cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4834529.v1
title: Supplementary Table 6

description: Summary Statistics for Differential Digital Genomic Footprint Calling. This includes the total number of differential DGF, and the number of DE DGF in DE genes. Fileset also includes Rscript and linux command line instructions how to generate the data.
DOI: 10.6084/m9.figshare.4834535.v1
title: The daily dynamic potential accessibility by car in London on Wednesdays

description: The map presented in this paper shows the effect of congestion on daily accessibility in the London metropolitan area on Wednesdays. Because of its dynamic nature, it is challenging to both calculate the effects of this phenomenon and to represent it clearly on simple maps. Although we can use many traditional techniques for this purpose, they are usually static, and they may lose some essential information on the effects studied. In this paper, we used two cartographic techniques rarely used in accessibility studies – cartograms and 3D maps, which we believe can achieve a more striking representation in static and animations of both the traffic-induced spatial distortion and the accessibility levels obtained. The results are presented in two animated maps and some snapshots of them – static maps. Both types of maps reinforce each other: Together, they can properly show the direct space–time link between congestion and accessibility, and can, therefore, give a more detailed overview of the consequences of this phenomenon.
DOI: 10.6084/m9.figshare.4834640.v1
title: data.zip

description: This is a zip file containing the example data for nSTAT matlab toolbox (http://www.sciencedirect.com/science/article/pii/S0165027012003111 , http://doi.org/10.1016/j.jneumeth.2012.08.009) . The data direction should be un-zipped into the main nSTAT directory.
DOI: 10.6084/m9.figshare.4834640.v2
title: nSTAT data.zip

description: This is a zip file containing the example data for nSTAT matlab toolbox (http://doi.org/10.1016/j.jneumeth.2012.08.009) . The data directory should be un-zipped into the main nSTAT directory.
DOI: 10.6084/m9.figshare.4834442
title: Supplementary Table 5

description: Summary Statistics of overlap between DGF in whole leaf and bundle sheath samples from <i>Sorghum bicolor</i>, <i>Zea mays</i> and <i>Setaria italica</i>. Fileset also contains linux command line instructions how to make the table.
DOI: 10.6084/m9.figshare.4834391
title: Supplementary Table 3

description: Summary Statistics for Genomic Features Identified in Bundle Sheath samples of <i>Sorghum bicolor</i>, <i>Setaria italica</i> and <i>Zea mays</i>. Fileset also includes linux command line instructions to create the data.
DOI: 10.6084/m9.figshare.4834442.v1
title: Supplementary Table 5

description: Summary Statistics of overlap between DGF in whole leaf and bundle sheath samples from <i>Sorghum bicolor</i>, <i>Zea mays</i> and <i>Setaria italica</i>. Fileset also contains linux command line instructions how to make the table.
DOI: 10.6084/m9.figshare.4834385
title: Geological studies in the Baalsrudfjellet nunatak between the Schirmacher Oasis and the Wohlthat Mountains to establish the continuation of the East African Orogen (EAO) in central Dronning Maud Land, East Antarctica

description: Monazite analyses, computed ages and age errors of three grains from the high- and low-melt metapelite.
DOI: 10.6084/m9.figshare.4834391.v1
title: Supplementary Table 3

description: Summary Statistics for Genomic Features Identified in Bundle Sheath samples of <i>Sorghum bicolor</i>, <i>Setaria italica</i> and <i>Zea mays</i>. Fileset also includes linux command line instructions to create the data.
DOI: 10.6084/m9.figshare.4834382
title: Geological studies in the Baalsrudfjellet nunatak between the Schirmacher Oasis and the Wohlthat Mountains to establish the continuation of the East African Orogen (EAO) in central Dronning Maud Land, East Antarctica

description: Monazite analyses, computed ages and age errors of three grains from the high- and low-melt metapelite.
DOI: 10.6084/m9.figshare.4834385.v1
title: Geological studies in the Baalsrudfjellet nunatak between the Schirmacher Oasis and the Wohlthat Mountains to establish the continuation of the East African Orogen (EAO) in central Dronning Maud Land, East Antarctica

description: Monazite analyses, computed ages and age errors of three grains from the high- and low-melt metapelite.
DOI: 10.6084/m9.figshare.4834319
title: An independent and combined effect analysis of land use and climate change in the upper Rhone River watershed, Switzerland.

