cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4987184.v1
title: Browne and Karubian 2018 - Rare genotype advantage promotes survival and genetic diversity of a tropical palm

description: Data on survival and genotype of <i>Oenocarpus bataua</i> seeds and seedlings from Bilsa Biological Reserve, Esmeraldas Province, Ecuador.
DOI: 10.6084/m9.figshare.4987067
title: Flow cytometric measurement of the cellular propagation of TDP-43 aggregation

description: Amyotrophic lateral sclerosis is a devastating neuromuscular degenerative disease characterized by a focal onset of motor neuron loss, followed by contiguous outward spreading of pathology including TAR DNA-binding protein of 43 kDa (TDP-43) aggregates. Previous work suggests that TDP-43 can move between cells. Here we used a novel flow cytometry technique (FloIT) to analyze TDP-43 inclusions and propagation. When cells were transfected to express either mutant G294A TDP-43 fused to GFP or wild type TDP-43fused to tomato red and then co-cultured, flow cytometry detected intact cells containing both fusion proteins and using FloIT detected an increase in the numbers of inclusions in lysates from cells expressing wild type TDP-43-tomato. Furthermore, in this same model, FloIT analyses detected inclusions containing both fusion proteins. These results imply the transfer of TDP-43 fusion proteins between cells and that this process can increase aggregation of wild-type TDP-43 by a mechanism involving co-aggregation with G294A TDP-43.
DOI: 10.6084/m9.figshare.4987067.v2
title: Flow cytometric measurement of the cellular propagation of TDP-43 aggregation

description: Amyotrophic lateral sclerosis is a devastating neuromuscular degenerative disease characterized by a focal onset of motor neuron loss, followed by contiguous outward spreading of pathology including TAR DNA-binding protein of 43 kDa (TDP-43) aggregates. Previous work suggests that TDP-43 can move between cells. Here we used a novel flow cytometry technique (FloIT) to analyze TDP-43 inclusions and propagation. When cells were transfected to express either mutant G294A TDP-43 fused to GFP or wild type TDP-43fused to tomato red and then co-cultured, flow cytometry detected intact cells containing both fusion proteins and using FloIT detected an increase in the numbers of inclusions in lysates from cells expressing wild type TDP-43-tomato. Furthermore, in this same model, FloIT analyses detected inclusions containing both fusion proteins. These results imply the transfer of TDP-43 fusion proteins between cells and that this process can increase aggregation of wild-type TDP-43 by a mechanism involving co-aggregation with G294A TDP-43.
DOI: 10.6084/m9.figshare.4987067.v1
title: Flow Cytometric Measurement of the Cellular Propagation of TDP-43 aggregation

description: Amyotrophic lateral sclerosis is a devastating neuromuscular degenerative disease characterised by a focal onset of motor neuron loss, followed by contiguous outward spreading of pathology including TAR DNA-binding protein of 43 kDa (TDP-43) aggregates. Previous work suggests that TDP-43 can move between cells. Here we used a novel flow cytometry technique (FloIT) to analyse TDP-43 inclusions and propagation. When cells were transfected to express either mutant G294A TDP-43 fused to GFP or wild type TDP-43fused to tomato red and then co-cultured, flow cytometry detected intact cells containing both fusion proteins and using FloIT detected an increase in the numbers of inclusions in lysates from cells expressing wild type TDP-43-tomato. Furthermore, in this same model, FloIT analyses detected inclusions containing both fusion proteins. These results imply the transfer of TDP-43 fusion proteins between cells and that this process can increase aggregation of wild-type TDP-43 by a mechanism involving co-aggregation with G294A TDP-43.
DOI: 10.6084/m9.figshare.4986995
title: Public Data HLoHCR.zip

description: This folder includes all data necessary to understand and replicate the findings presented in the paper "Hebbian Learning of Hand-Centred Representations in a Hierarchical Neural Network Model of the Primate Visual System".<br>This includes the code to implement the model we use, the workaround to run simulations, the simulation results and the statistical tools to analyse the results.<br><br>
DOI: 10.6084/m9.figshare.4986995.v1
title: Public Data HLoHCR.zip

