cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.5p464rm/10
title: hydrology statistics and graphs

description: R code for graphing Elder Creek stream flows and calculating trends relative to long term average stream flows
DOI: 10.5061/dryad.5p464rm/11
title: movement and flows_dryad

description: R code exploring how juvenile O. mykiss out migration timing relates to stream flows
DOI: 10.5061/dryad.5p464rm/5
title: PITdetections
DOI: 10.5061/dryad.5p464rm/6
title: fish_summer_recaptures
DOI: 10.5061/dryad.5p464rm/7
title: rivendell_start_stop_functioning

description: Dates when the array at Elder creek were not functioning, used for plotting purposes
DOI: 10.5061/dryad.5p464rm/8
title: sfk_at_leggett_USGS11475800_daily

description: Stream flow data from the USGS gage 11475800, South Fork Eel River at Leggett
DOI: 10.5061/dryad.5p464rm/9
title: growth and condition factor

description: R code for exploring over summer growth and condition factor of juvenile O. mykiss
DOI: 10.5061/dryad.6cv82g1/1
title: Extant Crocodylian Dorsal Skull Landmarks

description: A TPS file containing the landmark positions for all specimens included in the total ontogeny GMM analysis.
DOI: 10.5061/dryad.6cv82g1/2
title: Skull images used in landmarking

description: ZIP file containing a folder of all images used for landmarking in this analysis. Image names match those in the specimen list.
DOI: 10.5061/dryad.6cv82g1/3
title: Specimen List CSV

description: A CSV version of the specimen list table.
DOI: 10.5061/dryad.6cv82g1/4
title: Specimen List PDF

description: PDF table giving the specimen ID numbers, age, genus, species, and image filename used in the analysis.
DOI: 10.5061/dryad.6cv82g1/5
title: Molecular Phylogeny File

description: Nexus file containing the phylogeny following the molecular topology with branch lengths (after Oaks, 2016).
DOI: 10.5061/dryad.6k9v66n/1
title: Trunschke et al._EcolEvol_2018_PlantHtSpurLManipulation
DOI: 10.5061/dryad.6k9v66n/2
title: Trunschke et al._EcolEvol_2018_PlantHtSpurLSelection_female fitness
DOI: 10.5061/dryad.6k9v66n/3
title: Trunschke et al._EcolEvol_2018_PlantHtSpurLSelection_pollen removal
DOI: 10.5061/dryad.80f293g/1
title: Group Size-GIN dataset

description: See associated ReadMe file
DOI: 10.5061/dryad.80f293g/2
title: Group Size-Feeding dataset

description: see associated ReadMe file
DOI: 10.5061/dryad.8206227/47
title: S15C-Telluraves-Overlap-Split-Concept-Resolution-0-mncb

description: S15C Fig. Alignment visualization for the 2015./2014.Telluraves alignment (higher-level subset), under split-concept resolution. File format: .pdf.
DOI: 10.5061/dryad.c6t0470/1
title: Example files Appendix S1
DOI: 10.5061/dryad.c6t0470/2
title: Cervus elaphus - CMR data
DOI: 10.5061/dryad.c6t0470/3
title: Sus scrofa - CMR data
DOI: 10.5061/dryad.c6t0470/4
title: Cervus elaphus - microsatellites matrix
DOI: 10.5061/dryad.c6t0470/5
title: Sus scrofa - microsatellites matrix
DOI: 10.5061/dryad.cn63cj7/3
title: RudmanSticklebackCAFluxData_180219

description: Data on calcium uptake rates from individuals collected from different stickleback populations.
DOI: 10.5061/dryad.cn63cj7/4
title: Rudman_StickleabckPhosAssimData_180219

description: Data on P assimilation efficiency of stickleback individuals.
DOI: 10.5061/dryad.d36f5/10
title: Ptilotula_flavescens_fuscus_ddRAD

description: Sorted bam files of ddRAD reads mapped onto a reference.
DOI: 10.5061/dryad.d36f5/9
title: Philemon_citreogularis_ddRAD

description: Sorted bam files of ddRAD reads mapped onto a reference.
DOI: 10.5061/dryad.gv144d5.1
title: Data from: Automated morphological feature assessment for zebrafish embryo developmental toxicity screens
DOI: 10.5061/dryad.gv144d5.1/1.1
title: KNIME workflow to evaluate morphological features using the FishInspector software

