cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/924s95rtcj.1
title: Data for: Have humans living within the Greater Cape Floristic Region been using the same plant species through time?

description: archaeological_data: A summary of all the botanical remains found within archaeological sites primarily within the Greater Cape Floristic Region (GCFR). Three sites, situated close to the GCFR were also included. The data information include: old botanical name, updated name of the plant species if it has changed (this was done in 2017), type of material that was found (e.g. charcoal sample), the age of the archaeological layer in which it was found (e.g. 15,000 BC) and what the authors thought it was used for. The range of material dates from 0 to 80 000 BC. It also includes the name of the archaeological site, what part of the GCFR it falls in, and the name of the study in which it was published. contemporary_data: A summary of all written accounts of plant species that are mentioned to have a specific use for humans. It covers the last 400 years to date. The information includes the old botanical name, the current botanical name (2017), the use category (e.g. medicinal or edible), the part of the plant that is used (e.g. leaves or roots), what it is used for (e.g. headaches or for making beer), how it is prepared (e.g. cooked in coals). It includes the reference source in which it was published and in what part of the GCFR it occurs.
DOI: 10.17632/bmpxzb3366.1
title: Data for: Spectroscopic Performance of a Sr Co-Doped 3" LaBr3 Scintillator Read by a SiPM Array

description: these are the two "unfiltered" gamma ray spectra acquired with the described prototype
DOI: 10.17632/jjnh8yfhgs.1
title: Data for: Single-story steel structure with LVEM-isolated floor: Elastic seismic performance and design response spectrum

description: In this supplementary material, the temperature-effect-ratios of the proposed elastic design spectra are given.
DOI: 10.17632/n4948bzmsw.1
title: Data for: Icariin induces irisin/FNDC5 expression in C2C12 cells via the AMPK pathway

description: WB band
DOI: 10.17632/srd62hyw7w.1
title: Data for: Malaria load affects the salivary apyrase activity of mosquitoes

description: Dataset used for all the analysis done during the study
DOI: 10.17632/t5cw4tt96d.1
title: Data for: SYSTEMATIC RISK IN CRYPTOCURRENCY MARKET: EVIDENCE FROM DCC-MGARCH MODEL

description: Data is collected from https://coinmarketcap.com/
DOI: 10.17632/ymnxrjhn79.1
title: Data for: A comparative assessment of acute oral toxicity and traditional pharmacological activities between extracts of Bulbus Fritillaria cirrhosae and Bulbus Fritillaria pallidiflora
DOI: 10.5061/dryad.7g5b162/3
title: PROPGL alternative scoring data file
DOI: 10.5061/dryad.7g5b162/4
title: SDISL alternative scoring data file
DOI: 10.5061/dryad.7g5b162/5
title: Poeciliinae species numbers data file
DOI: 10.5061/dryad.7g5b162/6
title: Poeciliinae unresolved tips data file
DOI: 10.5061/dryad.7g5b162/7
title: Data set references
DOI: 10.5061/dryad.7g5b162/9
title: Phylogenetic tree
DOI: 10.5061/dryad.914j5m0/1
title: seqECM

description: DNA sequences from ectomycorrhizal root tips sampled on balsam fir saplings
DOI: 10.5061/dryad.914j5m0/2
title: speciesbysamplematrix

description: ECM matrix
DOI: 10.5061/dryad.914j5m0/3
title: BF_measures

description: Environmental variables measured around each balsam fir sapling
DOI: 10.5061/dryad.914j5m0/4
title: needlesnutrientanalyses

description: Nutrients measured in needles from balsam fir saplings
DOI: 10.5061/dryad.9b245g0/1
title: Murphy et al. 2019 FACETS supplementary material 2

description: Bay scale impact scores for Murphy et al. 2019 FACETS
DOI: 10.5061/dryad.9b245g0/2
title: Murphyetal_2019_FACETS_supplementary_material3_May2019

description: Local scale impact metrics for Murphy et al. 2019 FACETS
DOI: 10.5061/dryad.9nk3757/1
title: Kim et al 2019

description: Source data files used to produce Figures in Kim et al. 2019
DOI: 10.5061/dryad.b412jp5/10
title: Table_S3

