cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.j7737/6
title: Accelerometers attached to chick-rearing murres in 2011

description: Accelerometer files produced by Little Leonardo accelerometers. Each subfolder has the last five digits of the band number of the individual murre to whom the accelerometer was attached, and serves as the unique identifier to cross-reference with other information (sex, age, etc.). Within each folder, there are five files: the raw data (obj) file and a text file for the temperature log (in degrees C, every 1 s), depth (in m, every 1 s) and acceleration in the X and Y directions, in 32 Hz increments.
DOI: 10.5061/dryad.j7737/7
title: Time-depth recorders attached to chick-rearing murres in 2013

description: Output from LUL TDR recorders sent to France for downloading.  The Excel worksheet includes a tab for each individual bird. Each tab shows the last five digits of the band number of the individual the TDR was attached to. The total band number is 996XXXXX where XXXXX is the last five digits and uniquely identifies the bird. Each recorder was attached to multiple birds, and downloaded at the end of the field season (it was not possible to download the TDR in the field, so it had to be sent to France to be opened, downloaded and destroyed). Each tab presents four columns: date-time, temperature in degrees C, pressure in mbar (note that surface pressure is ~1040 mbar [but varies among loggers] and should be subtracted to determine depth. To convert mbar into depth, divide by 1000) and luminosity in lux. As the TDR was attached to the leg via tape over the logger, the luminosity readings are not representative. The first data file shows that meta-data. As several of the TDRs quit part way through the season/never started, many of the birds for which the TDR was attached have no associated data.
DOI: 10.5061/dryad.j7737/8
title: Time-depth recorders attached to chick-rearing murres in 2009

description: Output from Lotek LAT program for Lotek time-depth recorders attached in 2009. There are two folders: TDR_ACC_H2O and TDR_rearing. The birds in the folder TDR_ACC_H2O were injected with doubly-labelled water, which does not statistically affect their behaviour (see Elliott et al. 2013. PNAS). For the first 24 h, they were also equipped with an accelerometer (see http://datadryad.org/resource/doi:10.5061/dryad.40gk7 for details of deployments). Accelerometers were also attached to some of the birds in the second folder, which were observed for feeding watches. The meta-data file has details on which had accelerometers attached. Within each folder, there is a subfolder with the band combination (9 digits beginning with 1186 or 5 digits). For band numbers with 5 digits, the prefix was 996 so that the total band combination was 996XXXXX where XXXXX is the band number provided in the subfolder heading. The band combination for each individual ties the TDR recording with the meta-data (sex, age of the bird). Each folder includes two binary files (which can be read into the Lotek program) and a text file. The text file has four columns: the record number, the date-time, the pressure in dBar (converts directly into depth in m) and temperature in degrees Celsius.
DOI: 10.5061/dryad.j7737/9
title: Accelerometers attached to chick-rearing murres in 2009

description: Raw binary (obj) files from Little Leonardo loggers and the text files output from the Little Leonardo software. In addition to the attached file, all of the files in the data appendix here: http://datadryad.org/resource/doi:10.5061/dryad.40gk7 were included in the analyses (those birds were injected with doubly-labelled water, but doubly-labelled water does not statistically influence behaviour, Elliott et al. 2013 PNAS), except for the incubating birds: 65548, 62706, 69971 and 81061. Those files were not duplicated here. The file names have the five digit band number (prefix 996 so that the total band number is 996XXXXX where XXXXX is the five digit band number included in the file name), for cross-referencing with meta-data (sex, age). For each individual, there is a text file for temperature (in degrees C) and depth (in m) in 1 s increments and acceleration in the X and Y directions in 16 Hz increments (arbitrary units).
DOI: 10.5061/dryad.jc2pj/2
title: Microsatellite genotypes

description: Microsatellite genotypes for 225 individuals
DOI: 10.5061/dryad.jc2pj/3
title: Weinman et al. Social Parents

description: Summary of behavioral focal observations of social parents
DOI: 10.5061/dryad.m3h18/2
title: TTC1 BC1 Markers 1574

description: MapQTL genotype file for TTC1 population.
DOI: 10.5061/dryad.p88q8/10
title: sim50Kqc_prune

description: plink map file for quality filtered and pruned marker set for simulated data sets
DOI: 10.5061/dryad.qj811/2
title: References

description: References associated with the dataset
DOI: 10.5061/dryad.s622m/1
title: Colicin Loss