description: This folder includes all data necessary to understand and replicate the findings presented in the paper "Hebbian Learning of Hand-Centred Representations in a Hierarchical Neural Network Model of the Primate Visual System".<br>This includes the code to implement the model we use, the workaround to run simulations, the simulation results and the statistical tools to analyse the results.<br><br>
DOI: 10.6084/m9.figshare.4986737
title: UK Whooping Timings.mat

description: This is a .m file containing the Unix Epoch timings of all Whooping Signals detected from the 2014 UK dataset.
DOI: 10.6084/m9.figshare.4986737.v1
title: UK Whooping Timings.mat

description: This is a .m file containing the Unix Epoch timings of all Whooping Signals detected from the 2014 UK dataset.
DOI: 10.6084/m9.figshare.4986725
title: UK Weather Data 2014

description: Excel Spreadsheet of UK weather data from July 2014. The Collumn titles are at the bottom of each collumn.
DOI: 10.6084/m9.figshare.4986734
title: Unix Epoch timings of all whooping signals detected by our software from the Jarnioux dataset.

description: This is a .m file containing all the timings of honeybee whooping signas detected by our software from the Jarnioux hive
DOI: 10.6084/m9.figshare.4986734.v1
title: Unix Epoch timings of all whooping signals detected by our software from the Jarnioux dataset.

description: This is a .m file containing all the timings of honeybee whooping signas detected by our software from the Jarnioux hive
DOI: 10.6084/m9.figshare.4986653
title: Successions of Microbioeroding Communities over a Year Period with a Monthly Resolution : Impact on Biogenic Dissolution in Dead Corals (New Caledonia) - Poster

description: AGU-Ocean Science Meeting. Feb. 2014. Hawaii.
DOI: 10.6084/m9.figshare.4986653.v1
title: Successions of Microbioeroding Communities over a Year Period with a Monthly Resolution : Impact on Biogenic Dissolution in Dead Corals (New Caledonia) - Poster

description: AGU-Ocean Science Meeting. Feb. 2014. Hawaii.
DOI: 10.6084/m9.figshare.4986548
title: 1D MKP aproximace funkce

description: 1D aproximace funkce pomoci MKP - vyukovy text
DOI: 10.6084/m9.figshare.4986545
title: Simulations of secondary contact after range expansion and a barrier to gene flow

description: We use coalescent simulations to investigate if DNA data sampled at present can provide enough information to distinguish between secondary contact following range expansion and a barrier to gene flow in an isolation-by-distance model.<br><br>The data was simulated with ms (Hudson, Bioinformatics, 2002). The command that invoked ms (including the seed) and the simulated data are provided. For each simulation, the ms output was parsed into two files that are directly used for the analysis.<br>100 unlinked loci were simulated, where each of them contains 100 SNPs. For each of the 100 demes, 4 or 20 chromosomes are simulated.<br>A detailed description of the archives and files can be found in readme.txt.<br>
DOI: 10.6084/m9.figshare.4986551.v1
title: Science and Facebook: the same popularity law!

description: "Science and Facebook: the same popularity law!" data for figures 1 and 3.<br>Abstract:<br>The distribution of scientific citations for publications selected with different rules (author, topic, institution, country, journal, etc...) collapse on a single curve if one plots the citations relative to their mean value. We find that the distribution of “shares” fo the Facebook posts rescale in the same manner to the very same curve with scientific citations. This finding suggests that citations are subjected to the same growth mechanism with Facebook popularity measures, being influenced by a statistically similar social environment and selection mechanism. In a simple master equation approach the exponential growth of the number of publications and a preferential selection mechanism leads to a Tsallis-Pareto distribution offering an excellent description for the observed statistics. Based on our model and on the data derived from PubMed we predict that according to the present trend the average citations per scientific publications exponentially relaxes to about 4.
DOI: 10.6084/m9.figshare.4986545.v1
title: Simulations of secondary contact after range expansion and a barrier to gene flow

description: We use coalescent simulations to investigate if DNA data sampled at present can provide enough information to distinguish between secondary contact following range expansion and a barrier to gene flow in an isolation-by-distance model.<br><br>The data was simulated with ms (Hudson, Bioinformatics, 2002). The command that invoked ms (including the seed) and the simulated data are provided. For each simulation, the ms output was parsed into two files that are directly used for the analysis.<br>100 unlinked loci were simulated, where each of them contains 100 SNPs. For each of the 100 demes, 4 or 20 chromosomes are simulated.<br>A detailed description of the archives and files can be found in readme.txt.<br>
DOI: 10.6084/m9.figshare.4986458
title: Estimating net primary productivity in tropical forest plantations in India using satellite-driven ecosystem model

