cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3578055.v3
title: Identification, visualization and clonal analysis of intestinal stem cells in fish

description: <b>Movie 1: The rostral part of the medaka intestinal tract. </b> A 3D view of X-ray data starting from the buccal cavity and going through the mid-gut reveals distinct topographical regions along the rostro-­‐caudal axis. <b> </b> <b>Movie 2: The caudal part of the medaka intestinal tract. </b> A 3D view of X-ray data from the hind-gut indicating the narrower passage in the caudal part of the intestine with smaller folds. <b>Movie 3: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (10dpi) </b> MuVi-Spim 3D visualization of a gut segment at 10days after induction shows already labeling of strings of clonally related groups representing the stem cells and their descendants (green). <b>Movie 4: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (30dpi) </b> MuVi-Spim 3D visualization of a gut segment at 30 days after induction showing intestinal folds that are either broadly labelled by H2B-­‐ EGFP (green), or not at all (grey) indicating longitudinal expansion of the clones. <b> </b> <b>Movie 5: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (150dpi)</b> MuVi-Spim 3D visualization of a gut segment at 150 days after induction. Two large clones (in green) established by symmetric division and neutral drift. <b>Movie 6: The Gaudí<i><sup>Lx</sup></i></b><b><i>BB</i></b><b><i>W</i> hsp70:nlsCRE (90dpi)</b> MuVi-Spim 3D visualization of a gut segment 90 days after induction shows that stochastically triggered clonal multi-color labeling results in adjacent clones of different sizes discernible by different fluorescent proteins demonstrated in this movie by yellow, green, blue and purple color.<b></b>
DOI: 10.6084/m9.figshare.3578055.v4
title: Identification, visualization and clonal analysis of intestinal stem cells in fish

description: <b>Movie 1: The rostral part of the medaka intestinal tract. </b> A 3D view of X-ray data starting from the buccal cavity and going through the mid-gut reveals distinct topographical regions along the rostro-­‐caudal axis. <b> </b> <b>Movie 2: The caudal part of the medaka intestinal tract. </b> A 3D view of X-ray data from the hind-gut indicating the narrower passage in the caudal part of the intestine with smaller folds. <b>Movie 3: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (10dpi) </b> MuVi-Spim 3D visualization of a gut segment at 10days after induction shows already labeling of strings of clonally related groups representing the stem cells and their descendants (green). <b>Movie 4: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (30dpi) </b> MuVi-Spim 3D visualization of a gut segment at 30 days after induction showing intestinal folds that are either broadly labelled by H2B-­‐ EGFP (green), or not at all (grey) indicating longitudinal expansion of the clones. <b> </b> <b>Movie 5: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (150dpi)</b> MuVi-Spim 3D visualization of a gut segment at 150 days after induction. Two large clones (in green) established by symmetric division and neutral drift. <b>Movie 6: The Gaudí<i><sup>Lx</sup></i></b><b><i>BB</i></b><b><i>W</i> hsp70:nlsCRE (90dpi)</b> MuVi-Spim 3D visualization of a gut segment 90 days after induction shows that stochastically triggered clonal multi-color labeling results in adjacent clones of different sizes discernible by different fluorescent proteins demonstrated in this movie by yellow, green, blue and purple color.<b></b>
DOI: 10.6084/m9.figshare.3578055.v5
title: Identification, visualization and clonal analysis of intestinal stem cells in fish

description: <b>Movie 1: The rostral part of the medaka intestinal tract. </b> A 3D view of X-ray data starting from the buccal cavity and going through the mid-gut reveals distinct topographical regions along the rostro-­‐caudal axis. <b> </b> <b>Movie 2: The caudal part of the medaka intestinal tract. </b> A 3D view of X-ray data from the hind-gut indicating the narrower passage in the caudal part of the intestine with smaller folds. <b>Movie 3: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (10dpi) </b> MuVi-Spim 3D visualization of a gut segment at 10days after induction shows already labeling of strings of clonally related groups representing the stem cells and their descendants (green). <b>Movie 4: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (30dpi) </b> MuVi-Spim 3D visualization of a gut segment at 30 days after induction showing intestinal folds that are either broadly labelled by H2B-­‐ EGFP (green), or not at all (grey) indicating longitudinal expansion of the clones. <b> </b> <b>Movie 5: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (150dpi)</b> MuVi-Spim 3D visualization of a gut segment at 150 days after induction. Two large clones (in green) established by symmetric division and neutral drift. <b>Movie 6: The Gaudí<i><sup>Lx</sup></i></b><b><i>BB</i></b><b><i>W</i> hsp70:nlsCRE (90dpi)</b> MuVi-Spim 3D visualization of a gut segment 90 days after induction shows that stochastically triggered clonal multi-color labeling results in adjacent clones of different sizes discernible by different fluorescent proteins demonstrated in this movie by yellow, green, blue and purple color.<b></b>
DOI: 10.6084/m9.figshare.3578055.v7
title: Identification, visualization and clonal analysis of intestinal stem cells in fish

