cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.9m5h0/6
title: Amell_Expression.txt

description: File that includes expression  and other evolutionary measures for duplicate and singletons in A. mellifera. 

column	description
Gene	A. mellifera gene ID
EOG	OrthoDB v9.1 group ID
Homology	Duplicate gene or singleton
Ashby_DQ_logFC	Expression ratio (Drones/Queens) Ashby et al Dataset
Ashby_DQ_FDR	FDR (Drones/Queens) Ashby et al Dataset
Ashby_DW_logFC	Expression ratio (Drones/Workers) Ashby et al Dataset
Ashby_DW_FDR	FDR (Drones/Workers) Ashby et al Dataset
Ashby_QW_logFC	Expression ratio (Queens/Workers) Ashby et al Dataset
Ashby_QW_FDR	FDR (Queens/Workers) Ashby et al Dataset
N_Tau	Tissue Specificity, calculated across 10 tissues in Nurses; Jasper et al 
F_Tau	Tissue Specificity, calculated across 10 tissues in Foragers; Jasper et al 
Jasper_NF_logFC	Expression ratio (Nurse/Forager) in brains; Jasper et al Dataset
Jasper_NF_FDR	FDR (Nurse/Forager) in brains; Jasper et al Dataset
V_DQ_logFC	Expression ratio (Drones/Queens) Vleurinck et al Dataset
V_DQ_FDR	(Drones/Queens) Vleurinck et al Dataset
V_DW_logFC	Expression ratio (Drones/Workers) Vleurinck et al Dataset
V_DW_FDR	FDR (Drones/Workers) Vleurinck et al Dataset
V_QW_logFC	Expression ratio (Queens/Workers) Vleurinck et al Dataset
V_QW_FDR	FDR (Queens/Workers) Vleurinck et al Dataset
C_QW_logFC	Expression ratio (Queens/Workers) Cameron et al Dataset
C_QW_FDR	FDR (Queens/Workers) Cameron et al Dataset
DOI: 10.5061/dryad.c134g/2
title: fish_transects_2012_13_14

description: Fish transects in the Atoll of Ulithi, Yap State, Federated states of Micronesia
DOI: 10.5061/dryad.cr65v/10
title: Genomic data

description: Concatenated Medicago truncatula reference genome (v4), VCF, BAM and DGRP files used for HARP analyses.
DOI: 10.5061/dryad.cr65v/7
title: HTML output of the script to estimate CVbefore/CVafter
DOI: 10.5061/dryad.d4vr0/2
title: Mimulus_luteus.faa

description: Fasta file of M. luteus genome assembly
DOI: 10.5061/dryad.d4vr0/3
title: Mimulus_luteus_complete_w_single_exons_standard_renamed_genes.gff

description: GFF genome annotation file of Mimulus luteus. This GFF file provides gene annotation for the M. luteus genome assembly published in this paper.
DOI: 10.5061/dryad.d4vr0/4
title: Mimulus_guttatus_complete_w_single_exons_standard_renamed_genes.gff

description: GFF genome annotation file of Mimulus guttatus. This GFF file provides gene annotation for the M. guttatus genome v2.0 on available on Phytzome.
DOI: 10.5061/dryad.gc6dm/1
title: Data and script for VEGE-D-17-00147

description: This folder contains a copy of the data files as used for this paper, as well as a script file to run statistical analyses and generate the figures in this paper.
DOI: 10.5061/dryad.h21v2.1
title: Data from: The genetic architecture of UV floral patterning in sunflower
DOI: 10.5061/dryad.h21v2.1/1.1
title: Flowerheads photographed in UV

description: Zipped directory containing JPG files of Helianthus argophyllus flowerheads photographed with a Nikon D70s digital camera fitted with a Noflexar 35mm lens and a reverse-mounted 2 inch Baader U-Filter (restricting the transmission of light to 320–380 nm). Files are named according to the plant's location in the field and the photograph number (e.g. 'b1-11DSC_1586' is the plant from row 1, space 11, photograph 1586; exceptions are the F1 individuals which are labeled X3A-# or X3B-# instead of by field location). The archived data file with phenotypic measurements contains the key to translate field location to plant genotype.
DOI: 10.5061/dryad.h21v2.1/2.1
title: Custom Perl script for formatting paired-end GBS data for uneak pipeline

description: This script translates paired-end fastq sequencing files into two independent sets of individually barcoded reads with a custom Perl script, to be used in the uneak pipeline (which is built only for single-end reads, from TASSEL 3; Lu et al., 2013). usage: perl GBS_Fastq_BarcodeAdder.pl uneak_key_file.txt library_1.fq library_2.fq combined_library_out.fq
DOI: 10.5061/dryad.h21v2.1/3.1
title: Bash commands used to filter for final SNP matrix

