cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5666827
title: Impact of the integration of proton magnetic resonance imaging spectroscopy to PI-RADS 2 for prediction of high grade and high stage prostate cancer

description: Abstract Objective: To compare the predictions of dominant Gleason pattern ≥ 4 or non-organ confined disease with Prostate Imaging Reporting and Data System (PI-RADS v2) with or without proton magnetic resonance spectroscopic imaging (1H-MRSI). Materials and Methods: Thirty-nine men underwent 3-tesla endorectal multiparametric MRI including 1H-MRSI and prostatectomy. Two radiologists assigned PI-RADS v2 and 1H-MRSI scores to index lesions. Statistical analyses used logistic regressions, receiver operating characteristic (ROC) curves, and 2x2 tables for diagnostic accuracies. Results: The sensitivity and specificity of 1H-MRSI and PI-RADS v2 for high-grade prostate cancer (PCa) were 85.7% (57.1%) and 92.9% (100%), and 56% (68.0%) and 24.0% (24.0%). The sensitivity and specificity of 1H-MRSI and PI-RADS v2 for extra-prostatic extension (EPE) were 64.0% (40%) and 20.0% (48%), and 50.0% (57.1%) and 71.4% (64.3%). The area under the ROC curves (AUC) for prediction of high-grade prostate cancer were 0.65 and 0.61 for PI-RADS v2 and 0.72 and 0.70 when combined with 1H-MRSI (readers 1 and 2, p = 0.04 and 0.21). For prediction of EPE the AUC were 0.54 and 0.60 for PI-RADS v2 and 0.55 and 0.61 when combined with 1H-MRSI (p &gt; 0.05). Conclusion: 1H-MRSI might improve the discrimination of high-grade prostate cancer when combined to PI-RADS v2, particularly for PI-RADS v2 score 4 lesions, but it does not affect the prediction of EPE.
DOI: 10.6084/m9.figshare.5666827.v1
title: Impact of the integration of proton magnetic resonance imaging spectroscopy to PI-RADS 2 for prediction of high grade and high stage prostate cancer

description: Abstract Objective: To compare the predictions of dominant Gleason pattern ≥ 4 or non-organ confined disease with Prostate Imaging Reporting and Data System (PI-RADS v2) with or without proton magnetic resonance spectroscopic imaging (1H-MRSI). Materials and Methods: Thirty-nine men underwent 3-tesla endorectal multiparametric MRI including 1H-MRSI and prostatectomy. Two radiologists assigned PI-RADS v2 and 1H-MRSI scores to index lesions. Statistical analyses used logistic regressions, receiver operating characteristic (ROC) curves, and 2x2 tables for diagnostic accuracies. Results: The sensitivity and specificity of 1H-MRSI and PI-RADS v2 for high-grade prostate cancer (PCa) were 85.7% (57.1%) and 92.9% (100%), and 56% (68.0%) and 24.0% (24.0%). The sensitivity and specificity of 1H-MRSI and PI-RADS v2 for extra-prostatic extension (EPE) were 64.0% (40%) and 20.0% (48%), and 50.0% (57.1%) and 71.4% (64.3%). The area under the ROC curves (AUC) for prediction of high-grade prostate cancer were 0.65 and 0.61 for PI-RADS v2 and 0.72 and 0.70 when combined with 1H-MRSI (readers 1 and 2, p = 0.04 and 0.21). For prediction of EPE the AUC were 0.54 and 0.60 for PI-RADS v2 and 0.55 and 0.61 when combined with 1H-MRSI (p &gt; 0.05). Conclusion: 1H-MRSI might improve the discrimination of high-grade prostate cancer when combined to PI-RADS v2, particularly for PI-RADS v2 score 4 lesions, but it does not affect the prediction of EPE.
DOI: 10.5061/dryad.tk0b8/48
title: Ventrolateral (right) view of gonopods of I. tobini n. sp. in situ (leg pairs 7, 8, 11 broken off at prefemur-femur joint) (Fig. 19B)

