cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.bc578/3
title: Analysis_2_normal

description: Input file for BEAST v1.8.1 for Analysis 2.
DOI: 10.5061/dryad.bc578/4
title: Analysis_2_normal_consensus

description: Consensus tree for Analysis 2.
DOI: 10.5061/dryad.f6m02/1
title: FASTA Sequences for the Annotated Reference Transcriptome of the Eastern Oyster

description: The FASTA file consists of the annotated reference transcriptome cDNA sequences used to map sample reads. The reference transciprtome was generated by collapsing two previously published transcriptomes (Eierman and Hare 2014, Zhang et al. 2014) using Cd-hit-est (Li and Godzik 2006) as described in the publication (Eierman and Hare 2015).
DOI: 10.5061/dryad.f6m02/2
title: Annotation File for the Annotated Reference Transcriptome of the Eastern Oyster

description: The Excel file provides the annotation information, including original source transcriptome, for each contig in the reference transcriptome. The ReadMe files describes the content of each Excel file column.
DOI: 10.5061/dryad.f6m02/3
title: Filtered, mapped RNA-seq reads from eastern oysters in merged bam file

description: The file is a merged bam file. It contains the reads that mapped to the annotated reference transcriptome for all 24 sample oysters. The ReadMe file indicates that source population and treatment salinity for each sample oyster.
DOI: 10.5061/dryad.fn6h0/2
title: Brushtail possum occupancy-abundance data collected at 164 sampling locations in New Zealand

description: Brushtail possum occupancy and relative abundance was assessed at a total of 164 sampling locations in the North, South and Stewart islands of New Zealand during 2011–12 and 2012–13: 85 sampling locations in forest habitat and 79 sampling locations in non-forest habitat. Only 16% of sampling locations did not have all four trap-lines and four pellet lines surveyed, mostly due to the presence of dangerous terrain.
DOI: 10.5061/dryad.gp40h/1
title: Global mesoscale ocean eddy features

description: A database of ocean eddies identified in daily satellite altimeter data. Each file contains the eddy features identified on that day. Each day has two file one for cyclonic and another for anticyclonic eddies. Each eddy object contains geographical and physical information as well as the grid cells that make up the eddy's body.
DOI: 10.5061/dryad.gp40h/2
title: Global daily eddy trajectories

description: Using the eddies found in our eddy database, we generated trajectories for eddies that had at least 1cm amplitude and 9 grid cells in size. This is just an example eddy trajectories dataset and researchers can filter our eddy database to construct eddy trajectories that meet their needs
DOI: 10.5061/dryad.hm5k9/1
title: R Code for multi-level UD comparative measures
DOI: 10.5061/dryad.hm5k9/2
title: Paired comparison results in .csv format
DOI: 10.5061/dryad.hm5k9/3
title: Bighorn #3 prefire BBMM
DOI: 10.5061/dryad.hm5k9/4
title: Bighorn #3 postfire BBMM
DOI: 10.5061/dryad.p25f8/1
title: Pusa hispida Microsatellite Genotypes

description: Microsatellite genotypes in the data input format of the program GenAlEx. The data are codominant genotypic microsatellite data, with loci scored as fragment size. There are 9 microsatellite loci, and 354 individuals sampled from 11 breeding sites. For a map showing the geographic locations of the breeding sites (i.e., sample sites) see Figure 2A in our publication ``Combined Genetic and Telemetry Data Reveal High Rates of Gene Flow, Migration, and Long-Distance Dispersal Potential in Arctic Ringed Seals (Pusa hispida)''.
DOI: 10.5061/dryad.p25f8/2
title: Pusa hispida mtDNA COI (bps 92-450)

description: Sequences of the mtDNA Cytochrome oxidase I region (COI) from 113 individuals from 8 breeding sites. Uncertainty in sequence accuracy occurred at the ends of each sequence; thus, we used a 359 base pair (bp) subset (bps 92-450) of the COI region. The breeding site (i.e., sample site) associated with each sequence is in the ReadMe file. A map of the sample sites can be found in Figure 2A of our publication ``Combined Genetic and Telemetry Data Reveal High Rates of Gene Flow, Migration, and Long-Distance Dispersal Potential in Arctic Ringed Seals (Pusa hispida)''.
DOI: 10.5061/dryad.p25f8/3
title: Pusa hispida mtDNA Control Region (bps 90-565)