description: This file contains the series of bash commands used to filter uneak output to call genotypes using more stringent filters. Starting with the HapMapCount file (for each individual at each tag pair: minimum of 10 tags, heterozygote if the ratio of the two tags &lt; 10, homozygote if the ratio of the two tags &gt; 50, otherwise N), filter the resulting file for sites with alternate homozygous genotypes in the two parent individuals (7,875 sites), filter those sites for a minimum coverage of 50% across all individuals and observed heterozygousity of 0.3–0.7, and then format these genotypes for import into R/qtl.
DOI: 10.5061/dryad.h21v2.1/4.1
title: Phenotype and genotype matrix for QTL mapping

description: Data matrix formatted for R/qtl, for QTL mapping in F2 population of Helianthus argophyllus. Column headers are: GBS_name (sample identifier in sequence files), name (field location, e.g. R1-11 is row 1, space 11), id (numeric identifier unique to individual), fam (F2 family), row (row location), , place (place within row location), mom (identity of F1 maternal parent), uvR (proportional UV pigmentation), uvD (absolute UV bullseye diameter, cm), total.d.cm (total flowerhead diameter, cm), disc.d (disc diameter, cm), petal.d.cm (mean ligule length, cm), FHage (binned maturity score of flowerhead). The following columns are marker genotypes, with the map location of those markers on rows 2 (linkage group) and 3 (centiMorgan).
DOI: 10.5061/dryad.h21v2.1/5.1
title: Phenotypic data for all individuals

description: Includes phenotypes for all USDA accession, F1, and F2 individuals measured in this study. Column headers are: Dataset (Main = F2, others as indicated), name (plant location in field, e.g. R1-11 is row 1, space 11), filename (file name of flowerhead photograph), FHage (binned maturity of sampled flowerhead), clip (length in pixels of standard object in photo), pixels_cm (number of pixels per cm for this photo), clip_size (which standard object was included in photo), class (population to which individual belonged, e.g. F2), cytoplasm (whether F2 individual had ARG-1805 as maternal grandmother, A, or ARG-1834, B), F1pop (F1 family for F2 individuals), session (photography session), picN (photo number), h.disc (width of flowerhead disc in pixels), v.disc (height of flowerhead disc in pixels), 1f (total length of first measured ligule in pixels),1p (UV pigmented length of first measured ligule in pixels), 2f (total length of second measured ligule in pixels), 2p (UV pigmented length of second measured ligule in pixels), 3f (total length of third measured ligule in pixels), 3p (UV pigmented length of second measured ligule in pixels), r1 (1p/1f) , r2 (2p/2f), r3 (3p/3f), mean.r (mean of r1, r2, r3, or proportional UV pigmentation), uv.d (mean of h.disc and v.disc plus 2 x mean of 1p, 2p, 3p), uv.d.cm (uv.d divided by pixels_cm, or absolute UV bullseye diameter in cm), total.d.cm (total flowerhead diameter in cm), disc.d (mean of h.disc and v.disc divided by pixels_cm, or disc diameter in cm), petal.d.cm (mean of 1f, 2f, 3f divided by pixels_cm, or ligule length in cm).
DOI: 10.5061/dryad.h21v2.2/4.2
title: Phenotype and genotype matrix for QTL mapping

description: Data matrix formatted for R/qtl, for QTL mapping in F2 population of Helianthus argophyllus. Column headers are: GBS_name (sample identifier in sequence files), name (field location, e.g. R1-11 is row 1, space 11), id (numeric identifier unique to individual), fam (F2 family), row (row location), , place (place within row location), mom (identity of F1 maternal parent), uvR (proportional UV pigmentation), uvD (absolute UV bullseye diameter, cm), total.d.cm (total flowerhead diameter, cm), disc.d (disc diameter, cm), petal.d.cm (mean ligule length, cm), FHage (binned maturity score of flowerhead). The following columns are marker genotypes, with the map location of those markers on rows 2 (linkage group) and 3 (centiMorgan).
DOI: 10.5061/dryad.h21v2.2/5.2
title: Phenotypic data for all individuals