description: Scanning electron micrograph taken of palladium/platinum coated structures with an FEI Quanta 600 FEG environmental scanning electron microscope.
DOI: 10.17632/fyz68byfxs.1
title: Gas networks simulation from disaggregation of low frequency nodal gas consumption

description: Dear Researcher, Thank you for using these codes and datasets. I explain how Time Series Disaggregation (TSD) methods introduced in my paper "Gas networks simulation from disaggregation of low frequency nodal gas consumption" published in Energy, works. All datasets mentioned in the paper accompanied with codes of TSD methods are included. If there is any question feel free to contact me at: bas_salaraskari@yahoo.com s_askari@aut.ac.ir Regards, S. Askari Opening the folder "Gas networks simulation from disaggregation of low frequency nodal gas consumption" you'll find some Codes, Functions, and Datasets which are described as follows. Codes and Functions: 1. "gnetplot": This function plots gas networks. 2. "TSD-UnrelatedTimeSeries": This code disaggregates unrelated time series. 3. "TSD-RelatedTimeSeries": This code disaggregates related time series. 4. "NetworkSolution": This code loads the network properties and nodal consumption and then solves the network governing equations and computes nodal pressure of the network for each day. Datasets: 1. "EX1": This dataset includes one time series (It is shown in Fig. 3 of the paper.). 2. "EX2": This dataset includes six related time series (It is shown in Fig. 4 of the paper.). 3. "EX3": This dataset includes 140 related time series. 4. "EX3Solved": This dataset includes the dataset "EX3" and its solution. In fact these data are results of applying "TSD-RelatedTimeSeries" to the data "EX3". 5. "GasNetworkProperties": This datasets includes properties of the gas network studied in the paper and shown in Fig. 1. 6. "Results": This file includes some of the results and graphs given in the paper. Guidelines for the codes: Open one of the codes "TSD-UnrelatedTimeSeries", "TSD-RelatedTimeSeries", and "NetworkSolution" using MATLAB. Guidelines for working with each code are as follows. 1. "TSD-UnrelatedTimeSeries": This code disaggregates single or multiple unrelated time series. Line 15 of the code loads the data to be disaggregated. You just need to type name of the dataset after "load" to load the data. The dataset EX1 is for this code. You need to press Ctrl+Enter to run the code. For your own dataset, arrange the data as the sample dataset EX1. According to the theory given in the paper, the data should include matrix of independent variables and matrix of unrelated time series where is number of high frequency data, is number of low frequency data, is number of independent variables, and is number of unrelated time series. The vector is the original high frequency data from which is constructed by aggregation. After disaggregation, the resulted high frequency data can be compared with its original version to verify accuracy of the proposed TSD method.
DOI: 10.17632/y7jm4r6w3v.1
title: IJPR - Digital Obeya Room

description: To paper
DOI: 10.5061/dryad.1sc1s/1
title: Pesendorfer_Koenig_FE_2016: Focal Tree Watches

description: 60-minute observations of Quercus lobata trees. Number of dropped, eaten and transported acorns, number of birds attending tree, intra- and interspecific aggression and acorns handled by each species. Parameter code key in second tab
DOI: 10.5061/dryad.22k3c/1
title: Onychomys energetics

description: BMRs for Onychomys and hybrids
DOI: 10.5061/dryad.3344d/1
title: Kennett_et_al_NCOMMS_PuebloBonito_Room33.tar

description: Complete ancient mitogenomes from Room 33 in Pueblo Bonito, New Mexico, USA. MYcroarray MYbaits system references used in probe design: 140429. Supplemental data 2 aligned using MAFFT.
DOI: 10.5061/dryad.34gm6/1
title: DS-ZYPAN_trace_files

description: Trace File package
DOI: 10.5061/dryad.34rs7/1
title: frog skin GCMS data