description: Sequences from the mtDNA control region (CR). 99 individuals were sequenced. The ReadMe file contains the breeding site (i.e., sample site) of each individual. Uncertainty in sequence accuracy occurred at the ends of each sequence; therefore, we used a 476 bp subset (bps 90–565) of CR. A map of the sample sites can be found in Figure 2A of our publication ``Combined Genetic and Telemetry Data Reveal High Rates of Gene Flow, Migration, and Long-Distance Dispersal Potential in Arctic Ringed Seals (Pusa hispida)''.
DOI: 10.5061/dryad.qh53f/10
title: Fig3B

description: This data file is associated with Fig3B of the accompanied publication. Mice treated with no injection, vehicle, or 10mg/kg Ibrutinib were injected with 80-100 x 10^6 whole splenocytes. Peripheral blood was collected from each recipient and serum was taken for ELISA measurement of total IgG and IgG2a autoantibodies. Each value represents the reported optical density (OD) output of an ELISA plate-reader.  Column A indicates the number of weeks post-transplant serum samples was taken. Additional Column and row labels are self-explanatory. Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/11
title: Fig3C

description: This data file is associated with Fig3C of the accompanied publication. Mice treated with no injection, vehicle, or 10mg/kg Ibrutinib were injected with 80-100 x 10^6 whole splenocytes. Peripheral blood was collected from each recipient and serum was taken for ELISA measurement of total IgG and IgG2a autoantibodies. Each value represents the reported optical density (OD) output of an ELISA plate-reader. Column A indicates the number of weeks post-transplant serum samples was taken. Additional Column and row labels are self-explanatory. Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/3
title: Fig1C

description: This data file is associated with Fig1C of the accompanied publication. Survival data of bone marrow only, vehicle treated, and Ibrutinib treated recipients. Column A is an arbitrary identification number given to each mouse. Column B indicates the time-point at which a survival (marked as "0') or non-survival event (marked as "1") occurred. Column C indicates the bone marrow alone group. Column D indicates mice treated with vehicle. Column E indicates mice treated with Ibrutinib 10mg/kg.  Column F indicates mice treated with 10mg/kg Ibrutinib beginning 14 days post transplantation. Any other relevant information, including experimental conditions and setup is detailed in the accompanied publication.
DOI: 10.5061/dryad.qh53f/5
title: Fig2A

description: This data file is associated with Fig2A of the accompanied publication. Each panel is a representative histogram of one mouse from each group.  Mice treated with either vehicle or 10mg/kg Ibrutinib were injected with 40 x 10^6 CD25 depleted CFSE labeled whole splenocytes.  Flow cytometry readings from recipients were taken 4 days post-transplant.  Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/6
title: Fig2B

description: This data file is associated with Fig2B of the accompanied publication. Mice treated with either vehicle or 10mg/kg Ibrutinib were injected with 40 x 10^6 CD25 depleted CFSE labeled whole splenocytes. Flow cytometry readings from recipients were taken 4 days post-transplant.  Using the percentage of CFSE diluted or CFSE low, the amount of proliferated cells can be determined. Column and row labels are self-explanatory. Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/7
title: Fig2C

description: This data file is associated with Fig2C of the accompanied publication. Mice treated with either vehicle or 10mg/kg Ibrutinib were injected with 40 x 10^6 CD25 depleted CFSE labeled whole splenocytes. Flow cytometry readings from recipients were taken 4 days post-transplant. The amount of CD40,80, and 86 on donor B cells was analyzed. Column and row labels are self-explanatory.  Value from Column "E" row "2" was excluded as an extreme outlier compared to other values within the same group.  Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/8
title: Fig2D

description: This data file is associated with Fig2D of the accompanied publication. Mice treated with either vehicle or 10mg/kg Ibrutinib were injected with 40 x 10^6 CD25 depleted whole splenocytes.  Peripheral blood was collected from each recipient and serum was taken for ELISA measurement of total IgG and IgG2a autoantibodies. Each value represents the reported optical density (OD) output of an ELISA plate-reader. Column and row labels are self-explanatory. Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/9
title: Fig3A

description: This data file is associated with Fig3A of the accompanied publication. Urine protein measurement data of no injection, vehicle treated, and Ibrutinib treated recipients. Column A indicates the time-point at which urine protein measurements were taken post-transplant using Albustix urine test strips.  Column and row labels are self-explanatory.  Any other relevant information, including experimental conditions and setup is detailed in the accompanied publication.
DOI: 10.5061/dryad.r3sh7/1
title: Bacterial community data from the second National Soils Inventory of Scotland