description: Differentially expressed genes of T. americanus generated using R packages DESeq2 v.1.16.1. This table consists of six sub-tables, one for each pairwise comparison between behaviors with only over-expressed contigs with a adjusted p-value&lt;0.05 and Dunn p-value&lt;0.05 shown.
DOI: 10.5061/dryad.b412jp5/11
title: Table_S4

description: Differentially expressed genes of T. longispinosus generated using R packages DESeq2 v.1.16.1. This table consists of six sub-tables, one for each pairwise comparison between behaviors with only over-expressed contigs with a adjusted p-value&lt;0.05 and Dunn p-value&lt;0.05 shown.
DOI: 10.5061/dryad.b412jp5/12
title: Table_S5

description: Contigs in significant modules of WGCNA in T. americanus generated using R packages WGCNA v.1.64-1, ggpubr v.0.1.8, DESeq2 v.1.16.1.
DOI: 10.5061/dryad.b412jp5/3
title: Script_S3

description: This is code to replicate the analysis from Alleman et al. "Tandem-Running and Scouting Behavior is Characterized by Up-Regulation of Learning and Memory formation genes within the Ant Brain": Weighted Gene Co-expression Analysis (WGCNA) of T. americanus, Transcriptome constructed using Trinity and filtered for those contigs that contain an open reading frame, Expected read counts created using RSEM and filtered for contigs with at least 10 count in at least 4 samples and maximum Cook's distance below 38. Script modified from Tutorials provided on https://horvath.genetics.ucla.edu/html/CoexpressionNetwork/Rpackages/WGCNA/Tutorials/
DOI: 10.5061/dryad.b412jp5/4
title: Script_S4

description: This is code to replicate the analysis from Alleman et al. "Tandem-Running and Scouting Behavior is Characterized by Up-Regulation of Learning and Memory formation genes within the Ant Brain": Weighted Gene Co-expression Analysis (WGCNA) of T. longispinosus, Transcriptome constructed using Trinity and filtered for those contigs that contain an open reading frame, Expected read counts created using RSEM and filtered for contigs with at least 10 count in at least 4 samples and maximum Cook's distance below 38. Script modified from Tutorials provided on https://horvath.genetics.ucla.edu/html/CoexpressionNetwork/Rpackages/WGCNA/Tutorials/
DOI: 10.5061/dryad.b412jp5/5
title: Script_S5

description: This is code to replicate the analysis from Alleman et al. "Tandem-Running and Scouting Behavior is Characterized by Up-Regulation of Learning and Memory formation genes within the Ant Brain": GO enrichment analysis of T. americanus, Transcriptome constructed using Trinity, Differentially expressed contigs obtained using DESeq2, Modules of contigs obtained using WGCNA.
DOI: 10.5061/dryad.b412jp5/6
title: Script_S6

description: This is code to replicate the analysis from Alleman et al. "Tandem-Running and Scouting Behavior is Characterized by Up-Regulation of Learning and Memory formation genes within the Ant Brain": GO enrichment analysis of T. longispinosus, Transcriptome constructed using Trinity, Differentially expressed contigs obtained using DESeq2, Modules of contigs obtained using WGCNA.
DOI: 10.5061/dryad.b412jp5/7
title: Script_S7

description: This is code to replicate the analysis from Alleman et al. "Tandem-Running and Scouting Behavior is Characterized by Up-Regulation of Learning and Memory formation genes within the Ant Brain": Homologue analysis between T. americanus and T. longispinosus, Transcriptomes constructed using Trinity, DEGs obtained by using DESeq2, Orthogroups created using Orthofinder.
DOI: 10.5061/dryad.b412jp5/8
title: Table_S1

description: Expression matrix of T. americanus, generated using RSEM v.1.3.0.
DOI: 10.5061/dryad.b412jp5/9
title: Table_S2

description: Expression matrix T. longispinosus generated using RSEM v.1.3.0.
DOI: 10.5061/dryad.cv803rv/19
title: _M01867816_to_M02001583

description: Data zip-file 16 of 19
DOI: 10.5061/dryad.cv803rv/20
title: _M02001765_to_M02135571