description: Gas chromatography/mass spectrometry data from the skin of the Little Devil frog, Oophaga sylvatica. Frogs were collected from three populations in northwest Ecuador. Dorsal skin was isolated and alkaloids were extracted with methanol.
DOI: 10.5061/dryad.34rs7/2
title: Ant LCMS data

description: Liquid chromatography/mass spectrometry data from ants collected in the stomachs of Little Devil frogs in three separate populations in northwest Ecuador.
DOI: 10.5061/dryad.34rs7/3
title: Mite LCMS data

description: Liquid chromatography/mass spectrometry data from mites isolated from the stomachs of Little Devil poison frogs (Oophaga sylvatica) collected from three populations in northwestern Ecuador
DOI: 10.5061/dryad.34rs7/4
title: Frog Skin LCMS

description: Little Devil poison frog (Oophaga sylvatica) skin alkaloids were analyzed by liquid chromatography/mass spectrometry. Ants and mites collected from the stomachs of these same frogs were also analyzed (see other data files).
DOI: 10.5061/dryad.34rs7/5
title: McGuganetal2016_XCMSoutput

description: Mass Spectrometry data was analyzed using XCMS. The output from this XCMS analysis is in "McGuganetal_2016_XCMSoutput.xlsx" and contains information on feature mass to charge ratio (m/z), retention times, statistical comparisons between frog populations using an ANOVA, and relative abundance measurements for each feature in each sample.
DOI: 10.5061/dryad.3583j/1
title: Data from the chipmunk skull's measured

description: In this file you can find the covariance matrices estimated for each chipmunk species and also the morphological and climatic estimates used in the study. The readMe file describes all the specimens used, and the respective museum where the data is deposited.
DOI: 10.5061/dryad.55186/1
title: Maternal plant traits

description: The data result from a field experiment to examine the effects of pollination intensity on both quantity and quality of progeny. We manipulated pollen receipt to stigmas of the wind-pollinated dioecious plant Mercurialis annua by varying the distance of females from males. We then compared seed size and number, seedling growth and allocation to male and female function, for the progeny produced by females subjected to different pollination intensities. Contact persons:annemarie.labouche@gmail.comjohn.pannell@unil.ch1) Labouche_et_al_2016_Maternal_plant_traits.txtData collected on the maternal plants exposed to different level of pollination intensities.Definitions of column headingsMotherID:Unique ID of the plantMdirection: Directional transect on which the plant was setupMdistance: Distance from pollen source of the plant (in meters)mother_mass: Mass of the dried plant (in g), including reproductive seedsmother_total_seed_mass: Mass of the seeds produced by the plant (in g)mother_veg_mass: Mass of the dried plant (in g) without reproductive partsmother_seed_number: Number of seeds produced by the plant (count)
DOI: 10.5061/dryad.55186/2
title: Offspring traits

description: The data result from a field experiment to examine the effects of pollination intensity on both quantity and quality of progeny. We manipulated pollen receipt to stigmas of the wind-pollinated dioecious plant Mercurialis annua by varying the distance of females from males. We then compared seed size and number, seedling growth and allocation to male and female function, for the progeny produced by females subjected to different pollination intensities. Contact persons:annemarie.labouche@gmail.comjohn.pannell@unil.ch2) Labouche_et_al_2016_Offspring_traits.txtData collected on the seeds and resulting offspring produced by the maternal plants exposed to different level of pollination intensities.Definitions of column headingsseedID: Unique ID of the seedMdirection: Directional transect on which the maternal plant was setupMdistance: Distance from pollen source of the maternal plant (in meters)motherID: Unique ID of the maternal plantMpollination: Pollination intensity treatment of the maternal plant; h=high (0.2 and 0.5m from males); l=low (20 and 25 m from males)seedmass: mass of the individual seed (in mg)seedcat: mass categories of the offspring as seed: A &lt;2; 2&lt;=B&lt;2.49; 2.54germ: germination status of the seed (0=not germinated; 1=germinated)time-germ: number of days between sowing and full expansion of the cotyledonsoffspringID: Unique ID of the offspring (for germinated seeds)plotID: ID of the plot in which the seedling grew once in the common garden; ID range from 1 to 54, with 16 positions per plotposition: Position of the offspring within its plot (ranges from 1 to 16)treatment: whether the offspring was growing with a competitor (hermaphrodite) or not. If the competitor survived (treatment = I), if it died due to transplantation issues (treatment =I0); if the offspring grew alone (treatment = C).offspring_sex: Sex of the offspring (M=male; F=female)offspring_survival: 1= the offspring was still alive at the end of the experiment; 0= the offspring died in the course of the experiment offspring_height: Height of the offspring (in cm) on the day of harvestingoffspring_mass: Mass of the dried offspring (in g), including reproductive parts (seeds for females)offspring_veg_mass: Mass of the dried offspring (in g) without reproductive partsoffspring_total_seed_mass: Mass of the seeds produced by the offspring (in g)offspring_seed_number: Number of seeds produced by the offspring (count)offspring_male_allocation: Mass of male inflorescences (inflorescences stems + dried flowers) in mg
DOI: 10.5061/dryad.55c8q/1
title: Developmental time analysis in R

