cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.7v928/12
title: Movie S5 related to Figure S2

description: Movie of a 3D-reconstruction of a GW 12 brain.
DOI: 10.5061/dryad.7v928/13
title: Movie S6 related to Figure 6B-G

description: Movie of an optically cleared E16.5 mouse embryo immunostained for GnRH.
DOI: 10.5061/dryad.7v928/14
title: Movie S7 related to Figure 7A-C

description: Movie of an optically cleared P90 male mouse brain hemisphere immunostained for GnRH.
DOI: 10.5061/dryad.7v928/15
title: Movie S8 related to Figure 7D

description: Movie of an optically cleared P90 male mouse olfactory bulb immunostained for GnRH.
DOI: 10.5061/dryad.8080c/1
title: Tiger shark primers and probes

description: QPCR primers, probes and products for tiger shark assays
DOI: 10.5061/dryad.8v010/1
title: Data for inbreeding depression x density analysis in Soay sheep

description: A .zip file containing 5 data files and a ReadMe file.
DOI: 10.5061/dryad.9b47j/1
title: Data_from_Dsouza_Kost_2016

description: This file contains all the experimental data that were used to generate the figures and interpretations of the study. These include the cell density and growth rate of the evolving populations in the two different regimes, prevalence of auxotrophic mutants, fitness of evolved genotypes, fitness, and amino acid dependence of the reconstructed mutants.
DOI: 10.5061/dryad.9c7s3.1
title: Data from: Reduced snow cover increases wintertime nitrous oxide (N2O) emissions from an agricultural soil in the upper U.S. midwest
DOI: 10.5061/dryad.b30s4/1
title: data

description: These GIS data files are the ones shown in our figures. "Forest" is the forest cover that we created using the methods in our paper. Center geodatabase contains the files that are in the Figure 6. The other files are the data for Figure 5 by taxa. Files ending with "IUCN" are for the first column, ending with "refined" are for the second column, ending with "concern" are the third column and "DD" for the fourth column.
DOI: 10.5061/dryad.c7c8f/1
title: SNP data from ddRAD sequencing

description: VCF file containing reference-aligned SNPs (single nucleotide polymorphisms) across Teleogramma specimens.
DOI: 10.5061/dryad.c7c8f/2
title: Morphometric data

description: Morphometric data including PC scores, covariance matrix, and procrustes coordinates.
DOI: 10.5061/dryad.dr559/1
title: Kivelä et al._MR data
DOI: 10.5061/dryad.fk2rm/3
title: Fig3_data

description: Fig3_data
DOI: 10.5061/dryad.fk2rm/4
title: Fig4_data

description: Fig4_data
DOI: 10.5061/dryad.fk2rm/5
title: Fig5_data

description: Fig5_data
DOI: 10.5061/dryad.fk2rm/6
title: Fig6_data

description: Fig6_data
DOI: 10.5061/dryad.fk2rm/7
title: Fig7_data

description: Fig7_data
DOI: 10.5061/dryad.fk2rm/8
title: Fig8_data

description: Fig8_data
DOI: 10.5061/dryad.fk2rm/9
title: Fig9_data

description: Fig9_data
DOI: 10.5061/dryad.j413n/10
title: Permutation Model - calculate within an individual

description: The permutation of the phylogeny was conducted with a set of scripts written and run in 4th Dimension (4D Inc., San Jose, CA).  This fourth script looks up pairwise distances between alleles and then calculates the average distance between 4 alleles within an individual.
DOI: 10.5061/dryad.j413n/4
title: MHC genotypes without Copy Number Variation

description: MHC genotypes of 188 adults + 22 chicks assuming no Copy Number Variation, in a table of 211 rows x 9 columns.  Genotypes were determined from Illumina sequencing based on an assumption of no Copy Number Variation as described in Supporting Information lines 104-127.  First row is header, and each remaining row corresponds to one bird.  Columns are Year (year of nesting attempt: 2010 or 2013), Nest # (burrow number, unique within year but not between years), Age (Adult or Chick), Sex (determined by PCR), CWS Bird Band #, Ocle-DAB1*allele1, Ocle-DAB1*allele2, Ocle-DAB2*allele1, and Ocle-DAB2*allele2.
DOI: 10.5061/dryad.j413n/5
title: MHC genotypes when allowing Copy Number Variation

