cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24623727.v1
title: Expressway_NER

description: This project contains a location reference dataset for Chinese expressways. It also contains a deep learning method for simultaneously recognizing flat, nested and discontinuous location references. The code and data can be used for intelligent applications related to expressway locations.
DOI: 10.6084/m9.figshare.24648399
title: Supplementary Material for: Simple technique for stabilizing toric intraocular lens during removal of ophthalmic viscosurgical device

description: Introduction: To describe a simple technique for the implantation of toric intraocular lenses (IOLs) with increased stability during ophthalmic viscosurgical device (OVD) removal. Methods: The technique was performed on 20 eyes with 20 patients (mean age: 77.9 ± 9.21 years). The patients had cataract surgery with implantation of a single-piece, acrylic IOL (AcrySof Toric IOL, SN6A; Alcon Laboratories, Inc.). The intraoperative IOL rotation during OVD removal, rotational error of toric IOL axis at 30 min and 24 h after surgery, and mean preoperative and postoperative IOP were evaluated. Images were captured before and after removal of OVD from surgical video, and used to evaluate intraoperative IOL rotation. Results: The mean amount of IOL rotation during OVD removal with the current technique was 0.88 ± 0.93°, which was less than the 10.25 ± 5.50° previously reported for the conventional technique. The rotational error of toric IOL axis at 30 min and 24 h were 3.90 ± 3.71 and 3.05 ± 3.22° respectively. The mean preoperative IOP and postoperative IOP were 13.84 ± 2.39 and 14.15 ± 4.68 mmHg, respectively. Conclusion: With the current technique, the toric IOL is stable during OVD removal and repositioning of the IOL is less likely to be required.
DOI: 10.6084/m9.figshare.24648399.v1
title: Supplementary Material for: Simple technique for stabilizing toric intraocular lens during removal of ophthalmic viscosurgical device

description: Introduction: To describe a simple technique for the implantation of toric intraocular lenses (IOLs) with increased stability during ophthalmic viscosurgical device (OVD) removal. Methods: The technique was performed on 20 eyes with 20 patients (mean age: 77.9 ± 9.21 years). The patients had cataract surgery with implantation of a single-piece, acrylic IOL (AcrySof Toric IOL, SN6A; Alcon Laboratories, Inc.). The intraoperative IOL rotation during OVD removal, rotational error of toric IOL axis at 30 min and 24 h after surgery, and mean preoperative and postoperative IOP were evaluated. Images were captured before and after removal of OVD from surgical video, and used to evaluate intraoperative IOL rotation. Results: The mean amount of IOL rotation during OVD removal with the current technique was 0.88 ± 0.93°, which was less than the 10.25 ± 5.50° previously reported for the conventional technique. The rotational error of toric IOL axis at 30 min and 24 h were 3.90 ± 3.71 and 3.05 ± 3.22° respectively. The mean preoperative IOP and postoperative IOP were 13.84 ± 2.39 and 14.15 ± 4.68 mmHg, respectively. Conclusion: With the current technique, the toric IOL is stable during OVD removal and repositioning of the IOL is less likely to be required.
DOI: 10.6084/m9.figshare.24864597
title: 20220310_R26R-Atoh1-Cre_P0_#6-10_MGLUR1A-488_tdTomato-568_cerebellum_20x_DAPI-stitched.czi

description: https://forum.image.sc/t/omero-figure-not-loading-image-viewable-in-omero-iviewer/89931/Dimensions (XY):2868 x 2868Pixels Type:uint16Pixels Size (XYZ) (µm):0.51 x 0.51 x -Z-sections/Timepoints:1 x 1Channels:Alexa Fluor 488, Alexa Fluor 488, Alexa Fluor 488, 3, 4, 5, 6, 7, 8
DOI: 10.6084/m9.figshare.24864597.v1
title: 20220310_R26R-Atoh1-Cre_P0_#6-10_MGLUR1A-488_tdTomato-568_cerebellum_20x_DAPI-stitched.czi

