cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.39sr7/1
title: Chialvo_MSAT_data

description: Excel file (.xlsx) containing: 1) the collection information for all 378 samples used in the delimitation study, including sample codes, collection dates, and locality; and 2) genotype data (60 microsatellites) for all samples. Missing data is designated with a "?"
DOI: 10.5061/dryad.3s96n/1
title: dryad-Robuchon-et-al-JEcol

description: Taxonomic and geographic information on seaweed specimens collected for the study
DOI: 10.5061/dryad.424b2/1
title: Matrix of vascular plant species observations at 141 points in La Amistad Binational Park

description: Matrix of vascular plant species observations at 141 points in La Amistad Binational Park including three associated spreadsheets. 'Matrix' sheet is the matrix with species names shortened to 8 characters. 'Variables' sheet are the geographical coordinates, elevation, slope and climate variables for each sample point. 'Plot coords' are the geographical coordinates for each sample point. 'Short names' are the full binomials for the abbreviated species names used in the matrix.
DOI: 10.5061/dryad.4s51m/1
title: Temporal Resource Data

description: Data was field collected in the Soconusco region of Chiapas Mexico. Data is on floral resource characteristics. Labels: fl=floralresource; abund=abundance; per=percent; gc=groundcover; can=canopy;
DOI: 10.5061/dryad.4s51m/2
title: Bee Abundances
DOI: 10.5061/dryad.6244k/1
title: data_packet

description: This is a zipped folder that contains the following items: 
1) Images of the lectotype (HUH377480).
2) Images of the specimen from Nova Scotia (N942)
3) Input alignments for combined mtSSU and ITS analyses (MP=parsimony, ML=likelihood, BI=Bayesian Inference).
4) Initial mtSSU and ITS individual alignments.
5) Excel spreadsheet of specimens of Santessoniella crossophylla examined.
DOI: 10.5061/dryad.69sq3/1
title: Figure 1

description: Code to run models and plot Figure 1
DOI: 10.5061/dryad.69sq3/2
title: Figure 2

description: Code to run the models and plot Figure 2
DOI: 10.5061/dryad.69sq3/3
title: Figure 3

description: Code to run model and plot Figure 3
DOI: 10.5061/dryad.73b86/1
title: Expression Data from CUFFLINKS

description: This spreadsheet contains the normalized expression level (FPKM) in each of the 10 sequenced libraries, in addition to the expression for each treatment (control vs pulsed) and the expression ratio (log2_fold_change).  The “Description” for each protein includes all annotated GO terms for that protein from BLAST2GO.  All protein IDs are from the Trout Genome Browser – www.genoscope.cns.fr/trout
DOI: 10.5061/dryad.766cp/1
title: Appendix 1  - List of six matrices developed for this study.

description: Online Appendix 1.  List of six matrices developed for this study, including character names, types of characters, and assessment of character difficulty by experts.  See also Morphobank (www.morphobank.org) projects P950, P2463, P2502, P2490, P2491, and P2577.
DOI: 10.5061/dryad.766cp/2
title: Appendix 2 characterDifficultyMP_3-15-16_MAH edited

description: Online Appendix 2.  List of characters evaluated and their simplified anatomical descriptions used in the Evolution Project.  The latter were presented to non-experts in the crowd.
DOI: 10.5061/dryad.8f45n/2
title: Propithecus_perrieri_GPS_coordinates

description: This file contains the geographic coordinates of the 42 Propithecus perrieri individuals genotyped and studied in the current paper as well as in Salmona et al., 2015. The individuals ID correspond to those in the genetic data file. Salmona, J, et al. "Genetic Diversity, Population Size, and Conservation of the Critically Endangered Perrier’s Sifaka (Propithecus perrieri)." International Journal of Primatology 36.6 (2015): 1132-1153.
DOI: 10.5061/dryad.8f45n/3
title: Propithecus_tattersalli_230ind_13loc