description: This workflow allows to measure morphological features of zebrafish larvae (48hpf or 96 hpf) using the output file (json format) from the FishInspector software. The file should be imported to the KNIME open source analytical platform.
DOI: 10.5061/dryad.gv144d5.1/3.1
title: Heart rate analysis zebrafish

description: This workflow allows to measure the heart frequence of zebrafih larvae from videos obtained with the VAST BioImager system. The workflow should be imported to the KNIME open analytical platform.
DOI: 10.5061/dryad.gv144d5.1/4.1
title: Knime workflow to rotate and crop zebrafish images

description: This workflow automatically rotates, crop the images and draws a virtual capillary based on a ImageJ macro.The workflow can easily be adapted to accommodate different image properties depending on the source of the image (e.g. intensity, contrast).
DOI: 10.5061/dryad.gv144d5.2/1.2
title: KNIME workflow to evaluate morphological features using the FishInspector software

description: This workflow allows to measure morphological features of zebrafish larvae (48hpf or 96 hpf) using the output file (json format) from the FishInspector software. The file should be imported to the KNIME open source analytical platform.
DOI: 10.5061/dryad.gv144d5.2/2.2
title: Output raw data

description: Contains the output data (morphometric parameters, mean traveled distance -LMR- and heart rate) obtained from image analysis from embryos exposed to the chemicals as described in the article.
DOI: 10.5061/dryad.gv144d5.2/3.2
title: Heart rate analysis zebrafish

description: This workflow allows to measure the heart frequence of zebrafih larvae from videos obtained with the VAST BioImager system. The workflow should be imported to the KNIME open analytical platform.
DOI: 10.5061/dryad.gv144d5.2/4.2
title: Knime workflow to rotate and crop zebrafish images

description: This workflow automatically rotates, crop the images and draws a virtual capillary based on a ImageJ macro.The workflow can easily be adapted to accommodate different image properties depending on the source of the image (e.g. intensity, contrast).
DOI: 10.5061/dryad.h1107nd/1
title: Agrp2_interval_reference_Pundamilia_nyererei

description: Reference sequence of the fine mapped QTL interval. Sequence is based on the genome assembly of Pundamilia nyererei (Brawand et al. 2014), but was fully corrected by Sanger sequencing to fill gaps of the assembly and correct nucleotide variants.
DOI: 10.5061/dryad.h1107nd/2
title: Agrp2_Enhancer_sequences_and_trees

description: The gene tree for the agrp2 enhancer (enh.a) for the same 24 Great Lake cichlid species examined for the association of agrp2 expression and the presence of a stripe as well as Oreochromis niloticus was reconstructed in BEAST. Analyses of relationships were run five times for 20 million generations each to infer the locus history, and we discarded the first 10 million generations from each run as burn-in samples. We then combined the post burn-in trees to estimate the posterior probabilities of nodes subtending the 24 Great Lake cichlids for this single locus.The zip file contains the alignment of the 25 species (Agrp2_Enhancer_sequences.nex) and the gene trees of the 5 runs (Agrp2_Enhancer_trees_*run.trees).
DOI: 10.5061/dryad.h1107nd/3
title: Gene_Trees_6_genes_dataset

description: To examine the evolutionary association between agrp2 expression and the presence of stripes, phylogenetic relationships among 24 focal cichlid species that either possess or do not possess stripes from Lakes Victoria, Malawi and Tanganyika were reconstructed. Oreochromis niloticus was also included as an outgroup to these species. Evolutionary relationships were estimated in a species tree framework using three data sets. First, we estimated the species tree with six loci including ND2, mitfa, mitfb, lws, s7, and rag1. This phylogenetic data matrix of 3474 bp was composed of genetic information available from GenBank combined with newly generated Sanger sequences that were used to reconstruct the species tree of these species in BEAST. This analysis was run five times for 20 million generations each, and we discarded the first 10 million trees as burn-in for each run. The zip file contains the alignment of the 25 species and 6 loci (Gene_Sequences_*.nex), a table with phenotype and relative agrp2 gene expression (Matrix_expression_stripes_6_genes.csv) and the gene trees of the 5 runs (Gene_Trees_6_genes_*run.trees).
DOI: 10.5061/dryad.h1107nd/4
title: Gene_Trees_30_genes_dataset