description: Bacterial community data from the second National Soils Inventory of Scotland. 'SAMPLE.ID' refers to the unique sample identifier associated with the NSIS2 database (to be released publically by the James Hutton Institute); 'LAYER' refers to the paedological horizon sampled (L1: topsoil horizon; L2-4: second, third, and fourth horizon in depth from the topsoil horizon); all columns with prefix S16 represent OTUs derived from T-RFLP analysis, with the value representing the proportional abundance of that OTU in that sample based on peak height (the sum of these columns equals 1).
DOI: 10.5061/dryad.r3sh7/2
title: Fungal community data from the second National Soils Inventory of Scotland

description: Fungal community data from the second National Soils Inventory of Scotland. 'SAMPLE.ID' refers to the unique sample identifier associated with the NSIS2 database (to be released publically by the James Hutton Institute); 'LAYER' refers to the paedological horizon sampled (L1: topsoil horizon; L2-4: second, third, and fourth horizon in depth from the topsoil horizon); all columns with prefix ITS represent OTUs derived from T-RFLP analysis, with the value representing the proportional abundance of that OTU in that sample based on peak height (the sum of these columns equals 1).
DOI: 10.5061/dryad.s01kf/1
title: Dataset_details

description: A list of the alignment dataset files included in the Dryad repository, including the filtering thresholds used to generate each dataset.
DOI: 10.5061/dryad.s01kf/2
title: vcf_Ref-aligned_Aalcalica

description: Directory containing the GATK output .vcf file from reference(O. niloticus)-aligned reads of A. alcalica. Directory contains 1 .vcf file and 1 index file.
DOI: 10.5061/dryad.s01kf/3
title: vcf_Ref-aligned_Agrahami

description: Directory containing the GATK output .vcf file from reference-aligned reads of A. grahami. Directory contains 1 .vcf file and 1 index file.
DOI: 10.5061/dryad.s01kf/4
title: vcf_Ref-aligned_Alatilabris

description: Directory containing the GATK output .vcf file from reference-aligned reads of A. latilabris. Directory contains 1 .vcf file and 1 index file.
DOI: 10.5061/dryad.s01kf/5
title: vcf_Ref-aligned_Andalalani

description: Directory containing the GATK output .vcf file from reference-aligned reads of A. ndalalani. Directory contains 1 .vcf file and 1 index file.
DOI: 10.5061/dryad.s01kf/6
title: vcf_Ref-aligned_Oamphimelas

description: Directory containing the GATK output .vcf file from reference-aligned reads of O. amphimelas. Directory contains 1 .vcf file and 1 index file.
DOI: 10.5061/dryad.sr7c7/1
title: Data from: INACCURACY OF VENOUS POINT-OF-CARE GLUCOSE MEASUREMENTS IN CRITICALLY ILL PATIENTS: A CROSS-SECTIONAL STUDY

description: Data collected and presented here include arterial measurements obtained with Precision PCx (Abbott®, USA), arterial, fingerstick and venous measurements obtained with Accu-chek® Advantage II (Roche®, Switzerland) and arterial measurements obtained at the central lab (reference). Sequential Organ Failure Assessment score (SOFA score), Acute Physiology and Chronic Health Evaluation II (APACHE II score), mean arterial blood pressure, peripheral body temperature, hematocrit level, arterial pH, arterial oxygen saturation, room temperature and humidity, total bilirubin levels, triglycerides, use of vasopressors (norepinephrine and dopamine), acetaminophen, ascorbic acid, mannitol and mechanical ventilation are also provided.
DOI: 10.5061/dryad.v23n2/1
title: 48genes-36species-latin-name
DOI: 10.5061/dryad.v23n2/2
title: 64genes-36species-latin-name
DOI: 10.5061/dryad.13nj6/1
title: Data from: A new barcheek darter species from Buck Creek (Cumberland River System), Kentucky (Percidae: Etheostomatinae: Catonotus: Oopareia)

description: Morphological and molecular data from species description of Etheostoma nebra Near & Thomas
DOI: 10.5061/dryad.1s138/1
title: Results of C. elegans choice assay

description: Raw data for C. elegans choice assay. During this assay, C. elegans was given the choice between two bacteria, using the standardized C. elegans choice assay. The table includes information on strain code (first column), origin of the strain (second column), strain genotype as inferred with microsatellites (third column), year of C. elegans sampling (fourth column), replicate of choice assay within a particular run of the experiment (fifth column), run of experiment (sixth column), scoring time point (seventh column), position of the two bacterial strains/species (eighth and nineth columns), and the inferred choice index (tenth column) - always relative to the first listed bacterium.
DOI: 10.5061/dryad.1s138/2
title: Results of C. elegans population growth assay

