cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.6dc14/1
title: Morphological measurement data

description: excel spreadsheet containing morphological measurements assessed for all specimens described.
DOI: 10.5061/dryad.6dc14/2
title: Eucteniza KML file

description: KML file containing all Eucteniza specimen locality data
DOI: 10.5061/dryad.6df154sg/1
title: VeltsosMontanaData

description: Song and CHC data from males and females, used in all the selection analysis models.
DOI: 10.5061/dryad.6k144/2
title: Predator Feeding Observations

description: Systematic field surveys a focal predator population in a specified area of the shore.Year, Date - 2004, 2005, 2006, 2007Site - there are a total of 6 sites (2 on the NW coast, 2 on the SW coast, 2 on the NE coast.  The distance within each pair of sites ranges from ~200m to 24km.)DayNight - subjectively assessedTideZone - the location on the shore where the observation was made, subjectively categorized into High, Mid, and Low tide-zones.  [In 2004 (the first year) I did not distinguish tide zones, thus "General_unspecified”.]Predator - Name of the focal species being surveyed.  Mainly Haustrum haustorium or Haustrum scobina.  Occasional observations of much rarer whelks (e.g., Paratrophon patens) are also included.PredSize - The shell length of the predator individual in mm.EstimatedPredSize - True/False - Whether or not the predator size was estimated or measured directly.  (The sizes of individuals found in breeding aggregations were estimated so as not to disturb reproduction, for example.)PossibleChaemoPred - True/False - Determining whether or not a predator individual was feeding was sometimes difficult for one particularly small and abundant species of barnacle (Chamaesipho columna).  True denotes an observation where feeding could not be definitively ascertained but seemed possible.Prey - Either "Not feeding" or the name of the species on which an individual predator was observed feeding.PreySize - The shell length of the prey being eaten in mm. EstimatedPreySize - True/False - Whether or not prey size was estimated (because it was crushed, dropped, etc.)Drilling - True/False - Whether or not the predator had drilled through the shell of the prey.
DOI: 10.5061/dryad.6k144/3
title: Species Densities

description: Site - One of 6 sitesYear -  2005 or 2006Season - Summer or WinterSurveyType - Either "Quads_All_Species" or "Quads_Large_&_Rare_species_only" - Whether all species were counted (= Transects 1 and 2), or only large and rare species were counted (= Transect 3).TideZone - Subjectively assessed placement into the mid- or high- tide zone.Transect - 1st, 2nd, or 3rd; each haphazardly placed parallel to the shore at each tide zone within pre-defined areas of the shore (the same in which feeding surveys were conducted). [NOTE:  Although I recorded the information in my notebooks, I did not have the forethought to enter the area in which each transect was located.  I would need to go back to my notebooks in order to match a transect with the location of each feeding survey.]Quad - Five 0.25m^2 quadrats placed randomly along each transect.Species - Name of the species observedDensity - Number of individuals per square meter.  NOTE: (1) Mobile species were counted directly.  Sessile species were estimated by percent cover subsequently converted to counts using species-specific conversion rates obtained from an independent set of smaller quadrats in which sessile species were both counted and estimated by percent cover.  (2) Densities were also corrected for the actual surface area of the rock below the quadrat.  That is, due to the rugosity of the rock, the actual surface area was greater than 0.25m2.
DOI: 10.5061/dryad.6k144/4
title: Relevant publications
DOI: 10.5061/dryad.6sk71/1
title: Fricke et al combined raw data

description: Contains all the raw data for this study. Data on virgin females, mated females and male fitness. Each section has a tab containing the metadata explaining the data in detail.
DOI: 10.5061/dryad.7fb195gg/1
title: microsats Adenomera

description: Microsatellites raw data
DOI: 10.5061/dryad.7fr20/1
title: Supplemental_figures S1 - S7

description: Supplemental Figure S1. Flow-chart showing steps in dodder transcriptome assembly and annotation, and downstream transcript clustering and differential expression analysis.Supplemental Figure S2. Transcript size distribution for Dodder_all_transcriptome.Supplemental Figure S3. Expression of non-annotated transcripts as detected by RT-PCR in dodder stems.Supplemental Figure S4. Pie charts for multilevel GO distribution of annotated transcripts in three categories: biological processes (A), cellular components (B) and molecular function (C).Supplemental Figure S5. Histogram representation of GOslim classification in three categories: biological processes (A), molecular function (B) and cellular components (C).Supplemental Figure S6. Distribution of transcripts annotated as enzymes among different enzyme classes.Supplemental Figure S7. Multidimensional scaling (MDS) plot of all replicates of each dodder tissue used for transcriptome assembly and, subsequently, transcript clustering and differential expression analysis.
DOI: 10.5061/dryad.7fr20/2
title: Supplemental_Tables I - III