description: https://forum.image.sc/t/omero-figure-not-loading-image-viewable-in-omero-iviewer/89931/Dimensions (XY):2868 x 2868Pixels Type:uint16Pixels Size (XYZ) (µm):0.51 x 0.51 x -Z-sections/Timepoints:1 x 1Channels:Alexa Fluor 488, Alexa Fluor 488, Alexa Fluor 488, 3, 4, 5, 6, 7, 8
DOI: 10.17632/w94r9mgx2d.1
title: Target DNA-dependent activation mechanism of the prokaryotic immune system SPARTA

description: Raw imaging & fluorescence data belonging to the manuscript 'Target DNA-dependent activation mechanism of the prokaryotic immune system SPARTA' by Finocchio et al.
DOI: 10.17632/yw43vjc36h.1
title: High level GPU-accelerated 2D PIV framework in Python

description: The Particle Image Velocimetry (PIV) method is widely used for optical measurment of flow velocity fields. This paper demonstrates the possibilities of using high-level libraries for GPU-accelerated PIV data analysis in Python. The Torch PIV library for the analysis of 2D PIV experiments based on the deep learning framework PyTorch with CUDA support was developed. The library implements a multi pass cross-correlation FFT PIV algorithm with an interrogation window shift. The chosen implementation does not require compilation from the user, has a compact codebase, is able to run both on the CPU and the GPU depending on the user choice, and also it is as flexible as the Python module. In this work, the performance of the CPU version of the developed method was compared with existing open source implementations. It is shown that the main functions of the developed module can be executed on the GPU at the speed of CUDA implementations. The developed library is tested on synthetic images and experimental data.
DOI: 10.17632/b8dxfjc4vz.1
title: Two-dimensional pattern reverse Monte Carlo analysis of nanoparticles in polymer matrices using a combination of OpenACC and cuFFT

description: We propose a program code for reverse Monte Carlo (RMC) modeling of two-dimensional scattering patterns using a combination of OpenACC and cuFFT. The RMC method estimates the three-dimensional positions of nanoparticles (NPs) in polymer matrices to fit scattering data of NPs observed in X-ray and neutron experiments. The scattering data can be calculated as the convolution sum of the three-dimensional Fourier transform of the three-dimensional density distributions of NPs using the particle-mesh approach. To speed up the graphics processing unit (GPU) calculations, we implement a code by combining the OpenACC standard and cuFFT library and minimize the data transfer between the GPU and host. This program is publicly available and can facilitate RMC analysis of two-dimensional scattering patterns to model NP morphologies in various polymer materials.
DOI: 10.5281/zenodo.7876690
title: Fine-grained classification of journal articles by relying on multiple layers of information through similarity network fusion: the case of the Cambridge Journal of Economics

description: prova
DOI: 10.5281/zenodo.7876691
title: Fine-grained classification of journal articles by relying on multiple layers of information through similarity network fusion: the case of the Cambridge Journal of Economics

description: prova
DOI: 10.5281/zenodo.10404229
title: ПАТЕМИЧЕСКОЕ ИЗМЕРЕНИЕ ПАРЕМИЧЕСКОГО ДИСКУРСА
DOI: 10.5281/zenodo.10404230
title: ПАТЕМИЧЕСКОЕ ИЗМЕРЕНИЕ ПАРЕМИЧЕСКОГО ДИСКУРСА
DOI: 10.5281/zenodo.10404238
title: LEARNING ENGLISH THROUGH VIDEOCONTENT
DOI: 10.5281/zenodo.10404239
title: LEARNING ENGLISH THROUGH VIDEOCONTENT
DOI: 10.6084/m9.figshare.24829314
title: Supplementary Material for: Neck node squamous cell metastasis from unknown primary and mutagen sensitivity: A case series