description: Raw data for C. elegans population growth assay. During this assay, three hermaphrodites of C. elegans were allowed to reproduce over five days on different bacteria. The table includes information on strain code (first column), origin of the strain (second column), strain genotype as inferred with microsatellites (third column), year of C. elegans sampling (fourth column), bacterial strain/species during the population growth assay (fifth column), replicate of population growth assay within a particular run of the experiment (sixth column), run of experiment (seventh column), and the inferred mean number of worms per initial hermaphrodite after the five-day period (eighth column).
DOI: 10.5061/dryad.1v339/1
title: Relative abundance data
DOI: 10.5061/dryad.2121b/1
title: raw data
DOI: 10.5061/dryad.2v8p8/1
title: Tree size- drought response data from forests worldwide

description: This is a compilation of previously published data on drought responses of trees of different sizes from forests worldwide. Data file includes diameter size class, response variables (growth rate, mortality rate or mortality) during drought and non-drought periods, and the drought response ratios (drought: non-drought values) for growth and mortality rates.
DOI: 10.5061/dryad.36s2m/1
title: Biogenic amine and aggression assay data

description: Behavioral data for all four aggression assays and biogenic amine measurements for interspecific aggression assays and OA topical treatment assays in minor workers.
DOI: 10.5061/dryad.39jv1/1
title: Tatoosh Non-trophic Interactions

description: Text file containing a matrix indicating absence (0) positive (1) or negative (-1) non-feeding effects of one species (across columns of the matrix) on another species (down rows of the matrix) from the middle intertidal (mussel-dominated) zone of Tatoosh Island, Washington, USA. Species names and order corresponding to matrix columns/rows are found in file TatooshSpeciesNames.txt and Tatoosh-Taxonomy.csv
DOI: 10.5061/dryad.39jv1/2
title: Tatoosh-Taxonomy

description: CSV file containing taxonomic information for each of the nodes used in the interaction web files for Tatoosh Island, Washington.  The order of taxa in the table corresponds to the order of taxon as they appear in the interaction webs.
DOI: 10.5061/dryad.4km38/5
title: Supplementary Information File S5 - Evolution of preference strength under the preference/trait model

description: Analyses of the evolution of preference strength under a continent-island preference/trait model.  Accompanies Appendix S7.
DOI: 10.5061/dryad.634n8/1
title: BRANDLetal_RAW

description: Raw data containing morphological, dietary, foraging microhabitat utilization and microhabitat abundance data in separate spreadsheets.
DOI: 10.5061/dryad.79p7n/1
title: Corynorhinus rafinesquii Diet Sequences

description: This file contains the DNA sequences used for the publication “Prey size and dietary niche of Rafinesque’s Big-Eared Bat (Corynorhinus rafinesquii)” by Dodd et al. published in Southeastern Naturalist.
DOI: 10.5061/dryad.8mm58/1
title: Swabbing data for 2012-2014

description: Raw data used to calculate the fungal load of each bat swabbed.  Data includes: swab id (for lab use), date swab was taken, general site name and county of caves, bat species (4 letter genus/species abbreviations), P. destructans visible (0=no, 1=yes), and cycle threshold (ct) value(s) from qPCR assay(s).  Exact cave names and locations are not given to protect the bats from human disturbance.
DOI: 10.5061/dryad.bc578/5
title: Analysis_3_exponential

description: Input file for BEAST v1.8.1 for Analysis 3.
DOI: 10.5061/dryad.bc578/6
title: Analysis_3_exponential_consensus

description: Consensus tree for Analysis 3.
DOI: 10.5061/dryad.dh3st/1
title: Environmental data

description: The file contains sample date, temperature, salinity, chlorophylla, nitrate concentrations and bacterial production data.
DOI: 10.5061/dryad.dh3st/2
title: OTU_table

description: The file contains the annotated and resampled OTU table.
DOI: 10.5061/dryad.dh3st/3
title: Phylogenetic_distance_matrix