description: Net Primary Productivity (NPP) is a significant biophysical vegetation variable to understand the spatio-temporal distribution of carbon and source-sink nature of the ecosystem. This study was carried out in a forest plantation area and aimed to (i) estimate the spatio-temporal patterns of NPP during 2009 and 2010 using Carnegie-Ames-Stanford Approach [CASA] model and (ii) study the effects of climate variables on the NPP using generalized linear modelling (GLM) approach. The total annual NPP varied from 157.21 to 1030.89 gC m<sup>−2</sup> yr<sup>−1</sup> for the year 2009 and from 154.36 to 1124.85 g C m<sup>−2</sup> yr<sup>−1</sup> for the year 2010. The annual NPP was assessed across four major plantation types, where maximum NPP gain (106 and 139 g C m<sup>−2</sup> yr<sup>−1</sup> ) in October was noticed in teak (<i>Tectona grandis</i>) and minimum (77 and 109 g C m<sup>−2</sup> yr<sup>−1</sup> ) in eucalyptus (<i>Eucalyptus hybrid</i>) during 2009 and 2010.The validation, using field-estimated NPP, showed under-estimation of modelled NPP, with maximum MAPE of 34% for eucalyptus and minimum of 13% for teak. The dominant influence of precipitation on the NPP was revealed by GLM explaining more than 20% of variation. CASA model efficiently estimated the annual NPP of plantations. The accuracy could be improved further with inclusion of higher resolution data.
DOI: 10.6084/m9.figshare.4986389
title: Polarized Optical Microscopy (POM)images

description: The synthesized mesophases were first characterized by polarized optical microscopy (POM) imaging and results are uploaded using Nikon ECLIPSE LV 100 POL microscope. A high intensity 50 W halogen light source was used for optical microscopy.The focal conic texture is the important characteristic of the hexagonal liquid crystals.
DOI: 10.6084/m9.figshare.4986368
title: Task-oriented complex alignments on conference organisation

description: This archive contains two complex alignment sets between 5 ontologies of the OAEI conference track dataset : cmt, conference, confOf, edas and ekaw. <br><br>One alignment set is designed for <i>ontology merging.<br></i>The other alignment set is designed for <i>query rewriting.</i><br><br>The alignments were manually created following a methodology.<br><br>The dataset is structured as follow:<br><b><i>- Readme.md</i></b>: Readme file detailing the structure of the files <br><i><b>- Conference_track_ontologies</b></i>: The ontologies of the conference track dataset<br><i>- <b>Ontology_merging</b></i>: The alignments created in the purpose of ontology merging in 3 formats: First order logic (FOL), EDOAL and OWL axioms.<br><i>- <b>Query_rewriting</b>:</i> The alignments created in the purpose of query rewriting in 2 formats: FOL and EDOAL.- <i>approaches_output.ods</i>: Output of 3 approaches on this dataset:<br> - <i>Ritze2009: </i>Ritze, D., Meilicke, C., Sváb-Zamazal, O., & Stuckenschmidt, H. (2009, October). A pattern-based ontology matching approach for detecting complex correspondences. In <i>ISWC Workshop on Ontology Matching, Chantilly (VA US)</i> (pp. 25-36).<br> - <i>Ritze 2010: </i>Ritze, D., Völker, J., Meilicke, C., & Sváb-Zamazal, O. (2010). Linguistic analysis for complex ontology matching. In <i>CEUR Workshop Proceedings</i> (Vol. 689, pp. Paper-1). RWTH.<br> - <i>Jiang2016: </i>Jiang, S., Lowd, D., Kafle, S., & Dou, D. (2016). Ontology matching with knowledge rules. In <i>Transactions on Large-Scale Data-and Knowledge-Centered Systems XXVIII</i> (pp. 75-95). Springer, Berlin, Heidelberg.<br><br><br><br>
DOI: 10.6084/m9.figshare.4986365
title: RADAR: A novel fast-screening method for reading difficulties with special focus on dyslexia