description: Land use maps created with Idrisi TAIGA land change modeler.
DOI: 10.6084/m9.figshare.4834307
title: Meso-Neoproterozoic mid-crustal metamorphic record from the Ajmer–Shrinagar section, Rajasthan, India and its implication to the assembly of the Greater Indian Landmass during the Grenvillian-age orogenesis

description: Electron microprobe data of the garnet used for chemical zoning in Figure 5.
DOI: 10.6084/m9.figshare.4834307.v1
title: Meso-Neoproterozoic mid-crustal metamorphic record from the Ajmer–Shrinagar section, Rajasthan, India and its implication to the assembly of the Greater Indian Landmass during the Grenvillian-age orogenesis

description: Electron microprobe data of the garnet used for chemical zoning in Figure 5.
DOI: 10.6084/m9.figshare.4834319.v1
title: An independent and combined effect analysis of land use and climate change in the upper Rhone River watershed, Switzerland.

description: Land use maps created with Idrisi TAIGA land change modeler.
DOI: 10.6084/m9.figshare.4834301
title: Refined geological history of the polyphase plutonometamorphic complex in the Thala Hills area (Enderby Land, East Antarctica) from zircon SHRIMP dating and implications for Neoproterozoic amalgamation of Gondwanaland

description: Trace element compositions of zircons and whole-rock chemical compositions obtained by previous studies.
DOI: 10.6084/m9.figshare.4834304
title: Refined geological history of the polyphase plutonometamorphic complex in the Thala Hills area (Enderby Land, East Antarctica) from zircon SHRIMP dating and implications for Neoproterozoic amalgamation of Gondwanaland

description: Trace element compositions of zircons and whole-rock chemical compositions obtained by previous studies.
DOI: 10.6084/m9.figshare.4834229
title: Classifying document types to enhance search and recommendations in digital libraries - Dataset

description: Taken from "Classifying document types to enhance search and recommendations in digital libraries"<br>https://www.overleaf.com/read/zzzrvmzmwdck<br><br><b>Abstract: </b>In this paper, we address the problem of classifying documents available from the global network of (open access) repositories according to their type. We show that the metadata provided by repositories enabling us to distinguish research papers, thesis and slides are missing in over 60% of cases. While these metadata describing document types are useful in a variety of scenarios ranging from research analytics to improving search and recommender (SR) systems, this problem has not yet been sufficiently addressed in the context of the repositories infrastructure. We have developed a new approach for classifying document types using supervised machine learning based exclusively on text specific features. We achieve 0.96 F1-score using the random forest and Adaboost classifiers, which are the best performing models on our data. By analysing the SR system logs of the CORE digital library aggregator, we show that users are an order of magnitude more likely to click on research papers and thesis than on slides. This suggests that using document types as a feature for ranking/filtering SR results in digital libraries has the potential to improve user experience.<br><br>The descriptors, as featured in the study, are encoded in the dataset as follows:<br><b>authors_len:</b> Number of authors associated with the document entry.<b>num_of_pages: </b>Number of pages the document has in total.<b>avg_word_per_page:</b> Average words per page in the document.<b>total_words: </b>Total words in the document.<b>source:</b> The online service from which the document originated (can be either "CORE" or "SlideShare").<b>id:</b> Identifier with which the source's API can be queried to retrieve the corresponding document.<b>label:</b> The document's type, from "<b>research</b>", "<b>thesis</b>" or "<b>slides</b>".<br>
DOI: 10.6084/m9.figshare.4834232
title: The Varre-Sai chondrite, a Brazilian fall: petrology and geochemistry