description: Data zip-file 17 of 19
DOI: 10.5061/dryad.cv803rv/21
title: _M02135572_to_M02271105

description: Data zip-file 18 of 19
DOI: 10.5061/dryad.cv803rv/22
title: _M02271106_to_M02405362

description: Data zip-file 19 of 19
DOI: 10.5061/dryad.h0t0dk5/1
title: Microsatellite data GenAIEx format Acacia adinophylla

description: Microsatellite data GenAIEx format Acacia adinophylla
DOI: 10.5061/dryad.kt06961/1
title: data

description: see readme for details
DOI: 10.5061/dryad.kt06961/2
title: anhu_scripts

description: see readme
DOI: 10.5061/dryad.q2527ts/1
title: SUPPLEMENTARY APPENDIX 1

description: Details of the fossil occurrences sampled by fossil occurrence probability P and fossil recovery rate psi on the 20 birth-death species trees.
DOI: 10.5061/dryad.q2527ts/10
title: SUPPLEMENTARY APPENDIX 10. Additional results from the posterior medians of the FBD model parameters net diversification rate (d), turnover rate (r), and fossil sampling proportion (s).
DOI: 10.5061/dryad.q2527ts/2
title: SUPPLEMENTARY APPENDIX 2

description: Data generated by simulation and XML files used for all BEAST analyses.
DOI: 10.5061/dryad.q2527ts/3
title: SUPPLEMENTARY APPENDIX 3. Details of coverage probabilities from the core analyses for estimates of (a) origin time (tor); (b) root age (tmrca); and (c) crown age (tc).

description: Each column of panels shows the results from a different model of among-lineage rate variation for the molecular and morphological data: strict clock and strict clock (SS); strict clock and moderate rate variation (SM); and moderate rate variation and high rate variation (MH). Each row of panels shows the results from a different model of fossil occurrence probability (P = 0.01, 0.02, 0.05, and non-uniform). Within each panel, the y-axis represents the number of cases classified by whether the 95% credibility interval width contains the true value (dark grey) or not (light grey), while the x-axis represents the three different numbers of morphological characters.
DOI: 10.5061/dryad.q2527ts/4
title: SUPPLEMENTARY APPENDIX 4. Estimates of node times from total-evidence dating in our core analyses.

description: ‘Slope’ denotes the slope of the line of best fit and ‘R’ denotes Pearson’s correlation coefficient. (a) Scatterplots showing the gamma statistics for the maximum-clade-credibility trees compared with those of the true trees. (b) Scatterplots showing the stemminess ranks for the maximum-clade-credibility trees compared with those of the true trees. In (a) and (b), each panel shows the results from a different models of among-lineage rate variation for the molecular and morphological data: strict clock and strict clock (SS); strict clock and moderate rate variation (SM); and moderate rate variation and high rate variation (MH). (c) Posterior medians in each maximum-clade-credibility tree for the youngest and median nodes defined in the corresponding true topology, plotted against the true values. Dates correspond to trees including fossil taxa, whereas those in (d) correspond to trees excluding fossil taxa.
DOI: 10.5061/dryad.q2527ts/5
title: SUPPLEMENTARY APPENDIX 5. Estimates of sampled ancestors in the core analyses.

description: (a) Absolute numbers of sampled ancestors (SA) in the maximum-clade-credibility trees for the fossils without extant descendants. (b) Ratios of the numbers of sampled ancestors to the true numbers of sampled ancestors. Each panel shows the results from a different model of among-lineage rate variation for the molecular and morphological data: strict clock and strict clock (SS); strict clock and moderate rate variation (SM); and moderate rate variation and high rate variation (MH). Within each panel, boxplot summaries are shown for the 20 FBD trees under each model of fossil occurrence probability (P = 0.01, 0.02, 0.05, and non-uniform). For each fossil occurrence probability, results are shown for three different sizes of morphological characters (l = 100, 200, 1000 from left to right, in increasingly dark shades of grey).
DOI: 10.5061/dryad.q2527ts/6
title: SUPPLEMENTARY APPENDIX 6. Accuracy and precision of date estimates for different species/FBD trees.