description: Includes phenotypes for all USDA accession, F1, and F2 individuals measured in this study. Column headers are: Dataset (Main = F2, others as indicated), name (plant location in field, e.g. R1-11 is row 1, space 11), filename (file name of flowerhead photograph), FHage (binned maturity of sampled flowerhead), clip (length in pixels of standard object in photo), pixels_cm (number of pixels per cm for this photo), clip_size (which standard object was included in photo), class (population to which individual belonged, e.g. F2), cytoplasm (whether F2 individual had ARG-1805 as maternal grandmother, A, or ARG-1834, B), F1pop (F1 family for F2 individuals), session (photography session), picN (photo number), h.disc (width of flowerhead disc in pixels), v.disc (height of flowerhead disc in pixels), 1f (total length of first measured ligule in pixels),1p (UV pigmented length of first measured ligule in pixels), 2f (total length of second measured ligule in pixels), 2p (UV pigmented length of second measured ligule in pixels), 3f (total length of third measured ligule in pixels), 3p (UV pigmented length of second measured ligule in pixels), r1 (1p/1f) , r2 (2p/2f), r3 (3p/3f), mean.r (mean of r1, r2, r3, or proportional UV pigmentation), uv.d (mean of h.disc and v.disc plus 2 x mean of 1p, 2p, 3p), uv.d.cm (uv.d divided by pixels_cm, or absolute UV bullseye diameter in cm), total.d.cm (total flowerhead diameter in cm), disc.d (mean of h.disc and v.disc divided by pixels_cm, or disc diameter in cm), petal.d.cm (mean of 1f, 2f, 3f divided by pixels_cm, or ligule length in cm).
DOI: 10.5061/dryad.h21v2.2/6.2
title: Candidate genes for UV floral patterning

description: List of candidate genes under the four proportional UV pigmentation QTL matched against the Arabidopsis thaliana TAIR10 protein database using blastp (e &lt; e-20; Lamesch et al., 2011). Filtered specifically for proteins with WD or bHLH functional domains or part of the MYB or UDP-glycotransferase families. Column headers: which (filtered functional category), HaName (id of Helianthus annuus mRNA), AtName (best Arabidopsis thaliana hit), evalue (match value), chr (Helianthus annuus chromosome number), program (maker for this analysis), type (all genes in this analysis), start (start of gene in basepairs), end (end of gene in basepairs), score (NA), strand (+ or -), phase (NA), ID (internal id), Name (internal name), followed by functional annotation of that protein.
DOI: 10.5061/dryad.h21v2.2/7.2
title: All genes under proportional UV pigmentation QTL

description: List of all genes under the proportional UV pigmentation QTL. Column headers: chr (chromosome in Helianthus annuus genome), start (first basepair location of gene on chromosome), end (last basepair location of gene on chromosome), and HaName (gene name). More information about these genes is available at https://sunflowergenome.org/
DOI: 10.5061/dryad.h9s55/1
title: Bird and bat wind farm collision data from a literature review of onshore wind farms

description: This dataset contains information on the collision rates of bird and bat species with onshore wind turbines, obtained from a literature review of peer and non-peer reviewed studies. Also provided are a list of references reviewed, from which data was then obtained.These data fed into the trait-based analysis of collision rates of species provided in the main paper.
DOI: 10.5061/dryad.jn6vn/1
title: Performance and linear morphology table

description: Table presenting identification codes of the studied individuals (DB	FC), sex (SEX), population (POP), body size as snout-vent length (SVL), trunk length (TRL), head height	(HH) width (HW) and length (HL), front limb length (FLL) hind limb length (HLL), bite force expressed in N (BF) and climbing performance expressed in cm/s (CLM)
DOI: 10.5061/dryad.m1rt3/1
title: Microsatellite genotypes for LSK in Genepop format

description: Genotypes of 156 LSK at 21 microsatellite markers ready for use with Genepop or to be converted into another popgen file format.   Samples are divided by population and filial group.
DOI: 10.5061/dryad.m1rt3/2
title: MLH values

description: Standardised multilocus heterozygosity for 156 LSK calculate in Rhh for R.  These values were used to calculate our double standardised measure of heterozygosity to create figure 2 in the manuscript.
DOI: 10.5061/dryad.m1rt3/3
title: Raw hatching success data for LSK

description: Raw hatching success data for 33 LSK tracked over two seasons for reproductive effort and hatching success.
DOI: 10.5061/dryad.mr11t/1
title: LRS data and scripts