description: To examine the evolutionary association between agrp2 expression and the presence of stripes, phylogenetic relationships among 24 focal cichlid species that either possess or do not possess stripes from Lakes Victoria, Malawi and Tanganyika were reconstructed. Oreochromis niloticus was also included as an outgroup to these species. To obtain an independent phylogenetic hypothesis for testing associations between agrp2 expression and the presence of stripes, we constructed a phylogenetic matrix for 22 of the 25 species used in the  Gene_Trees_6_genes_dataset using genomic sequences of 30 additional genes (arnt, azin1a, bcanb, bmp4, cspg5a, ctnnb1, dlx1a, dlx2a, dlx3b, dlx4a, dlx4b, edn2, fzd6, irx1a, irx2a, irx4a, isl1, myg1, ndrg1b, nrp2b, ntrk1, osr2, pitx1, pitx2, pitx3, shh, smo, sostdc1a, tuft1a and wnt4b) from published genomes as well as from target enrichment data. Also here, the analysis was run five times for 20 million generations each and we discarded the first 10 million trees for each run as burn-in. The zip file contains the alignment of the 22 species and 30 loci (Gene_Sequences_*.nex), a table with phenotype and relative agrp2 gene expression (Matrix_expression_stripes_30_genes.csv) and the gene trees of the 5 runs (Gene_Trees_30_genes_*run.trees).
DOI: 10.5061/dryad.h8401kn/2
title: All code used for analyses

description: R Markdown file with code used for analyses. Note that different sections of this code refer to different data spreadsheets as indicated ("field").
DOI: 10.5061/dryad.j574gb3/1
title: Stand data

description: This file contains the mean species richness, litter depth, Pinus contorta growth rate, and basal area of each stand sampled in the study. The values are the means of 10 2x2 m plots that were randomly located in each stand. At each site there was a Pinus contorta stand and a stand of non-Pinus contorta vegetation. We use the term "stand" for simplicity but the other vegetation types could include other forest types, plantations, shrublands or grasslands. The vegetation type of each stand is noted. The location of each site is also noted.
DOI: 10.5061/dryad.jr412dq/1
title: Goodman_etal_Chernobyl1

description: Life history data for Daphnia pulex sampled in Chernobyl and assessed under natural UK background conditions in the laboratory.
DOI: 10.5061/dryad.jr747k3/1
title: Linear morphological measurements of 89 species

description: Species averages of linear morphological measurements collected on 89 species. These data were used to run the principle components analysis shown in Figure 1. Abbreviations are given in Table S2.
DOI: 10.5061/dryad.jr747k3/2
title: Cost of transport data (Uopt and MinCOT)

description: Contains swimming mode, minimum cost of transport (minCOT), and speed at minCOT (Uopt), along with individual fish ID, temperature, and morphological PCA values for each individual of seven species tested. These data were used to create Figure 3.
DOI: 10.5061/dryad.jr747k3/3
title: Phylogenetic tree

description: Phylogenetic tree used to generate the phylomorphospace depicted in Figure 1 and to correct swimming  performance metrics for phylogenetic relatedness using the PGLMM method described in the paper.  GenBank accession numbers are provided in Table S1 and sequence alignments are available upon request.
DOI: 10.5061/dryad.jr747k3/4
title: Maximum sprint speed data

description: Contains the highest speed achieved during all sprinting trials, swimming mode, individual ID, temperature, and morphological PCA values for each fish tested for performance.  These data were used to create Figure 2.
DOI: 10.5061/dryad.jt2002k/1
title: sa_cape_weaver_PC2_int.RData

description: R data file used to perform the analysis for the Cape Weaver data set.
DOI: 10.5061/dryad.jt2002k/2
title: sa_hgfowl_PC2.RData

description: R data files used to perform the analysis of the Helmeted Guineafowl data set.
DOI: 10.5061/dryad.rd46vq3/2
title: ReferencesDataset

