cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc1psflh
title: CCDC 1572617: Experimental Crystal Structure Determination

description: Related Article: Chi-Hang Chang, Chen-Yen Tsai, Wei-Jen Lin, Yu-Chia Su, Hui-Ju Chuang, Wan-Ling Liu, Chi-Tien Chen, Chih-Kuang Chen, Bao-Tsan Ko|2018|Polymer|141|1|doi:10.1016/j.polymer.2018.02.063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1psfmj
title: CCDC 1572618: Experimental Crystal Structure Determination

description: Related Article: Chi-Hang Chang, Chen-Yen Tsai, Wei-Jen Lin, Yu-Chia Su, Hui-Ju Chuang, Wan-Ling Liu, Chi-Tien Chen, Chih-Kuang Chen, Bao-Tsan Ko|2018|Polymer|141|1|doi:10.1016/j.polymer.2018.02.063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1psfnk
title: CCDC 1572619: Experimental Crystal Structure Determination

description: Related Article: Chi-Hang Chang, Chen-Yen Tsai, Wei-Jen Lin, Yu-Chia Su, Hui-Ju Chuang, Wan-Ling Liu, Chi-Tien Chen, Chih-Kuang Chen, Bao-Tsan Ko|2018|Polymer|141|1|doi:10.1016/j.polymer.2018.02.063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1psfpl
title: CCDC 1572620: Experimental Crystal Structure Determination

description: Related Article: Chi-Hang Chang, Chen-Yen Tsai, Wei-Jen Lin, Yu-Chia Su, Hui-Ju Chuang, Wan-Ling Liu, Chi-Tien Chen, Chih-Kuang Chen, Bao-Tsan Ko|2018|Polymer|141|1|doi:10.1016/j.polymer.2018.02.063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1psfqm
title: CCDC 1572621: Experimental Crystal Structure Determination

description: Related Article: Chi-Hang Chang, Chen-Yen Tsai, Wei-Jen Lin, Yu-Chia Su, Hui-Ju Chuang, Wan-Ling Liu, Chi-Tien Chen, Chih-Kuang Chen, Bao-Tsan Ko|2018|Polymer|141|1|doi:10.1016/j.polymer.2018.02.063
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.167376
title: Data From: Automatic Definition Of Robust Microbiome Sub-States In Longitudinal Data

description: Output files of the application of our R software (available at https://github.com/wilkinsonlab/robust-clustering-metagenomics) to different microbiome datasets already published.

Prefixes:


	David2014_: original microbiome dataset published in [David et al.,2014] (http://genomebiology.com/2014/15/7/R89)
	Ballou2016_: original microbiome dataset published in [Ballou et al.,2016] (http://journal.frontiersin.org/article/10.3389/fvets.2016.00002/full)
	Gajer2012_: original microbiome dataset published in [Gajer et al.,2012] (http://stm.sciencemag.org/content/4/132/132ra52.long)
	LaRosa2014_: original microbiome dataset published in [LaRosa et al.,2014] (http://www.pnas.org/cgi/doi/10.1073/pnas.1409497111)


Suffixes:


	
	_All: all taxa
	
	
	_Dominant: only 1% most abundant taxa
	
	
	_NonDominant: remaining taxa after removing above dominant taxa
	
	
	_GenusAll: taxa aggregated at genus level
	
	
	_GenusDominant: taxa aggregated at genes level and then to select only 1% most abundant taxa
	
	
	_GenusNonDominant: taxa aggregated at genus level and then to remove 1% most abundant taxa
	


Each folder contains 3 output files related to the same input dataset:<br>
- data.normAndDist_definitiveClustering_XXX.RData: R data file with a) a phyloseq object (including OTU table, meta-data and cluster assigned to each sample); and b) a distance matrix object.<br>
- definitiveClusteringResults_XXX.txt: text file with assessment measures of the selected clustering.<br>
- sampleId-cluster_pairs_XXX.txt: text file. Two columns, comma separated file: sampleID,clusterID

Abstract of the associated paper:

The analysis of microbiome dynamics would allow us to elucidate patterns within microbial community evolution; however, microbiome state-transition dynamics have been scarcely studied.  This is in part because a necessary first-step in such analyses has not been well-defined: how to deterministically describe a microbiome's "state". Clustering in states have been widely studied, although no standard has been concluded yet. We propose a generic, domain-independent and automatic procedure to determine a reliable set of microbiome sub-states within a specific dataset, and with respect to the conditions of the study. The robustness of sub-state identification is established by the combination of diverse techniques for stable cluster verification.  We reuse four distinct longitudinal microbiome datasets to demonstrate the broad applicability of our method, analysing results with different taxa subset allowing to adjust it depending on the application goal, and showing that the methodology provides a set of robust sub-states to examine in downstream studies about dynamics in microbiome.
DOI: 10.5281/zenodo.604494
title: Data From: Automatic Definition Of Robust Microbiome Sub-States In Longitudinal Data

description: Output files of the application of our R software (available at https://github.com/wilkinsonlab/robust-clustering-metagenomics) to different microbiome datasets already published.

Prefixes:


	David2014_: original microbiome dataset published in [David et al.,2014] (http://genomebiology.com/2014/15/7/R89)
	Ballou2016_: original microbiome dataset published in [Ballou et al.,2016] (http://journal.frontiersin.org/article/10.3389/fvets.2016.00002/full)
	Gajer2012_: original microbiome dataset published in [Gajer et al.,2012] (http://stm.sciencemag.org/content/4/132/132ra52.long)
	LaRosa2014_: original microbiome dataset published in [LaRosa et al.,2014] (http://www.pnas.org/cgi/doi/10.1073/pnas.1409497111)


Suffixes:


	
	_All: all taxa
	
	
	_Dominant: only 1% most abundant taxa
	
	
	_NonDominant: remaining taxa after removing above dominant taxa
	
	
	_GenusAll: taxa aggregated at genus level
	
	
	_GenusDominant: taxa aggregated at genes level and then to select only 1% most abundant taxa
	
	
	_GenusNonDominant: taxa aggregated at genus level and then to remove 1% most abundant taxa
	


Each folder contains 3 output files related to the same input dataset:<br>
- data.normAndDist_definitiveClustering_XXX.RData: R data file with a) a phyloseq object (including OTU table, meta-data and cluster assigned to each sample); and b) a distance matrix object.<br>
- definitiveClusteringResults_XXX.txt: text file with assessment measures of the selected clustering.<br>
- sampleId-cluster_pairs_XXX.txt: text file. Two columns, comma separated file: sampleID,clusterID

Abstract of the associated paper:

The analysis of microbiome dynamics would allow us to elucidate patterns within microbial community evolution; however, microbiome state-transition dynamics have been scarcely studied.  This is in part because a necessary first-step in such analyses has not been well-defined: how to deterministically describe a microbiome's "state". Clustering in states have been widely studied, although no standard has been concluded yet. We propose a generic, domain-independent and automatic procedure to determine a reliable set of microbiome sub-states within a specific dataset, and with respect to the conditions of the study. The robustness of sub-state identification is established by the combination of diverse techniques for stable cluster verification.  We reuse four distinct longitudinal microbiome datasets to demonstrate the broad applicability of our method, analysing results with different taxa subset allowing to adjust it depending on the application goal, and showing that the methodology provides a set of robust sub-states to examine in downstream studies about dynamics in microbiome.
DOI: 10.5281/zenodo.897933
title: Global Gridded Monthly Sectoral Water Use Dataset For 1971-2010

description: About:

The dataset constitutes the first reconstructed global water use data product at sub-annual and sub-national/gridded resolution that is derived from different models and data sources; it was generated by spatially and temporally downscaling country-scale estimates of sectoral water withdrawals from FAO AQUASTAT (and state-scale estimates of USGS for the US). In addition, the industrial sector was disaggregated into manufacturing, mining and cooling of thermal power plants by using historical estimates from GCAM. Downscaling was performed using the output of various models and new modeling approaches, which includes the spatial and temporal downscaling methodologies for water withdrawal in previous studies (Wada et al., 2011; Voisin et al., 2013; Hejazi et al., 2014). For the consumptive water use, irrigation water consumption is reconstructed based on estimates by 4 GHMs and consumptive water use efficiency (the proportion of water consumption to water withdrawal), which is calculated based on simulation of Flörke et al (2013) and USGS estimates, is used to generated global consumptive water use for the remaining sector. Therefore, a global monthly gridded (0.5 degree) sectoral water use dataset for the period 1971–2010, which distinguishes six water use sectors, i.e. irrigation, domestic, electricity generation (cooling of thermal power plants), livestock, mining, and manufacturing, was reconstructed. The detailed descriptions for this dataset are presented in Huang et al. (in review).
description: {"references": ["Huang, Z., Hejazi, M., Li, X., Tang, Q., Leng, G., Liu, Y., D\u00f6ll, P., Eisner, S., Gerten, D., Hanasaki, N., and Wada, Y.: Reconstruction of global gridded monthly sectoral water withdrawals for 1971\u20132010 and analysis of their spatiotemporal patterns, Hydrol. Earth Syst. Sci. Discuss., https://doi.org/10.5194/hess-2017-551, in review, 2017.", "Wada, Y., Van Beek, L., Viviroli, D., D\u00fcrr, H. H., Weingartner, R., and Bierkens, M. F.: Global monthly water stress: 2. Water demand and severity of water stress, Water Resources Research, 47, 2011.", "Voisin, N., Liu, L., Hejazi, M., Tesfa, T., Li, H., Huang, M., Liu, Y., and Leung, L.: One-way coupling of an integrated assessment model and a water resources model: evaluation and implications of future changes over the US Midwest, Hydrology and Earth System Sciences, 17, 4555-4575, 2013.", "Fl\u00f6rke, M., Kynast, E., B\u00e4rlund, I., Eisner, S., Wimmer, F., and Alcamo, J.: Domestic and industrial water uses of the past 60 years as a mirror of socio-economic development: A global simulation study, Global Environmental Change, 23, 144-156, 2013.", "Hejazi, M., Edmonds, J., Clarke, L., Kyle, P., Davies, E., Chaturvedi, V., Wise, M., Patel, P., Eom, J., and Calvin, K.: Longterm global water projections using six socioeconomic scenarios in an integrated assessment modeling framework, Technological Forecasting and Social Change, 81, 205-226, 2014."]}
DOI: 10.5517/ccdc.csd.cc1q57bg
title: CCDC 1583955: Experimental Crystal Structure Determination

description: Related Article: S. Yousef Ebrahimipour, Mehrji Khosravan, Jesus Castro, Fatemeh Khajoee Nejad, Michal Dusek, Vaclav Eigner|2018|Polyhedron|146|73|doi:10.1016/j.poly.2018.02.013
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.17632/jt8w8d3vtt.1
title: First Nano-Infrared Spectroscopy and Imaging Measurements of Single Phospholipid Bilayers

description: These are the data used for the following work. First Nano-Infrared Spectroscopy and Imaging Measurements of Single Phospholipid Bilayers (doi.org/10.26434/chemrxiv.5459617.v2)
DOI: 10.17632/hhyrwvn4zd.1
title: RTAnews: a benchmark of mult-label Arabic texts

description: RTAnews is a collection of multi-label Arabic text. It was collected from Russia Today in Arabic news portal. It consists of 25,612 texts, distributed over 40 categories.
DOI: 10.17632/kdj8yxp37j.1
title: Use of Brain Diffusion Tensor Imaging for the Prediction of Long-Term Outcome in Patients after Cardiac Arrest: a multicentre, prospective, cohort study

description: These files contain the data and the R codes for "Use of Brain Diffusion Tensor Imaging for the Prediction of Long-Term Outcome in Patients after Cardiac Arrest: a multicentre, prospective, cohort study"
DOI: 10.17632/vdjxymhxy4.2
title: Impedance readings at ST-36, ST-37, ST-39, and GB-34

description: Readings of impedance taken from four acupoints on the same subject, over a 14 hour period on the same day.
DOI: 10.17632/6hjngysm8k.2
title: Bills that threaten environmental protection in Brazil