description: This zip-file contains data sets for Flying squirrel LRS (LRSdata_feb2017.csv), including all available food and habitat variables, age (longevity) and fecundity. individual data are field collected and aggregated for each female. All habitat variables were collected annually for each nest box and then aggregated for each female. Box numbers, GPS-locations and other information that may indicate exact location of nests are removed for security reasons. In addition, there is an excel-file (VariableExplanations.xlsx) with description of all variables in the main LRS-data file, and the original csv-files for annual food availability (catkin.csv), bodymass (bodymass.csv) and patch size (patchsize.csv). Finally, there are two R script-files, one for all analysis and one for figures.
DOI: 10.5061/dryad.pk84p/1
title: VIDEO 1-Anolis proboscis displays

description: Displays. Four types of displays performed by males: proboscis flourishing, alternate up-down head bobbing, lowered head bobbing, undulation), and display performed by females.
DOI: 10.5061/dryad.pk84p/2
title: VIDEO 2-Anolis proboscis courtship behavior, part I

description: First part of the courtship behavior, highlighting the ‘Proboscis flourishing’.
DOI: 10.5061/dryad.pk84p/3
title: VIDEO 3-Anolis proboscis courtship behavior, part II

description: Second part of the courtship behavior characterized by ‘Chasing’.
DOI: 10.5061/dryad.pk84p/4
title: VIDEO 4-Anolis proboscis courtship behavior: Stimulation and copulation

description: Third and fourth part of the courtship behavior: ‘Stimulation’ and ‘Copulation’. During the stimulation, the male rubs the female’s neck with his snout tip, elevates the rostral appendage and bite the female in the nape. The copula starts, the male stops biting the female nape and low the rostral appendage.
DOI: 10.5061/dryad.rq560/10
title: Imaging Data - Part 7

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/11
title: Imaging Data - Part 8

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/12
title: Imaging Data - Part 9

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/13
title: Imaging Data - Part 10

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/14
title: Imaging Data - Part 11

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/7
title: Imaging Data - Part 4

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/8
title: Imaging Data - Part 5

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.rq560/9
title: Imaging Data - Part 6

description: Calcium imaging data recorded during head-fixed awake in vivo two-photon imaging experiments. Data is designed to be read by corresponding figure code at https://github.com/losonczylab/Zaremba_NatNeurosci_2017.
DOI: 10.5061/dryad.t8t25/2
title: Territories and assigned squares

description: For each breeding season, individuals were assigned to a grid of 141 squares covering the whole study area.
DOI: 10.5061/dryad.t8t25/3
title: Visitor survey February 2014

description: To quantify the levels of human disturbance in the study area, we counted the number of visitors in each of the 141 squares that covered our study area. In total, we conducted three surveys (February 2014, August 2014, February 2015), each over a period of 24 consecutive days.
DOI: 10.5061/dryad.t8t25/4
title: Visitor survey August 2014

description: To quantify the levels of human disturbance in the study area, we counted the number of visitors in each of the 141 squares that covered our study area. In total, we conducted three surveys (February 2014, August 2014, February 2015), each over a period of 24 consecutive days.
DOI: 10.5061/dryad.t8t25/5
title: Visitor survey February 2015

description: To quantify the levels of human disturbance in the study area, we counted the number of visitors in each of the 141 squares that covered our study area. In total, we conducted three surveys (February 2014, August 2014, February 2015), each over a period of 24 consecutive days.
DOI: 10.5061/dryad.1rd0m/1
title: BA Method Paper phyA new

description: PhyA data
DOI: 10.5061/dryad.1rd0m/2
title: BA Method Paper gp 18.06.2013

description: chloroplast data
DOI: 10.5061/dryad.1rd0m/3
title: BA Method Paper combined 2 with hotspots 17.06.2013

description: combined data, indels included
DOI: 10.5061/dryad.1rd0m/4
title: BA Method Paper combined 2 without hotspots 21.06.2013

description: combined data indels excluded
DOI: 10.5061/dryad.1rd0m/9
title: Table S1

description: List of all fossils used in the analysis and the justification for their placement on the tree as calibrations.
DOI: 10.5061/dryad.25b8f/1
title: CTmax_2d_4_19,23

description: CTmax_2d_4_19,23: 2day old flies developed at average temperatures 19°C and 23°C, with an amplitude of +/- 4°C, assayed for CTmax
DOI: 10.5061/dryad.25b8f/2
title: CTmax_2d_8_19,23

description: CTmax_2d_4_19,23: 2day old flies developed at average temperatures 19°C and 23°C, with an amplitude of +/- 4°C, assayed for CTmax
DOI: 10.5061/dryad.25b8f/3
title: CTmin_2d_4_19,23

description: CTmin_2d_4_19,23: 2day old flies developed at average temperatures 19°C and 23°C, with an amplitude of +/- 4°C, assayed for CTmin
DOI: 10.5061/dryad.25b8f/4
title: CTmin_2d_8_19,23