description: Estimates are reported for origin time (tor), root age (tmrca), and crown age (tc) in the core analyses. (a) Accuracy is measured by relative bias (distance between posterior median and true value, divided by the true value). (b) Precision is measured by relative 95% credibility interval (CI) width (posterior 95% CI width divided by the true value). Under each of the four fossil occurrence probabilities (P = 0.01, 0.02, 0.05, and non-uniform), boxplots are shown for each of the 20 species trees, ordered from left to right by increasing tor. Each boxplot summarizes the results from nine analyses for a single species tree.
DOI: 10.5061/dryad.q2527ts/7
title: SUPPLEMENTARY APPENDIX 7. Additional results for topological inferences and time estimates from analyses in which morphological data were excluded.
DOI: 10.5061/dryad.q2527ts/8
title: SUPPLEMENTARY APPENDIX 8. Additional results for topological inferences and time estimates from analyses in which molecular data were excluded.
DOI: 10.5061/dryad.q2527ts/9
title: SUPPLEMENTARY APPENDIX 9. Additional results for topological inferences and time estimates from analyses with fixed tree topologies.
DOI: 10.5061/dryad.tr4v447/1
title: Abundance, respiration, and feeding rates of freshwater invertebrates in the laboratory and field at increasing temperatures

description: Contains: data on the abundance of Limnophora riparia, Potamophylax cingulatus, and Simuliidae in the Hengill geothermal stream system, Iceland, along with data on respiration rates of L. riparia and P. cingulatus, and feeding rate data of both species (on Simuliidae prey) in the laboratory and field across a gradient of temperatures. These datasets also contain information on the natal stream (IS = stream identifier), natal stream temperature, experimental temperature, mass, species, initial prey number, and experimental setting (laboratory or field) where appropriate.
DOI: 10.17632/3t6gztt3h4.1
title: Data for: First, do no harm: A systematic review of deforestation spillovers from protected areas

description: These tables present deforestation rates from within and outside protected areas, collated from published papers selected by systematic review, with which quantification of spillover effects is possible. Also included are potential predictors of spillover magnitudes.
DOI: 10.17632/85njyhj45m.1
title: Data for: An evaluation of document clustering and topic modelling in two online social networks: Twitter and Reddit

description: Topic labelled online social network (OSN) data sets are useful to evaluate topic modelling and document clustering tasks. We provide three data sets with topic labels from two online social networks: Twitter and Reddit. To comply with Twitter’s terms and conditions, we only publish the tweet identifiers along with the topic label. The Reddit data is supplied with the full text and the topic label. The first Twitter data set was collected from the Twitter API by filtering for the hashtag #Auspol, used to tag political discussion tweets in Australia. The second Twitter data set was originally used in the RepLab 2013 competition and contains expert annotated topics. The Reddit data set consists of 40,000 Reddit parent comments from May 2015 belonging to 5 subreddit pages, which are used as topic labels.
DOI: 10.17632/gwcz4b794b.1
title: Explosive summit collapse of Kīlauea Volcano in 1924 preceded by a decade of crustal contamination and anomalous Pb isotope ratios

description: Pb isotope ratios and supporting compositional data for lavas from Kīlauea Volcano, Hawaiʻi
DOI: 10.17632/gwcz4b794b.2
title: Explosive summit collapse of Kīlauea Volcano in 1924 preceded by a decade of crustal contamination and anomalous Pb isotope ratios
DOI: 10.17632/jjnh8yfhgs.2
title: Data for: Single-story steel structure with LVEM-isolated floor: Elastic seismic performance and design response spectrum

description: In this supplementary material, the temperature-effect-ratios of the proposed elastic design spectra are given.
DOI: 10.17632/rxbw49rd98.1
title: Data for: Low-temperature sintering mechanism and Microwave dielectric properties of ZnAl2O4-LMZBS composites

description: The upload file is the experimental data of "Investigating on Low-temperature sintering mechanism and Microwave dielectric properties of ZnAl2O4-LMZBS composites"
DOI: 10.5061/dryad.119f80q/1
title: VIDEO_1_100_MICRON_MRI_ACQUIRED_FA25_AXIAL