description: Most of the neck node metastasis from cancer of unknown primary (CUP) are squamous cell carcinomas (SCCs). The majority of which are human papillomavirus (HPV)-related, frequently show cystic morphology referring to Waldeyer’s ring origin. Here we report four neck node SCCs metastases from CUP. In our institute between 1996 and 2006, 432 patients with head and neck (HN) SCC underwent pretreatment mutagen sensitivity (MS) assay. Four of them with age ≤50 years had metastatic cervical nodes (CNs) from CUP. Primary treatment was CN dissection ± radiotherapy. All patients had elevated (&gt;1.0 chromatid break/cell) MS. The man died of progressive neck metastasis within 3 years and the three women still alive more than 15 years after initial treatment of HPV+ (two) or cystic (one) SCC. Two women developed second and third distant site metachronous primary cancers. HPV+ or cystic HNSCC from CUP with elevated MS indicates good outcome. Distant site metachronous cancers of different histologic origin cannot be explained by field cancerization. The clinical significance of elevated MS in neck node SCC metastasis from CUP needs further investigation.
DOI: 10.6084/m9.figshare.24829314.v1
title: Supplementary Material for: Neck node squamous cell metastasis from unknown primary and mutagen sensitivity: A case series

description: Most of the neck node metastasis from cancer of unknown primary (CUP) are squamous cell carcinomas (SCCs). The majority of which are human papillomavirus (HPV)-related, frequently show cystic morphology referring to Waldeyer’s ring origin. Here we report four neck node SCCs metastases from CUP. In our institute between 1996 and 2006, 432 patients with head and neck (HN) SCC underwent pretreatment mutagen sensitivity (MS) assay. Four of them with age ≤50 years had metastatic cervical nodes (CNs) from CUP. Primary treatment was CN dissection ± radiotherapy. All patients had elevated (&gt;1.0 chromatid break/cell) MS. The man died of progressive neck metastasis within 3 years and the three women still alive more than 15 years after initial treatment of HPV+ (two) or cystic (one) SCC. Two women developed second and third distant site metachronous primary cancers. HPV+ or cystic HNSCC from CUP with elevated MS indicates good outcome. Distant site metachronous cancers of different histologic origin cannot be explained by field cancerization. The clinical significance of elevated MS in neck node SCC metastasis from CUP needs further investigation.
DOI: 10.6084/m9.figshare.24542002
title: Supplementary Material for: Ageing affects thymopoiesis and EAE development in a strain-dependent manner

description: Introduction: Considering significance of mechanisms of central tolerance for development of autoimmune diseases, including experimental autoimmune encephalomyelitis (EAE), and suppressive influence of circulating proinflammatory cytokines and alterations in brain-thymus communication characteristic for the central nervous system (CNS) autoimmune diseases, the study was undertaken to identify putative strain-based thymus-related specificities possibly relevant for the opposite effect of ageing on susceptibility of Dark Agouti (DA) and Albino Oxford (AO) rats to EAE. Methods: Quantitative and qualitative changes in thymopoiesis including underlying mechanisms were examined using flow cytometry, and RT-qPCR quantification of mRNAs for molecules relevant for integrity of stroma and T-cell development, respectively. Results: With ageing, differently from DA rats, in AO rats the surface density of CD90, a negative regulator of selection threshold, on thymocytes undergoing lineage commitment was upregulated (consistent with TGF-β expression downregulation), whereas the generation of natural CD4+CD25+Foxp3+ T-regulatory cells (nTregs) was impaired reflecting differences in thymic expression of cytokines supporting their development. Additionally, specifically in old AO rats, in whom EAE development depends on IL-17-producing CD8+ T cells, their thymic differentiation was augmented, reflecting augmented thymic IL-4 expression. In turn, differently from old DA rats developing self-limiting EAE, in age-matched AO rats developing EAE of prolonged duration, EAE development led to impaired generation of nTregs and accumulation of proinflammatory, cytotoxic CD28-CD4+ T cells in the periphery. Discussion: Study indicates that strain-differences in age-related changes in the efficacy of central tolerance, in addition to enhanced thymic generation of CD8+ T cells prone to differentiate into IL-17-producing cells, could partly explain the opposite effect of ageing on DA and AO rat susceptibility to EAE induction. Additionally, it suggested that EAE development leading to a less efficient thymic output of CD4+ cells and nTregs in old AO rats than their DA counterparts could contribute to prolonged EAE duration in AO compared with DA rats. Conclusion: The study warns to caution when designing therapeutic interventions to enhance thymic activity in genetically diverse populations, e.g. humans, and interpreting their outcomes. Furthermore, it indicates that CNS autoimmune pathology may additionally worsen thymic involution and age-related immune changes.
DOI: 10.6084/m9.figshare.24542002.v1
title: Supplementary Material for: Ageing affects thymopoiesis and EAE development in a strain-dependent manner

