for each of 6 infraorders (Achelata, Anomura, Astacidea, Brachyura, Caridea, Dendrobranchiata) that were ordered from Agilent, and supporting files related to how the probe sets were constructed.
DOI: 10.5061/dryad.k9f1p42/10
title: R script for analysis of monarch butterfly survival data and predator community data for August 2016, July 2017, and August 2017
DOI: 10.5061/dryad.k9f1p42/5
title: Monarch Oviposition Experiment 2017
DOI: 10.5061/dryad.k9f1p42/6
title: Monarch Survival Experiment Predator Surveys August 2016
DOI: 10.5061/dryad.k9f1p42/7
title: Monarch Survival Experiment Predator Surveys July & August 2017
DOI: 10.5061/dryad.k9f1p42/8
title: Monarch Oviposition Experiment Adult Observations 2016 & 2017
DOI: 10.5061/dryad.k9f1p42/9
title: R script for analysis of monarch butterfly oviposition data for 2016 and 2017
DOI: 10.5061/dryad.km46s6d/1
title: Data_wood_nonwood_products_Indonesia

description: The data file is available in Excel which cover stand type, age of stand, location, plant species, plant use, life cycle of plant, plant status (native, exotic), number of plant species.
DOI: 10.5061/dryad.pr10c20/1
title: statistical_codes

description: contains the statistical codes used to: 1- derive residuals of methylation data ; 2a - run EWAS cross-sectionally; 2b - run EWAS as repeated cross-sectional analysis; 2c - run EWAS predictive association with change in outcome; 3a - meta-analysis script for replication ; 3b - combined  discovery and replication meta-analysis script.
DOI: 10.5061/dryad.pr10c20/2
title: DiscoveryResultsByCohorts_archive.tar

description: This archive contains all the cohort-specific discovery EWAS results. See read-me file for details.
DOI: 10.5061/dryad.pr10c20/3
title: DiscoveryMetaResults_archive.tar

description: This archive contains all the discovery EWAS meta-analysed results. See read-me file for details.
DOI: 10.5061/dryad.pr10c20/4
title: ReplicationResultsByCohorts.tar

description: This archive contains all the cohort-specific replication results. See read-me file for details.
DOI: 10.5061/dryad.pr10c20/5
title: ReplicationMetaResults.tar

description: This archive contains all the replication meta-analysed results. See read-me file for details.
DOI: 10.5061/dryad.q83g0bv/1
title: online_data_descriptors
DOI: 10.5061/dryad.q83g0bv/2
title: energies

description: Code to compute transmission quantities based on the WSS
DOI: 10.5061/dryad.sc65030/1
title: Supplementary Material S1

description: GARD SOP v.05.01
DOI: 10.5061/dryad.sc65030/2
title: Supplementary Material S2

description: Results calculation spreadsheat.
DOI: 10.5061/dryad.sc65030/3
title: Supplementary Material S3 revised

description: Historical data.
DOI: 10.5061/dryad.t5n8805/1
title: HemipteranAbundances_Dec2014

description: Number of individuals per quadrat for hemipteran morpho-species collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t5n8805/2
title: SpiderAbundances_Dec2014

description: Number of individuals per quadrat for spider morpho-species collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t7r7899/1
title: Townsend et al_Condor 2019_crow cholesterol data

description: Contains cholesterol, percentage of impervious surface, age, and condition data from California and New York populations; fledging success from California population
DOI: 10.5061/dryad.t7r7899/2
title: Townsend et al_Condor 2019_mark-recap data

description: Encounter history in Mark-Recapture format for Davis, California population. Individual covariates: cholesterol and % impervious surface in 10ha buffers around nests.
DOI: 10.5061/dryad.tr4185n/30
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/31
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/32
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/33
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/34
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/35
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/36
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/37
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.vk4br80/3
title: Supplementary Table S1

description: 2362 microsatellite loci identified from the Antarctic fur seal transcriptome assembly that consist of a minimum of five short tandem repeats with perfect di-, tri- and tetranucleotide motifs.
DOI: 10.5061/dryad.vk4br80/4
title: Supplementary Table S2