description: MHC genotypes of 188 adults + 22 chicks allowing Copy Number Variation, in a table of 211 rows x 12 columns.  Genotypes were determined from Illumina sequencing based on an algorithm that permits Copy Number Variation as described in Supporting Information lines 129-145.  First row is header, and each remaining row corresponds to one bird.  Columns are Year (year of nesting attempt: 2010 or 2013), Nest # (burrow number, unique within year but not between years), Age (Adult or Chick), Sex (determined by PCR), CWS Bird Band #, Ocle-DAB1*allele1, Ocle-DAB1*allele2, Ocle-DAB1*allele3, Ocle-DAB2*allele1, and Ocle-DAB2*allele2, Ocle-DAB2*allele3, and Ocle-DAB2*allele4.
DOI: 10.5061/dryad.j413n/6
title: Microsoft Excel macro for mate choice randomization tests

description: Randomization tests were used to test whether mean and variance in MHC similarity of actual mates were significantly different from random.  These tests were run in Microsoft Excel using a macro to create 10,000 iterations of randomly pairing each of the 94 females with one male (without replacement), saving the average and variance of the MHC similarity between random mates for each iteration.  This file is an example of one such Excel file -- in this case, the one that analyzes average p-distance between MHC alleles of mates using all 89 amino acids of exon 2, the results of which are shown in the graph in Figure S4a in Supplemental Information.  Similar analyses were conducted for other metrics of MHC similarity and for microsatellite-based estimates of relatedness coefficients between mates.  SEE ReadMe FILE FOR DETAILS OF FILE CONTENTS.
DOI: 10.5061/dryad.j413n/7
title: Permutation Model - set up arrays

description: The permutation of the phylogeny was conducted with a set of scripts written and run in 4th Dimension (4D Inc., San Jose, CA).  This first script takes the imported data in Individuals, Distances, Alleles and puts them into arrays.
DOI: 10.5061/dryad.j413n/8
title: Permutation Model - simulation core

description: The permutation of the phylogeny was conducted with a set of scripts written and run in 4th Dimension (4D Inc., San Jose, CA).   This second script is the simulation core.  It makes N number of trial records composed of randomized distribution of alleles in the phylogenetic framework.
DOI: 10.5061/dryad.j449c/1
title: raw_count

description: Script used to calculate the number of reads mapped to each gene from the Official Gene Set annotation from AphidBase (Legeai et al. 2010), by summing each read that overlaps at least one exon of any particular gene.
DOI: 10.5061/dryad.j449c/2
title: A. pisum raw counts

description: Transcriptome data from 52 aphid genotypes, reared both on Vicia faba and on their preferred host plant. Illumina sequencing performed using HiSeq2000 using 75 bp paired-end reads (v3 chemistry). Reads mapped to the pea aphid reference genome (IAGC) for each sample separately using TopHat2 (v2.08). The number of reads mapped to each gene from the Official Gene Set annotation from AphidBase (http://aphidbase.com/) was calculated by summing each read that overlaps at least one exon of any particular gene. Read counts reported for 36,401 genes.
DOI: 10.5061/dryad.ng07t/1
title: GARS Study Raw Data

description: Raw data for Metabolic derangements in the GARS+/- transgenic mouse
DOI: 10.5061/dryad.p7v21/6
title: Linkage Map_Fin

description: linkage map and fin traits for qtl analysis
DOI: 10.5061/dryad.p7v21/7
title: Parental_Fin_Data

description: Various fin measures for parental species
DOI: 10.5061/dryad.p7v21/8
title: Wnt_Modulation_Data_MZ

description: Fin measures in the species, MZ, following manipulation of the Wnt pathway with small molecules.
DOI: 10.5061/dryad.p7v21/9
title: Wnt_Modulation_Data_LF_TRC

description: Fin measures in TRC and LF larvae following manipulation of the Wnt pathway with small molecules.
DOI: 10.5061/dryad.s0s60/1
title: MEC_qRT-PCR_RawData