description: This is a 100 micron isotropic resolution magnetic resonance imaging (MRI) scan of an ex vivo human brain specimen. The brain specimen was donated by a 58-year-old woman who had no history of neurological disease and died of non-neurological causes. Her family provided written informed consent.  We imaged her brain for 5 days continuously on a 7 Tesla MRI scanner using a custom-built 31-channel receive array coil.  The images shown here are from the acquired FA25 volume.
DOI: 10.5061/dryad.119f80q/11
title: Acquired FA25 100um isotropic

description: A detailed description of the FA25 acquisition is provided in the manuscript associated with this dataset, in the "MRI data reconstruction" subsection of the Methods.
DOI: 10.5061/dryad.119f80q/2
title: VIDEO_2_100_MICRON_MRI_ACQUIRED_FA25_CORONAL

description: This is a 100 micron isotropic resolution magnetic resonance imaging (MRI) scan of an ex vivo human brain specimen. The brain specimen was donated by a 58-year-old woman who had no history of neurological disease and died of non-neurological causes. Her family provided written informed consent. We imaged her brain for 5 days continuously on a 7 Tesla MRI scanner using a custom-built 31-channel receive array coil. The images shown here are from the acquired FA25 volume.
DOI: 10.5061/dryad.119f80q/3
title: VIDEO_3_100_MICRON_MRI_ACQUIRED_FA25_SAGITTAL

description: This is a 100 micron isotropic resolution magnetic resonance imaging (MRI) scan of an ex vivo human brain specimen. The brain specimen was donated by a 58-year-old woman who had no history of neurological disease and died of non-neurological causes. Her family provided written informed consent. We imaged her brain for 5 days continuously on a 7 Tesla MRI scanner using a custom-built 31-channel receive array coil. The images shown here are from the acquired FA25 volume.
DOI: 10.5061/dryad.119f80q/4
title: VIDEO_4_100_MICRON_MRI_SYNTHESIZED_FLASH25_AXIAL

description: This is a 100 micron isotropic resolution magnetic resonance imaging (MRI) scan of an ex vivo human brain specimen. The brain specimen was donated by a 58-year-old woman who had no history of neurological disease and died of non-neurological causes. Her family provided written informed consent. We imaged her brain for 5 days continuously on a 7 Tesla MRI scanner using a custom-built 31-channel receive array coil. The images shown here are from the synthesized FLASH25 volume.
DOI: 10.5061/dryad.119f80q/7
title: Synthesized FLASH25 100um isotropic

description: A detailed description of the synthesized FLASH25 volume is provided in the manuscript associated with this dataset, in the "MRI data processing" subsection of the Methods.
DOI: 10.5061/dryad.119f80q/8
title: Synthesized FLASH25 100um isotropic in MNI space

description: A detailed description of the synthesized FLASH25 volume in MNI space is provided in the manuscript associated with this dataset, in the "MRI data processing" and "Coregistration of the dataset fo standard stereotactic space" subsections of the Methods.
DOI: 10.5061/dryad.37jj6t9/14
title: Appendix S1

description: Appendix S1. Pieces of Burmese amber with inclusions of the studied specimens of Diminudon gen. nov. An insect pin head used as a scale. Scale bar represents 1 mm.
DOI: 10.5061/dryad.37jj6t9/15
title: Appendix S2

description: Appendix S2. List of morphological characters.
DOI: 10.5061/dryad.37jj6t9/16
title: Appendix S3

description: Appendix S3. Matrix of morphological characters.
DOI: 10.5061/dryad.37jj6t9/17
title: Appendix S4

description: Appendix S4. Complete primer details.
DOI: 10.5061/dryad.37jj6t9/18
title: Appendix S5

description: Appendix S5. GenBank accession numbers of all sequences.
DOI: 10.5061/dryad.37jj6t9/19
title: Appendix S6

description: Appendix S6. The trees resulting from the analysis of morphological data. Strict consensus tree of the four most parsimonous trees; numbers at nodes represent bootstrap supports (A); Fifty per cent majority rule consensus tree from Bayesian analysis; numbers at nodes represent posterior probabilities (B).
DOI: 10.5061/dryad.65ft82g/1
title: Supplementary.data