description: Introduction: Considering significance of mechanisms of central tolerance for development of autoimmune diseases, including experimental autoimmune encephalomyelitis (EAE), and suppressive influence of circulating proinflammatory cytokines and alterations in brain-thymus communication characteristic for the central nervous system (CNS) autoimmune diseases, the study was undertaken to identify putative strain-based thymus-related specificities possibly relevant for the opposite effect of ageing on susceptibility of Dark Agouti (DA) and Albino Oxford (AO) rats to EAE. Methods: Quantitative and qualitative changes in thymopoiesis including underlying mechanisms were examined using flow cytometry, and RT-qPCR quantification of mRNAs for molecules relevant for integrity of stroma and T-cell development, respectively. Results: With ageing, differently from DA rats, in AO rats the surface density of CD90, a negative regulator of selection threshold, on thymocytes undergoing lineage commitment was upregulated (consistent with TGF-β expression downregulation), whereas the generation of natural CD4+CD25+Foxp3+ T-regulatory cells (nTregs) was impaired reflecting differences in thymic expression of cytokines supporting their development. Additionally, specifically in old AO rats, in whom EAE development depends on IL-17-producing CD8+ T cells, their thymic differentiation was augmented, reflecting augmented thymic IL-4 expression. In turn, differently from old DA rats developing self-limiting EAE, in age-matched AO rats developing EAE of prolonged duration, EAE development led to impaired generation of nTregs and accumulation of proinflammatory, cytotoxic CD28-CD4+ T cells in the periphery. Discussion: Study indicates that strain-differences in age-related changes in the efficacy of central tolerance, in addition to enhanced thymic generation of CD8+ T cells prone to differentiate into IL-17-producing cells, could partly explain the opposite effect of ageing on DA and AO rat susceptibility to EAE induction. Additionally, it suggested that EAE development leading to a less efficient thymic output of CD4+ cells and nTregs in old AO rats than their DA counterparts could contribute to prolonged EAE duration in AO compared with DA rats. Conclusion: The study warns to caution when designing therapeutic interventions to enhance thymic activity in genetically diverse populations, e.g. humans, and interpreting their outcomes. Furthermore, it indicates that CNS autoimmune pathology may additionally worsen thymic involution and age-related immune changes.
DOI: 10.6084/m9.figshare.24798489
title: Supplementary Material for: Impact of functional status on development of Clostridioides difficile infection and increase in in-hospital mortality among antibiotic users

description: Introduction: Functional status is one of the surrogates of advanced age, an established risk factor for Clostridioides difficile infection (CDI). We aimed to investigate the usefulness of functional status in the clinical management of CDI.

Methods: We enrolled all hospitalized adult patients receiving antibiotics from a retrospective hospital-based cohort in Japan between 2016 and 2020. Using the Barthel index (BI), which is an objective scale of functional status, we investigated the association of BI with developing CDI and its impact on in-hospital mortality in patients with CDI.