description: The file contains the phylogenetic distance matrix calculated with the comdistnt function in the Picante R package.
DOI: 10.5061/dryad.hb349/1
title: Ruuskanen_data_10.1111_jav_00728
DOI: 10.5061/dryad.hm5k9/10
title: Bighorn #8 postfire BBMM
DOI: 10.5061/dryad.hm5k9/11
title: Bighorn #9 prefire BBMM
DOI: 10.5061/dryad.hm5k9/12
title: Bighorn #9 postfire BBMM
DOI: 10.5061/dryad.hm5k9/13
title: Bighorn #10 prefire BBMM
DOI: 10.5061/dryad.hm5k9/5
title: Bighorn #4 prefire BBMM
DOI: 10.5061/dryad.hm5k9/6
title: Bighorn #4 postfire BBMM
DOI: 10.5061/dryad.hm5k9/7
title: Bighorn #7 prefire BBMM
DOI: 10.5061/dryad.hm5k9/8
title: Bighorn #7 postfire BBMM
DOI: 10.5061/dryad.hm5k9/9
title: Bighorn #8 prefire BBMM
DOI: 10.5061/dryad.kb418/1
title: Janes et. al. (2015). Heredity - Polygamy and fine-scale structure of mountain pine beetle

description: This file contains individual, population, geographic, sex and life stage information for samples. The alleles for each SNP and a corresponding 200 base sequence for each are provided also. Accession numbers for SNPs previously used in Janes et al. (2014). How the mountain pine beetle (Dendroctonus ponderosae) breached the Canadian Rocky Mountains. Molecular Biology and Evolution. 31(7):1803-1815 are supplied in the dbSNP format.
DOI: 10.5061/dryad.kd00n/1
title: Sailfin_Molly_total_Hapmap

description: Initial unfiltered SNP (18,255 SNP) for 144 individual Sailfin Mollies (Poecilia latipinna) were collected from five populations in the spring of 2014. Of the 144 individual sequenced, 122 (thirty per site) were had sufficient sequences and depth of reads for analyses (see filter data set)
DOI: 10.5061/dryad.kd00n/2
title: SF_955_hapmap

description: Filter SNP (955 SNP) for 122 collected from five populations in the spring of 2014. These 955 SNP in 122 individual were used for all analyze because they had sufficient sequences and depth of reads.
DOI: 10.5061/dryad.kd00n/3
title: 955_Tags

description: 64bp sequences for each 955 SNP.
DOI: 10.5061/dryad.qh53f/12
title: Fig4A

description: This data file is associated with Fig4A of the accompanied publication. Mice treated with BM alone, vehicle, or 10mg/kg Ibrutinib were injected with 5 x 10^6 whole splenocytes.  Clinical scores representing 6 visible factors were recorded and tabulated once per week following Day 14 post-transplant. Column A represents the day post-transplant the scoring was conducted on.  Additional column and row titles are self-explanatory.  Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/13
title: Fig4B images

description: This data file is associated with Fig4B of the accompanied publication. Mice treated with BM alone, vehicle, 5mg/kg, or 10mg/kg Ibrutinib were injected with 5 x 10^6 whole splenocytes.  Skin lesions from each recipient were excised after euthanasia and subjected to H&E staining for scoring by a professional pathologist.  Representative microscope images were taken from one mouse from each group.  #199 is from BM alone group, #202 is from vehicle treated group, #205 is from 10mg/kg Ibrutinib treated group, #211 is from 5mg/kg Ibrutinib treated group.   Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/14
title: Fig4C images

description: This data file is associated with Fig4C of the accompanied publication. Mice treated with BM alone, vehicle, or 10mg/kg Ibrutinib were injected with 5 x 10^6 whole splenocytes.  Representative images were taken of one mouse from each group using a typical smartphone on Day 41 post-transplant. The file name of each representative image indicates the group that the mouse belongs in and should be self-explanatory.  Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/15
title: Fig4D

description: This data file is associated with Fig4D of the accompanied publication. Mice treated with BM alone, vehicle, or 10mg/kg Ibrutinib were injected with 5 x 10^6 whole splenocytes. Skin lesions from each recipient were excised after euthanasia and subjected to H&E staining for scoring by a professional pathologist.  Skin sections were scored based on several criteria as described in the accompanied manuscript.  Columns and row titles are self-explanatory. Any other relevant information including experimental conditions and setup are included in the accompanied publication.
DOI: 10.5061/dryad.qh53f/16
title: Fig4E

description: This data file is associated with Fig4E of the accompanied publication.  Flow cytometry readings of B220 and CD138 were analyzed.  B220low and CD138+ cell populations are indicative of autoantibody producing plasma cells.  Columns and row titles are self-explanatory.  Any relevant information for this figure, including experimental conditions and setup are included in the methods, results, or discussion section of the accompanied publication.