cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/c55f2v9dzj.1
title: SyNet

description: Robustly predicting outcome for cancer patients from gene expression is an important challenge on the road to better personalized treatment. Network-based outcome predictors (NOPs), which considers the cellular wiring diagram in the classification, hold much promise to improve performance, stability and interpretability of identified marker genes. Problematically, reports on the efficacy of NOPs are conflicting and for instance suggest that utilizing random networks performs on par to networks that describe biologically relevant interactions. In this paper we turn the prediction problem around: instead of using a given biological network in the NOP, we aim to identify the network of genes that truly improves outcome prediction. To this end, we propose SyNet, a gene network constructed ab initio from synergistic gene pairs derived from survival-labelled gene expression data. To obtain SyNet, we evaluate synergy for all 69 million pairwise combinations of genes resulting in a network that is specific to the dataset and phenotype under study and can be used to in a NOP model. We evaluated SyNet and 11 other networks on a compendium dataset of &gt;4000 survival-labelled breast cancer samples. For this purpose, we used cross-study validation which more closely emulates real world application of these outcome predictors. We find that SyNet is the only network that truly improves performance, stability and interpretability in several existing NOPs. We show that SyNet overlaps significantly with existing gene networks, and can be confidently predicted (~85% AUC) from graph-topological descriptions of these networks, in particular the breast tissue-specific network. Due to its data-driven nature, SyNet is not biased to well-studied genes and thus facilitates post-hoc interpretation. We find that SyNet is highly enriched for known breast cancer genes and genes related to e.g. histological grade and tamoxifen resistance, suggestive of a role in determining breast cancer outcome.
DOI: 10.17632/dhvyrxcxhw.1
title: Data from: Gradients in primary production predict trophic strategies of mixotrophic corals across spatial scales
DOI: 10.17632/kmczwffk4s.3
title: Radial Dose Profile of a Y-90 Sphere

description: This file contains the raw data of a radial dose profile of a sphere of Y-90 designed by Therasphere, obtained by Monte Carlo simulation with the code PENELOPE (2011). From this file, you can build a 3D kernel of any voxel size according to the methodology described in the article (actually in publication process): Methodology to perform and Yttrium-90 radioembolization dosimetry using a radiotherapy treatment planning system (TPS) Perez-Garcia H, Castro J, Molina MY, Ruiz S, Maldonado A, Fuertes S, Vera U, Cano R, Fernández A, Sánchez J, González JF
DOI: 10.17632/ychgm3frbn.1
title: CaCO3 Scale formation on Surface Initiated Polymer brush for Heat exchanger Application

description: Inorganic fouling is one of the challenging problems in heat exchanger applications. One approach to mitigate fouling is to employ surface coatings. In this study, we evaluated the feasibility of surface initiated polymerization (SIP) as thin coating technology to mitigate CaCO3 formation for heat transfer applications. The extent of formation of CaCO3 on different types of poly(oligoethyleneglycol) methacrylate brushes (POEGMA) was investigated under stagnant and flow heat-exchanging conditions. Polymer brushes of high graft density reduced the surface coverage of CaCO3 more effectively than the low graft density brushes. By contrast, the thickness of the brush did not correlate with the surface coverage of CaCO3. The comparison of stagnant and flow experiments revealed that the antiscaling effect of POEGMA brushes originate due to reduced adhesion of CaCO3. Finally, the SIP process was successfully scaled-up to coat commercial heat exchanger plates with thickness and homogeneity comparable to lab-scale surfaces. Under industrial testing, the POEGMA brushes extended the performance by 50 h before the commencement of complete blockage.
DOI: 10.17632/f8tdhphr8w.1
title: PRECISION AGRICULTURE:

description: Raw UAV data
DOI: 10.17632/kts93tmbbx.1
title: Cellulose Nanofiber Film Welding using Ionic Liquids

description: Characterization of nanocellulose films welded using ionic liquids
DOI: 10.17632/n8r5fk6zzr.1
title: Climatology Database

description: The article uses an increment of the Arima method called Sarimax, which was used in recent articles. Sarimax allows the use of explanatory variables in the model, in the work were used climatic indexes provided by NOAA, NASA and other institutes that work with meteorology and climatology studies. We hope to convince the Brazilian authorities that, considering the climatic phenomena in the models, explicitly, they can add better results in the models.
DOI: 10.17632/s8x82r464b.1
title: On the Venom Solenopins alkaloids of Fire Ants: Beware a Lonely Queen