description: Data showing loss of plasmids which do not contain a colicin or when present in colicin resistant strains.
DOI: 10.5061/dryad.s903c/3
title: Giese et al 2013_suppl_species_list_cover

description: list of plant species from the experimental sites in 2004 and 2006 with cover
DOI: 10.5061/dryad.s903c/4
title: Giese et al 2013_suppl_biomass

description: biomass data of the experimental sites from 2004 - 2006
DOI: 10.5061/dryad.tb542/1
title: Raw pupillometric & behavioural data
DOI: 10.5061/dryad.v7h47/1
title: Triopslongicaudatus-long_454Reads_mtGenomeAssembly

description: The reads in this FASTA file were generated by a Roche 454 Life Sciences GS FLX genome sequencer at New Mexico State University, NM, USA. The sequence reads were used to assembly the mitochondrial genome from Triops longicaudatus "long".
DOI: 10.5061/dryad.v7h47/2
title: Triopslongicaudatus-short_454Reads_MtGenomeAssembly

description: The reads in this FASTA file were generated by a Roche 454 Life Sciences GS FLX genome sequencer at New Mexico State University, NM, USA. The sequence reads were used to assembly the mitochondrial genome from Triops longicaudatus "short".
DOI: 10.5061/dryad.v7h47/3
title: Triopsnewberryi_454Reads_mtGenomeAssembly

description: The reads in this FASTA file were generated by a Roche 454 Life Sciences GS FLX genome sequencer at New Mexico State University, NM, USA. The sequence reads were used to assembly the mitochondrial genome from Triops newberryi.
DOI: 10.5061/dryad.vc44v/1
title: Raw Data

description: These are the raw data from which one can calculate the PC's etc.
DOI: 10.7925/drs1.ucdlib_31104
title: 20-21 Anglesea Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 5 levels above ground.
description: Dublin City Council, Record of Protected Structures (2010), no. 169
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31110
title: 23 Anglesea Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 4 levels above ground.
description: Dublin City Council, Record of Protected Structures (2010), no. 170
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31116
title: 29 Anglesea Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 4 levels above ground.
description: Dublin City Council, Record of Protected Structures (2010), no. 172
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31122
title: 1 Anne's Lane, Dublin

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 2 levels above ground.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31125
title: 2 Anne's Lane, Dublin

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 2 levels above ground.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31131
title: Centenary House, Dublin

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 4 levels above ground.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31143
title: 2 Aston Quay, Dublin

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 4 levels above ground.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.5061/dryad.06hn6/1
title: Ergovaline concentrations in simulated herbivory experiment

description: Data are from an experiment simulating herbivory and saliva application on 32 Festuca rubra plants infected with Epichloë festucae.  We used two simulated herbivory treatments consisting of fortnightly and monthly clipping and a control of no herbivory.  Clipped plants received either distilled water or moose saliva.  The 32 plants represented 22 isolates (putatively different genets), originating from either the core of F. rubra’s distribution in Europe, mainly Sweden, or its natural southern limit in southern Ontario, Canada.  Plants were harvested after growing in a greenhouse for eight weeks and measured for ergovaline concentrations using high-performance liquid chromatography at the Endophyte Service Laboratory, Oregon State University.
DOI: 10.5061/dryad.06hn6/2
title: Radii of Epichloë festucae colonies treated with saliva or water measured every 12 hours

description: We tested whether application of reindeer and moose saliva reduced in vitro growth of Epichloë festucae colonies relative to a control treatment of distilled water.  We isolated E. festucae from Festuca rubra, grown from natural populations in northern Sweden, by cutting the base of the youngest fully-extended leaf in each plant.  Sections were surface sterilized and embedded in potato dextrose medium with 60 mg/L of penicillin G and streptomycin.  Plates were stored in the dark at 24°C for 2 weeks.  We then assigned 22-25 colonies per treatment, with 5-9 replicates of three plant genotypes, and recorded the initial radius of each plate.  Saliva was applied and we measured colony radius relative to the baseline every 12 hours over 2 days.
DOI: 10.5061/dryad.1hf24/4
title: Matlab Simulations (Constant anisotropic migration)

description: Simulation data summarized in Table 1 of the paper. These simulations are for anisotropic migration rates that are constant. This case is described by Lehmann & Perrin (2006) Ecology, Vol. 87, p1844-1855
DOI: 10.5061/dryad.202d4/1
title: Scripts used for STACKS pipeline

description: These are the three final scripts used for generating the 5159 SNP matrix that was used as a basis for all other data matrices.
DOI: 10.5061/dryad.202d4/2
title: Large SNP matrix without outlier