description: List of bills used in the article "IS BRAZIL ON ITS WAY TO LOSING ENVIRONMENTAL LEADERSHIP?" by Jeferson Silva and Maria Drumond.
DOI: 10.17632/9rm55gm6z3.1
title: Raw Data of Content Words numbers

description: Data provided shows increases in the number of content words in EFL students' descriptive writing by the use of sensory detail chart collaboratively.
DOI: 10.17632/m23brhzr4b.1
title: MOLECULAR-CELL-DUBEAUXETAL-20180315
DOI: 10.17632/79gy5gvb25.1
title: A Parametric Investigation into the Flexural Properties of Singly Curved Composites Reinforced with 3D Integrated Woven Fabrics (Raw DATA)

description: This zip file contains all the recorded results of three-point bending test conducted on flat/curved composites reinforced with 3D woven integrated fabrics.
DOI: 10.17632/hm6pkpxxr8.1
title: Life History and Moral Flexibility Dataset

description: The research sought to understand how individuals' moral judgments, reasoning and decisions are shaped by immediate situations, which differ in terms of unpredictability and competition. The research consisted of four experimental studies with Chinese college students as participants. Our main hypotheses were that (1) unpredictability led to lower other-centeredness in moral judgments, reasoning, and decisions; (2) competition led to higher other-centeredness in indirect moral tasks (e.g., reasoning, deliberate decisions or judgments based on utilitarian concerns); (3) competition combined with unpredictability led to lower other-centeredness in direct moral tasks (e.g., spontaneous decisions or intuitive judgments based on deontological concerns). In Datasets for Studies 1-3, a "condition" variable corresponded to the between-subject experimental manipulation used in the studies to induce situational unpredictability and/or competition. In Study 4 Dataset, "condition" variable referred to the between-subject manipulation of direct/intuitive and indirect/rational moral thinking style. In addition, there was a "block" variable corresponding to a within-subject manipulation of situational unpredictability and/or competition. The main dependent variables in these datasets were: donation (direct moral task) and SCTScore (moral reasoning as an indirect moral task) in Study 1 Dataset, volunteering (direct moral task) and SCTScore (indirect moral task) in Study 2 Dataset, ISO (intuitive moral judgments as direct moral task) and RSO (rational moral judgments as indirect moral task) in Study 3 Dataset, and AllocationScore in Study 4 Dataset.
DOI: 10.5281/zenodo.1185044
title: Project Panormos Archaeological Survey: Satellite Image (Gis-Copernicus)

description: This forms part of the preliminary open data release for the Project Panormos archaeological survey.

This "panormos/gis-copernicus" repository contains a raster used as a background for mapping the survey data. This image was derived from Copernicus Sentinel Data, and is redistributed in compliance with the legal notice on the use of Copernicus Sentinel Data
DOI: 10.5281/zenodo.1184715
title: Genome-Wide Characterization Of Selection Signatures And Runs Of Homozygosity In Ugandan Goat Breeds