description: The present dataset includes background information and files relative to the submitted paper " Venom Isosolenopsin A Delivers Rapid Knockdown of Fire Ant Competitors " currently under review in Toxicon. Currently it serves as a repository to files reviewers may wish to see. After publication it shall host all relevant files pertaining the final published version of the manuscript. It includes: - Original GC-MS chromatogram files obtained for natural venoms, calibration standards, synthetic alkaloids. - R script behind the plotted figures and data analyses; R data. - Supplementary videos and isolated images showing venom- and alkaloids- intoxicated ants.
DOI: 10.17632/sn9mzzpxtn.1
title: Dataset for Decadal-scale morphological adjustment of a lowland tropical river

description: Grain size statistics (D50 and D84) for the Cagayan River (and tributaries), channel pattern analysis (sinuosity and braiding ratios) and digitised banklines generated for channel migration analysis. Digitised banklines are provided as ESRI shapefiles which should open in most GIS packages and GoogleEarth. Full details on grain size locations and sampling methods are provided in the manuscript "Decadal-scale morphological adjustment of a lowland tropical river".
DOI: 10.17632/wgz36h39wt.1
title: Cardiac Catheterization Laboratory Visits-Time Series Forecasting

description: The data has been collected from Unity Point Health, Des Moines, Iowa, USA. It is a weekly Cath lab arrival. Time period - March 1, 2012, through November 3, 2016 .
DOI: 10.17632/xm3yfpzrvx.1
title: Data for: Neu3CA-RT: A Framework for Real-Time fMRI Analysis

description: Neu3-CA-RT sample Matlab script containing a full explanation of how to run the script and where to find sample data
DOI: 10.25919/5bb43d98043d5
title: Parkes observations for project P595 semester 2018APRS_BPSR_01

description: We propose to continue the PULSE@Parkes project in which high school students from Australia and around the World use the Parkes radio telescope in a remote observing model to observe and analyse pulsar data.  The data from some PULSE@Parkes observations are used to support the FERMI Gamma ray mission, other observations supplement the P456 Pulsar Timing Array project and the remainder were chosen in order to make a detailed analysis of pulsar timing irregularities and intermittency.
DOI: 10.3886/e105721v1
title: Survey of Direct-to-Consumer Genetics Testing Customers and Third-party Interpretation Tools

description: Direct-to-consumer (DTC) genetic testing customers were recruited from various social media venues (see README.html for details) and surveyed about their access and use of their raw genetic data in third-party interpretation tools.
DOI: 10.5281/zenodo.1445818
title: Test Data For Bugbuilder Updates

description: This is the test data for Bugbuilder.  In the future, I will make a better script to re-generate this, but for now, this will work.
DOI: 10.5281/zenodo.1445819
title: Test Data For Bugbuilder Updates

description: This is the test data for Bugbuilder.  In the future, I will make a better script to re-generate this, but for now, this will work.
DOI: 10.13023/k3zf-bj38
title: Tissue Expression Patterns Identify Mouse Cilia Genes

description: Description: 
A summary of 2,127 mouse genes linked to cilia by previous high-throughput approaches (reviewed in Inglis et al., 2006), published studies of individual gene products, or by McClintock et al. 2008. Each gene was viewed at Entrez Gene to verify and update the Gene ID and Gene Symbol. Each was also searched against PubMed (Gene Symbol AND (cili* OR flagel*)) for published evidence linking the mouse gene or putative orthologs to cilia or flagella. This searchable file lists identifying information about each gene, functional information about the encoded protein, the number of high-throughput studies linking the gene to cilia, and PubMed ID numbers for a at least one representative study per gene documenting a relationship to cilia. 

ORCID ID: 
https://orcid.org/0000-0002-4243-5323

Copyright: 
© 2008 Timothy S. McClintock  
This dataset is distributed under the terms of the Creative Commons Attribution 4.0 International License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided that the dataset creator and source are credited and that changes (if any) are clearly indicated.
DOI: 10.17632/8kz5t2xv6r.3
title: Replication data for: Do dictatorships redistribute more?

