cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1029775.v3
title: Dataset: Long-term activity recognition from watch accelerometer data

description: The data was collected with a GENEActiv sensor. It was collected by a male user for 11 days and the sensor was placed at the wrist in the dominant hand (right). This sensor collects acceleration, light and temperature data. The accelerometer data was collected at 20Hz. The collected activities were: brush teeth, commuting, computer work, dinner, shower and shopping.
DOI: 10.6084/m9.figshare.1029420.v2
title: -Data Repository-TRANSIENT CHOLESTEROL EFFECTS ON NICOTINIC ACETYLCHOLINE RECEPTOR CELL-SURFACE MOBILITY

description: The raw data set comprises X,Y coordinates and brightness of images corresponding to nicotinic acetylcholine receptor (AChR) particles in live CHO/K1-A5 cells using total internal reflection (TIRF) fluorescence microscopy . Image acquisition for movies was performed with 100 ms exposure in streaming mode using the software SlideBook (Intelligent Imaging Innovations, Boulder, CO) and exported as 16 or 8-bit images. Subsequent analysis was carried out using Image J (NIH, USA, http://rsb.info.nih.gov/ij/) or Matlab (MathWorks, see below) and further exported to Excel (Microsoft) for further data processing. Examples of these Excel spreadsheets corresponding to meta-analysis of some of the physical parameters of the particles, interpreted as supramolecular aggregates (nanoclusters) of AChR macromolecules are also attached. These physical properties were used to characterize the dynamics of AChR particles at high density and its cholesterol dependence at the surface of mammalian cells. AChR particles tagged with a monovalent ligand, fluorescent α-bungarotoxin (αBTX), exhibited two mobile pools: i) a highly mobile one undergoing simple Brownian motion (16%) and ii) one with restricted motion (~50%), the rest being relatively immobile (~44%). Depletion of membrane cholesterol by methyl-α-cyclodextrin increased the fraction of the first pool to 22% and 33% after 15 and 40 min, respectively; the pool undergoing restricted motion diminished from 50% to 44% and 37%, respectively. Monoclonal antibody binding results in AChR crosslinking-internalization after 2 h; here, antibody binding immobilized within minutes ~20% of the totally mobile AChR. This proportion dramatically increased upon cholesterol depletion, especially during the initial 10 min (83.3%). Thus, antibody crosslinking and cholesterol depletion exhibited a mutually synergistic effect, increasing the average lifetime of cell-surface AChRs~10 s to ~20 s. The instantaneous (microscopic) diffusion coefficient D2-4 of the AChR obtained from the MSD analysis diminished from ~0.001 µm2 s-1 to ~0.0001-0.00033 µm2s-1 upon cholesterol depletion, ~30% of all particles falling into the stationary mode. Thus, muscle-type AChR exhibits heterogeneous motional regimes at the cell surface, modulated by the combination of intrinsic (its supramolecular organization) and extrinsic (membrane cholesterol content) factors.
DOI: 10.6084/m9.figshare.1029775.v4
title: Dataset: Long-term activity recognition from wrist-watch accelerometer data

description: The data was collected with a GENEActiv sensor. It was collected by two subjects for 11 and 10 days respectively and the sensor was placed at the wrist in the dominant hand. This sensor collects acceleration, light and temperature data. The accelerometer data was collected at 20Hz. The collected activities for the first subject were: brush teeth, commuting, computer work, dinner, shower and shopping. For the second user: commuting, exercise, lunch and work.
DOI: 10.6084/m9.figshare.1029420.v3
title: TRANSIENT CHOLESTEROL EFFECTS ON NICOTINIC ACETYLCHOLINE RECEPTOR CELL-SURFACE MOBILITY