description: 96 microsatellite loci selected for testing, comprising twenty that appeared polymorphic in silico as described by Hoffman and Nichols (2011) plus a further 76 loci that carried at least six repeat units.
DOI: 10.5061/dryad.32f49q5/1
title: Demographic data of Gesneria pauciflora
DOI: 10.5061/dryad.3jj548d/2
title: Invertebrate macro remains of selected lakes in the Upper Lough Erne system

description: Invertebrate macro remains found in cores ULET2 (Upper Lough Erne), NCAS3 (Castle Lough), CBRAS1 (Cornabrass Lough), KILL2 (Killymackan Lough), and HEAD1 (Lough Head). The sediment data was collected in the field during 2008-2009 in the Upper Lough Erne system and analysed in the laboratory
DOI: 10.5061/dryad.3jj548d/3
title: Macrophyte data of contemporary surveys

description: Macrophyte (submerged and floating plants) occurrences data  obtained from a site condition assessment of standing water features in the ULE system undertaken for the Northern Ireland Environmental Agency (NIEA) during the summers of 2006-2007 (Goldsmith et al., 2008).
DOI: 10.5061/dryad.3jj548d/4
title: Sub-fossil remain data of invertebrate taxa from 12 lakes in the Upper Lough Erne system

description: Sub-fossil remain data of invertebrate taxa collected in the field in surface sediment samples (uppermost 2 cm) from 12 lakes in the Upper Lough Erne system.
DOI: 10.5061/dryad.5gr7275/1
title: Tb_SuperbFairyWren_Winter2019_daily values

description: Daily values of skin temperature and other relevant variables
DOI: 10.5061/dryad.6062s6t/1
title: JEXBIO_2019_201400_data

description: All data used in this publication. Each sheet in the Excel file refers to one experiment, and the first sheet provides explanatory information.
DOI: 10.5061/dryad.60m1ps0/1
title: Shores_2019_code_Figure_4_Table_2_Mesopredators change temporal activity patterns in response to an apex predator_GLMM

description: Annotated R code to reproduce species activity models with free R statistical software andR package glmmTMB
DOI: 10.5061/dryad.60m1ps0/2
title: Shores_2019_data_Figure_4_Table_2_Mesopredator and apex predator activity records from game cameras_GLMM

description: Data of recorded species observations from game cameras. Description of columns in .csv file: Location = unique identifier corresponding to each camera location; study_area: Categorical variable identifying 1 of 4 study areas, N = Nc’icn (wolf area), S = Strawberry (wolf area), B = Bonaparte (non-wolf area), A = Aeneas (non-wolf area); date: unique identifier corresponding to dates starting with 0 = May 1, 2013 and 1095 = April 30, 2016; time_cat: time category of either night, dawn, day or dusk; season: winter or summer; bobcat/coyote/human/wolf_activity: number of photographs of the identified species indexed by time category, date, and camera sampling location; day: fraction of a day represented by each time category. This column is used in the model offset to account for the varying amount of time (10 hours vs. 2 hours) in the different time categories; wolf_presence: yes or no for whether a wolf pack was present in the study area.
DOI: 10.5061/dryad.60m1ps0/3
title: Shores_2019_code_Figures 2 and 3_Temporal overlap analysis

description: Annotated R code to reproduce species temporal overlap analysis with free R statistical software and R package Overlap.
DOI: 10.5061/dryad.60m1ps0/4
title: Shores_2019_data_Figure_2_bobcat_activity_times_temporal_overlap analysis

description: Data of times of species observations from game cameras from 5/1/2013 to 4/30/2016. Description of columns in .csv file: standardized clocktime: 24 hour time standardized to account for changes in daylength throughout the year; timed = standardized time in decimal degrees; timerad: standardized time in radians; zone: 1 = study areas with no resident wolf packs, 2 = study areas with resident wolf packs, species: species data contained in .csv file; imagedate = calendar date of the recorded observation, original_clocktime_dd = original clocktime, not standardized to account for changes in daylength over the course of a year, in decimal degrees; site: unique identifier for each camera location. W = study area with resident wolf packs, NW = non-wolf study areas
DOI: 10.5061/dryad.60m1ps0/5
title: Shores_2019_data_Figures_2_and_3_coyote_activity_times_temporal_overlap analysis