description: This file contains the microsatellite genotype data used in the current paper as well as in Quéméré et al 2010, 2012. The file is in .gtx format and can be opened and analyzed easily in Genetix, R, or with a common text editor. The file contains the data of 230 Propithecus tatersalli individuals genotyped over 13 polymorphic microsatellites markers. The individuals are further classified in three "populations" that relates to the main genetic structure described in Quéméré et al 2010. A file containing the geographic coordinates of the samples is associated to this file. For further details on how the data was generated see Quemere, Erwan, et al. "Landscape genetics of an endangered lemur (Propithecus tattersalli) within its entire fragmented range." Molecular Ecology 19.8 (2010): 1606-1621.and Quéméré, Erwan, et al. "Genetic data suggest a natural prehuman origin of open habitats in northern Madagascar and question the deforestation narrative in this region." Proceedings of the National Academy of Sciences 109.32 (2012): 13028-13033.
DOI: 10.5061/dryad.8f45n/4
title: Propithecus_tattersalli_GPS_coordinates

description: This file contains the geographic coordinates of the 230 Propithecus tattersalli individuals genotyped and studied in the current paper as well as in Quéméré et al., 2010, 2012. The individuals ID correspond to those in the genetic data file. For further details see Quemere, Erwan, et al. "Landscape genetics of an endangered lemur (Propithecus tattersalli) within its entire fragmented range." Molecular Ecology 19.8 (2010): 1606-1621.and Quéméré, Erwan, et al. "Genetic data suggest a natural prehuman origin of open habitats in northern Madagascar and question the deforestation narrative in this region." Proceedings of the National Academy of Sciences 109.32 (2012): 13028-13033.
DOI: 10.5061/dryad.8jc52/1
title: Plant traits

description: This file contains records for 34 plant species (rows) for the following traits (columns):

Scientific.name = scientific plant name
Plant.clade = clade that a plant belongs to
Plant.order = order that a plant belongs to 
Latitudinal.class = plant species were classified to either temperate or tropical (includes subtropical) origin
Dutch.status = whether a species is native to the Netherlands
Functional.group = the functional group that a plant belongs to (emergent, submerged)
Allelopathic.potential = the measured allelopathic potential using agar bioassays (in mm; diameter of clearing spots)
N = nitrogen content of foliar material (in % of dry mass)
C = carbon content of foliar plant material (in % of dry mass)
P = phosphorus content of foliar plant material (in % of dry mass)
DMC = dry matter content of foliar material (in % of wet mass)
Total.phenolics = total phenolic content of foliar material (in mg g-1 dry mass
Acquisition = whether plants were collected in the field or ordered from a plant breeder
greenhouse = whether plants were kept in the greenhouse
Total.sugars = total amount of free soluble sugars (in mg g-1 dry mass)
DOI: 10.5061/dryad.8jc52/2
title: Phylogenetic plant tree

description: This file contains the phylogenetic distances for the aquatic plant species involved. This file was used for the phylogenetic analyses.
DOI: 10.5061/dryad.8kt67/1
title: Pied Flycatcher Data for BEAS paper

description: Contains the variables and cases used in all analyses described in associated paper.
DOI: 10.5061/dryad.cn921/1
title: Plant traits: vegetative height and specific leaf area

description: The table contains the average value for two functional traits measured in 175 grassland plant species. Data were field-sampled in a study area that covers approximately 700 km2 of a mountain region located in the Western Swiss Alps. The traits are: vegetative height (VH in mm) and specific leaf area (SLA in mm2 mg-1). Vegetative height is a stature trait associated with the plants’ ability to compete for light, and specific leaf area is related to the plants’ ability to capture, use, and release resources to their environment, thereby providing a good estimate of the position of the species along the leaf economic spectrum. Each trait was log-transformed to conform to normality and scaled between 0 and 1. See Dubuis et al. 2013 (DOI: 10.1111/j.1600-0587.2013.00237.x), for details on the measurements in the field.
DOI: 10.5061/dryad.dj6gq/1
title: Data from the cage experiment and the fish survey