description: <b>Movie 1: The rostral part of the medaka intestinal tract. </b> A 3D view of X-ray data starting from the buccal cavity and going through the mid-gut reveals distinct topographical regions along the rostro-­‐caudal axis. <b> </b> <b>Movie 2: The caudal part of the medaka intestinal tract. </b> A 3D view of X-ray data from the hind-gut indicating the narrower passage in the caudal part of the intestine with smaller folds. <b>Movie 3: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (10dpi) </b> MuVi-Spim 3D visualization of a gut segment at 10days after induction shows already labeling of strings of clonally related groups representing the stem cells and their descendants (green). <b>Movie 4: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (30dpi) </b> MuVi-Spim 3D visualization of a gut segment at 30 days after induction showing intestinal folds that are either broadly labelled by H2B-­‐ EGFP (green), or not at all (grey) indicating longitudinal expansion of the clones. <b> </b> <b>Movie 5: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (150dpi)</b> MuVi-Spim 3D visualization of a gut segment at 150 days after induction. Two large clones (in green) established by symmetric division and neutral drift. <b>Movie 6: The Gaudí<i><sup>Lx</sup></i></b><b><i>BB</i></b><b><i>W</i> hsp70:nlsCRE (90dpi)</b> MuVi-Spim 3D visualization of a gut segment 90 days after induction shows that stochastically triggered clonal multi-color labeling results in adjacent clones of different sizes discernible by different fluorescent proteins demonstrated in this movie by yellow, green, blue and purple color.<b></b>
DOI: 10.6084/m9.figshare.3578055.v6
title: Identification, visualization and clonal analysis of intestinal stem cells in fish

description: <b>Movie 1: The rostral part of the medaka intestinal tract. </b> A 3D view of X-ray data starting from the buccal cavity and going through the mid-gut reveals distinct topographical regions along the rostro-­‐caudal axis. <b> </b> <b>Movie 2: The caudal part of the medaka intestinal tract. </b> A 3D view of X-ray data from the hind-gut indicating the narrower passage in the caudal part of the intestine with smaller folds. <b>Movie 3: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (10dpi) </b> MuVi-Spim 3D visualization of a gut segment at 10days after induction shows already labeling of strings of clonally related groups representing the stem cells and their descendants (green). <b>Movie 4: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (30dpi) </b> MuVi-Spim 3D visualization of a gut segment at 30 days after induction showing intestinal folds that are either broadly labelled by H2B-­‐ EGFP (green), or not at all (grey) indicating longitudinal expansion of the clones. <b> </b> <b>Movie 5: The Gaudí</b><b><i>RS</i></b><b><i>Gubiquitin</i>:<sup>ERT2</sup>Cre (150dpi)</b> MuVi-Spim 3D visualization of a gut segment at 150 days after induction. Two large clones (in green) established by symmetric division and neutral drift. <b>Movie 6: The Gaudí<i><sup>Lx</sup></i></b><b><i>BB</i></b><b><i>W</i> hsp70:nlsCRE (90dpi)</b> MuVi-Spim 3D visualization of a gut segment 90 days after induction shows that stochastically triggered clonal multi-color labeling results in adjacent clones of different sizes discernible by different fluorescent proteins demonstrated in this movie by yellow, green, blue and purple color.<b></b>
DOI: 10.6084/m9.figshare.3574416.v2
title: A new framework for the measurement of biodiversity (MoB) decomposes changes in species richness into scale-specific components