description: File with reference source of the interaction records reported in the dataset PalmFrugDatasetOCT2018.csv
DOI: 10.5061/dryad.t2c668d/1
title: Emydura_sth_gl
DOI: 10.5061/dryad.t50q216/37
title: PsLysozyme b1 PGRPRNAi and Ec

description: Relative expression level to L32 (fig. 5g).
DOI: 10.5061/dryad.t50q216/38
title: PsLysozyme b1 PGRPRNAi and Ml

description: Relative expression level to L32 (fig. 5h).
DOI: 10.5061/dryad.t50q216/39
title: PsLysozyme c1 PGRPRNAi and Ec

description: Relative expression level to L32 (fig. 5i).
DOI: 10.5061/dryad.t50q216/40
title: PsLysozyme c1 PGRPRNAi and Ml

description: Relative expression level to L32 (fig. 5j).
DOI: 10.5061/dryad.t50q216/41
title: PsDefensin1 GNBPRNAi and Ec

description: Relative expression level to L32 (fig. 5a).
DOI: 10.5061/dryad.t50q216/42
title: PsDefensin1 GNBPRNAi and Ml

description: Relative expression level to L32 (fig. 5b).
DOI: 10.5061/dryad.t50q216/43
title: PsDefensin2 GNBPRNAi and Ec

description: Relative expression level to L32 (fig. 5c).
DOI: 10.5061/dryad.t50q216/44
title: PsDefensin2 GNBPRNAi and Ml

description: Relative expression level to L32 (fig. 5d).
DOI: 10.5061/dryad.th03671/1
title: BaselineCort_Vitousek_AmNat

description: Contains data on baseline glucocorticoid levels, and associated phenotypic, life history, and environmental data.

Column names: Species, Vert_Group, Sex, Therm (‘ECT’ – Ectotherm/’END’ – Endotherm), Pop_ID (identifies the population from which samples were collected), BC_Mean (mean baseline glucocorticoid level in ng/mL), Lab_ID, Breeding_season, LongevityMax (maximum longevity), Max Breed (maximum lifetime reproductive attempts), Mass, MR (metabolic rate), Social_measured (degree of social grouping during season of measurement), Temp_Season (mean monthly temperature during season of measurement), Precip_Season (mean monthly precipitation during season of measurement), TempSD_Season (intra-seasonal variation in temperature – standard deviation), PrecipSD_Season (intra-seasonal variation in precipitation – standard deviation), TempSD_InterSeason (inter-seasonal variation – standard deviation), PrecipSD_InterSeason (inter-seasonal variation in precipitation – standard deviation), VarPC1 (first principal component score of environmental variation, VarPC2 (second principal component score of environmental variation).
DOI: 10.5061/dryad.th03671/2
title: StressedCort_Vitousek_AmNat

description: Contains information on stress-induced glucocorticoid levels, and associated phenotypic, life history, and environmental data.

Column names: Species, Vert_Group, Sex, Therm (‘ECT’ – Ectotherm/’END’ – Endotherm), Pop_ID (identifies the population from which samples were collected), BC_Mean (mean baseline glucocorticoids in ng/mL), SC_Mean (mean stress-induced glucocorticoids in ng/mL), Lab_ID, Breeding_season, LongevityMax (maximum longevity), Max Breed (maximum lifetime reproductive attempts), Mass, MR (metabolic rate), Social_measured (degree of social grouping during season of measurement), Temp_Season (mean monthly temperature during season of measurement), Precip_Season (mean monthly precipitation during season of measurement), TempSD_Season (intra-seasonal variation in temperature – standard deviation), PrecipSD_Season (intra-seasonal variation in precipitation – standard deviation), TempSD_InterSeason (inter-seasonal variation – standard deviation), PrecipSD_InterSeason (inter-seasonal variation in precipitation – standard deviation), VarPC1 (first principal component score of environmental variation, VarPC2 (second principal component score of environmental variation).
DOI: 10.5061/dryad.vr24515/1
title: Data_Base_ BITR-18-117
DOI: 10.17632/5hrt53fg8b.1
title: Data for: Endovascular Embolization of Highly Vascular Head and Neck Tumors