description: We introduce a novel, fast, objective, non-invasive method, named Rapid Assessment of Difficulties and Abnormalities in Reading (RADAR) that screens for features associated with the aberrant visual scanning of reading text, seen in dyslexia. Eye tracking parameter measurements that are stable under retest and have high discriminative power, as indicated by their ROC (Receiver Operating Characteristic) curves, were obtained during silent text reading. Analysis of eye movement parameters obtained with RADAR during reading will likely be useful for implementing individualized treatment strategies and for monitoring objectively the success of chosen interventions.<br>
DOI: 10.6084/m9.figshare.4986389.v2
title: Polarized Optical Microscopy (POM)images

description: The synthesized mesophases were first characterized by polarized optical microscopy (POM) imaging and results are uploaded using Nikon ECLIPSE LV 100 POL microscope. A high intensity 50 W halogen light source was used for optical microscopy.The focal conic texture is the important characteristic of the hexagonal liquid crystals.
DOI: 10.6084/m9.figshare.4986359
title: The distribution of vinculin to lipid rafts plays an important role in sensing stiffness of extracellular matrix

description: Extracellular matrix (ECM) stiffness regulates cell differentiation, survival, and migration. Our previous study has shown that the interaction of the focal adhesion protein vinculin with vinexin α plays a critical role in sensing ECM stiffness and regulating stiffness-dependent cell migration. However, the mechanism how vinculin–vinexin α interaction affects stiffness-dependent cell migration is unclear. Lipid rafts are membrane microdomains that are known to affect ECM-induced signals and cell behaviors. Here, we show that vinculin and vinexin α can localize to lipid rafts. Cell-ECM adhesion, intracellular tension, and a rigid ECM promote vinculin distribution to lipid rafts. The disruption of lipid rafts with Methyl-β-cyclodextrin impaired the ECM stiffness-mediated regulation of vinculin behavior and rapid cell migration on rigid ECM. These results indicate that lipid rafts play an important role in ECM-stiffness regulation of cell migration via vinculin. Vinculin is in non-raft on soft ECM. Rigid ECM promotes vinculin binding to vinexin α and PIP<sub>2</sub>, leading to distribution to raft and enhanced migration
DOI: 10.6084/m9.figshare.4986356
title: Identification and positional distribution analysis of transcription factor binding sites for genes from the wheat fl-cDNA sequences

description: The binding sites of transcription factors (TFs) in upstream DNA regions are called transcription factor binding sites (TFBSs). TFBSs are important elements for regulating gene expression. To date, there have been few studies on the profiles of TFBSs in plants. In total, 4,873 sequences with 5ʹ upstream regions from 8530 wheat fl-cDNA sequences were used to predict TFBSs. We found 4572 TFBSs for the MADS TF family, which was twice as many as for bHLH (1951), B3 (1951), HB superfamily (1914), ERF (1820), and AP2/ERF (1725) TFs, and was approximately four times higher than the remaining TFBS types. The percentage of TFBSs and TF members showed a distinct distribution in different tissues. Overall, the distribution of TFBSs in the upstream regions of wheat fl-cDNA sequences had significant difference. Meanwhile, high frequencies of some types of TFBSs were found in specific regions in the upstream sequences. Both TFs and fl-cDNA with TFBSs predicted in the same tissues exhibited specific distribution preferences for regulating gene expression. The tissue-specific analysis of TFs and fl-cDNA with TFBSs provides useful information for functional research, and can be used to identify relationships between tissue-specific TFs and fl-cDNA with TFBSs. Moreover, the positional distribution of TFBSs indicates that some types of wheat TFBS have different positional distribution preferences in the upstream regions of genes. Identification and positional distribution analysis of transcription factor binding sites for genes from the wheat fl-cDNA sequences
DOI: 10.6084/m9.figshare.4986365.v1
title: RADAR: A novel fast-screening method for reading difficulties with special focus on dyslexia

description: We introduce a novel, fast, objective, non-invasive method, named Rapid Assessment of Difficulties and Abnormalities in Reading (RADAR) that screens for features associated with the aberrant visual scanning of reading text, seen in dyslexia. Eye tracking parameter measurements that are stable under retest and have high discriminative power, as indicated by their ROC (Receiver Operating Characteristic) curves, were obtained during silent text reading. Analysis of eye movement parameters obtained with RADAR during reading will likely be useful for implementing individualized treatment strategies and for monitoring objectively the success of chosen interventions.<br>
DOI: 10.6084/m9.figshare.4986356.v1
title: Identification and positional distribution analysis of transcription factor binding sites for genes from the wheat fl-cDNA sequences