description: R script of the statistical analysis of developmental time
DOI: 10.5061/dryad.55c8q/2
title: Developmental time means for the R script

description: CSV file of developmental time means used in the statistical analysis in R
DOI: 10.5061/dryad.55c8q/3
title: Differential expression analysis in R

description: R script of the differential expression analysis in R using the package NOISeq
DOI: 10.5061/dryad.55c8q/4
title: Differential expression data produced by NOIseq

description: Data produced in the differential expression analysis by the R package NOISeq
DOI: 10.5061/dryad.5606t/1
title: Code
DOI: 10.5061/dryad.5606t/2
title: Data
DOI: 10.5061/dryad.5606t/3
title: README

description: A file containing a detailed description of the contents of this archive.
DOI: 10.5061/dryad.5646p/1
title: Locomotion modes and geographic distribution ranges of 184 species of Sciuroidea.

description: We collected locomotion data of 184 species of Sciuridae and one species of its sister family Aplodontidae. We used Nowak (1999) as the main source of information of squirrel locomotion modes, and when needed we complemented this information with more specific bibliography (Emmons, 1980; Musser et al., 2010; Lim & Yeo, 2012). We followed Steppan et al. (2004) and assigned each species to one of the following categories: gliding (species with the ability to glide with the help of extending membranes), arboreal (species that live and nest in trees, even if spending some time on the ground), intermediate (species that spend most of the time on the ground, but can also spend some time in trees being good climbers), and terrestrial (species that live and nest on the ground, seldom if ever climbing). We also assigned species to one or more continental landmasses: Africa, Eurasia, North and Central America, and South America. This was based on the current distribution of species compiled by the IUCN (Schipper et al. 2008; data downloaded on December 2015).
DOI: 10.5061/dryad.576bs/1
title: Videoplayback_responsedata_and_independentvariables

description: This data file includes three data sheets and one legend sheet. The first data sheet ("sociability") contains the primary data for all the experimental videoplayback trials. The second data sheet ("control") contains all the data for the control trials. The third data sheet ("firstlast") contains all the data, specifically for the first and last choice analysis of the experimental trials. The legend sheet provides information on all the column names used in the three data sheets of this file.
DOI: 10.5061/dryad.5r3b1/1
title: Alyssum microsatellite genotyping raw results

description: Genotypes for all microsatellite loci sequenced across all Alyssum serpyllifolium individuals in the study.
DOI: 10.5061/dryad.6n8kf/11
title: Robomussel data

description: Robomussel data: intertidal biomimic body temperature of mussels deployed at 6 different countries. 1913 .txt files in total. Files are categorized by location (country, region, site). In addition, metadata file show specific information for loggers at each site.
DOI: 10.5061/dryad.6n8kf/13
title: iButton/Tidbit data

