cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1419654.v16
title: Cuke Particle Positions - 2068-2077 - Grid sites

description: LTRANS V2 raw output: Longitude, Latitude, depth, boundary status, and release site. Directories are structured as G1998\152\1\ meaning treatmentyear\releaseday\bin\. Directories labelled with the year 2098-2107 actually correspond to the years 2068-2077. Files are named para 1002.csv which contains all the positions (of that treatment, year, site, and release day) at the end of the first day. Text files labeled as rl_01.txt are the release locations. The grid shapefile is represents the cucumber habitat from which larvae were released
DOI: 10.6084/m9.figshare.1418310
title: XCMS results for male WTD, prior to challenge and 5 months post BTb challenge.

description: XCMS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from male WTD immediately prior to challenge and 5 months post challenge.
DOI: 10.6084/m9.figshare.1418311
title: XCMS results for a mixed gender population of WTD, prior to challenge and 5 months post BTb challenge.

description: XCMS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from a mixed gender population of WTD immediately prior to challenge and 5 months post challenge.
DOI: 10.6084/m9.figshare.1418312
title: XCMS results for female WTD, prior to challenge and 5 months post BTb challenge.

description: XCMS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from female WTD immediately prior to challenge and 5 months post challenge.
DOI: 10.6084/m9.figshare.1418312.v1
title: XCMS results for female WTD, prior to challenge and 5 months post BTb challenge.

description: XCMS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from female WTD immediately prior to challenge and 5 months post challenge.
DOI: 10.6084/m9.figshare.1418313.v1
title: XCMS results for male WTD, vaccinated, prior to challenge and 5 months post BTb challenge.

description: XCMS MS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from male WTD immediately prior to challenge and 5 months post challenge. These were males vacccinated 3 months prior to challenge.
DOI: 10.6084/m9.figshare.1419654.v15
title: Cuke Particle Positions - 2068-2077 - Grid sites

description: LTRANS V2 raw output: Longitude, Latitude, depth, boundary status, and release site. Directories are structured as G1998\152\1\ meaning treatmentyear\releaseday\bin\. Directories labelled with the year 2098-2107 actually correspond to the years 2068-2077. Files are named para 1002.csv which contains all the positions (of that treatment, year, site, and release day) at the end of the first day. Text files labeled as rl_01.txt are the release locations. The grid shapefile is represents the cucumber habitat from which larvae were released
DOI: 10.6084/m9.figshare.1418305
title: Co-occurrence data of international co-authorships aggregated at the national level

description: These data show the aggregation at the nation-nation level of co-occurrences of authorship of scientific papers. The data are in excel as a matrix with resulting cells indicating the number of times these two country names appear in the same article. The original data are from ISI Web of Science. The year represented is 2011. The data complement an article being published in PLoS ONE, "The Continuing Growth of Global Cooperation Networks in Research: A conundrum for national governments"
DOI: 10.6084/m9.figshare.1418311.v1
title: XCMS results for a mixed gender population of WTD, prior to challenge and 5 months post BTb challenge.

description: XCMS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from a mixed gender population of WTD immediately prior to challenge and 5 months post challenge.
DOI: 10.6084/m9.figshare.1418309
title: MS TIC Peak Area Data for 17 Compounds in Vaccinated and Unvaccinated Male WTD

description: Peak area data were collected by SPME fiber head space collected over fecal samples obtained from WTD immdeiately prior to M bovis challenge and 3 months post vaccination.
DOI: 10.6084/m9.figshare.1418310.v1
title: XCMS results for male WTD, prior to challenge and 5 months post BTb challenge.

description: XCMS comparison for significantly different ion intensities across GC/MS chromatograms collected from SPME headspace sampling over fecal samples obtained from male WTD immediately prior to challenge and 5 months post challenge.
DOI: 10.6084/m9.figshare.1418304
title: pheral Blood Mitochondrial DNA as a Biomarker of Cerebral Mitochondrial Dysfunction following Traumatic Brain Injury

description: Data sets for publication
DOI: 10.6084/m9.figshare.1418305.v1
title: Co-occurrence data of international co-authorships aggregated at the national level

description: These data show the aggregation at the nation-nation level of co-occurrences of authorship of scientific papers. The data are in excel as a matrix with resulting cells indicating the number of times these two country names appear in the same article. The original data are from ISI Web of Science. The year represented is 2011. The data complement an article being published in PLoS ONE, "The Continuing Growth of Global Cooperation Networks in Research: A conundrum for national governments"
DOI: 10.6084/m9.figshare.1418309.v1
title: MS TIC Peak Area Data for 17 Compounds in Vaccinated and Unvaccinated Male WTD