description: Talk presented at the Ecological Society of America 2016 annual meeting (Aug. 2016).<b>Background/Question/Methods</b> Little consensus has emerged regarding how various drivers (e.g., productivity, disturbance, temperature) influence species richness. This is due in part to the fact that the majority of studies examine richness at a single scale and ignore how the underlying components of richness vary. We propose a new framework for the measurement of biodiversity (MoB) which decomposes scale-specific changes in richness into components attributed to: 1) the number of sampled individuals, 2) the degree of evenness, and 3) the degree of intraspecific spatial aggregation. MoB accomplishes the richness decomposition using a nested comparison of individual-based, sample-based, and spatially explicit sample-based rarefaction curves. Each curve provides some unique scale-specific information on the underlying components of richness. We demonstrate our new framework by examining plant richness in invaded and uninvaded grasslands. <b>Results/Conclusions</b> The traditional single-scale analysis of average species richness indicated that invaded sites had fewer species, but rarefying richness to an equivalent number of individuals between the treatments suggests that the invaded sites actually have more species. In contrast to these contradictory, single scale results our MoB analysis uncovered scale-consistent signatures that invasion resulted in higher evenness (i.e., a positive effect on biodiversity) but lower individual density (i.e., a negative effect on biodiversity). Invasion does not appear to influence richness via changes to intraspecific spatial aggregation in our study sites. The application of the MoB approach demonstrates how species accumulation curves can be used to decompose changes in richness into its underlying components which provides greater ecological insight. Additionally, MoB can be used to decipher seemly contradicting conclusions from single scale analyses. This general approach can also be applied to other metrics of biodiversity (e.g., phylogenetic and functional diversity) that can be examined using accumulation curves. We believe that it is critical for biodiversity analyses to explicitly incorporate scale, and to recognize that changes in richness can be driven by different components of biodiversity.
DOI: 10.6084/m9.figshare.3574416.v3
title: A new framework for the measurement of biodiversity (MoB) decomposes changes in species richness into scale-specific components

description: Talk presented at the Ecological Society of America 2016 annual meeting (Aug. 2016).<b>Background/Question/Methods</b> Little consensus has emerged regarding how various drivers (e.g., productivity, disturbance, temperature) influence species richness. This is due in part to the fact that the majority of studies examine richness at a single scale and ignore how the underlying components of richness vary. We propose a new framework for the measurement of biodiversity (MoB) which decomposes scale-specific changes in richness into components attributed to: 1) the number of sampled individuals, 2) the degree of evenness, and 3) the degree of intraspecific spatial aggregation. MoB accomplishes the richness decomposition using a nested comparison of individual-based, sample-based, and spatially explicit sample-based rarefaction curves. Each curve provides some unique scale-specific information on the underlying components of richness. We demonstrate our new framework by examining plant richness in invaded and uninvaded grasslands. <b>Results/Conclusions</b> The traditional single-scale analysis of average species richness indicated that invaded sites had fewer species, but rarefying richness to an equivalent number of individuals between the treatments suggests that the invaded sites actually have more species. In contrast to these contradictory, single scale results our MoB analysis uncovered scale-consistent signatures that invasion resulted in higher evenness (i.e., a positive effect on biodiversity) but lower individual density (i.e., a negative effect on biodiversity). Invasion does not appear to influence richness via changes to intraspecific spatial aggregation in our study sites. The application of the MoB approach demonstrates how species accumulation curves can be used to decompose changes in richness into its underlying components which provides greater ecological insight. Additionally, MoB can be used to decipher seemly contradicting conclusions from single scale analyses. This general approach can also be applied to other metrics of biodiversity (e.g., phylogenetic and functional diversity) that can be examined using accumulation curves. We believe that it is critical for biodiversity analyses to explicitly incorporate scale, and to recognize that changes in richness can be driven by different components of biodiversity.
DOI: 10.17633/rd.brunel.3574341
title: Raman analysis of both Graphene and bare Ag/AgCl electrodes

description: A number of Raman spectroscopy images were obtained for graphene coated Ag/AgCl and bare Ag/AgCl are shown in these images. A summary figure which explains the difference of the graphene coating also presented in the data set.
DOI: 10.17633/rd.brunel.3574341.v1
title: Raman analysis of both Graphene and bare Ag/AgCl electrodes

description: A number of Raman spectroscopy images were obtained for graphene coated Ag/AgCl and bare Ag/AgCl are shown in these images. A summary figure which explains the difference of the graphene coating also presented in the data set.
DOI: 10.6084/m9.figshare.3574239
title: exampleDataMDA