description: This paper examines the effect of political institutions on fiscal redistribution for a country-level panel from 1960-2010. Using data on Gini coefficients before and after government intervention, we apply a measure of effective fiscal redistribution that reflects the effect of taxes and transfers on income inequality. Our findings clearly indicate that non-democratic regimes demonstrate significantly greater direct fiscal redistribution. Subsequently, we employ fiscal data in an attempt to enlighten this puzzling empirical finding. We find that dictatorial regimes rely more heavily on cash transfers that exhibit a direct impact on net inequality and consequently on the difference between market and net inequality (i.e., effective fiscal redistribution), whereas democratic regimes devote a larger amount of resources to public inputs (health and education) that may influence market inequality but not the difference between market and net inequality per se. We argue that the driving force behind the observed differences within the pattern on government spending and effective fiscal redistribution is that democratic institutions lead survival-oriented leaders to care more for the private market, and thus to follow policies that enhance the productivity of the whole economy.
DOI: 10.17632/8kz5t2xv6r.4
title: Replication data for: Do dictatorships redistribute more?

description: This paper examines the effect of political institutions on fiscal redistribution for a country-level panel from 1960-2010. Using data on Gini coefficients before and after government intervention, we apply a measure of effective fiscal redistribution that reflects the effect of taxes and transfers on income inequality. Our findings clearly indicate that non-democratic regimes demonstrate significantly greater direct fiscal redistribution. Subsequently, we employ fiscal data in an attempt to enlighten this puzzling empirical finding. We find that dictatorial regimes rely more heavily on cash transfers that exhibit a direct impact on net inequality and consequently on the difference between market and net inequality (i.e., effective fiscal redistribution), whereas democratic regimes devote a larger amount of resources to public inputs (health and education) that may influence market inequality but not the difference between market and net inequality per se. We argue that the driving force behind the observed differences within the pattern on government spending and effective fiscal redistribution is that democratic institutions lead survival-oriented leaders to care more for the private market, and thus to follow policies that enhance the productivity of the whole economy.
DOI: 10.25919/5bb5d4a077da1
title: Parkes observations for project P737 semester 2018APRS_BPSR_01

description: Pulsar observations using the Parkes radio telescope have led to some of the most exciting astronomical results in the last few years.  The aim of this proposal is to carry out tests of the new backend instruments which cannot be carried out during standard maintenance periods. High precision pulsar timing experiments require cross-coupling in the feed to be measured.  This can only be done using observations of PSR J0437-4715 from rise-to-set.  We propose to undertake such observations and make the results available for any users of the telescope.  We will also use P737 to commission new receivers such as the UWB.
DOI: 10.5281/zenodo.1443563
title: A Systematic Mapping Study On Software Product Line Experiments

description: Available data regarding a A Systematic Mapping Study on Software Product Line Experiments
DOI: 10.5281/zenodo.1445295
title: Human Hyperpolarization Activated Cyclic Nucleotide Gated Ion Channel 4 (Hcn4); A Target Enabling Package

description: HCN4 is one of four hyperpolarisation activated cyclic nucleotide gated ion channels. It is responsible for the pacemaker or funny (If) current in the heart and is required for maintenance of a stable heartbeat. Mutations in HCN4 lead to a number of arrhythmias. HCN4 is the target for the angina drug ivabradine, which reduces HCN4 activity. However, ivabradine is non-selective, affecting all of the four HCN channels. HCN4 is a close homologue of HCN2, which is a target for neuropathic and inflammatory pain treatment. We have solved the structure of HCN4 both in complex with cyclic AMP and without nucleotide. Comparison of our HCN4 structure with that of the related HCN1 channel (86% identity) allows us to suggest ways to design selectivity for small molecule inhibitors between these closely related channels.
DOI: 10.17632/wtgscn344j.1
title: Data for: Passive memristor synaptic circuits with multiple timing dependent plasticity mechanisms

description: SPICE OPUS simulation program for input-driven plasticity.
DOI: 10.17632/78hh7ndhv2.1
title: Data for: Formulation for second-order inelastic analysis of steel frames including shear deformation effect