description: Quantitative real time PCR data for Osiris 6 (Osi6), Osi7 and Osi8 and the housekeeping gene aTub84B in whole adult and dissected adult tissues (INT = intestine, SG = salivary gland, FB = Fat body, NS = Nervous system) from Drosophila species with and without exposure to octanoic acid (OA vs control = no OA).
DOI: 10.5061/dryad.s0s60/2
title: Drosophila survival data in response to octanoic acid exposure

description: Survival data in response to octanoic acid (OA) exposure of Drosophila adult flies.  The sample type is indicated as to whether it is from different species (D. sechellia (sec), D. simulans (sim), D. mauritiana (mau), or D. melanogaster RNAi lines (gene targeted named), GAL4 lines, RNAiXGAL4 (ubiquitous (ActinGAL4), stage specific (Geneswitch-Tub5) or tissue specific (Bloomington stock number provided) knockdown) cross progeny and sibling controls and mutant lines are indicated.  Flies were separated based in sex (1 = male, 0 = female), presence of CyO balancer (0 = CyO, 1 = wildtype) chromosome, and the number of individuals surviving at 12 time points (every 5 minutes for 1 hour) was determined in vials containing N flies per vial and vial number and date of each experiment are indicated.
DOI: 10.5061/dryad.sd62b/1
title: PD education data set_20161221

description: Peritoneal dialysis patients revised data set
DOI: 10.5061/dryad.v465c/1
title: Tables 1 and 2 Caross results

description: Processed data. Participants' characteristics and risk evaluation. Excel sheet
DOI: 10.5061/dryad.v8969/1
title: all Datasets for Mariette Buchanan 2016 (1 per page)

description: page1: occurrence and duration of incubation calls in relation to ambient temperature and time to expected hatch date. page2: nestling mass from day 1 to 13 in relation to playback and nest temperature. page 3: survival to day 13 in relation toplayback and temperature. page 4: nestling begging in relation to playback and nest temperature. page 5: breeding output female year 1. page 6: breeding output female year 2. page 7: breeding output male year 1. page 8: breeding output male year 2. page 9: nest site selection year 1. page 10: nest site selection year 2.
DOI: 10.5061/dryad.07850/1
title: Competitions experiments and gyrA mutations

description: In this file, you can find: tab 1) legend for tables, tab 2) raw data of fluorescence from competition experiments and estimations of selection coefficients, tab 3) mutations detected in the gyrA gene associated with each mutant, tab 4) raw data for calibration curves, tab 5) primers sequences for gyrA gene
DOI: 10.5061/dryad.0j4m5/1
title: Adjusted residual haplotype count R script

description: This R script shows how the regression of adjusted residual haplotype count on allele indicator was performed
DOI: 10.5061/dryad.0j4m5/2
title: Dataset for regression of adjusted residual haplotype count against allele indicator - comparison viable I versus inviable I

description: This dataset was used for the regression of adjusted residual haplotype count against allele indicator, in the comparison of viable hybrids cytotype I versus inviable hybrids cytotype I. See the R script for details of the analysis.
DOI: 10.5061/dryad.0j4m5/3
title: Dataset for regression of adjusted residual haplotype count against allele indicator - comparison viable II versus inviable II

description: This dataset was used for the regression of adjusted residual haplotype count against allele indicator, in the comparison of viable hybrids cytotype II versus inviable hybrids cytotype II. See the R script for details of the analysis.
DOI: 10.5061/dryad.0j4m5/4
title: R script for the comparison of allele frequencies between hybrid groups
DOI: 10.5061/dryad.0j4m5/5
title: Allele frequencies - Fisher

description: Dataset used for comparison of allele frequencies between hybrid groups: Fisher exact tests of independence. See R script for details.
DOI: 10.5061/dryad.0j4m5/6
title: Allele frequencies - CMH

description: Dataset used for comparison of allele frequencies between hybrid groups: Cochran-Mantel-Haenszel tests. See R script for details.
DOI: 10.5061/dryad.0j4m5/7
title: R script for analysis of F1 hatch rate
DOI: 10.5061/dryad.0j4m5/8
title: F1 hatch rates
DOI: 10.5061/dryad.10pv6/1
title: data_phenotypes_BodyMass