description: This is the matrix used for analyses where all SNPs and taxa were used, excluding the outlier from the Auyan population that was found with the PCA analysis.
DOI: 10.5061/dryad.202d4/3
title: Original 5159 SNP matrix

description: Original 5159 SNP matrix obtained in STACKS
DOI: 10.5061/dryad.202d4/4
title: Reduced 1000 SNP matrix

description: Reduced matrix, keeping all taxa but reducing SNPs to 1000
DOI: 10.5061/dryad.202d4/5
title: Reduced 1219 SNP matrix

description: Matrix obtained after eliminating taxa with &gt;30% missing data and SNPs with &gt;6% missing data, resulting in a total of 1219 SNPs.
DOI: 10.5061/dryad.270b7/2
title: SNPgenotypingData

description: Excel File containing SNP genotyping results for all individuals
DOI: 10.5061/dryad.270b7/3
title: SimulationFiles

description: Folder containing R script for hybrid simulations (SimsNewHybrids.R), input files (SelectionSimulOnlyRefs040912.txt, SelectionSimulOnlyTestInd040912.txt) and file that holds the definitions of ten of the genotype frequency classes possible after three generations of mating between two species (TwoGensGtypFreq10.txt)
DOI: 10.5061/dryad.270b7/4
title: MicrosatelliteData

description: Excel File containing microsatellite allele length results for all individuals
DOI: 10.5061/dryad.270b7/7
title: Y_data

description: Folder containing the raw sequences from SRY sequencing (SNPseqSRY) and the SMCY microsatellite allele length for male individuals
DOI: 10.5061/dryad.283g6/1
title: Oakley2013_EvolApp_DataforDryad

description: Raw data on fitness component estimates from the field over 2 years. Population level least square mean fitness estimates, population sizes, and heterosis estimates from the greenhouse for correlations/regressions.
DOI: 10.5061/dryad.46dt3/1
title: MAIN DATA FILE

description: spreadsheet containing the main data
DOI: 10.5061/dryad.46dt3/2
title: R-code for analyses
DOI: 10.5061/dryad.5b6t7/3
title: site_level_data

description: Data on climate and location of arboretum sites.  Other site level information in included directly in the programming code.
DOI: 10.5061/dryad.5b6t7/4
title: best_quercus_phylogeny

description: A supertree of oaks (Quercus and Notholithocarpus).  The backbone of the phylogeny was a published AFLP phylogeny (Pearse & Hipp 2009).  Oak species were placed on the phylogeny based on various evidence (listed in Table S1).
DOI: 10.5061/dryad.5b6t7/5
title: alternate_quercus_phylogenies

description: Alternate Quercus phylogenies that either collapse species relationships to polytomies within established clades, force even branching times, or move the placement of the old world white oaks, based on recent phylogenetic treatments (Hipp et al 2014).  Multiple Newick tree files.  Descriptions of which file is which phylogeny can be found in the R code.
DOI: 10.5061/dryad.6023qs3k/5
title: Input_file_randomisation: wild boar sampling locations

description: Input file required by the ransomisation script (1000 random straight lines) containing x y coordinates of samples and information on which side of the motorway individuals were sampled
DOI: 10.5061/dryad.6d8g5/2
title: SPAGeDi_Reef12genospace

description: Input file for the program, Spatial Pattern Analysis of Genetic Diversity (SPAGeDi; Hardy and Vekemans 2002) giving spatial and multi-locus genetic data for Pocilopora damicornis samples taken from Reef 12, one of the "neighboring reefs" in our study. From left to right, columns represent Sample ID Number, x coordinate, y coordinate, and genotypes at each of 6 microsatellite loci.
DOI: 10.5061/dryad.6gj46/1
title: Final data for analysis

description: The zipped file has the following document; 1. Cerelac-diet, 2. dry algae-diet, 3. Fresh algae-Diet, 4. maize Pollen-Diet, 5. Tetramin Fish food
DOI: 10.5061/dryad.82hs7/1
title: Microsatellite raw data of 6 loci for boreal chickadees across North America

description: The file contains the raw sizes for six microsatellite loci. Regions were isolated using M13-labelled target-site specific primers and run on a 6% gel using a LI-COR 4300 DNA Analyzer. Sizes were scored by hand relative to 4 standards and a mystery plate. Samples were either collected in the field or were provided by museums (see SI).
DOI: 10.5061/dryad.87pk2/1
title: Male anatomical and sperm data
DOI: 10.5061/dryad.8fj74/2
title: SNP_genotypes