description: The Varre-Sai meteorite fell along the border of the states of Espirito Santo and Rio de Janeiro, Brazil; on 19 June 2010 at 5:40 pm. Petrography and X-ray powder diffraction (XRD) indicate that the rock is an L5 S4 chondrite, with blastoporphyritic texture that has not been previously described. Geochemical data based on major and rare-earth elements (REEs) show that Varre-Sai is highly similar to the other L chondrites. In Harker diagrams, Varre-Sai, L, and LL chondrites form a single group, suggesting no significant chemical differences between them and contributing to the long-standing debate of whether LL chondrites form a distinct group or whether they are a subset of the L group. Harker diagrams also define a trend from E to H and L/LL chondrites, similar to the cosmochemical trends suggested by other authors. The behaviour of Fe<sub>2</sub>O<sub>3t</sub> and NiO indicates a relationship with Fe-Ni alloys, and their trend in the diagram suggests some chemical differentiation in the ordinary chondrite parental bodies. The REE content in Varre-Sai, normalized to C chondrites, falls in the field of L chondrites and others, but with slight REE enrichment. The chemical differences in chondrites, mainly in REEs, Fe<sub>2</sub>O<sub>3t</sub> and NiO could be alternatively interpreted as variations in the inherited agglutinated materials as chondrules, Ca–Al-rich inclusions and Fe–Ni nodules.
DOI: 10.6084/m9.figshare.4834301.v1
title: Refined geological history of the polyphase plutonometamorphic complex in the Thala Hills area (Enderby Land, East Antarctica) from zircon SHRIMP dating and implications for Neoproterozoic amalgamation of Gondwanaland

description: Trace element compositions of zircons and whole-rock chemical compositions obtained by previous studies.
DOI: 10.6084/m9.figshare.4834304.v1
title: Refined geological history of the polyphase plutonometamorphic complex in the Thala Hills area (Enderby Land, East Antarctica) from zircon SHRIMP dating and implications for Neoproterozoic amalgamation of Gondwanaland

description: Trace element compositions of zircons and whole-rock chemical compositions obtained by previous studies.
DOI: 10.6084/m9.figshare.4834199
title: Supplementary Table 4

description: Summary Statistics of Overlap between DNaseI hypersensitive sites (DHS) in Whole Leaf and Bundle Sheath Samples from <i>Sorghum bicolor</i>, <i>Setaria italica</i> and <i>Zea mays.</i>
DOI: 10.6084/m9.figshare.4834232.v1
title: The Varre-Sai chondrite, a Brazilian fall: petrology and geochemistry

description: The Varre-Sai meteorite fell along the border of the states of Espirito Santo and Rio de Janeiro, Brazil; on 19 June 2010 at 5:40 pm. Petrography and X-ray powder diffraction (XRD) indicate that the rock is an L5 S4 chondrite, with blastoporphyritic texture that has not been previously described. Geochemical data based on major and rare-earth elements (REEs) show that Varre-Sai is highly similar to the other L chondrites. In Harker diagrams, Varre-Sai, L, and LL chondrites form a single group, suggesting no significant chemical differences between them and contributing to the long-standing debate of whether LL chondrites form a distinct group or whether they are a subset of the L group. Harker diagrams also define a trend from E to H and L/LL chondrites, similar to the cosmochemical trends suggested by other authors. The behaviour of Fe<sub>2</sub>O<sub>3t</sub> and NiO indicates a relationship with Fe-Ni alloys, and their trend in the diagram suggests some chemical differentiation in the ordinary chondrite parental bodies. The REE content in Varre-Sai, normalized to C chondrites, falls in the field of L chondrites and others, but with slight REE enrichment. The chemical differences in chondrites, mainly in REEs, Fe<sub>2</sub>O<sub>3t</sub> and NiO could be alternatively interpreted as variations in the inherited agglutinated materials as chondrules, Ca–Al-rich inclusions and Fe–Ni nodules.
DOI: 10.6084/m9.figshare.4834199.v1
title: Supplementary Table 4

description: Summary Statistics of Overlap between DNaseI hypersensitive sites (DHS) in Whole Leaf and Bundle Sheath Samples from <i>Sorghum bicolor</i>, <i>Setaria italica</i> and <i>Zea mays.</i>
DOI: 10.6084/m9.figshare.4834229.v1
title: Classifying document types to enhance search and recommendations in digital libraries