description: Supplemental Table I. Distribution of percent length coverage for the top matching UniProt database entries.Supplemental Table II. Size statistics and percentage of read mapping to annotated and un-annotated transcripts.Supplemental Table III. Primers used in RT-PCR analysis.
DOI: 10.5061/dryad.7fr20/3
title: Supplemental Dataset 1: Dodder_all_transcriptome.fa

description: Supplemental Dataset 1. Sequences of all transcripts of Dodder_all_transcriptome in FASTA format.  The file can also be downloaded as a FASTA file at http://de.iplantcollaborative.org/dl/e00e9ea8-6aad-439b-a1fa-49dd3939693d. The transcripts were named as Cpent_contig plus a serial number. Also included are the Trinity identifiers and length of each transcript in header description. These transcripts have also been deposited at DDBJ/EMB/GenBank under the accession GAON00000000.
DOI: 10.5061/dryad.7fr20/4
title: Supplemental Dataset 2: Dodder_final_transcriptome.fa

description: Supplemental Dataset 2. Sequences of all transcripts of Dodder_final_transcriptome in FASTA format, obtained after filtering and clustering of transcripts from Dodder_all_transcriptome.fa as described in materials and methods. The FASTA file can be downloaded at http://de.iplantcollaborative.org/dl/a85e3682-4315-43e8-9f9d-597908616b4a. The Trinity identifiers and length of each transcript are included in header description.
DOI: 10.5061/dryad.7fr20/5
title: Supplemental Dataset 3: Dodder_predicted_CDS.fa

description: Supplemental Dataset 3. Sequences of all predicted ORFs in FASTA format from Dodder_final_transcriptome. The FASTA file can also be downloaded at http://de.iplantcollaborative.org/dl/f3eb4e4a-05b8-4db4-94f2-87fb77c1622a. The ORFswere named as Cpent_putative_CDS plus a serial number. Also included are the Trinity identifiers and type of ORFs in header description.
DOI: 10.5061/dryad.96c20/1
title: R code and data

description: All R code and data required to replicate the analyses presented in the paper
DOI: 10.5061/dryad.b87j7/1
title: Sources for yolk testosterone used in this study.

description: Mean yolk testosterone concentrations in core eggs, marginal eggs and the difference in yolk testosterone between core and marginal eggs. Marginal eggs represent the later-laid, asynchronously-hatching eggs and were identified by dividing the hatching spread by the laying interval between subsequent eggs (app. C). If these calculations produced non-integers, we rounded the values up. Core eggs represent the early-laid, synchronously-hatching eggs and were identified by subtracting the number of marginal eggs from the average clutch size. Yolk testosterone concentrations for core and marginal eggs were averaged to produce mean core T concentrations and mean marginal T concentrations, respectively. In our analyses, we included mean marginal T minus mean core T as a response variable and mean core T as a covariate that corrects for differences in average clutch T values across species as well as assay differences. * indicates the species excluded from analyses containing initial size asymmetries between core and marginal chicks as a predictor (n=28 species included). **indicates the species excluded from analyses containing hatching spread and logistic growth rate constant as a predictor (n=25 species included).
DOI: 10.5061/dryad.b87j7/2
title: Data on egg size and their sources.

description: Data on within-clutch variation in egg size used in this study. Marginal eggs represent the later-laid, asynchronously-hatching eggs and were identified by dividing the hatching spread by the laying interval between subsequent eggs. If these calculations produced non-integers, we rounded the values up. Core eggs represent the early-laid, synchronously-hatching eggs and were identified by subtracting the number of marginal eggs from the average clutch size. Sizes of core eggs and marginal eggs were averaged to produce mean core egg size and mean marginal egg size, respectively. In our statistical models, we included proportional difference in egg size between core and marginal eggs as a covariate. This was calculated by dividing the difference in egg size between core and marginal eggs (mean marginal size minus mean core size) by mean core egg size.
DOI: 10.5061/dryad.b87j7/3
title: Data on life history variables and their sources.