description: Peak area data were collected by SPME fiber head space collected over fecal samples obtained from WTD immdeiately prior to M bovis challenge and 3 months post vaccination.
DOI: 10.6084/m9.figshare.1418304.v1
title: pheral Blood Mitochondrial DNA as a Biomarker of Cerebral Mitochondrial Dysfunction following Traumatic Brain Injury

description: Data sets for publication
DOI: 10.6084/m9.figshare.1418253
title: Data from: Penk et al 2015 Journal of Animal Ecology

description: Biomass and density of biota from experimental ponds
DOI: 10.6084/m9.figshare.1418247
title: Adaptation of the targeted capture Methyl-Seq platform for the mouse genome identifies novel tissue-specific DNA methylation patterns of genes involved in neurodevelopment

description: Methyl-Seq was recently developed as a targeted approach to assess DNA methylation (DNAm) at a genome-wide level in human. We adapted it for mouse and sought to examine DNAm differences across liver and 2 brain regions: cortex and hippocampus. A custom hybridization array was designed to isolate 99 Mb of CpG islands, shores, shelves, and regulatory elements in the mouse genome. This was followed by bisulfite conversion and sequencing on the Illumina HiSeq2000. The majority of differentially methylated cytosines (DMCs) were present at greater than expected frequency in introns, intergenic regions, near CpG islands, and transcriptional enhancers. Liver-specific enhancers were observed to be methylated in cortex, while cortex specific enhancers were methylated in the liver. Interestingly, commonly shared enhancers were differentially methylated between the liver and cortex. Gene ontology and pathway analysis showed that genes that were hypomethylated in the cortex and hippocampus were enriched for neuronal components and neuronal function. In contrast, genes that were hypomethylated in the liver were enriched for cellular components important for liver function. Bisulfite-pyrosequencing validation of 75 DMCs from 19 different loci showed a correlation of r = 0.87 with Methyl-Seq data. We also identified genes involved in neurodevelopment that were not previously reported to be differentially methylated across brain regions. This platform constitutes a valuable tool for future genome-wide studies involving mouse models of disease.
DOI: 10.6084/m9.figshare.1418247.v1
title: Adaptation of the targeted capture Methyl-Seq platform for the mouse genome identifies novel tissue-specific DNA methylation patterns of genes involved in neurodevelopment

description: Methyl-Seq was recently developed as a targeted approach to assess DNA methylation (DNAm) at a genome-wide level in human. We adapted it for mouse and sought to examine DNAm differences across liver and two brain regions: cortex and hippocampus. A custom hybridization array was designed to isolate 99 Mb of CpG islands, shores, shelves, and regulatory elements in the mouse genome. This was followed by bisulfite conversion and sequencing on the Illumina HiSeq2000. The majority of differentially methylated cytosines (DMCs) were present at greater than expected frequency in introns, intergenic regions, near CpG islands, and transcriptional enhancers. Liver-specific enhancers were observed to be methylated in cortex, while cortex specific enhancers were methylated in the liver. Interestingly, commonly shared enhancers were differentially methylated between the liver and cortex. Gene ontology and pathway analysis showed that genes that were hypomethylated in the cortex and hippocampus were enriched for neuronal components and neuronal function. In contrast, genes that were hypomethylated in the liver were enriched for cellular components important for liver function. Bisulfite-pyrosequencing validation of 75 DMCs from 19 different loci showed a correlation of r = 0.87 with Methyl-Seq data. We also identified genes involved in neurodevelopment that were not previously reported to be differentially methylated across brain regions. This platform constitutes a valuable tool for future genome-wide studies involving mouse models of disease.
DOI: 10.6084/m9.figshare.1418247.v3
title: Adaptation of the targeted capture Methyl-Seq platform for the mouse genome identifies novel tissue-specific DNA methylation patterns of genes involved in neurodevelopment

description: Methyl-Seq was recently developed as a targeted approach to assess DNA methylation (DNAm) at a genome-wide level in human. We adapted it for mouse and sought to examine DNAm differences across liver and 2 brain regions: cortex and hippocampus. A custom hybridization array was designed to isolate 99 Mb of CpG islands, shores, shelves, and regulatory elements in the mouse genome. This was followed by bisulfite conversion and sequencing on the Illumina HiSeq2000. The majority of differentially methylated cytosines (DMCs) were present at greater than expected frequency in introns, intergenic regions, near CpG islands, and transcriptional enhancers. Liver-specific enhancers were observed to be methylated in cortex, while cortex specific enhancers were methylated in the liver. Interestingly, commonly shared enhancers were differentially methylated between the liver and cortex. Gene ontology and pathway analysis showed that genes that were hypomethylated in the cortex and hippocampus were enriched for neuronal components and neuronal function. In contrast, genes that were hypomethylated in the liver were enriched for cellular components important for liver function. Bisulfite-pyrosequencing validation of 75 DMCs from 19 different loci showed a correlation of r = 0.87 with Methyl-Seq data. We also identified genes involved in neurodevelopment that were not previously reported to be differentially methylated across brain regions. This platform constitutes a valuable tool for future genome-wide studies involving mouse models of disease.
DOI: 10.6084/m9.figshare.1418247.v2
title: Adaptation of the targeted capture Methyl-Seq platform for the mouse genome identifies novel tissue-specific DNA methylation patterns of genes involved in neurodevelopment