description: SNP genotypes from wild sticklebacks collected during 2006-2009. SNPs were identified by sequencing 500-800 bp regions of the genome in 3 individuals from 4 populations. Population codes can be found in readme file. Marker names can be found from Ensembl.
DOI: 10.5061/dryad.8fj74/3
title: microsatellite_genotypes

description: Microsatellite genotypes from wild stickleback samples collected 2006-2009. Population codes can be found in readme file. Marker names can found from Ensembl.
DOI: 10.5061/dryad.b911r/4
title: individual microsatellite markers and spatial coordinates JC2007

description: Individual genotypes and spatial coordinates for all individuals sampled in the patch network JC in 2007.
DOI: 10.5061/dryad.c7638/1
title: Data from: Influences of APOA5 variants on plasma triglyceride levels in Uyghur population

description: original data
DOI: 10.5061/dryad.f5q32/10
title: Phased haplotypes GAPDH

description: Phased GAPDH haplotypes of 46 Eastern Yellow Robins in NEXUS format
DOI: 10.5061/dryad.j7737/10
title: Time-depth recorders attached to chick-rearing murres in 2008

description: Output of Lotek Tagtalk program for time-depth recorders attached to the leg band of murres in 2008. Each file name includes the logger serial number (5XX) and 8-digit unique band number for cross-referencing with metadata (sex, age, etc.). For each logger deployment, there were two files: a 'basic log' ending in _00 that recorded temperature and pressure every 30 s and a 'conditional log' ending in _01 that recorded temperature and pressure every second when dbar was above a critical value. For the loggers with serial numbers 505, 510 and 511, that value was 28 "dbar". For the loggers with serial numbers 509 and 518, that value was 18 "dbar". For the logger with serial number 512, that value was 4 "dbar". Note that there was a flaw in the loggers and every pressure value needs to be divided by 4 to convert the reported dbars to actual dbars. As dbar = m, to convert pressure into depth in m, divide the recorded number by 4.
DOI: 10.5061/dryad.j7737/11
title: Time-depth recorders attached to chick-rearing murres in 2005

description: Raw text files generated by Lotek download software. After a preamble including the logger serial number, the data file presents three columns: the time & date, the temperature in degrees Celsius and the pressure in psi. To convert psi into approximate depth, multiply by 0.705. The text files are organized into folders representing the deployments. Each file name also has the unique eight digit band number of the individual bird to whom the TDR was attached. The band number serves as the identifier to relate it to the meta-data file that includes sex, age and other attributes of the bird.
DOI: 10.5061/dryad.j7737/12
title: Time-depth recorders attached to chick-rearing murres in 2009

description: Output from various Lotek time-depth recorders. Refer to the same folders from each year for chick-rearing birds for information on the format of each file type. In 2004, some birds had handicaps attached and 2004 data were therefore excluded from analyses. In 2008, because of an error in the programming of the tag, the actual pressure reading is 1/4 the reported reading and therefore the conditional log filled rapidly.
DOI: 10.5061/dryad.j7737/13
title: Time-depth recorders attached to incubation birds in 2004-09

description: Output from various Lotek time-depth recorders. Refer to the same folders from each year for chick-rearing birds for information on the format of each file type. In 2004, some birds had handicaps attached and 2004 data were therefore excluded from analyses. In 2008, because of an error in the programming of the tag, the actual pressure reading is 1/4 the reported reading and therefore the conditional log filled rapidly.
DOI: 10.5061/dryad.j7737/14
title: Accelerometers attached to incubating birds in 2009

description: Binary (obj) files and text files (depth in m every 1 s; temperature in degrees C every 1 s; acceleration at 16 Hz in both X and Y axes) for incubating birds in 2009. The band numbers, in the title of each file, provide the unique identifier to associated the dive file with the metadata.
DOI: 10.5061/dryad.j7737/15
title: Time-depth recorders attached to birds simultaneously with GPS units in 2010-11

description: Time-depth recorder files generated by Lotek download program for recorders attached to birds that also had GPS units on their backs. Because the GPS units likely also altered behaviour, and due to the small sample size per year, these data were excluded from the dataset analyzed within the manuscript but are included here for completeness. The 8 or 9 digit band number is in the file name and uniquely associates the individual with the meta-data. The data files include columns for date-time, temperature (degrees C) and pressure (in dbar, which is equivalent to depth in m).