description: Taken from "Classifying document types to enhance search and recommendations in digital libraries"<br>https://www.overleaf.com/read/zzzrvmzmwdck<br><br><b>Abstract: </b>In this paper, we address the problem of classifying documents available from the global network of (open access) repositories according to their type. We show that the metadata provided by repositories enabling us to distinguish research papers, thesis and slides are missing in over 60\% of cases. While these metadata describing document types are useful in a variety of scenarios ranging from research analytics to improving search and recommender (SR) systems, this problem has not yet been sufficiently addressed in the context of the repositories infrastructure. We have developed a new approach for classifying document types using supervised machine learning based exclusively on text specific features. We achieve 0.96 F1-score using the random forest and Adaboost classifiers, which are the best performing models on our data. By analysing the SR system logs of the CORE digital library aggregator, we show that users are an order of magnitude more likely to click on research papers and thesis than on slides. This suggests that using document types as a feature for ranking/filtering SR results in digital libraries has the potential to improve user experience.<br><br>The descriptors, as featured in the study, are encoded in the dataset as follows:<br><b>authors_len:</b> Number of authors associated with the document entry.<b>num_of_pages: </b>Number of pages the document has in total.<b>avg_word_per_page:</b> Average words per page in the document.<b>total_words: </b>Total words in the document.<b>source:</b> The online service from which the document originated (can be either "CORE" or "SlideShare").<b>id:</b> Identifier with which the source's API can be queried to retrieve the corresponding document.<b>label:</b> The document's type, from "<b>research</b>", "<b>thesis</b>" or "<b>slides</b>".<br>
DOI: 10.6084/m9.figshare.4834148
title: Deterioration of the anammox process at decreasing temperatures and long SRTs

description: The implementation of autotrophic nitrogen removal in the mainstream of a municipal wastewater treatment plant is currently pursued. Among the crucial unknown factors are the kinetic properties of anaerobic ammonium oxidising (anammox) bacteria at low temperatures. In this study we investigated the adaptation of a fast-growing anammox culture to a lower temperature. In a membrane bioreactor a highly enriched anammox community was obtained at 30°C, 25°C and 20°C. This culture was exposed to long- and short-term temperature changes. In short-term experiments the decrease in biomass-specific activity due to decrease in temperature can be described by an activation energy of 64 ± 28 kJ mol<sup>−1</sup>. Prolonged cultivation (months) implies that cultivation at low temperatures resulted in deterioration of biomass-specific activity (Ea<sup>LT</sup> 239 kJ mol<sup>−1</sup>). The growth rate and specific anammox activity in the system decreased from 0.33 d<sup>−1</sup> and 4.47 g NO<sub>2</sub>-N g VSS<sup>−1</sup> d<sup>−1</sup> at 30°C to 0.0011 d<sup>−1</sup> and 0.037 g NO<sub>2</sub>-N g VSS<sup>−1</sup> d<sup>−1</sup> at 20°C. The reason for the deterioration of the system was related to the required long SRT in the system. The long SRT leads to an increase of non-active and non-anammox cells in the reactor, thereby decreasing the biomass-specific activity.
DOI: 10.6084/m9.figshare.4834148.v1
title: Deterioration of the anammox process at decreasing temperatures and long SRTs

description: The implementation of autotrophic nitrogen removal in the mainstream of a municipal wastewater treatment plant is currently pursued. Among the crucial unknown factors are the kinetic properties of anaerobic ammonium oxidising (anammox) bacteria at low temperatures. In this study we investigated the adaptation of a fast-growing anammox culture to a lower temperature. In a membrane bioreactor a highly enriched anammox community was obtained at 30°C, 25°C and 20°C. This culture was exposed to long- and short-term temperature changes. In short-term experiments the decrease in biomass-specific activity due to decrease in temperature can be described by an activation energy of 64 ± 28 kJ mol<sup>−1</sup>. Prolonged cultivation (months) implies that cultivation at low temperatures resulted in deterioration of biomass-specific activity (Ea<sup>LT</sup> 239 kJ mol<sup>−1</sup>). The growth rate and specific anammox activity in the system decreased from 0.33 d<sup>−1</sup> and 4.47 g NO<sub>2</sub>-N g VSS<sup>−1</sup> d<sup>−1</sup> at 30°C to 0.0011 d<sup>−1</sup> and 0.037 g NO<sub>2</sub>-N g VSS<sup>−1</sup> d<sup>−1</sup> at 20°C. The reason for the deterioration of the system was related to the required long SRT in the system. The long SRT leads to an increase of non-active and non-anammox cells in the reactor, thereby decreasing the biomass-specific activity.
DOI: 10.6084/m9.figshare.4834094
title: Favored and less favored codon–anticodon duplexes arising from the GC codon family box encoding for alanine: some computational perspectives