description: Methyl-Seq was recently developed as a targeted approach to assess DNA methylation (DNAm) at a genome-wide level in human. We adapted it for mouse and sought to examine DNAm differences across liver and 2 brain regions: cortex and hippocampus. A custom hybridization array was designed to isolate 99 Mb of CpG islands, shores, shelves, and regulatory elements in the mouse genome. This was followed by bisulfite conversion and sequencing on the Illumina HiSeq2000. The majority of differentially methylated cytosines (DMCs) were present at greater than expected frequency in introns, intergenic regions, near CpG islands, and transcriptional enhancers. Liver-specific enhancers were observed to be methylated in cortex, while cortex specific enhancers were methylated in the liver. Interestingly, commonly shared enhancers were differentially methylated between the liver and cortex. Gene ontology and pathway analysis showed that genes that were hypomethylated in the cortex and hippocampus were enriched for neuronal components and neuronal function. In contrast, genes that were hypomethylated in the liver were enriched for cellular components important for liver function. Bisulfite-pyrosequencing validation of 75 DMCs from 19 different loci showed a correlation of r = 0.87 with Methyl-Seq data. We also identified genes involved in neurodevelopment that were not previously reported to be differentially methylated across brain regions. This platform constitutes a valuable tool for future genome-wide studies involving mouse models of disease.
DOI: 10.6084/m9.figshare.1418236
title: Gaussian Job Archive for C8H22N2Si4

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1418236.v1
title: Gaussian Job Archive for C8H22N2Si4

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1418234
title: An Automatic Method to Extract Patent Citations from Google

description: Appendix A1-A16 report the top 10 highly cited articles in Google Patents from the Bing API search in the sixteen selected fields. It shows that there are some minority articles with many patent citations but with few or no Scopus citation.
DOI: 10.6084/m9.figshare.1418230
title: Correction: fMRI reveals neural activity overlap between adult and infant pain

description: Supplementary File for eLife correction article "Correction: fMRI reveals neural activity overlap between adult and infant pain" (2015, eLife 4:e06356, doi: 10.7554/eLife.06356). <strong>Supplementary File 1:</strong> Originally published version of Table 1, which showed voxel coordinates that incorrectly identify the peak voxels.
DOI: 10.6084/m9.figshare.1418231
title: Spin Sensitive Pair Correlation Functions

description: Fitted spin sensitive pair correlation functions. The raw data was obtained by Gori-Giorgi et al. [Physical Reveiw B 70 115102 (2004)]
DOI: 10.6084/m9.figshare.1418061
title: DATA : Abies data

description: BlastX and functional annotation (sheet 1), SNPs design (sheet 2) and SNPs Genotyping* (sheet 3). *<em>Abies alba</em> and<em> A. cephalonica</em> populations (10 altitudinal gradients accross Europe from French Pyrennées to Greece) / 273 SNPs
DOI: 10.6084/m9.figshare.1418149
title: Validation of single- and two-equation models for transient mixed flows: a laboratory test case

description: ABSTRACTThe numerical simulation of transient mixed flows requires suitable mathematical models that must be validated by comparison with experimental data. For this reason, a simple benchmark test case is proposed in this paper. A laboratory study was carried out in a circular conduit, specifically designed to induce a strong pipe filling bore and repeated regime transitions following the sudden opening of an internal gate. No gates or weirs were installed at the pipe ends, and ventilated conditions were guaranteed. Measurements of both pressure head and velocity are provided as supplementary material. The test case was simulated by using two finite volume shock-capturing schemes: a classic Preissmann slot model, and a recent two-equation model. In both cases, numerical results are in good agreement with experimental data, despite the low pressure wave celerity assumed to minimize spurious oscillations. When realistic celerity values are adopted, the two-equation model appears to be more robust in handling flow regime transitions.
DOI: 10.6084/m9.figshare.1418231.v1
title: Spin Sensitive Pair Correlation Functions

description: Fitted spin sensitive pair correlation functions. The raw data was obtained by Gori-Giorgi et al. [Physical Reveiw B 70 115102 (2004)]
DOI: 10.6084/m9.figshare.1418059
title: Bedload composition, transport and modification in rivers of Westland, New Zealand, with implications for the distribution of alluvial pounamu (jade)