description: Description of the files: -portal-b.txt: input data for the analysis of Vogel's portal without considering shear deformation effect (Bernoulli's Theory). -portal-b.data: output data of the analysis of Vogel's portal without considering shear deformation effect (Bernoulli's Theory). -portal-t.txt: input data for the analysis of Vogel's portal considering shear deformation effect (Timoshenko's Theory). -portal-t.data: output data of the analysis of Vogel's portal considering shear deformation effect (Timoshenko's Theory). -six-b.txt: input data for the analysis of the two-bay six-storey frame without considering shear deformation effect (Bernoulli's Theory). -six-b.data: output data of the analysis of Vogel's portal without considering shear deformation effect (Bernoulli's Theory). -six-t.txt: input data for the analysis of Vogel's portal considering shear deformation effect (Timoshenko's Theory). -six-t.data: output data of the analysis of Vogel's portal considering shear deformation effect (Timoshenko's Theory).
DOI: 10.17632/hpjw93r7d4.1
title: Figures for: Energy-related emissions from commercial buildings: Comparing methods for quantifying temporal indirect emissions associated with electricity purchases

description: These are editable .fig files for the graphs presented in "Energy-related emissions from commercial buildings: Comparing methods for quantifying temporal indirect emissions associated with electricity purchases" (Fallahi 2018).
DOI: 10.5281/zenodo.1442733
title: Mod17A2H Version 6 Gross Primary Productivity (Gpp) Global Mosaics At 500 M Resolution And Difference 2000-2017

description: MOD17A2H version 6 Gross Primary Productivity (GPP) global mosaics at 500 m resolution and difference in GPP for the period 2000-2017. Changes in GPP could be used to estimate land degradation or similar. Derived using the data.table package and quantile function in R. For more info about the MODIS LST product see: https://lpdaac.usgs.gov/dataset_discovery/modis/modis_products_table/mod17a2h_v006. Antartica is not included.

All files internally compressed using "COMPRESS=DEFLATE" creation option in GDAL. File naming convention:


	veg = theme: vegetation,
	gpp = variable: gross primary productivity in kg C m<sup>2</sup>,
	mod17a2h.oct = determination method: MOD17A2H product, GPP values for October,
	d = median value / difference = difference between periods / u.975 = aggregation/statistics method: 97.5% probability upper quantile,
	500m = spatial resolution / block support: 500 m,
	s0..0cm = vertical reference: land surface,
	2000..2017 = time reference: from 2000 to 2017,
	v1.0 = version number: 1.0,
description: Processing steps are explained in detail at: https://github.com/Envirometrix/LandGISmaps/tree/master/input_layers/MOD17A2H
description: {"references": ["Running, S., Mu, Q., Zhao, M. (2015). MOD17A2H MODIS/Terra Gross Primary Productivity 8-Day L4 Global 500m SIN Grid V006 [Data set]. NASA EOSDIS Land Processes DAAC. doi: 10.5067/MODIS/MOD17A2H.006"]}
DOI: 10.5281/zenodo.1445824
title: Ancestral Genomes: A Resource For Reconstructed Ancestral Genes And Genomes Across The Tree Of Life

description: For each ancestral gene, we assign a stable identifier, and provide additional information designed to facilitate analysis: an inferred name (based on its descendants in extant genomes), a reconstructed protein sequence, a set of inferred Gene Ontology (GO) annotations, and a “proxy gene” for each ancestral gene, defined as the least-diverged descendant of the ancestral gene in a given extant genome.
DOI: 10.15129/d594ff1c-9d11-4e6b-aeea-78c8a1864499
title: Data for: "Towards establishing a minimal nanoparticle concentration for applications involving surface enhanced spatially offset Raman spectroscopy (SESORS) in vivo"

description: Towards establishing a minimal nanoparticle concentration for applications involving surface enhanced spatially offset Raman spectroscopy (SESORS) in vivo

The purpose of this dataset is to determine a minimum concentration of nanotags required to produce SERS signal at a given depth (5 mm) using SESORS. 

All data can be found in the database file “handheldDB”. The database can be opened using custom software from cobalt light systems. The customized software was purpose wrote and confidential however all data used is shown in the excel spreadsheets with respect to the corresponding figures. 

Details for figures available in the Readme file provided. 

Data embargo until 01/04/19
DOI: 10.5281/zenodo.1445306
title: From fine sand to boulders: examining the relationship between beach-face slope and sediment size. Dataset and references.

description: A collection of 2144 pairs of beach-face slope and median sediment size measurements gathered from 78 publications that covers the whole range of coastal sediments.<br>
 

Size-Slope-Data-Points.ods :<br>
Size/slope values and their references. The 'Type' column separates beaches from boulder ridges.