description: Data of times of species observations from game cameras from 5/1/2013 to 4/30/2016. Description of columns in .csv file: standardized clocktime: 24 hour time standardized to account for changes in daylength throughout the year; timed = standardized time in decimal degrees; timerad: standardized time in radians; zone: 1 = study areas with no resident wolf packs, 2 = study areas with resident wolf packs, species: species data contained in .csv file; imagedate = calendar date of the recorded observation, original_clocktime_dd = original clocktime, not standardized to account for changes in daylength over the course of a year, in decimal degrees; site: unique identifier for each camera location. W = study area with resident wolf packs, NW = non-wolf study areas
DOI: 10.5061/dryad.60m1ps0/6
title: Shores_2019_data_Figures_2_and_3_human_activity_times_temporal_overlap analysis

description: Data of times of species observations from game cameras from 5/1/2013 to 4/30/2016. Description of columns in .csv file: standardized clocktime: 24 hour time standardized to account for changes in daylength throughout the year; timed = standardized time in decimal degrees; timerad: standardized time in radians; zone: 1 = study areas with no resident wolf packs, 2 = study areas with resident wolf packs, species: species data contained in .csv file; imagedate = calendar date of the recorded observation, original_clocktime_dd = original clocktime, not standardized to account for changes in daylength over the course of a year, in decimal degrees; site: unique identifier for each camera location. W = study area with resident wolf packs, NW = non-wolf study areas
DOI: 10.5061/dryad.60m1ps0/7
title: Shores_2019_data_Figures_2_and_3_wolf_activity_times_temporal_overlap analysis

description: Data of times of species observations from game cameras from 5/1/2013 to 4/30/2016. Description of columns in .csv file: standardized clocktime: 24 hour time standardized to account for changes in daylength throughout the year; timed = standardized time in decimal degrees; timerad: standardized time in radians; zone: 1 = study areas with no resident wolf packs, 2 = study areas with resident wolf packs, species: species data contained in .csv file; imagedate = calendar date of the recorded observation, original_clocktime_dd = original clocktime, not standardized to account for changes in daylength over the course of a year, in decimal degrees; site: unique identifier for each camera location. W = study area with resident wolf packs, NW = non-wolf study areas
DOI: 10.5061/dryad.60m1ps0/8
title: Shores_2019_README_Mesopredators change temporal activity in response to recolonizing apex predator

description: File with descriptions of each data file, software and statistical packages used, list and description of all files associated with the paper
DOI: 10.5061/dryad.687m14t.2
title: Data from: Macroevolutionary patterns in overexpression of tyrosine: an anti-herbivore defense in a speciose tropical tree genus, Inga (Fabaceae)
DOI: 10.5061/dryad.687m14t.2/1.2
title: Retention time and abundance of tyrosine and derivatives in Inga

description: Tyrosine content and the retention times and abundances of tyrosine, tyramine and DOPA gallate ions for each species and site. The ‘Species code’ is our identifier for both species and site. Codes beginning in 'Ing' are from Barro Colorado Island, Panama; 'LA' are from Los Amigos, Peru, 'M' are from Manaus (Km41), Brazil; 'N' are from Nouragues, French Guiana; and 'T' are from Tiputini, Ecuador. Exp and M are expanding and mature leaves, respectively, with ‘n’ indicating sample size. RT is retention time on the UPLC column. TIC is total ion count or ion abundance. Most species/site combinations had five independent UPLC-MS analyses; the exceptions are noted. All UPLC-MS analyses were as described in ‘Analysis of gallic acid depsides of tyrosine, tyramine and DOPA’. For this table, one sample with the highest signal was analyzed per species/site combination by searching for the m/z values given in Table S2. Since the ion abundances of these amines were consistently higher by factors of 6x to 60x for positive mode relative to negative mode, this analysis exclusively used positive mode data in order to maximize sensitivity.
DOI: 10.5061/dryad.687m14t.2/2.2
title: Transcriptomic data for Inga species