description: Body mass data used for the initial linkage analysis. A detailed description of the file is in the README.
DOI: 10.5061/dryad.10pv6/2
title: data_phenotypes_TarsusDigitRatio

description: Tarsus length, body size and digit ratio data used for the initial linkage analysis. A detailed description of the file is in the README.
DOI: 10.5061/dryad.10pv6/3
title: data_genotypes_Sequenom

description: Genotypic data for all individuals from the wild and multiple captive populations used for the validation study. A detailed description of the file is in the README.
DOI: 10.5061/dryad.10pv6/4
title: data_snp_annotation

description: Additional information for all SNPs used for the validation study. A detailed description of the file is in the README.
DOI: 10.5061/dryad.14c6b/1
title: Data for Hua et al Nature Communications

description: All data for the field component of the article.
DOI: 10.5061/dryad.1f663/1
title: Monitoring of the spatial location of animals around the waterpoint over the dry season, Hwange National Park, Zimbabwe.

description: During the dry season in 2003 and 2004, for all waterpoints monitored, observation scans of the waterhole area were done every 15 minutes between 6 a.m. and 6 p.m. Each mammal group was recorded, with species identification, group size and group location. It was also recorded if the group was near the waterthough.
DOI: 10.5061/dryad.292dd/11
title: figures_08-12-16

description: R script for recreating all figures in the manuscript from the saved workspace file.
DOI: 10.5061/dryad.2bb5q/1
title: Response to Crowding of 10 Pea Aphid Genotypes

description: This csv file contains the offspring phenotype counts (winged and wingless) from  ten pea aphid females of ten genotypes. Offspring were collect for 24 hours prior to counting (pre-crowding) and four consecutive days post-crowding (Day 1-4). The winged offspring percentage was also calculated. There are three replicates. The original location of each genotype's wild collection site is also included. The facultative endosymbionts are included for each genotype.
DOI: 10.5061/dryad.2f452/1
title: Dipteran oviposition response to varied predator species richness

description: This dataset contains raw oviposition count data for species of Diptera in Charles City county, Virginia, USA. Insects colonized artificial aquatic mesocosms that contained predator communities of varying predator species richness. Zero predators, or no predators contained no predator organisms. One predator, or single species treatments contained three individuals of only one of the three predator types used in the experiment. The three predator, or high richness treatment mesocosms each contained three individuals, one of each predator type used in the experiment. The Culex raft and chironomid mass columns contain counts of egg clutches for Culex spp. mosquitoes and chironomid midges, respectively, only. The dipteran clutches column contains counts for Culex spp. mosquitoes, chironomid midges, and additional dipteran colonizers, all summed for the indivudual mesocosm. These data were collected in the field during summer, 2014.
DOI: 10.5061/dryad.2tj43/2
title: Burmeister_2016_Dryad_Data_Scripts
DOI: 10.5061/dryad.3428j/1
title: Phase III_FortBragg_IRR Database_Dec2014

description: This is an Excel spreadsheet of IRR reliability data Phase III.  It is one of 4 Excel files and a data dictionary file.
DOI: 10.5061/dryad.3428j/2
title: Phase Ia_AMMP IRR USARIEM V1 6DEC_2012

description: This is an Excel data file for the interrater reliability testing in Phase Ia of this study. There are 4 data files for different phases of this study and a data dictionary.
DOI: 10.5061/dryad.508j2/1
title: GPS csv files for tracks of all birds

description: The data is saved in the formate 01_"flock number"_"bird ID"_"release". For example, 01_08_S01_12 is flock 8, bird S01 and release 12. The data are in CSV files with all columns named. There are 8 flocks with 5 birds.
DOI: 10.5061/dryad.5bf77/6
title: RNA-Seq of early follicle cells – EGFRact Rep1 Read2

description: Paired-end RNA-Sequencing data from early follicle cells Genotype 109-30-Gal4, UAS-mCD8::GFP, UAS-EGFR[lambda]topReplicate #1, Read 2
DOI: 10.5061/dryad.5bf77/7
title: RNA-Seq of early follicle cells – EGFRact Rep2 Read1