description: CTmin_2d_8_19,23: 2day old flies developed at average temperatures 19°C and 23°C, with an amplitude of +/- 8°C, assayed for CTmin
DOI: 10.5061/dryad.25b8f/5
title: CTmax_5d_4_19,23

description: CTmax_5d_4_19,23: 5day old flies developed at average temperatures 19°C and 23°C, with an amplitude of +/- 4°C and shifted as adults to opposite treatment regime, assayed for CTmax
DOI: 10.5061/dryad.25b8f/6
title: CTmin_5d_4_19,23

description: CTmin_5d_4_19,23: 5day old flies developed at average temperatures 19°C and 23°C, with an amplitude of +/- 4°C and shifted as adults to opposite treatment regime, assayed for CTmin
DOI: 10.5061/dryad.25b8f/7
title: CTmax_5d_8_19

description: CTmax_5d_8_19: 5day old flies developed at average temperature 19°C, with an amplitude of +/- 8°C and shifted as adults to opposite treatment regime, assayed for CTmax
DOI: 10.5061/dryad.2m39d/1
title: meerkat_odour_data

description: Data comprise profiled GC-MS data (i.e. peak areas) for the statistical analyses of odour samples from captive meerkats, used to assess thermal desorption tubes for non-invasive sampling of mammalian body odour (see readme-file for details).
DOI: 10.5061/dryad.32qh8/1
title: data_Dryad_MolEcolRes_Becheler_etal

description: This xlxs.file provides 3 sheets supporting the fully detailed results of our MS : sheet "precision interval" -&gt; cross-validation of the methods on divers simulated populations. For each combination of populational, genetic and prior parameters, 100 repetitions were done, allowing estimating the precision interval. Sheet "posterior distribution" -&gt; the posterior probability for each value of c are delivered for divers simulated populations evolving with true c=0.4. Sheet "results CloNcaSe" -&gt; estimation of c by CloNcaSe for simulated populations of 100 individuals,exhaustively sampled, from c=0 to c=1. An equivalent of read me is provided at the end of the tables.
DOI: 10.5061/dryad.4s3v1/21
title: Cybertype_Zasphinctus wilsoni_MCZ-ENT-00512764_holotype worker_5

description: Cybertype dataset for Zasphinctus wilsoni (MCZ-ENT-00512764) holotype worker 5: 3D PDFs and high-resolution 3D rotation videos (mpg format) for scans of full body, head, mesosoma, and metasoma plus montage photos (full-face view, body in profile, and dorsal view of body) and microtomographic still images of diagnostic characters (tiff format)
DOI: 10.5061/dryad.5t8pq/1
title: Meunier_etal_Data

description: This folder contains all data needed to recreate the main figures and tables of the article. Data concern estimation of genetic nuclear ratios of mating types in N.tetrasperma, under different conditions of medium and duration of growth, by qPCR. Measurements of fitness in heterokaryons under different nuclear ratios and in homokaryons are also provided.
DOI: 10.5061/dryad.5t8pq/2
title: Meunieretal_Rscripts

description: This folder contains all scripts in R used to analyze data from the article. Data files to be used with each script are indicated as comments inside the scripts. See README associated with Data for more information.
DOI: 10.5061/dryad.68ff1/2
title: Anonymized Eye Data

description: This compressed file contains the raw eye-movement data recorded in the fMRI scanner. Data from each session is provided in the native eye-tracker format (ASL) as well as a standard ASCII text file. The uppermost directories refer to individual subjects with a 5 digit code. Within each subject directory is one or more sub directories corresponding to different sessions that subject participated in. Theses directories are labeled with a randomized alphanumeric code which corresponds to the date that the data was collected. The age of a subject at each session can be determined by examining the Subject Information XLS file and matching up the Subject ID and the Code. Within each session director are three .EYD (ASL format) files and .TXT files (ASCII). Each session consisted of three fMRI/behavioral task runs,
DOI: 10.5061/dryad.68ff1/3
title: fMRI Task Timing Information

description: This XLS file contains the event time information for the 3 runs of the memory-guided saccade task. See the Information worksheet for more.
DOI: 10.5061/dryad.68ff1/4
title: fMRI Raw Data (part 1 of 4)
DOI: 10.5061/dryad.68ff1/5
title: fMRI Raw Data (part 2 of 4)
DOI: 10.5061/dryad.68ff1/6
title: fMRI Raw Data (part 3 of 4)
DOI: 10.5061/dryad.68ff1/7
title: fMRI Raw Data (part 4 of 4)