description: Data on life-history variables used in this study (data in bold, reference codes not in bold). Hatching spread represents the number or days between the hatching of the first egg and the last egg of a clutch. Days between eggs represents the time interval between the laying of subsequent eggs. Logistic growth rate constant represents the rate of mass increase in a sigmoid curve fitted to chick growth curves. % size difference was calculated as the mass of the core nestlings (estimated from their growth curves) at the time the last marginal chick hatched (hatching spread), divided by the size of a newly hatched chick. This represents the initial proportional size advantage of core chicks over marginal chicks.
DOI: 10.5061/dryad.bp3g0/2
title: LaydateYr_23Jan13.txt

description: Data file for mcmcGLMM in R.  Note that slightly different data files were used for different analyses.  This file was used for the analyses of laying date change per year in Table 4 of the paper.
DOI: 10.5061/dryad.bp3g0/3
title: Tree29Dec12g.nex

description: Nexus tree file for mcmcGLMM analyses in R.  This tree was used with the data file "LaydateYr_23Jan13.txt" to conduct the analyses shown in Table 4 of the paper.   Note that slightly different trees were used for some other analyses.  The g in the file name indicates that we used Grafen's method to construct branch lengths.  There are 172 studies in the file; multiple studies of the same species were coded as A, B, C, etc. in the phylogeny
DOI: 10.5061/dryad.bp3g0/4
title: Fig 2 Pop models_16Sep13.xls

description: Excel worksheets with population models shown in Fig. 2 of the paper. Details of each model are given in the individual worksheets.
DOI: 10.5061/dryad.cf7s1/1
title: Mikulicek_AFLP markers for DRYAD

description: A matrix of AFLP markers studied in water frogs
DOI: 10.5061/dryad.ct40s/33
title: Passerella 243058
DOI: 10.5061/dryad.ct40s/34
title: Phalacrocorax idahoensis63156
DOI: 10.5061/dryad.ct40s/35
title: Phalacrocorax idahoensis74435
DOI: 10.5061/dryad.ct40s/36
title: Pheucticus femur 241935
DOI: 10.5061/dryad.ct40s/37
title: Pheucticus femur 241952
DOI: 10.5061/dryad.ct40s/38
title: Piranga 241960
DOI: 10.5061/dryad.ct40s/39
title: Podilymbus 8725
DOI: 10.5061/dryad.ct40s/40
title: Quiscalus 241885
DOI: 10.5061/dryad.ct40s/41
title: Rhea 223136
DOI: 10.5061/dryad.d2pd6/1
title: Mendelian segregation analysis

description: G statistic for the hypothesis of Mendelian segregation of microsatellite markers for Butia eriospatha (Martius ex Drude) Beccari from the Atlantic Rainforest, Santa Catarina State, Southern Brazil.
DOI: 10.5061/dryad.f3g87s82/1
title: Hodkinson_and_Lendemer_reptans_Perl_scripts

description: This zip archive contains two Perl scripts for processing FASTA files exported from GenBank. The Perl script 'fasta_from_NCBI_editor.pl' creates a fasta file with names that can be easily used for downstream applications (e.g., 'Genus_species_GBAcc_GI'). The 'create_data_table_from_NCBI_fasta.pl' script automatically creates a data table with all species identifications, GenBank Accession numbers and GenInfo Identifiers for the exported sequences.
DOI: 10.5061/dryad.f3g87s82/2
title: Hodkinson_and_Lendemer_reptans_2_genes

description: This zip archive contains all of the input and output files associated with phylogenetic analyses run on the two-gene data set assembled for the associated publication.
DOI: 10.5061/dryad.f3g87s82/3
title: Hodkinson_and_Lendemer_reptans_ITS_only

description: This zip archive contains all of the input and output files associated with phylogenetic analyses run on the ITS-only data set assembled for the associated publication.
DOI: 10.5061/dryad.gm367/1
title: Genotypes_Dryad

description: 6176 SNP genotypes for 1295 samples used in submitted analysis (all but Foyle River population). For access to genotypes from Foyle River samples, please contact Dr. Dennis Ensing at Agri-Food & Biosciences Institute, Fisheries &  Aquatic Ecosystems Branch . See paper for information on genotyping and SNP discovery.
DOI: 10.5061/dryad.hg6vs/1
title: Data_Recruits.Genotypes.ByYear