description: Alanine is encoded by the four codons of the GC box (GCA, GCG, GCU, and GCC). Known alanine anticodons include the UGC, IGC, and VGC triplets (I = inosine; V = uridine-5-oxyacetic acid). The energy-minimized structures of all possible codon–anticodon combinations involving all the alanine codons GCA, GCG, GCU, and GCC with the alanine anticodons UGC, IGC, and VGC are studied using the AMBER software. Fifteen H-bonded duplex structures arising out of these combinations are studied here, all having Watson–Crick-type base pairs at the first and second codon positions, and a variety of base pairing possibilities at the third (or wobble) position. Structural and stability considerations suggest that some codon–anticodon duplexes would be more favored than others for accommodation during the translation process. The UGC anticodon is predicted to favor the GCA codon for reading, while the GCC codon is least favored. The IGC anticodon would prefer to read the GCC codon, the GCG codon being least favored, while a <i>syn</i> conformer for A in the GCA codon could allow for it to be read. For the VGC anticodon, the GCA codon is predicted to be read most favorably, and the GCC codon least favorably, while a <i>syn</i> conformer for V in the anticodon would allow for the codon GCU to be read through a wobble pair which involves the exocyclic 5-oxyacetate group of V in H-bonding.
DOI: 10.6084/m9.figshare.4834094.v1
title: Favored and less favored codon–anticodon duplexes arising from the GC codon family box encoding for alanine: some computational perspectives

description: Alanine is encoded by the four codons of the GC box (GCA, GCG, GCU, and GCC). Known alanine anticodons include the UGC, IGC, and VGC triplets (I = inosine; V = uridine-5-oxyacetic acid). The energy-minimized structures of all possible codon–anticodon combinations involving all the alanine codons GCA, GCG, GCU, and GCC with the alanine anticodons UGC, IGC, and VGC are studied using the AMBER software. Fifteen H-bonded duplex structures arising out of these combinations are studied here, all having Watson–Crick-type base pairs at the first and second codon positions, and a variety of base pairing possibilities at the third (or wobble) position. Structural and stability considerations suggest that some codon–anticodon duplexes would be more favored than others for accommodation during the translation process. The UGC anticodon is predicted to favor the GCA codon for reading, while the GCC codon is least favored. The IGC anticodon would prefer to read the GCC codon, the GCG codon being least favored, while a <i>syn</i> conformer for A in the GCA codon could allow for it to be read. For the VGC anticodon, the GCA codon is predicted to be read most favorably, and the GCC codon least favorably, while a <i>syn</i> conformer for V in the anticodon would allow for the codon GCU to be read through a wobble pair which involves the exocyclic 5-oxyacetate group of V in H-bonding.
DOI: 10.6084/m9.figshare.4834049
title: Insights into the human brain proteome: Disclosing the biological meaning of protein networks in cerebrospinal fluid

description: Cerebrospinal fluid (CSF) is an excellent source of biological information regarding the nervous system, once it is in close contact and accurately reflects alterations in this system. Several studies have analyzed differential protein profiles of CSF samples between healthy and diseased human subjects. However, the pathophysiological mechanisms and how CSF proteins relate to diseases are still poorly known. By applying bioinformatics tools, we attempted to provide new insights on the biological and functional meaning of proteomics data envisioning the identification of putative disease biomarkers. Bioinformatics analysis of data retrieved from 99 mass spectrometry (MS)-based studies on CSF profiling highlighted 1985 differentially expressed proteins across 49 diseases. A large percentage of the modulated proteins originate from exosome vesicles, and the majority are involved in either neuronal cell growth, development, maturation, migration, or neurotransmitter-mediated cellular communication. Nevertheless, some diseases present a unique CSF proteome profile, which were critically analyzed in the present study. For instance, 48 proteins were found exclusively upregulated in the CSF of patients with Alzheimer’s disease and are mainly involved in steroid esterification and protein activation cascade processes. A higher number of exclusively upregulated proteins were found in the CSF of patients with multiple sclerosis (76 proteins) and with bacterial meningitis (70 proteins). Whereas in multiple sclerosis, these proteins are mostly involved in the regulation of RNA metabolism and apoptosis, in bacterial meningitis the exclusively upregulated proteins participate in inflammation and antibacterial humoral response, reflecting disease pathogenesis. The exploration of the contribution of exclusively upregulated proteins to disease pathogenesis will certainly help to envision potential biomarkers in the CSF for the clinical management of nervous system diseases.