description: Fish abundances data over six years, inside and outside the biotest basin. Stomach content data of perch. Biomass data of gastropods, gammarids and algae from the cage experiment. Macrofauna community data. Algal community data. Fish contamination data from the cage experiment. Wave exposure data from the cage experiment. Light measurements from the cage experiment.
DOI: 10.5061/dryad.h21v2/5
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.h21v2/6
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.k50h1/1
title: Injection_Experiment

description: The data file (in .csv format) contains 6 columns. The first column indicates which needle was used to inject symbionts (included as a random effect in the model). The second column indicates the genotype of the injected aphid (also included as a random effect). The third column shows which symbiont species (Regiella or Serratia) was injected into each aphid, and the fourth column gives the biotype of each aphid. The 5th column is the binary response variable that indicates whether an injected aphid's 10th offspring had a positive symbiont infection (as determined by PCR amplification). The 6th column is also a binary response variable indicating PCR amplification of the 10th offspring of a subset of aphids 3 generations after injection.
DOI: 10.5061/dryad.km71p/1
title: Traits_data

description: This file contains the traits measured in the third generation (S3) of the experiment. The column headers were chosen to be self-explaining. The second column, titled "transgen_temp", displays the sequence of temperature treatments across generations (S1-S2-S3). Due to the treatment having been scheduled to start of bolting, the block association changed with start of the treatment. Therefore, two blocking factors, block_before_flowering" and "block_after_flowering", are provided. The first is to be used in models for the early traits "diameter_day20" and "bolting_day", the second for the late traits "reproductive_biomass" and "average_seed_size".
DOI: 10.5061/dryad.km71p/2
title: climate_data

description: This file contains the climate data that was derived from Worldclim. The data file contains the same data provided in the supporting information Table S1. Please refer to the table caption for additional information.
DOI: 10.5061/dryad.km71p/3
title: Genotypes

description: SNPs used for generating the distance matrix for the PCoA. The file was saved in FASTA-format.
DOI: 10.5061/dryad.kt4fn/1
title: Raw data for ant-wound interactions

description: This data set contains all raw data necessary to reproduce the results of the paper. Details on the data are provided in the associated ReadMe file.
DOI: 10.5061/dryad.mf41g/1
title: Edaphic factors determining the occurrence of herbaceous legumes in Amazonian savannas

description: Data collected in two savanna areas of the northern Brazilian Amazon.
DOI: 10.5061/dryad.mt16j/1
title: Data file

description: Excel workbook containing the SNP data, environmental data and growth data for G. clavigera, L. leptographium and O. montium.
DOI: 10.5061/dryad.n026d/1
title: Dataset_EastBay_Canada

description: Data were collected annually in the East Bay Migratory Bird Sanctuary, Canada from 1996 to 2013. This txt file is the headed format directly usable in E-surge program (see E-surge manual and Appendix S2). Each line represents an individual capture history with 1 when it has been seen and 0 with it has not been seen. The 18 first columns are each year (e.g. A1996 for year 1996). The "S" column is the sample size (i.e. associated number of individuals) and the "RC" column is the right censoring column.
DOI: 10.5061/dryad.n026d/2
title: Data_PrinsHeinrich_Svalbard

description: Data were collected annually on Prins Heinrich Island on the west coast of Svalbard from 1999 to 2013. This txt file is the headed format directly usable in E-surge program (see E-surge manual and Appendix S2). Each line represents an individual capture history with 1 when it has been seen and 0 with it has not been seen. The 15 first columns are each year (e.g. A1999 for year 1999). The "S" column is the sample size (i.e. associated number of individuals).
DOI: 10.5061/dryad.n026d/3
title: Data_Grindoya_Norway