description: The raw data set comprises X,Y coordinates and brightness of images corresponding to nicotinic acetylcholine receptor (AChR) particles in live CHO/K1-A5 cells using total internal reflection (TIRF) fluorescence microscopy . Image acquisition for movies was performed with 100 ms exposure in streaming mode using the software SlideBook (Intelligent Imaging Innovations, Boulder, CO) and exported as 16 or 8-bit images. Subsequent analysis was carried out using Image J (NIH, USA, http://rsb.info.nih.gov/ij/) or Matlab (MathWorks, see below) and further exported to Excel (Microsoft) for further data processing. Examples of these Excel spreadsheets corresponding to meta-analysis of some of the physical parameters of the particles, interpreted as supramolecular aggregates (nanoclusters) of AChR macromolecules are also attached. These physical properties were used to characterize the dynamics of AChR particles at high density and its cholesterol dependence at the surface of mammalian cells. AChR particles tagged with a monovalent ligand, fluorescent α-bungarotoxin (αBTX), exhibited two mobile pools: i) a highly mobile one undergoing simple Brownian motion (16%) and ii) one with restricted motion (~50%), the rest being relatively immobile (~44%). Depletion of membrane cholesterol by methyl-α-cyclodextrin increased the fraction of the first pool to 22% and 33% after 15 and 40 min, respectively; the pool undergoing restricted motion diminished from 50% to 44% and 37%, respectively. Monoclonal antibody binding results in AChR crosslinking-internalization after 2 h; here, antibody binding immobilized within minutes ~20% of the totally mobile AChR. This proportion dramatically increased upon cholesterol depletion, especially during the initial 10 min (83.3%). Thus, antibody crosslinking and cholesterol depletion exhibited a mutually synergistic effect, increasing the average lifetime of cell-surface AChRs~10 s to ~20 s. The instantaneous (microscopic) diffusion coefficient D2-4 of the AChR obtained from the MSD analysis diminished from ~0.001 µm2 s-1 to ~0.0001-0.00033 µm2s-1 upon cholesterol depletion, ~30% of all particles falling into the stationary mode. Thus, muscle-type AChR exhibits heterogeneous motional regimes at the cell surface, modulated by the combination of intrinsic (its supramolecular organization) and extrinsic (membrane cholesterol content) factors.
DOI: 10.6084/m9.figshare.1029775.v6
title: Dataset long-term activities

description: The data was collected with a GENEActiv sensor. It was collected by two subjects for 11 and 10 days respectively and the sensor was placed at the wrist in the dominant hand. This sensor collects acceleration, light and temperature data. The accelerometer data was collected at 20Hz. The collected activities for the first subject were: brush teeth, commuting, computer work, dinner, shower and shopping. For the second user: commuting, exercise, lunch and work.
DOI: 10.6084/m9.figshare.1029371
title: Analysis of Rotational Deformations From Directional Data

description: This article discusses a novel framework to analyze rotational deformations of real three-dimensional objects. The rotational deformations such as twisting or bending have been observed as the major variation in some medical applications, where the features of the deformed three-dimensional objects are directional data. We propose modeling and estimation of the global deformations in terms of generalized rotations of directions. The proposed method can be cast as a generalized small circle fitting on the unit sphere. We also discuss the estimation of descriptors for more complex deformations composed of two simple deformations. The proposed method can be used for a number of different three-dimensional object models. Two analyses of three-dimensional object data are presented in detail: one using skeletal representations in medical image analysis and the other from biomechanical gait analysis of the knee joint. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.1029420.v4
title: TRANSIENT CHOLESTEROL EFFECTS ON NICOTINIC ACETYLCHOLINE RECEPTOR CELL-SURFACE MOBILITY

description: The raw data set comprises X,Y coordinates and brightness of images corresponding to nicotinic acetylcholine receptor (AChR) particles in live CHO/K1-A5 cells using total internal reflection (TIRF) fluorescence microscopy . Image acquisition for movies was performed with 100 ms exposure in streaming mode using the software SlideBook (Intelligent Imaging Innovations, Boulder, CO) and exported as 16 or 8-bit images. Subsequent analysis was carried out using Image J (NIH, USA, http://rsb.info.nih.gov/ij/) or Matlab (MathWorks, see below) and further exported to Excel (Microsoft) for further data processing. Examples of these Excel spreadsheets corresponding to meta-analysis of some of the physical parameters of the particles, interpreted as supramolecular aggregates (nanoclusters) of AChR macromolecules are also attached. These physical properties were used to characterize the dynamics of AChR particles at high density and its cholesterol dependence at the surface of mammalian cells. AChR particles tagged with a monovalent ligand, fluorescent α-bungarotoxin (αBTX), exhibited two mobile pools: i) a highly mobile one undergoing simple Brownian motion (16%) and ii) one with restricted motion (~50%), the rest being relatively immobile (~44%). Depletion of membrane cholesterol by methyl-α-cyclodextrin increased the fraction of the first pool to 22% and 33% after 15 and 40 min, respectively; the pool undergoing restricted motion diminished from 50% to 44% and 37%, respectively. Monoclonal antibody binding results in AChR crosslinking-internalization after 2 h; here, antibody binding immobilized within minutes ~20% of the totally mobile AChR. This proportion dramatically increased upon cholesterol depletion, especially during the initial 10 min (83.3%). Thus, antibody crosslinking and cholesterol depletion exhibited a mutually synergistic effect, increasing the average lifetime of cell-surface AChRs~10 s to ~20 s. The instantaneous (microscopic) diffusion coefficient D2-4 of the AChR obtained from the MSD analysis diminished from ~0.001 µm2 s-1 to ~0.0001-0.00033 µm2s-1 upon cholesterol depletion, ~30% of all particles falling into the stationary mode. Thus, muscle-type AChR exhibits heterogeneous motional regimes at the cell surface, modulated by the combination of intrinsic (its supramolecular organization) and extrinsic (membrane cholesterol content) factors.
DOI: 10.6084/m9.figshare.1029775.v5
title: Dataset: Long-term activity recognition from wrist-watch accelerometer data