description: see also: https://github.com/stnava/exampleDataMDA
DOI: 10.6084/m9.figshare.3574239.v1
title: exampleDataMDA

description: see also: https://github.com/stnava/exampleDataMDA
DOI: 10.6084/m9.figshare.3574173
title: Brain Colour Scales

description: This is a simple set of 4 csv files. Each ones is 124 long with 3 columns for RGB channels. THese four colour scales follow the recommendations of Christen et al. (2013) but use cubehelix (https://www.mrao.cam.ac.uk/~dag/CUBEHELIX/) as to have intensity increase and not just colour change, which is more colour-blind friendly.<br><br>Christen et al. (2013) Colorful brains: 14 years of display practice in functional neuroimaging, NeuroImage, 73, 30-39, http://dx.doi.org/10.1016/j.neuroimage.2013.01.068.
DOI: 10.6084/m9.figshare.3574173.v1
title: Brain Colour Scales

description: This is a simple set of 4 csv files. Each ones is 124 long with 3 columns for RGB channels. THese four colour scales follow the recommendations of Christen et al. (2013) but use cubehelix (https://www.mrao.cam.ac.uk/~dag/CUBEHELIX/) as to have intensity increase and not just colour change, which is more colour-blind friendly.<br><br>Christen et al. (2013) Colorful brains: 14 years of display practice in functional neuroimaging, NeuroImage, 73, 30-39, http://dx.doi.org/10.1016/j.neuroimage.2013.01.068.
DOI: 10.6084/m9.figshare.3574170
title: toth_janos.pdf

description: In the literature of sociology of religion, there is a considerable scarcity of recent thematic meta-analyses. In this paper, we demonstrate the usefulness of such analyses to study thematic and spatial patterns of Christianity-focused results presented in high-impact journals. First, we created a new sampling and data cleaning protocol for collecting and selecting data from EBSCO and journal websites. Categorization was inductive and based on Grounded Theory. During the process, we identified eleven major themes in Christianity-focused research; each of these further divided into subtopics. Than all selected articles were further investigated in terms of first author affiliation, journal editor affiliation and journal publisher’s geographic location. Results shows that the analysis we have performed concerning 160 articles published in „A”-category international journals provided not only a structured overview of current themes in Christianity-focused research within the field, but also identified a major anglo-saxon research environment bias valid through both religion-specific and general studies.
DOI: 10.17632/mvd6wsf6c7.1
title: Second moment of proton NMR line of hambergite as a function of orientation in the external magnetic field

description: The data for the article entitled "1H NMR in a quasi-one-dimensional zig-zag spin chain of hambergite, Be2BO3(OH)" (DOI: 10.1016/j.jmr.2020.106816). Calculated second moment for 3x3x3 supercell.
DOI: 10.6084/m9.figshare.3574170.v1
title: toth_janos.pdf

description: In the literature of sociology of religion, there is a considerable scarcity of recent thematic meta-analyses. In this paper, we demonstrate the usefulness of such analyses to study thematic and spatial patterns of Christianity-focused results presented in high-impact journals. First, we created a new sampling and data cleaning protocol for collecting and selecting data from EBSCO and journal websites. Categorization was inductive and based on Grounded Theory. During the process, we identified eleven major themes in Christianity-focused research; each of these further divided into subtopics. Than all selected articles were further investigated in terms of first author affiliation, journal editor affiliation and journal publisher’s geographic location. Results shows that the analysis we have performed concerning 160 articles published in „A”-category international journals provided not only a structured overview of current themes in Christianity-focused research within the field, but also identified a major anglo-saxon research environment bias valid through both religion-specific and general studies.
DOI: 10.6084/m9.figshare.3574017
title: Supplementary Material for: Heart Failure Complicated by Alveolar Hemorrhage due to Vascular Collapse and Amyloid Deposits in Wild-Type Transthyretin Amyloidosis