description: ibutton/Tidbit data: intertidal thermal sensors (aerial and water temperature) deployed at 5 different countries. 160 .txt files in total. Files are categorized by location (country, region, site). In addition, metadata file show specific information for loggers at each site.
DOI: 10.5061/dryad.7cv4g/12
title: HBH_variable_4.r2.fastq

description: raw reads from coral of Houbihu with variable temperature conditions#4 (right side)
DOI: 10.5061/dryad.7cv4g/13
title: HWN_stable_1.r1.fastq

description: raw reads from coral of Houwan with stable temperature conditions#1 (left side)
DOI: 10.5061/dryad.7cv4g/14
title: HWN_stable_1.r2.fastq

description: raw reads from coral of Houwan with stable temperature conditions#1 (right side)
DOI: 10.5061/dryad.7cv4g/15
title: HWN_stable_3.r1.fastq

description: raw reads from coral of Houwan with stable temperature conditions#3 (left side)
DOI: 10.5061/dryad.7cv4g/16
title: HWN_stable_3.r2.fastq

description: raw reads from coral of Houwan with stable temperature conditions#3 (right side)
DOI: 10.5061/dryad.7cv4g/17
title: HWN_stable_5.r1.fastq

description: raw reads from coral of Houwan with stable temperature conditions#5 (left side)
DOI: 10.5061/dryad.7cv4g/18
title: HWN_stable_5.r2.fastq

description: raw reads from coral of Houwan with stable temperature conditions#5 (right side)
DOI: 10.5061/dryad.7cv4g/19
title: HWN_variable_1.r1.fastq

description: raw reads from coral of Houwan with variable temperature conditions#1 (left side)
DOI: 10.5061/dryad.7k1gf/1
title: Müller et al. 2016

description: The data file provides the background data used for the calculation of primary production in sea ice. There are different sheets, giving general information about the ice and the weather conditions, absorption data for CDOM and particles, biogeochemical properties such as salinity, pH or Chlorophyll a. The light conditions are described by the data in this file in the PAR sheet giving the measured PAR values for one of the stations (St.3) and the typical conditions in mean March in the Gulf of Finland, as further explained in the publication. For these two cases, also the calculated surface light spectrum is given. The PI sheet provides the results of the incubation experiment, giving the 14C that was taken up by each treatment and the corresponding irradiance (see publication for details). For further data, such as the model results (for certain ice layers f.ex.) or the model code, please contact the first author.
DOI: 10.5061/dryad.85b2m/11
title: Supplementary_Figures

description: Zip file of all supplementary figures
DOI: 10.5061/dryad.85b2m/8
title: Supplementary_Text_and_Tables

description: Supplementary text and supplementary tables
DOI: 10.5061/dryad.85b2m/9
title: NexusFiles_PartitionFiles_ProgramCommands

description: Data files used for this study
DOI: 10.5061/dryad.9bc43/1
title: Human_brain

description: This matlab file contains raw dMRI data (human_brain_data), corresponding b-values (effective_b), and gradient table (DWI_encoding_directions), and an anatomical scan (T1_anat). The DWI data is also included as dicom and nifti. The anatomical scans are provided as nifti only and were defaced using SPM12.
DOI: 10.5061/dryad.9bc43/3
title: Diffusion MRI data from a physical phantom with three orthogonal fiber directions. Data was acquired at 9.4T.

description: This zip file contains raw dMRI data in a matlab (.mat) file (phantom_data), corresponding b-values (effective_b), gradient table (DWI_encoding_directions), and structural scan (structural_data). The data is also included as dicom and nifti.
DOI: 10.5061/dryad.9bc43/4
title: Diffusion MRI data from fixed rat brain acquired at 9.4T.

description: The data is provided as nifti files. The data is also provided as a matlab file which contains raw dMRI data (rat_brain_data), corresponding b-values (nominal_bvalues  and effective_b, the latter includes b-value contributions from imaging gradients) and gradient table (DWI_encoding_directions_pr_b_value).
DOI: 10.5061/dryad.9bc43/5
title: High resolution diffusion MRI data from fixed rat spinal cord acquired at 16.4T.