description: The binding sites of transcription factors (TFs) in upstream DNA regions are called transcription factor binding sites (TFBSs). TFBSs are important elements for regulating gene expression. To date, there have been few studies on the profiles of TFBSs in plants. In total, 4,873 sequences with 5ʹ upstream regions from 8530 wheat fl-cDNA sequences were used to predict TFBSs. We found 4572 TFBSs for the MADS TF family, which was twice as many as for bHLH (1951), B3 (1951), HB superfamily (1914), ERF (1820), and AP2/ERF (1725) TFs, and was approximately four times higher than the remaining TFBS types. The percentage of TFBSs and TF members showed a distinct distribution in different tissues. Overall, the distribution of TFBSs in the upstream regions of wheat fl-cDNA sequences had significant difference. Meanwhile, high frequencies of some types of TFBSs were found in specific regions in the upstream sequences. Both TFs and fl-cDNA with TFBSs predicted in the same tissues exhibited specific distribution preferences for regulating gene expression. The tissue-specific analysis of TFs and fl-cDNA with TFBSs provides useful information for functional research, and can be used to identify relationships between tissue-specific TFs and fl-cDNA with TFBSs. Moreover, the positional distribution of TFBSs indicates that some types of wheat TFBS have different positional distribution preferences in the upstream regions of genes. Identification and positional distribution analysis of transcription factor binding sites for genes from the wheat fl-cDNA sequences
DOI: 10.6084/m9.figshare.4986368.v1
title: Complex alignment dataset on conference organisation

description: This dataset is composed of 3 ontologies of the OAEI conference Track dataset : cmt, conference and edas.<br>The alignments between these ontologies were manually created.<br>The coherence of the alignments was verified by merging the ontologies pair-wise. The merged ontologies are available.<br>The alignments are available in FOL (.txt) and in EDOAL (.edoal), an extension of the Alignment format used in the Alignment API.<br><br><b>Useful links:</b><br>EDOAL : http://alignapi.gforge.inria.fr/edoal.html<br>OAEI : http://oaei.ontologymatching.org/<br>Alignment API : http://alignapi.gforge.inria.fr/<br>Conference Track : http://oaei.ontologymatching.org/2016/conference/index.html<br>
DOI: 10.6084/m9.figshare.4986335
title: AFM images

description: AFM analyses of Pristine Graphene (G) samples were GPd<sub>0.001M </sub>(Graphene palladium nanocomposite) performed in non-contact mode on a commercial Agilent SPM 5500 with suitable probes in a temperature-controlled room (25 °C) under atmospheric conditions. The datas produced during this study shows the thin graphene sheet formation.
DOI: 10.6084/m9.figshare.4986368.v2
title: Complex alignment dataset on conference organisation

description: This dataset is composed of 3 ontologies of the OAEI conference Track dataset : cmt, conference and edas.<br>The alignments between these ontologies were manually created.<br>The coherence of the alignments was verified by merging the ontologies pair-wise. The merged ontologies are available.<br>The alignments are available in FOL (.txt) and in EDOAL (.edoal), an extension of the Alignment format used in the Alignment API.<br><br><b>Useful links:</b><br>EDOAL : http://alignapi.gforge.inria.fr/edoal.html<br>OAEI : http://oaei.ontologymatching.org/<br>Alignment API : http://alignapi.gforge.inria.fr/<br>Conference Track : http://oaei.ontologymatching.org/2016/conference/index.html<br>
DOI: 10.6084/m9.figshare.4986212
title: Data for manuscript "Spatial Planning for a Green Economy: National-level Hydrologic Ecosystem Services Priority Areas for Gabon"

description: These data support the manuscript under review at <i>PLoS ONE</i> titled "Spatial Planning for a Green Economy: National-level Hydrologic Ecosystem Services Priority Areas for Gabon". A description of the individual datasets included in the data archive is provided in the PDF titled "Description of data files for Goldstein et al manuscript".<br>