description: The main clinical manifestations of wild-type transthyretin (TTR)-related amyloidosis are progressive heart failure and neuropathy. There have been some reports on cerebral hemorrhage due to cerebral amyloid angiopathy in patients with TTR-related amyloidosis, but little is known about the vascular involvement in other organs. A 77-year-old woman experienced heart failure and was admitted for deteriorating heart failure status. Echocardiography showed diffuse hypokinesis of the left ventricle with biventricular wall thickness. On the 12th hospital day, the blood oxygen saturation level suddenly dropped and, despite oxygen supplementation and intensive care, the patient died. An autopsy revealed systemic deposition of amyloids which were immunolabeled by an anti-TTR antibody. Furthermore, gene-sequencing analysis showed no evidence of TTR gene mutations. The patient was diagnosed postmortem with wild-type TTR-related amyloidosis. Pathological findings revealed alveolar hemorrhage of the lung. Massive amyloid deposits were present in the vessels, and collapsed internal elastic laminae with lymphocyte infiltration were observed at the site of amyloid deposits in the bronchial artery, suggesting that deposits with inflammation might cause the collapse of the bronchial artery and lead to hemorrhage. In amyloidosis patients who suffer heart failure, there is the potential for vascular collapse caused by the accumulation of amyloid deposits with inflammation.
DOI: 10.17632/ssbyp29899.1
title: Žitňanová et al 2020

description: The files contain data simulation code for SPSS, as well as the simulated datasets used in the study titled A New Approach to Evaluate Reproductive Traits in Batch-Spawning Fishes of Indeterminate Fecundity and Asynchronous Oocyte Maturation, submitted to the journal Reviews in Fisheries Science & Aquaculture.
DOI: 10.6084/m9.figshare.3574017.v1
title: Supplementary Material for: Heart Failure Complicated by Alveolar Hemorrhage due to Vascular Collapse and Amyloid Deposits in Wild-Type Transthyretin Amyloidosis

description: The main clinical manifestations of wild-type transthyretin (TTR)-related amyloidosis are progressive heart failure and neuropathy. There have been some reports on cerebral hemorrhage due to cerebral amyloid angiopathy in patients with TTR-related amyloidosis, but little is known about the vascular involvement in other organs. A 77-year-old woman experienced heart failure and was admitted for deteriorating heart failure status. Echocardiography showed diffuse hypokinesis of the left ventricle with biventricular wall thickness. On the 12th hospital day, the blood oxygen saturation level suddenly dropped and, despite oxygen supplementation and intensive care, the patient died. An autopsy revealed systemic deposition of amyloids which were immunolabeled by an anti-TTR antibody. Furthermore, gene-sequencing analysis showed no evidence of TTR gene mutations. The patient was diagnosed postmortem with wild-type TTR-related amyloidosis. Pathological findings revealed alveolar hemorrhage of the lung. Massive amyloid deposits were present in the vessels, and collapsed internal elastic laminae with lymphocyte infiltration were observed at the site of amyloid deposits in the bronchial artery, suggesting that deposits with inflammation might cause the collapse of the bronchial artery and lead to hemorrhage. In amyloidosis patients who suffer heart failure, there is the potential for vascular collapse caused by the accumulation of amyloid deposits with inflammation.
DOI: 10.6084/m9.figshare.3573981
title: Master file for Plos1.sav

description: Data for Plos1 paper:<br>Dietary intake and cardiovascular risk factors in Icelanders following voluntarily a low carbohydrate diet.
DOI: 10.6084/m9.figshare.3573981.v1
title: Master file for Plos1.sav

description: Data for Plos1 paper:<br>Dietary intake and cardiovascular risk factors in Icelanders following voluntarily a low carbohydrate diet.
DOI: 10.6084/m9.figshare.3573948
title: Electrically meaningful power system test case diagrams (NESTA archive)

description: This collection of images provides simple test system diagrams for most of the test power systems in the NESTA test case archive (see https://arxiv.org/abs/1411.0359) <br><br>It can be hard for researchers to visualize data relevant to these networks. These images were created by applying the techniques described in: <br>P. Cuffe; A. Keane, "Visualizing the Electrical Structure of Power Systems," in <i>IEEE Systems Journal</i>, 2015<br><br>The "Power Transfer" distance was use to create each diagram (see ibid. Section II. 3) As such, the diagrams are electrically meaningful: loosely speaking, buses drawn in close proximity should be able to transact power with each other with ease.<br><br>Buses have been labelled as space permits, starting with the highest voltage buses first.<br><br><br>
DOI: 10.6084/m9.figshare.3573939
title: Appendix A. A note on the variation in amplitude of the lynx cycle.

description: A note on the variation in amplitude of the lynx cycle.