description: River bedload surveyed at 50 sites in Westland is dominated by Alpine Schist or Torlesse Greywacke from the Alpine Fault hanging wall, with subordinate Pounamu Ultramafics or footwall-derived Western Province rocks. Tumbling experiments found ultramafics to have the lowest attrition rates, compared with greywacke sandstone and granite (which abrade to produce silt to medium-sand), or incompetent schist (which fragments). Arahura has greater total concentrations (10<sup>3</sup>–10<sup>5</sup> t/km<sup>2</sup>) and proportions (5–40%) of ultramafic bedload compared with Hokitika and Taramakau catchments (10<sup>1</sup>–10<sup>4</sup> t/km<sup>2</sup>, mostly &lt;10%), matching relative areas of mapped Pounamu Ultramafic bedrock, but enriched relative to absolute areal proportions. Western Province rocks downthrown by the Alpine Fault are under-represented in the bedload. Enriched concentrations of ultramafic bedload decrease rapidly with distance downstream from source rock outcrops, changing near prominent ice-limit moraines. Bedload evolution with transport involves both downstream fining and dilution from tributaries, in a sediment supply regime more strongly influenced by tectonics and the imprint of past glaciation. Treasured New Zealand pounamu (jade) is associated with ultramafic rocks. Chances of discovery vary between catchments, are increased near glacial moraines, and are highest near source-rock outcrops in remote mountain headwaters.
DOI: 10.6084/m9.figshare.1418149.v2
title: Validation of single- and two-equation models for transient mixed flows: a laboratory test case

description: ABSTRACTThe numerical simulation of transient mixed flows requires suitable mathematical models that must be validated by comparison with experimental data. For this reason, a simple benchmark test case is proposed in this paper. A laboratory study was carried out in a circular conduit, specifically designed to induce a strong pipe filling bore and repeated regime transitions following the sudden opening of an internal gate. No gates or weirs were installed at the pipe ends, and ventilated conditions were guaranteed. Measurements of both pressure head and velocity are provided as supplementary material. The test case was simulated by using two finite volume shock-capturing schemes: a classic Preissmann slot model, and a recent two-equation model. In both cases, numerical results are in good agreement with experimental data, despite the low pressure wave celerity assumed to minimize spurious oscillations. When realistic celerity values are adopted, the two-equation model appears to be more robust in handling flow regime transitions.
DOI: 10.6084/m9.figshare.1418230.v1
title: Correction: fMRI reveals neural activity overlap between adult and infant pain

description: Supplementary File for eLife correction article "Correction: fMRI reveals neural activity overlap between adult and infant pain" (2015, eLife 4:e06356, doi: 10.7554/eLife.06356). <strong>Supplementary File 1:</strong> Originally published version of Table 1, which showed voxel coordinates that incorrectly identify the peak voxels.
DOI: 10.6084/m9.figshare.1418149.v1
title: Validation of single- and two-equation models for transient mixed flows: a laboratory test case

description: ABSTRACTThe numerical simulation of transient mixed flows requires suitable mathematical models that must be validated by comparison with experimental data. For this reason, a simple benchmark test case is proposed in this paper. A laboratory study was carried out in a circular conduit, specifically designed to induce a strong pipe filling bore and repeated regime transitions following the sudden opening of an internal gate. No gates or weirs were installed at the pipe ends, and ventilated conditions were guaranteed. Measurements of both pressure head and velocity are provided as supplementary material. The test case was simulated by using two finite volume shock-capturing schemes: a classic Preissmann slot model, and a recent two-equation model. In both cases, numerical results are in good agreement with experimental data, despite the low pressure wave celerity assumed to minimize spurious oscillations. When realistic celerity values are adopted, the two-equation model appears to be more robust in handling flow regime transitions.
DOI: 10.6084/m9.figshare.1418050
title: Gravimetric, mechanical and chemical characterization of different materials used in sewers systems: Polyvinyl chloride (PVC), polypropylene (PP) and high density polyethylene (HDPE), aged in sulfuric acid at 60°C

description: he effect of aging on mechanical and structural behaviors of PVC, PP, and HDPE was investigated by acid solution at 60°C. The curves of gravimetric measurements for PVC and HDPE during testing time reveal that the water absorption follows the Fickian process, while the curve of water absorption for PP follows a non-Fickian behavior. While the degradation progresses, an increase in tensile strength, a great drop in elongation at break and a clear brittle failure mode for PVC, PP and HDPE specimens was observed. The increase in tensile properties is due to the increase in crystallinity and cross-linking density. The decrease of tensile properties is due to the scission of molecular chain. The changes in functional groups were monitored by using the Fourier transform infrared spectroscopy (FTIR). These results show that the principal functions of polymers are the aliphatic hydrocarbons. After aging, the change and appearance of new peaks signify an oxidation of hydrocarbon groups (CC, CH) due to the acid attack, effect of temperature and aging time. These results show that there is a good relationship between the diffusion of solvent as well as the increase of time exposure and temperature on the mechanical properties and function of polymers.