description: The data was collected with a GENEActiv sensor. It was collected by two subjects for 11 and 10 days respectively and the sensor was placed at the wrist in the dominant hand. This sensor collects acceleration, light and temperature data. The accelerometer data was collected at 20Hz. The collected activities for the first subject were: brush teeth, commuting, computer work, dinner, shower and shopping. For the second user: commuting, exercise, lunch and work.
DOI: 10.6084/m9.figshare.1029371.v2
title: Analysis of Rotational Deformations From Directional Data

description: This article discusses a novel framework to analyze rotational deformations of real three-dimensional objects. The rotational deformations such as twisting or bending have been observed as the major variation in some medical applications, where the features of the deformed three-dimensional objects are directional data. We propose modeling and estimation of the global deformations in terms of generalized rotations of directions. The proposed method can be cast as a generalized small circle fitting on the unit sphere. We also discuss the estimation of descriptors for more complex deformations composed of two simple deformations. The proposed method can be used for a number of different three-dimensional object models. Two analyses of three-dimensional object data are presented in detail: one using skeletal representations in medical image analysis and the other from biomechanical gait analysis of the knee joint. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.1029420.v6
title: -Data Repository- TRANSIENT CHOLESTEROL EFFECTS ON NICOTINIC ACETYLCHOLINE RECEPTOR CELL-SURFACE MOBILITY

description: The raw data set comprises X,Y coordinates and brightness of images corresponding to nicotinic acetylcholine receptor (AChR) particles in live CHO/K1-A5 cells using total internal reflection (TIRF) fluorescence microscopy . Image acquisition for movies was performed with 100 ms exposure in streaming mode using the software SlideBook (Intelligent Imaging Innovations, Boulder, CO) and exported as 16 or 8-bit images. Subsequent analysis was carried out using Image J (NIH, USA, http://rsb.info.nih.gov/ij/) or Matlab (MathWorks, see below) and further exported to Excel (Microsoft) for further data processing. Examples of these Excel spreadsheets corresponding to meta-analysis of some of the physical parameters of the particles, interpreted as supramolecular aggregates (nanoclusters) of AChR macromolecules are also attached. These physical properties were used to characterize the dynamics of AChR particles at high density and its cholesterol dependence at the surface of mammalian cells. AChR particles tagged with a monovalent ligand, fluorescent α-bungarotoxin (αBTX), exhibited two mobile pools: i) a highly mobile one undergoing simple Brownian motion (16%) and ii) one with restricted motion (~50%), the rest being relatively immobile (~44%). Depletion of membrane cholesterol by methyl-α-cyclodextrin increased the fraction of the first pool to 22% and 33% after 15 and 40 min, respectively; the pool undergoing restricted motion diminished from 50% to 44% and 37%, respectively. Monoclonal antibody binding results in AChR crosslinking-internalization after 2 h; here, antibody binding immobilized within minutes ~20% of the totally mobile AChR. This proportion dramatically increased upon cholesterol depletion, especially during the initial 10 min (83.3%). Thus, antibody crosslinking and cholesterol depletion exhibited a mutually synergistic effect, increasing the average lifetime of cell-surface AChRs~10 s to ~20 s. The instantaneous (microscopic) diffusion coefficient D2-4 of the AChR obtained from the MSD analysis diminished from ~0.001 µm2 s-1 to ~0.0001-0.00033 µm2s-1 upon cholesterol depletion, ~30% of all particles falling into the stationary mode. Thus, muscle-type AChR exhibits heterogeneous motional regimes at the cell surface, modulated by the combination of intrinsic (its supramolecular organization) and extrinsic (membrane cholesterol content) factors.
DOI: 10.6084/m9.figshare.1029420.v5
title: -Data Repositry- TRANSIENT CHOLESTEROL EFFECTS ON NICOTINIC ACETYLCHOLINE RECEPTOR CELL-SURFACE MOBILITY