description: Data were collected annually on Grindøya near Tromsø, northern Norway from 1985 to 2013. This txt file is the headed format directly usable in E-surge program (see E-surge manual and Appendix S2). Each line represents an individual capture history with 1 when it has been seen and 0 with it has not been seen. The 29 first columns are each year (e.g. A1996 for year 1996). The "S" column is the sample size (i.e. associated number of individuals) and the "RC" column is the right censoring column.
DOI: 10.5061/dryad.n2d15/1
title: SIA_adult plasma

description: Stable isotope data in plasma of adult Sabine's gulls and Arctic terns collected at Nasaruvaalik Island in 2008 and 2009.
DOI: 10.5061/dryad.n2d15/2
title: SIA_prey item

description: Stable isotopes data of food sources and prey items collected at Nasaruvaalik Island in 2008, 2009 and 2011
DOI: 10.5061/dryad.n581t/1
title: Data

description: This file contains the data of our experiment
DOI: 10.5061/dryad.n77r3/13
title: CpG_CTOT_lane1_35_CGATGTTT_L001_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #35_2
DOI: 10.5061/dryad.n77r3/14
title: CpG_CTOB_lane1_36_ATCACGTT_L001_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #36
DOI: 10.5061/dryad.n77r3/15
title: CpG_CTOT_lane1_36_ATCACGTT_L001_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #36_2
DOI: 10.5061/dryad.n77r3/16
title: CpG_CTOB_lane2_55_ACTTGATG_L002_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #55
DOI: 10.5061/dryad.n77r3/17
title: CpG_CTOT_lane2_55_ACTTGATG_L002_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #55_2
DOI: 10.5061/dryad.n77r3/18
title: CpG_CTOB_lane2_85_CGATGTTT_L002_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #85
DOI: 10.5061/dryad.n77r3/19
title: CpG_CTOT_lane2_85_CGATGTTT_L002_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #85_2
DOI: 10.5061/dryad.n77r3/20
title: CpG_CTOB_lane2_86_TGACCACT_L002_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #86
DOI: 10.5061/dryad.n77r3/21
title: CpG_CTOT_lane2_86_TGACCACT_L002_R1_trimmed.fq.gz_bismark_bt2.deduplicated.txt

description: DNA methylation data embryo #86_2
DOI: 10.5061/dryad.pb1t5/1
title: ~Base cation data

description: In August to early September 2012, 48 species of Artemisia and their close relatives (Ajania, Filifolium, Hippolytia, Neopallasia and Seriphidium) were collected from 65 sites of natural vegetation across China. Four base cations (K, Ca, Na and Mg) concentrations were determined using the Thermo Scientific iCAP 6300.
DOI: 10.5061/dryad.r1072/10
title: human_participant_isi_data

description: Behavioral data for human participants in the ISI experiment. Analysis code available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/2
title: virtual_subject_data

description: Data from each virtual subject in each stimulation condition. Analysis and simulation code are available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/3
title: controlsim_mu60_data

description: Control simulation data for virtual subjects in each stimulation condition with the total input rates equaling 60Hz. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/4
title: controlsim_refresh30Hz_data

description: Control simulation data for virtual subjects in each stimulation condition with the refresh rate equaling 30Hz. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/5
title: controlsim_refresh120Hz_data

description: Control simulation data for virtual subjects in each stimulation condition with the refresh rate equaling 120Hz. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/6
title: controlsim_inhonlystim_data

description: Control simulation data for virtual subjects in each stimulation condition with stimulation only applied to the inhibitory interneurons. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/7
title: controlsim_pyronlystim_data

description: Control simulation data for virtual subjects in each stimulation condition with stimulation only applied to the pyramidal cells. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/8
title: controlsim_uniformstim_data

description: Control simulation data for virtual subjects in each stimulation condition with stimulation applied uniformly to the pyramidal cells and inhibitory interneurons. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.r1072/9
title: controlsim_reinit_data

description: Control simulation data for virtual subjects in each stimulation condition with reinitialization of the network state between trials. Analysis and simulation code is available at https://github.com/jbonaiuto/perceptual-choice-hysteresis
DOI: 10.5061/dryad.s1634/1
title: Final Data (N=736) 20140103

description: Raw data for total subjects in EXCEL
DOI: 10.5061/dryad.t960f/1
title: Opsin expression values for wild caught and lab reared individuals of Aulonocara baenschi and Metriaclima mbenji normalized to cone type.