description: Raw data including taxa, hydrodynamics, depth, density and biomass.
DOI: 10.5061/dryad.9jk90f6/1
title: Bathyplot_data

description: Excel spread sheets with basic taxa, grid cell and biome information
DOI: 10.5061/dryad.9jk90f6/2
title: phylo-Dryad

description: Zipped folder containing phylogenetic supermatix data and associated information and trees
DOI: 10.5061/dryad.9jk90f6/3
title: code-Dryad

description: Zipped folder containing Unix and R scripts for various macro-evolutionary analyses
DOI: 10.5061/dryad.9jk90f6/4
title: bamm4

description: zipped folder containing BAMM input and output files
DOI: 10.5061/dryad.9jk90f6/5
title: Bathome_ReadMe

description: Word file with information on the contents of this Dryad package
DOI: 10.5061/dryad.9jk90f6/6
title: dist-Dryad

description: zipped folder containing distribution and grid cell data
DOI: 10.5061/dryad.b412jp5/13
title: Table_S6

description: Contigs in significant modules of WGCNA in T. longispinosus generated using R packages WGCNA v.1.64-1, ggpubr v.0.1.8, DESeq2 v.1.16.1.
DOI: 10.5061/dryad.b412jp5/14
title: Table_S7

description: Enriched GO terms in DEGs and modules of T. americanus generated using InterProScan v.5.25-64.0, R package topGO v.2.28.0.
DOI: 10.5061/dryad.b412jp5/15
title: Table_S8

description: Enriched GO terms in DEGs and modules of T. longispinosus generated using InterProScan v.5.25-64.0, R package topGO v.2.28.0.
DOI: 10.5061/dryad.b412jp5/16
title: Table_S9

description: Enriched KEGG pathways in DEGs and modules of T. americanus generated using InterProScan v.5.25-64.0.
DOI: 10.5061/dryad.b412jp5/17
title: Table_S10

description: Enriched KEGG pathways in DEGs and modules of T. longispinosus generated using InterProScan v.5.25-64.0.
DOI: 10.5061/dryad.b412jp5/18
title: Table_S11

description: Orthogroups found between transcriptomes of T. americanus and T. longispinosus generated using Orthofinder v.1.1.8.
DOI: 10.5061/dryad.b412jp5/19
title: Table_S12

description: Orthogroups found between DEGs of T. americanus and T. longispinosus generated using Orthofinder v.1.1.8.
DOI: 10.5061/dryad.b412jp5/20
title: Table_S13

description: Orthogroups found between DEGs of T. longispinosus and T. americanus generated using Orthofinder v.1.1.8.
DOI: 10.5061/dryad.b412jp5/21
title: Tamer_BLAST_transcriptome

description: BLAST annotations of all contigs in the Trinity transcriptome of T. americanus generated using blastx, NCBI BLAST v2.6.0.
DOI: 10.5061/dryad.h0t0dk5/2
title: Microsatellite data GenAIEx format Lepidosperma bungalbin

description: Microsatellite data GenAIEx format Lepidosperma bungalbin
DOI: 10.5061/dryad.h0t0dk5/3
title: Microsatellite data GenAIEx format Tetratheca aphylla subsp aphylla

description: Microsatellite data GenAIEx format Tetratheca aphylla subsp aphylla
DOI: 10.5061/dryad.m173s71/1
title: Figure 1D_1E
DOI: 10.5061/dryad.pr907/1
title: BPP_files

description: This folder contains input files and subsampled data sets for the BPP analyses including 20 subsampled nucleaotide data sets, the Imap file and 5 control that are formatted with different sets of priors.
DOI: 10.5061/dryad.pr907/2
title: Sequence_alignments

description: This folder contains all of the nucleotide sequence alignments used to generate SNPs in nexus format. These files are alignments of 6-8 individuals and vary in length from ~400 bp to ~1000 bp. Also included in this folder are the 81-taxon, and 938-taxon mitochondrial ND4 sequence alignments.