description: Quality metrics for transcriptomes. Quantity and quality of RNA, library size, Trinity assembly metrics and the percentage of contigs annotated through the Trinnotate pipeline.
DOI: 10.5061/dryad.687m14t.2/3.2
title: Recorded damage to Inga by insect herbivores separated by site and tyrosine expression

description: Herbivore damage to expanding leaves for species with and without tyrosine overexpression. Species that contained tyrosine-derivatives in addition to free tyrosine were included in the tyrosine-plus category. Data are from French Guiana (FG), Brazil (B), Peru (Pe) and Ecuador (E). Panama is excluded from the analysis as only one species contained tyrosine. An ANOVA exploring the effect of tyrosine status (T+ or T-) on herbivory showed lower damage for species without tyrosine (p &lt; 0.001).
DOI: 10.5061/dryad.687m14t.2/4.2
title: Assembled transcriptomes

description: Trinity assemblies of Inga transcriptomes
DOI: 10.5061/dryad.6970v40/1
title: Biological data

description: Data on (i) bat activity and species richness; and (ii) insect biomass, abundance, and family richness. Data were collected in the field in 2016.
DOI: 10.5061/dryad.6970v40/2
title: Farm coordinates

description: Coordinates of the farms sampled (PCS, WGS84, decimal degrees). Exact location information is generalized to protect landowners; the georeference is rounded to 0.01 degree.
DOI: 10.5061/dryad.6970v40/3
title: Site and landscape features

description: Description of the hedgerows sampled in the field and characteristics of the landscape surrounding each hedgerow at different spatial scales.
DOI: 10.5061/dryad.8mv00jv/1
title: Virtual Reconstruction of Carduispongia pedicula holotype (OUMNH C.36010)

description: 3D Virtual Reconstruction of OUMNH C.36010, Carduispongia pedicula holotype. VAXML/STL format. From synchrotron scan data.
DOI: 10.5061/dryad.987md65/1
title: Memory Development Study 1: Trial Data (Rosati)

description: Trial data from Study 1 (Memory after a long delay). Key for variable codes included as a separate tab in the file.
DOI: 10.5061/dryad.987md65/2
title: Memory Development Study 2: Subject Data (Rosati)

description: Subject data from Study 2 (Memory for multiple locations) comprising the first four locations searched during the task. Key for variable codes included as a separate tab in the file.
DOI: 10.5061/dryad.987md65/3
title: Memory Development Study 2: Trial Data (Rosati)

description: Trial data from Study 2 (Memory for multiple locations) including latencies for all searches. Key for variable codes included as a separate tab in the file.
DOI: 10.5061/dryad.987md65/4
title: Memory Development Study 3: Subject Data (Rosati)

description: Subject data from Study 3 (Control) with comparisons to those subjects performance on Study 2 (Memory for multiple locations) comprising the first four locations searched during the tasks. Key for variable codes included as a separate tab in the file.
DOI: 10.5061/dryad.987md65/5
title: Video S1: Long Delay - Bonobo

description: Video S1: Long Delay (Study 1) – Bonobo. Experimenter 1 (E1) baits and fake-baits the two containers (in counterbalanced order across trials) while Experimenter 2 (E2) attracts the bonobo to the centered starting location on the other side of the room. Once the baiting is complete, the bonobo approaches the left (correct) container and E1 then gives the food. In initial learning trials the ape could self-correct if they initially made an incorrect choice, whereas in test trials one week later they could not. Correct side was counterbalanced across individuals.
DOI: 10.5061/dryad.k7505mn/10
title: J_Phylogenetic_trees

description: This file contains all the phylogenetic trees associated with this study.
DOI: 10.5061/dryad.k7505mn/11
title: L_Divergence_time_results

description: This package contains the results of divergence time analyses.
DOI: 10.5061/dryad.k7505mn/9
title: GHI_Data_matrices

description: This file contains data matrices used in this study.
DOI: 10.5061/dryad.pr10c20/6
title: CombinedMetaResults.tar

description: This archive contains the discovery cohort and replication cohort combined meta-analysed results. See read-me file for details.
DOI: 10.5061/dryad.pr10c20/7
title: ChildhoodMetaResults.tar