description: Each opsin is normalized as a percent relative to the total opsin expression within single cones and double cones respectively. Expression values obtained via RT-PCR (See Methods)
DOI: 10.5061/dryad.t960f/2
title: Opsin expression values for F0, F1 and F2 individuals of the MA cross normalized to cone type

description: Each opsin is normalized as a percent relative to the total opsin expression within single cones and double cones respectively. Expression values obtained via RT-PCR (See Methods)
DOI: 10.5061/dryad.vc0hv/1
title: fecundity_data_of_all_females

description: This file includes fecundity variation of all the females from which 20 high-fecundity and low-fecundity duos were selected (Table S3). The linear mixed models describe variation in female fecundity (i.e. the number of eggs laid per 7-week breeding round; i.e. ‘eggs’; this is ‘estimated fecundity’ before genetic parentage assignment because females were chosen based on that) as a function of female identity (FID), breeding round (first vs. second 7-week period), the number of days females were socially paired (‘dayspaired’), and the exclusiveness of the pair bond (‘Fshare’, with high values reflecting exclusive pairing). The column labelled ‘F’ refers to the inbreeding coefficient of each female.
DOI: 10.5061/dryad.19r5g/1
title: Supplementary Data 1

description: List of node calibrations, list of tip calibrations, specimen information, age details, and supplementary references.
DOI: 10.5061/dryad.19r5g/2
title: Supplementary Data 2

description: Result of MP phylogenetic analysis in TNT.
DOI: 10.5061/dryad.19r5g/3
title: Supplementary Data 3

description: MrBayes executable for node dating constrained to MP topology.
DOI: 10.5061/dryad.19r5g/4
title: Supplementary Data 4

description: MrBayes executable for tip dating constrained to MP topology.
DOI: 10.5061/dryad.1cv15/1
title: data adults grasshoppers
DOI: 10.5061/dryad.1cv15/2
title: data grasshopper nymphs
DOI: 10.5061/dryad.1cv15/3
title: R code for statistical analysis
DOI: 10.5061/dryad.1s595/1
title: Data for playback experiments in the study

description: The file shows the data for the playback experiments between Parus cinereus and Parus monticolus used in the study. Distance approached to speaker is given in meters. NR= No Response to playback stimulus. Control playbacks are not included in the datafile as there were no responses to control stimuli. Number of control stimuli equals number of rows in the dataframe.
DOI: 10.5061/dryad.24mk0/1
title: California Hemiptera museum records
DOI: 10.5061/dryad.2bq8g/1
title: Final_data_set
DOI: 10.5061/dryad.31dj3/37
title: 3 Neurons
DOI: 10.5061/dryad.31dj3/38
title: 4 Neurons
DOI: 10.5061/dryad.31dj3/40
title: 3 Neurons
DOI: 10.5061/dryad.35q01/1
title: Plant facilitation network simulation

description: The table (task2) contains information about the simulated environmental changes and plant network response. scenario: environmental change driver; q: n. step; network.size: species richness; prim.ext: primary extinctions; sec.ext: secondary extinctions; centr: network centrality; species: 1= present, 0= primary extinct, -1= secondary extinct.
DOI: 10.5061/dryad.4j4m1/1
title: CFD Summary Results

description: Simulation results for Model A tag housing design and the design derivatives over a range of flow velocities (V∞ = 1-6 m/s) are included in the supplemental data file. Additionally, data from forces generated by the Model A design in constant 5.6 m/s offaxis flow (β = 0º–180º) are also provided.