description: Paired-end RNA-Sequencing data from early follicle cells Genotype 109-30-Gal4, UAS-mCD8::GFP, UAS-EGFR[lambda]topReplicate #2, Read 1
DOI: 10.5061/dryad.5bf77/8
title: RNA-Seq of early follicle cells – EGFRact Rep2 Read2

description: Paired-end RNA-Sequencing data from early follicle cells Genotype 109-30-Gal4, UAS-mCD8::GFP, UAS-EGFR[lambda]topReplicate #2, Read 2
DOI: 10.5061/dryad.64m4n/1
title: Monarch butterfly microsatellites

description: Microsatellite genotypes of Danaus plexxipus from Mexico
DOI: 10.5061/dryad.6kv00/15
title: MOKO1_20140929_004553_01.wav
DOI: 10.5061/dryad.6kv00/16
title: MOKO1_20140929_004553_02.wav
DOI: 10.5061/dryad.6kv00/17
title: MOKO1_20140929_180000_01.wav
DOI: 10.5061/dryad.6kv00/18
title: MOKO1_20140929_180000_02.wav
DOI: 10.5061/dryad.6kv00/19
title: MOKO1_20140930_004553_01.wav
DOI: 10.5061/dryad.6kv00/20
title: MOKO1_20140930_004553_02.wav
DOI: 10.5061/dryad.6kv00/21
title: MOKO1_20140930_180000.wav
DOI: 10.5061/dryad.6kv00/22
title: README
DOI: 10.5061/dryad.6p1j0/1
title: Ambrosia_microsatellite

description: Microsattelite results for Ambrosia aretmissiifolia crosses. Four loci were studied for offpsring, dams, and the putative sires.
DOI: 10.5061/dryad.70sr1/1
title: Global Lake Endemic Fish Data

description: Global data on the single-lake endemic fish in lakes with surface areas greater than 50 square kilometers. Included are geographic, physical, chemical information on each lake as well as the richness of endemic fish in each lake. The latitudinal centers of both endemic and non-endemic native fish in the lake data set are reported. References specific to each lake are associated with the unique ID number for each lake.
DOI: 10.5061/dryad.8080c/2
title: Tiger QPCR raw data and ratios

description: Real time PCR raw CT scores for 100 and 200 bp QPCR assays with calculated ratios to determine DNA quality
DOI: 10.5061/dryad.8b717/1
title: Ragweed_heterosis_data_Hahn

description: Phenotypic data of plants of common ragweed from a greenhouse experiment using artificial crosses within and between populations from the native and the introduced range. Description of the data variables in README.csv file.
DOI: 10.5061/dryad.8k7jd/1
title: Amanita_phalloides_Amanita_bisporigera_genome_annotation.tar

description: This tarball contains the following files:A_bisporigera_functional_annotation.txtA_bisporigera_predicted_proteins.fastaA_bisporigera_predicted_transcripts.fastaA_bisporigera_v1_genome_assembly.fastaA_bisporigera_v1_w_fasta.gffA_phalloides_functional_annotation.txtA_phalloides_predicted_proteins.fastaA_phalloides_predicted_transcripts.fastaA_phalloides_v1_genome_assembly.fastaA_phalloides_v1_w_fasta.gff
DOI: 10.5061/dryad.9b47j/2
title: Genome_diff_evolved_mutants

description: This is zipped file archive of the genomes of sequenced auxotrophic and prototrophic strains and genome diff format generated by the breseq analysis.
DOI: 10.5061/dryad.fd4m0/1
title: MCC phylogeny of 782 species of the Corvides