description: <strong>ABSTRACT</strong>

Both natural and artificial selection are among the main driving forces shaping genetic variation across the genome of livestock species. Selection typically leaves signatures in the genome, which are often characterized by high genetic differentiation across breeds and/or a strong reduction in genetic diversity in regions associated with traits under intense selection pressure. In this study, we evaluated selection signatures and genomic inbreeding coefficients,  based on runs of homozygosity (ROH), in six Ugandan goat breeds: Boer (n = 13), and the indigenous breeds Karamojong (n = 15), Kigezi (n = 29), Mubende (n = 29), Small East African (n = 29) and Sebei (n = 29). After genotyping quality control, 45,294 autosomal single nucleotide polymorphisms (SNPs) remained for further analyses. A total of 394 and 6 breed-specific putative selection signatures were identified across all breeds, based on the fixation index ( -values) and hapFLK statistics respectively. These regions were enriched with genes involved in signalling pathways associated directly or indirectly with environmental adaptation, such as immune response (e.g. <em>IL10RB</em> and <em>IL23A</em>), growth and fatty acid composition (e.g. <em>FGF9</em> and <em>IGF1</em>), and thermo-tolerance (e.g. <em>MTOR</em> and <em>MAPK3</em>). The study revealed little overlap in genomic regions under selection and generally did not display the typical classic selection signatures as expected due to the complex nature of the traits. In the Boer breed, candidate genes associated with production traits, such as body size and growth (e.g. <em>GJB2</em> and <em>GJA3</em>) were also identified. Furthermore, analysis of ROH in indigenous goat breeds showed very low levels of genomic inbreeding (with the mean  per breed ranging from 0.8% to 2.4%), as compared to higher inbreeding in Boer (mean  = 13.8%). And, short ROH were more frequent than long ROH, except in Karamojong, providing insight in the developmental history of these goat breeds. This study provides important insights into the effects of long-term selection in Boer and indigenous Ugandan goat breeds and its genetic. Our findings are of great relevance to the implementation of breeding programs and conservation of genetic resources, as well as their sustainable use and management.
description: Funding for the study came from National Agricultural Research Organization (NARO) in Uganda, through a World Bank-supported project, Agricultural Technology and Agribusiness Advisory Services (ATAAS) (P109224).
DOI: 10.5281/zenodo.1184716
title: Genome-Wide Characterization Of Selection Signatures And Runs Of Homozygosity In Ugandan Goat Breeds

description: <strong>ABSTRACT</strong>

Both natural and artificial selection are among the main driving forces shaping genetic variation across the genome of livestock species. Selection typically leaves signatures in the genome, which are often characterized by high genetic differentiation across breeds and/or a strong reduction in genetic diversity in regions associated with traits under intense selection pressure. In this study, we evaluated selection signatures and genomic inbreeding coefficients,  based on runs of homozygosity (ROH), in six Ugandan goat breeds: Boer (n = 13), and the indigenous breeds Karamojong (n = 15), Kigezi (n = 29), Mubende (n = 29), Small East African (n = 29) and Sebei (n = 29). After genotyping quality control, 45,294 autosomal single nucleotide polymorphisms (SNPs) remained for further analyses. A total of 394 and 6 breed-specific putative selection signatures were identified across all breeds, based on the fixation index ( -values) and hapFLK statistics respectively. These regions were enriched with genes involved in signalling pathways associated directly or indirectly with environmental adaptation, such as immune response (e.g. <em>IL10RB</em> and <em>IL23A</em>), growth and fatty acid composition (e.g. <em>FGF9</em> and <em>IGF1</em>), and thermo-tolerance (e.g. <em>MTOR</em> and <em>MAPK3</em>). The study revealed little overlap in genomic regions under selection and generally did not display the typical classic selection signatures as expected due to the complex nature of the traits. In the Boer breed, candidate genes associated with production traits, such as body size and growth (e.g. <em>GJB2</em> and <em>GJA3</em>) were also identified. Furthermore, analysis of ROH in indigenous goat breeds showed very low levels of genomic inbreeding (with the mean  per breed ranging from 0.8% to 2.4%), as compared to higher inbreeding in Boer (mean  = 13.8%). And, short ROH were more frequent than long ROH, except in Karamojong, providing insight in the developmental history of these goat breeds. This study provides important insights into the effects of long-term selection in Boer and indigenous Ugandan goat breeds and its genetic. Our findings are of great relevance to the implementation of breeding programs and conservation of genetic resources, as well as their sustainable use and management.
description: Funding for the study came from National Agricultural Research Organization (NARO) in Uganda, through a World Bank-supported project, Agricultural Technology and Agribusiness Advisory Services (ATAAS) (P109224).
DOI: 10.5287/bodleian:mvnrkrvpw
title: Modelling of hydrogen transport in silicon solar cell structures under equilibrium conditions
DOI: 10.17632/j8srsmstpf.1
title: MK analysis example setup using periodic boundary conditions

description: Supplementary data for Marine Structures article "The effect of low stress triaxialities and load paths on ductile fracture simulations of large shell structures".
DOI: 10.5281/zenodo.1183661
title: Galaxy Hi-C Training Material Dm3

description: Hi-C data for Galaxy training, dm3 cells.