description: This matlab file contains raw dMRI data (ratSC_DWI_data), corresponding effective b-values (effective_b) and gradient table (DWI_encoding_directions), and masks for all slices (masks). The data is also provided as nifti.
DOI: 10.5061/dryad.9br59/1
title: data

description: Raw data used to estimate the predatory characteristics (prey preferences, functional response - FR) of Philodromus and Dictyna spiders.
DOI: 10.5061/dryad.9kt8v/1
title: Reduced dietary conservatism in a wild bird in the presence of intraspecific competition

description: This excel workbook contains all the data used to produce the results found in the manuscript, along with the data used for Figure 1 and table 1.
DOI: 10.5061/dryad.bn1gf/1
title: Correia_etal2016_DATA

description: Correia_etal_DATA contains five experimental data sets:
-	open field experiment
-	open field long-term experiment
-	ROI experiment
-	rotarod experiment
-	locomouse experiment
DOI: 10.5061/dryad.bv989/1
title: Data from Lineage Tracing of Human B Cells Reveals the In Vivo Landscape of Human Antibody Class Switching
DOI: 10.5061/dryad.ck585/1
title: Osa Peninsula, Costa Rica foliar nitrogen (%)

description: Field collected foliar nitrogen (%) from mature canopy leaves see  Balzotti et al. (2016) Environmental Controls on Canopy Foliar N Distributions in a Neotropical Lowland Forest. Ecological Applications and Asner, G. P., & Martin, R. E. (2016). Convergent elevation trends in canopy chemical traits of tropical forests. Global Change Biology. 22, 2216-2227, doi: 10.1111/gcb.13164
DOI: 10.5061/dryad.f6600/1
title: DuranteEtAl_Apalmta_Genotypes_n=3352

description: Genotypes for the coral, Acropora palmata from five microsatellite loci. A. palmata is a diploid species, however, somatic mutations in the form of third and fourth alleles per locus are occasionally detected.  Samples are in rows (n = 3352), genotypes are in columns.
Table Headers
Species: Acropora palmata
Region: Caribbean and North-west Atlantic.
Database ID: A unique name given to each coral sample. 
Locus 166, alleles 1-4: Locus 166 is a microsatellite locus. Alleles are given in basepairs.
Locus 181, alleles 1-3: Locus 181 is a microsatellite locus. Alleles are given in basepairs.
Locus 182, alleles 1-4: Locus 182 is a microsatellite locus. Alleles are given in basepairs.
Locus 192, alleles 1-4: Locus 192 is a microsatellite locus. Alleles are given in basepairs.
Locus 207, alleles 1-3: Locus 207 is a microsatellite locus. Alleles are given in basepairs.
Genet ID: All samples that share all ancestral alleles at five microsatellite loci were assigned the same genet ID. See methods for how ancestral alleles were determined.  

Mutant ID: A Unique ID given to each unique multilocus genotype. This multilocus genotype includes all alleles (diploid ancestral and additional mutations).
DOI: 10.5061/dryad.f6600/2
title: DuranteEtAl_AcroporaPalmata_UniqueMutationsTable

description: Table shows the somatic mutations that occurred at 5 microsatellite loci in Acropora palmata collected throughout the Caribbean. Given are the sampling region, the reef, the Baumslab sample Database ID (unique for each sample), the microsatellite locus that had a mutated allele (166, 181, 182, 192,207), the two ancestral alleles of the genet, any additional alleles detected and a designation (Origin of Allele 3, Origin of Allele 4) of how those additional alleles arose (i.e from ancestral Allele 1 or Allele 2).  Sometimes, one ancestral allele mutated twice giving rise to Alleles 3 and 4. The mutational change (in bp) from the ancestral alleles to the new allele is given. Genets had from 2 to 94 samples (sample count for genet). Genets are identified by their Genet ID. Sometimes, ancestral alleles were no longer detected (full mutations). CBD = cannot be determined.