description: Microsatellite genotypes of Sebastes melanops recruits collected from Barkley Sound, British Columbia in GENEPOP format.
DOI: 10.5061/dryad.j6065/1
title: Female treehopper responses to stimuli varying in frequency

description: Data collected by vibrational playback experiment. Each female had the opportunity to respond to 19 stimuli varying in frequency (Hz). These are raw data responses in excel format for each of these stimuli. Treatment refers to the experience females had before becoming sexually receptive (high is high frequency, low is low frequency, in relationship to the population mean). Replicate refers to the replicate plant that a given female was on.
DOI: 10.5061/dryad.jd183/1
title: species_list

description: Information on species and sequences
DOI: 10.5061/dryad.jn0b9/1
title: DATA1_n=49.csv

description: Data for all primary analyses using n = 49 males. Includes standardized variables labeled as '...cen', along with rank transformed variables '...Ran'. Relative reproductive success (relRS) Also includes raw variables and body condition estimates for each male. HRA = home range area, SVL = snout-vent length. Move/pro.move = proportion of time moving; days.active/Totday = total days active.
DOI: 10.5061/dryad.jn0b9/2
title: DATA2_n=56

description: Data for all secondary analyses using n = 56 males. Note that some home range re-sightings are below 8 and are considered to possibly underestimate home range area. Includes standardized variables labeled as '...cen', along with rank transformed variables '...Ran'. Relative reproductive success (relRS) Also includes raw variables and body condition estimates for each male. HRA = home range area, SVL = snout-vent length. Move/pro.move = proportion of time moving; days.active/Totday = total days active.
DOI: 10.5061/dryad.jn0b9/3
title: FULLHRADATA

description: Data for analyses involving all individuals with complete home range data n = 66 males. Note that this does not include data on movement rates, which may be important. The analysis was simply used to test whether estimates were over-inflated as a result of the reduced sample size where we had accurate and complete data (i.e. n = 49). Includes standardized variables labeled as '...cen'. Relative reproductive success (relRS) Also includes raw variables and body condition estimates for each male. HRA = home range area, SVL = snout-vent length. Move/pro.move = proportion of time moving; days.active/Totday = total days active.
DOI: 10.5061/dryad.m7j4q/1
title: supplementaryData_jackdawVisitstoNestBoxes

description: Number of approaches to nest boxes and duration on perches
DOI: 10.5061/dryad.np8708k2/1
title: Large populations dataset

description: The file contains 142 lines and 1136 columns. In the first column, tree identifyers can be found. In the second column, the population type (Case or Control) is presented. The 1134 remaining columns contain the genotype of each tree for the 1134 SNPs used in this study. More information about these SNPs and the genes on which they are located will be provided in Genbank in early 2012.
DOI: 10.5061/dryad.np8708k2/2
title: Small populations dataset

description: The file contains 56 lines and 1136 columns. In the first column, tree identifyers can be found. In the second column, the population type (Case or Control) is presented. The 1134 remaining columns contain the genotype of each tree for the 1134 SNPs used in this study. More information about these SNPs and the genes on which they are located will be provided in Genbank in early 2012.
DOI: 10.5061/dryad.nr787/1
title: COI alignment

description: Alignment of the mitochondrial DNA (COI) sequences of 24 Agelasa nigriceps populations collected in Japan
DOI: 10.5061/dryad.nr787/2
title: AFLP data

description: Binary AFLP data matrix (AFLPsurv format) of 8 Agelasa nigriceps populations collected in Japan
DOI: 10.5061/dryad.nr787/3
title: Bayesian consensus tree of COI haplotypes

description: Fifty percent majority-rule Bayesian consensus tree of Agelasa nigriceps COI haplotypes.
DOI: 10.5061/dryad.nr787/4
title: NJ tree based on AFLP data

description: Neighbor-joining tree for eight A. nigriceps populations based on AFLP data.
DOI: 10.5061/dryad.nr787/5
title: MrBayes input file

description: Imput file for MrBayes analysis
DOI: 10.5061/dryad.r28v2/1
title: DPJ_ FRH09 9Msats and 7 genes (07 19 12)rev