description: This archive contains all the childhood cohort replication meta-analysed results. See read-me file for details.
DOI: 10.5061/dryad.t4k343g/1
title: TwoPreds_OnePrey_V2

description: Matlab code used to run simulations.
DOI: 10.5061/dryad.t5n8805/3
title: WaspAbundances_Dec2014

description: Number of individuals per quadrat for parasitoid wasp morpho-species collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t5n8805/4
title: PlantCovers_m2_Dec2014

description: Cover (in m2) per quadrat for plant morpho-species sampled at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t5n8805/5
title: HemipteranTaxonomy_Dec2014

description: Taxonomy of hemipterans collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t5n8805/6
title: SpiderTaxonomy_Dec2014

description: Taxonomy of spiders collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t5n8805/7
title: WaspTaxonomy_Dec2014

description: Taxonomy of parasitoid wasps collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.t5n8805/8
title: PlantTaxonomy_Dec2014

description: Taxonomy of plants collected on the vegetation at Jonkershoek on December 2014 (six year old vegetation (post-fire age)).
DOI: 10.5061/dryad.tr4185n/38
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/39
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/40
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/41
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/42
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/43
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/44
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/45
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.tr4185n/46
title: Proteomic analysis of Leishmania-infected murine macrophages
DOI: 10.5061/dryad.v1265j8/1
title: Supplementary Data Excel file

description: Supplementary data for: NATURE AND TIMING OF BIOTIC RECOVERY IN ANTARCTIC BENTHIC MARINE ECOSYSTEMS FOLLOWING THE CRETACEOUS-PALEOGENE (K–PG) MASS EXTINCTION
DOI: 10.5061/dryad.v1265j8/2
title: Supplementary figures and tables

description: Supplementary figures and tables for: NATURE AND TIMING OF BIOTIC RECOVERY IN ANTARCTIC BENTHIC MARINE ECOSYSTEMS FOLLOWING THE CRETACEOUS-PALEOGENE (K–PG) MASS EXTINCTION
DOI: 10.5061/dryad.vk4br80/10
title: arc_gaz_transcriptome.fasta
DOI: 10.5061/dryad.vk4br80/11
title: arc_gaz_transcriptome_annotations
DOI: 10.5061/dryad.vk4br80/12
title: immune_microsats_raw
DOI: 10.5061/dryad.vk4br80/2
title: Supplementary File S1

description: R-Markdown PDF
DOI: 10.5061/dryad.vk4br80/5
title: Supplementary Table S3

description: Summary of the eleven immune microsatellites developed as part of this study.
DOI: 10.5061/dryad.vk4br80/6
title: Supplementary Table S4

description: Summary of the 48 neutral loci and the two previously published immune loci (Hoffman and Nichols, 2011) genotyped in this study, including their polymorphism characteristics in 234 Antarctic fur seal individuals.
DOI: 10.5061/dryad.vk4br80/7
title: Supplementary File S1

description: R-Markdown Code
DOI: 10.5061/dryad.vk4br80/8
title: ImmuneMicrosats_supplementary
DOI: 10.5061/dryad.vk4br80/9
title: arc_gaz_transcriptome.fasta
DOI: 10.5061/dryad.vv7s70m/3
title: DryadMiminalDataSet

description: This .csv file contains the results of all the simulations used in our analysis. The file consists of 4800 rows and 11 columns. The columns are: 1) the effort (in km), 2) the model used to generate an estimate (encounter only, encounter and harvest, encounter and harvest and information from collars), 3) the average number of recaptures per individual, 4) the average number of spatial recaptures, 5) baseline probability of detection, 6) median effort per cell, 7) observed correlation with animal density, 8) number of individuals seen, 9) estimated density, 10) true density, and 11) whether the effort was induced to be correlated with animal density.
DOI: 10.17632/7js9fmcbhs.1
title: Data for: On comparing composition principles of long DNA sequences with those of random ones

description: Software manual and full skew analysis of all organisms chosen from the GenBank
DOI: 10.17632/cmn2t9zwnw.1
title: Data for: Investigation of the thermal structure and radiogenic heat production through aeromagnetic data for the Southeastern Aegean Sea and western part of Turkey

description: the data file contains applying to reduce to pole correction