description: The raw data set comprises X,Y coordinates and brightness of images corresponding to nicotinic acetylcholine receptor (AChR) particles in live CHO/K1-A5 cells using total internal reflection (TIRF) fluorescence microscopy . Image acquisition for movies was performed with 100 ms exposure in streaming mode using the software SlideBook (Intelligent Imaging Innovations, Boulder, CO) and exported as 16 or 8-bit images. Subsequent analysis was carried out using Image J (NIH, USA, http://rsb.info.nih.gov/ij/) or Matlab (MathWorks, see below) and further exported to Excel (Microsoft) for further data processing. Examples of these Excel spreadsheets corresponding to meta-analysis of some of the physical parameters of the particles, interpreted as supramolecular aggregates (nanoclusters) of AChR macromolecules are also attached. These physical properties were used to characterize the dynamics of AChR particles at high density and its cholesterol dependence at the surface of mammalian cells. AChR particles tagged with a monovalent ligand, fluorescent α-bungarotoxin (αBTX), exhibited two mobile pools: i) a highly mobile one undergoing simple Brownian motion (16%) and ii) one with restricted motion (~50%), the rest being relatively immobile (~44%). Depletion of membrane cholesterol by methyl-α-cyclodextrin increased the fraction of the first pool to 22% and 33% after 15 and 40 min, respectively; the pool undergoing restricted motion diminished from 50% to 44% and 37%, respectively. Monoclonal antibody binding results in AChR crosslinking-internalization after 2 h; here, antibody binding immobilized within minutes ~20% of the totally mobile AChR. This proportion dramatically increased upon cholesterol depletion, especially during the initial 10 min (83.3%). Thus, antibody crosslinking and cholesterol depletion exhibited a mutually synergistic effect, increasing the average lifetime of cell-surface AChRs~10 s to ~20 s. The instantaneous (microscopic) diffusion coefficient D2-4 of the AChR obtained from the MSD analysis diminished from ~0.001 µm2 s-1 to ~0.0001-0.00033 µm2s-1 upon cholesterol depletion, ~30% of all particles falling into the stationary mode. Thus, muscle-type AChR exhibits heterogeneous motional regimes at the cell surface, modulated by the combination of intrinsic (its supramolecular organization) and extrinsic (membrane cholesterol content) factors.
DOI: 10.6084/m9.figshare.1029371.v1
title: Analysis of Rotational Deformations from Directional Data

description: This paper discusses a novel framework to analyze rotational deformations of real 3D objects. The rotational deformations such as twisting or bending have been observed as the major variation in some medical applications, where the features of the deformed 3D objects are directional data. We propose modeling and estimation of the global deformations in terms of generalized rotations of directions. The proposed method can be cast as a generalized small circle fitting on the unit sphere. We also discuss the estimation of descriptors for more complex deformations composed of two simple deformations. The proposed method can be used for a number of different 3D object models. Two analyses of 3D object data are presented in detail: one using skeletal representations in medical image analysis as well as one from biomechanical gait analysis of the knee joint. Supplementary Materials are available online.
DOI: 10.6084/m9.figshare.1029354
title: A Non-Iterative Extension of the Multivariate Random Effects Meta-Analysis

description: Multivariate methods in meta-analysis are becoming popular and more accepted in biomedical research despite computational issues in some of the techniques. A number of approaches, both iterative and non-iterative, have been proposed including the multivariate DerSimonian and Laird method by Jackson et al. (2010), which is non-iterative. In this study, we propose an extension of the method by Hartung and Makambi (2002) and Makambi (2001) to multivariate situations. A comparison of the bias and mean square error from a simulation study indicates that, in some circumstances, the proposed approach perform better than the multivariate DerSimonian–Laird approach. An example is presented to demonstrate the application of the proposed approach.
DOI: 10.6084/m9.figshare.1029236
title: Bridging and mirroring registrations for Drosophila neuroanatomy