description: Excel file containing genotype data for Feather River Chinook salmon.  Individuals are identified by population in each row: Fall, Spring and FRS (fall return spring).  Loci are designated by column with the nine microsatellite listed followed by seven adaptive markers.
DOI: 10.5061/dryad.r458n/1
title: ExCaliBAR
DOI: 10.5061/dryad.ts866/1
title: Lemur_species_means_landmarks

description: Provides average landmark configurations for each lemur species after generalized Procrustes superimposition and reduction to the symmetric component of shape in the MorphoJ software program. Landmarks are from the cranium and are labeled above each triplet of x, y, and z coordinates.
DOI: 10.5061/dryad.vr157/4
title: Body Mass References

description: Literature sources of skeletal measurements reported in Body Mass Data.
DOI: 10.5061/dryad.vr157/5
title: Generic Data

description: Generic data for phylogenetic comparative analyses. Included in the data table are: Group1/2, taxonomic affiliation above the genus level; Occurrences, number of genus-level occurrences in North America; T_FAD, observed first appearance date; T_LAD, observed last appearance date; T_FAD50, sampling-adjusted first appearance date; T_LAD, sampling-adjusted last appearance date; LnMass, natural-log transformed estimated body mass (originally in grams); LnIBIL, natural-log transformed expected inter-birth interval length (originally in days).
DOI: 10.5061/dryad.191d5/1
title: Calluna smoke induced germination
DOI: 10.17876/plate/dr.3/envelopes/206_66868
title: Digital object identifier (DOI) for the envelope 66868 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66869
title: Digital object identifier (DOI) for the envelope 66869 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66875
title: Digital object identifier (DOI) for the envelope 66875 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66876
title: Digital object identifier (DOI) for the envelope 66876 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66877
title: Digital object identifier (DOI) for the envelope 66877 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66878
title: Digital object identifier (DOI) for the envelope 66878 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66879
title: Digital object identifier (DOI) for the envelope 66879 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66893
title: Digital object identifier (DOI) for the envelope 66893 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66894
title: Digital object identifier (DOI) for the envelope 66894 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66895
title: Digital object identifier (DOI) for the envelope 66895 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66896
title: Digital object identifier (DOI) for the envelope 66896 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66897
title: Digital object identifier (DOI) for the envelope 66897 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66898
title: Digital object identifier (DOI) for the envelope 66898 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66899
title: Digital object identifier (DOI) for the envelope 66899 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66903
title: Digital object identifier (DOI) for the envelope 66903 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66904
title: Digital object identifier (DOI) for the envelope 66904 in archive 206 from the APPLAUSE DR3
DOI: 10.25345/c5b27q24g
title: MassIVE MSV000092713 - Multi-omics Characterization of NIST Seafood Reference Materials and Alternative Matrix Preparations
title: The National Institute of Standards and Technology (NIST) has prepared four seafood reference materials (RMs) for use in food safety and nutrition studies: wild-caught and aquacultured salmon (RM 8256 and RM 8257) and wild-caught and aquacultured shrimp (RM 8258 and RM 8259). These materials were characterized using genetic, metabolomic (1H-NMR, nuclear magnetic resonance and LC-HRMS/MS, liquid chromatography high resolution tandem mass spectrometry), lipidomic and proteomic methods to explore their use as matrix-matched, multi-omic differential materials for method development towards identifying product source and/or as quality control in untargeted omics studies. The results from experimental replicates were reproducible for each reference material and analytical method, with the most abundant features reported. Additionally, differences between the materials could be detected, where wild-caught and aquacultured seafood could be distinguished using untargeted metabolite, lipid and protein analyses. Further processing of the fresh frozen RMs by freeze-drying revealed the freeze-dried seafoods could still be reliably discerned. These results demonstrate the usefulness of these reference materials as tools for omics instrument validation and measurement harmonization in seafood-related studies. Furthermore, their use as differential quality control materials, regardless of preparation method, may also provide a tool for laboratories to demonstrate proficiency at discriminating between products based on source/species.
DOI: 10.17876/plate/dr.3/envelopes/206_66914
title: Digital object identifier (DOI) for the envelope 66914 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66915
title: Digital object identifier (DOI) for the envelope 66915 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66916
title: Digital object identifier (DOI) for the envelope 66916 in archive 206 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/206_66919
title: Digital object identifier (DOI) for the envelope 66919 in archive 206 from the APPLAUSE DR3