description: This phylogeny was largely based on that from the study Jønsson et al. (2016), which generated a time-calibrated tree using sequence data from 665 species of the Corvides. The remaining 124 species (as recognized by the IOC 2.7) which had no sequence data available at the time of the tree generation were added as polytomies to the maximum clade credibility (MCC) tree of Jønsson et al. (2016) using current taxonomic information. The branch lengths subtending these species were inferred using the polytomy resolution method. Subsequently, we pruned out 7 species for which wing measurements were unavailable.
DOI: 10.5061/dryad.j316c/1
title: 10genes_nt123
DOI: 10.5061/dryad.j316c/2
title: 12genes_degen1
DOI: 10.5061/dryad.j316c/3
title: 12genes_nt123
DOI: 10.5061/dryad.j316c/4
title: 22genes_degen1
DOI: 10.5061/dryad.j316c/5
title: 22genes_nt123
DOI: 10.5061/dryad.j413n/11
title: Permutation Model - calculate means across individuals

description: The permutation of the phylogeny was conducted with a set of scripts written and run in 4th Dimension (4D Inc., San Jose, CA). Once the trials are made, this fifth and final script calculates the mean of mean distances between alleles within individuals in population.
DOI: 10.5061/dryad.j413n/9
title: Permutation Model - rare case simulation

description: The permutation of the phylogeny was conducted with a set of scripts written and run in 4th Dimension (4D Inc., San Jose, CA).  This third script is the same as , but modified to handle the rarity of very low or high monophyly.
DOI: 10.5061/dryad.jm654/1
title: SNP genotypes, silicoDArT genotypes, and respective metadata of GIFT and Abbassa strains of Nile tilapia

description: Data file containing 13,215 SNP and 12,490 silicoDArT genotype scores and respective marker sequence and metadata information for 188 Nile tilapia (Oreochromis niloticus).  Samples are taken from the GIFT strain and the Abbassa strain selective breeding program nucleus populations managed and run by WorldFish in Malaysia and Egypt, respectively.
DOI: 10.5061/dryad.m07t1/1
title: Hirundinidae Dryad data and R script

description: Zip file contains behavioral, morphological, and phylogenetic data utilized in this paper, as well as citations for behavioral data and R scripts for analyses used.
DOI: 10.5061/dryad.m5kk3/1
title: Raw data and scripts
DOI: 10.5061/dryad.m5t20/1
title: Supplemental Data 1

description: AEToL Crinoid character list. Variations of this character list have previously been used in Ausich et al. 2015 and Deline and Ausich in print.
DOI: 10.5061/dryad.m5t20/2
title: Supplemental Data 2

description: Crinoid codings using the AEToL character suite. If a crinoid was used in the stratigraphic analysis in either the test (x) or control (xc) group it is noted.
DOI: 10.5061/dryad.m5t20/3
title: Supplemental Data 3

description: Taphonomic Codings for the AETOL dataset. X denotes that the character would likely be preserved. TG: Taphonomic Grade, Sequence Stratigraphic abbreviations are descibed in the main manuscript.
DOI: 10.5061/dryad.m5t20/4
title: Supplemental Data 4

description: Taphonomic codigs for Blastozoan data set. TG= Taphonomic Grade for Type one, two, and three blastozoans. X denotes the character was included in the analyses
DOI: 10.5061/dryad.pb04q/1
title: HISTORICAL TROUT DISTRIBUTION IN SPAIN

description: Presence (=1) or absence (=0) of brown trout (Salmo trutta) in 5427 localities in Spain during the mid-19th century, as informed by the geographical dictionary edited by Pascual Madoz [Madoz P. 1845-1850 Diccionario Geográfico, Estadístico y Histórico de España, y sus Posesiones de Ultramar. 16 vols. Madrid, Spain]. Absence localities are those in which the dictionary identified freshwater fish species but did not mention the trout. Latitude and longitude are given in decimal degrees
DOI: 10.5061/dryad.s1bg6/1
title: m_arrayScholl.P&V

description: Excel spreadsheet with average reading values on microarray, Sheet 1 is description. Sheet 2 is data for all genes analyzed from human monocytes at 2 and 12 hr time points.
DOI: 10.5061/dryad.s4k74/1
title: Microsatellite genotypes for greater sage-grouse.

description: Microsatellite genotypes (number of repeats for 14 loci) for 781 individuals from 10 subpopulations of the greater sage-grouse in Wyoming.
DOI: 10.5061/dryad.t383q/1
title: Cancer data (BMJ open)

description: Characteristics of cancer patients with unplanned admission to ICU