description: The fly brain is a highly stereotyped 3D structure. A number of groups have now published 3D confocal image datasets where all images have been registered to a specific template brain. In order to co-visualise image data from different studies, data registered against different template brains must be brought into the same 3D coordinate space. This can be achieved by applying a <strong>bridging registration</strong> which maps one template brain onto another. For almost all purposes the fly brain should be considered symmetric about its mid-sagittal plane (i.e. the plane perpendicular to the medio-lateral axis – typically the x-axis in image data). However, while the platonic fly brain may be symmetric, individual fly brains that have been fixed, stained and imaged are often significantly asymmetric and not placed exactly in the centre of the image with respect to their mid-sagittal plane. While it is trivial to make template brains that are centred and possible to make symmetric template brains if one wishes, this has rarely been done in practice. It is therefore necessary to do more than simply mirror along the medio- lateral axis if one desires to map neurons/structures in the left brain hemisphere onto the right hemisphere. <strong>Mirroring registrations</strong> account for this asymmetry and allow for comparisons across brain hemispheres. This collection contains bridging and mirroring registrations for a number of common Drosophila template brains, including those used by the FlyLight GAL4 collection, FlyCircuit, the Vienna Tiles collection, and the new systematic nomenclature for the insect brain.
DOI: 10.6084/m9.figshare.1029354.v2
title: A Non-Iterative Extension of the Multivariate Random Effects Meta-Analysis

description: Multivariate methods in meta-analysis are becoming popular and more accepted in biomedical research despite computational issues in some of the techniques. A number of approaches, both iterative and non-iterative, have been proposed including the multivariate DerSimonian and Laird method by Jackson et al. (2010), which is non-iterative. In this study, we propose an extension of the method by Hartung and Makambi (2002) and Makambi (2001) to multivariate situations. A comparison of the bias and mean square error from a simulation study indicates that, in some circumstances, the proposed approach perform better than the multivariate DerSimonian–Laird approach. An example is presented to demonstrate the application of the proposed approach.
DOI: 10.6084/m9.figshare.1029354.v1
title: A Non-Iterative Extension of the Multivariate Random Effects Meta-Analysis

description: <i>Multivariate methods in meta-analysis are becoming popular and more accepted in biomedical research despite computational issues in some of the techniques. A number of approaches, both iterative and non-iterative have been proposed including the multivariate DerSimonian and Laird method by Jackson et al. (2010), which is non-iterative. In this study, we propose an extension of the method by Hartung and Makambi (2002) and Makambi (2001) to multivariate situations. A comparison of the bias and mean square error from a simulation study indicates that, in some circumstances, the proposed approach perform better than the multivariate DerSimonian-Laird approach. An example is presented to demonstrate the application of the proposed approach.</i>
DOI: 10.6084/m9.figshare.1029236.v1
title: Bridging and mirroring registrations for Drosophila neuroanatomy

description: The fly brain is a highly stereotyped 3D structure. A number of groups have now published 3D confocal image datasets where all images have been registered to a specific template brain. In order to co-visualise image data from different studies, data registered against different template brains must be brought into the same 3D coordinate space. This can be achieved by applying a <strong>bridging registration</strong> which maps one template brain onto another. For almost all purposes the fly brain should be considered symmetric about its mid-sagittal plane (i.e. the plane perpendicular to the medio-lateral axis – typically the x-axis in image data). However, while the platonic fly brain may be symmetric, individual fly brains that have been fixed, stained and imaged are often significantly asymmetric and not placed exactly in the centre of the image with respect to their mid-sagittal plane. While it is trivial to make template brains that are centred and possible to make symmetric template brains if one wishes, this has rarely been done in practice. It is therefore necessary to do more than simply mirror along the medio- lateral axis if one desires to map neurons/structures in the left brain hemisphere onto the right hemisphere. <strong>Mirroring registrations</strong> account for this asymmetry and allow for comparisons across brain hemispheres. This collection contains bridging and mirroring registrations for a number of common Drosophila template brains, including those used by the FlyLight GAL4 collection, FlyCircuit, the Vienna Tiles collection, and the new systematic nomenclature for the insect brain.