Size-Slope-References.ods :<br>
Details of each reference used.
DOI: 10.5281/zenodo.1445307
title: From Fine Sand To Boulders: Examining The Relationship Between Beach-Face Slope And Sediment Size. Dataset And References.

description: A collection of 2144 pairs of beach-face slope and median sediment size measurements gathered from 78 publications that covers the whole range of coastal sediments.<br>
 

Size-Slope-Data-Points.ods :<br>
Size/slope values and their references. The 'Type' column separates beaches from boulder ridges.

Size-Slope-References.ods :<br>
Details of each reference used.
DOI: 10.6073/pasta/21f52d70c97a73bf8420c320df852800
title: Data for McGill et.al. 2018. The greenhouse gas cost of agricultural intensification with groundwater irrigation in a Midwest US row cropping system. at the Kellogg Biological Station, Hickory Corners, MI  (2013 to 2017)

description: Dataset Abstract
        Data for Data for McGill et.al. 2018. The greenhouse gas cost of agricultural intensification with groundwater irrigation in a Midwest US row cropping system.
        original data source http://lter.kbs.msu.edu/datasets/176
DOI: 10.5281/zenodo.1445323
title: Practica_1_Vcf

description: Master en Biologia Computacional

Course: Genomics Data Analysis and Visualization

Lesson1: Read mapping and variant calling
DOI: 10.5281/zenodo.1443246
title: Nanopore sequence analysis - Galaxy Training Material

description: Twelve MDR plasmids harboring samples were prepared according to the MinION library construction protocols, followed by library sequencing. After 8 hours of sequencing run, a total of 287 725 reads ranging from dozens to tens of thousands of bases in length were obtained, covering a total of 493 Mbp. The raw data were subjected to several stages of processing, including basecalling, de-multiplexing, fasta sequence extraction. For this tutorial one out of the twelve samples is chosen as example.

This dataset is extracted of a project studying the Efficient generation of complete sequences of MDR-encoding plasmids by rapid assembly of MinION barcoding sequencing data (https://doi.org/10.1093/gigascience/gix132)
DOI: 10.5258/soton/d0552
title: Dataset for paper titled Robust features of a turbulent boundary layer subjected to high-intensity free-stream turbulence

description: This dataset contains a matlab file required to reproduce all the figures in the above mentioned paper.  If you use any of the data from this dataset, please cite the following article,R. Jason Hearst, Eda Dogan and Bharathram Ganapathisubramani, (2018), "Robust features of a turbulent boundary layer subjected to high-intensity free-stream turbulence", Journal of Fluid Mechanics. DOI: 10.1017/jfm.2018.511Here is further information on the dataset:The variables contained in the file are:B           = log-law fitting parameter described in equation (1.1)
kappa       = log-law fitting parameter described in equation (1.1)
delta       = boundary layer thickness (units: meters)
lamb_inf    = Taylor microscale in the free-stream (units: meters)
Lu_inf      = integral lengthscale in the free-stream (units: meters)
nu          = kinematic viscosity (units: m^2/s)
Re_lamb_inf = Taylor microscale based Reynolds number in the free-stream
Re_tau      = friction velocity based Reynolds number
Re_theta    = momentum thickness based Reynolds number
u2_inf      = streamwise velocity variance in the free-stream
(units: m^2/s^2)
U_inf       = streamwise mean velocity in the free-stream (units: m/s)
U_tau       = mean friction velocity (units: m/s)
uU_inf      = free-stream turbulence intensityFu = streamwise velocity flatness profiles
Su = streamwise velocity skewness profiles
U  = streamwise mean velocity profiles (units: m/s)
u2 = streamwise velocity variance profiles (units: m^2/s^2)
y  = wall-normal position for profiles (units: meters)E11_inf = free-stream spectra
kE11    = pre-multiplied spectra at all wall-normal positions for each case
(units of m^2/s^2)
Gg      = global gain function
kpu     = wall-unit normalised wavenumber for all spectra
ypu     = wall-unit normalised wall-normal position for all spectraCoh_G       = spectral coherence, equation (3.1) of the text, for case G
Coh_H       = spectral coherence for case H
Coh_N       = spectral coherence for case N
zetap_Coh_G = wall-unit normalised wavelength for spectral coherence case G
zetap_Coh_H = wall-unit normalised wavelength for spectral coherence case H
zetap_Coh_N = wall-unit normalised wavelength for spectral coherence case NFor all variables except for the coherence plots, the data is stored as
"cell" elements in MATLAB where the first element of the cell (index = 1)
is case A, the second element of the cell (index = 2) is case B, and so on.