description: This is the data sheet for 36 patients collected over a 2 year period at Lahore General Hospital, department of Neurosurgery. All pertinent information regarding the patients needed for the study is available here and freely referencable for anyone for educational purposes ONLY
DOI: 10.17632/9cd5rpjvzc.1
title: Data for: Using beef-breed semen in seropositive dams for the control of bovine neosporosis

description: Data regarding serological invesigation for neospora positivity and abortion in a herd, over a study period of 5 years. Data consented the evaluation of a program for controlling bovine neosporosis based only on the use of beef semen, without culling seropositive animals.
DOI: 10.17632/cbz8hrfsjk.1
title: Data for: The efficiency and economic aspects of phytoremediation technology using Phalaris arundinacea L. and Brassica napus L. combined with compost and nano SiO2 fertilization for the removal of PAH's from soil

description: The data contain 2 sets of tables. First set includes a detailed changes of 16 PAH's content, occurring during the implementation of the 3-year research cycle. They concern research carried out in in-situ conditions. The research was conducted with the use of energy plants (P. arundinacea, B. napus) fertilized with compost and nano-silicon dioxide. The second section of data contains a list of economic coefficients used in the analysis of the economic potential of the phytoremediation process.
DOI: 10.17632/tct679957d.1
title: Data for: Co-seismic surface ruptures in Qiangtang Terrane: insight into Late Cenozoic deformation of central Tibet

description: Geomorphic offsets along an 88 km section of the BGCF (83°41’E–84°30’E). To distinguish field data from satellite images, we numbered the offsets measured by tape and GPS in the field such as “1, 2, 3” (Table 1). For simplicity, all the points are given with their geographical coordinates and distance along the fault from an arbitrary reference taken at longitude 84°E (positive eastward, negative westward)
DOI: 10.5061/dryad.01c53v5/1
title: Genotypes of Cavitermes tuberosus

description: Microsatellite data of Cavitermes tuberosus at 17 loci. The nest of origin, developmental stage, sex, reproductive origin is given for each individual.
DOI: 10.5061/dryad.1gf7803/1
title: Data from: Social parasitism as an alternative reproductive tactic in a communally breeding cuckoo

description: Excel file with three spreadsheets, containing 1) individual egg data from genotyped eggs from female Greater Anis; 2) annual reproductive output for individual female Greater Anis; 3) pairwise linear distances for host and parasite nests of communal groups of Greater Anis.
DOI: 10.5061/dryad.20pj467/1
title: Data for all experiments undertaken in "Behavioural tactics used by invasive cane toads..."

description: All data described in this paper can be found under each tab in the Excel file.
DOI: 10.5061/dryad.24vm627/1
title: Modelled turtles_interpolated_locations

description: Interpolated location data used for phase 2 models.
DOI: 10.5061/dryad.24vm627/2
title: Foraging grounds locations

description: Position of foraging grounds for the 6 turtles for which this information is available (used for phase 2 simulations)
DOI: 10.15468/dl.8rssuw
title: Occurrence Download

description: A dataset containing 132 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation, Occurrence evidence)",
 "CoordinateUncertaintyInMeters 0.0-1000.0",
 "Country is Germany",
 "DatasetKey is one of (naturgucker, Observation.org, Nature data from around the World, iNaturalist Research-grade Observations)",
 "GadmGid is DEU.10.24_1",
 "License is one of (CC-BY-NC 4.0, CC-BY 4.0, CC0 1.0)",
 "MediaType is Image",
 "OccurrenceStatus is Present",
 "TaxonKey is Apis mellifera Linnaeus, 1758",
 "Year 2007-2024"
 ]
}

 The dataset includes 132 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0088806-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3kpre3
title: Occurrence Download

description: A dataset containing 397 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Psenulus concolor (Dahlbom, 1843)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 397 records from 38 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0088807-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ht9w2v
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ambystoma amblycephalum Taylor, 1940)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0088808-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pce2u8
title: Occurrence Download

description: A dataset containing 680 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Anthonomus pomorum (C.Linnaeus, 1758)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 680 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0088809-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ja4c8g
title: Occurrence Download

description: A dataset containing 775 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Psenulus pallipes (Panzer, 1798)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 775 records from 56 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0088810-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yvpe22
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ambystoma andersoni Krebs & Brandon, 1984)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0088811-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.