Results: We enrolled 17,131 patients with 100 cases of CDI. Multivariable analysis revealed that lower BI (≤ 25) was an independent risk factor for developing CDI (adjusted odds ratio, 4.11; 95% confidence interval, 2.62–6.46). Furthermore, a combination of BI and Charlson comorbidity index (CCI) showed an adjusted odds ratio of 36.40 (95% confidence interval, 17.30–76.60) in the highest-risk group. A high-risk group according to the combination of BI and CCI was estimated to have significantly higher in-hospital mortality in patients with CDI using the Kaplan-Meier method (p = 0.017). A combination of lower BI and higher CCI was an independent predictor of in-hospital mortality even in the multivariable Cox regression model (adjusted hazard ratio, 3.00; 95% confidence interval, 1.01–8.88).

Conclusions: Assessment of functional status, especially combined with comorbidities, was significantly associated with developing CDI and may also be useful in predicting in-hospital mortality.
DOI: 10.6084/m9.figshare.24798489.v1
title: Supplementary Material for: Impact of functional status on development of Clostridioides difficile infection and increase in in-hospital mortality among antibiotic users

description: Introduction: Functional status is one of the surrogates of advanced age, an established risk factor for Clostridioides difficile infection (CDI). We aimed to investigate the usefulness of functional status in the clinical management of CDI.

Methods: We enrolled all hospitalized adult patients receiving antibiotics from a retrospective hospital-based cohort in Japan between 2016 and 2020. Using the Barthel index (BI), which is an objective scale of functional status, we investigated the association of BI with developing CDI and its impact on in-hospital mortality in patients with CDI.

Results: We enrolled 17,131 patients with 100 cases of CDI. Multivariable analysis revealed that lower BI (≤ 25) was an independent risk factor for developing CDI (adjusted odds ratio, 4.11; 95% confidence interval, 2.62–6.46). Furthermore, a combination of BI and Charlson comorbidity index (CCI) showed an adjusted odds ratio of 36.40 (95% confidence interval, 17.30–76.60) in the highest-risk group. A high-risk group according to the combination of BI and CCI was estimated to have significantly higher in-hospital mortality in patients with CDI using the Kaplan-Meier method (p = 0.017). A combination of lower BI and higher CCI was an independent predictor of in-hospital mortality even in the multivariable Cox regression model (adjusted hazard ratio, 3.00; 95% confidence interval, 1.01–8.88).

Conclusions: Assessment of functional status, especially combined with comorbidities, was significantly associated with developing CDI and may also be useful in predicting in-hospital mortality.
DOI: 10.6084/m9.figshare.24056079.v1
title: Dilution of specialist pathogens drives feedback and yield advantage in plant mixtures

description: The files include all the data required to reproduce the results.
DOI: 10.6084/m9.figshare.24056079
title: Dilution of specialist pathogens drives feedback and yield advantage in plant mixtures

description: The files include all the data required to reproduce the results.
DOI: 10.6084/m9.figshare.22638997.v1
title: Potent latency reversal by Tat RNA-containing nanoparticle enables multi-omic analysis of the HIV-1 reservoir

description: Source data from the article "Potent latency reversal by Tat RNA-containing nanoparticle enables multi-omic analysis of the HIV-1 reservoir".
DOI: 10.6084/m9.figshare.22638997
title: Potent latency reversal by Tat RNA-containing nanoparticle enables multi-omic analysis of the HIV-1 reservoir

description: Source data from the article "Potent latency reversal by Tat RNA-containing nanoparticle enables multi-omic analysis of the HIV-1 reservoir".
DOI: 10.5281/zenodo.5172145
title: Measuring the Position and Differentiation of Firms in Technology Space

description: This website describes data collection, processing, and different open access data files related to measuring the position and differentiation of firms in technology space. The document "0_Data Description Zenodo.pdf" below provides more details. If you use the code or data, please cite the following paper: 

Arts S, Cassiman B, Hou J (2023). Position and Differentiation of Firms in Technology Space. Management Science 69 (12): 7253-7265. https://doi.org/10.1287/mnsc.2023.00282 

The data matching U.S. public firms to U.S. patents comes from the DISCERN patent database (available from: https://zenodo.org/record/3709084). Please cite the following paper if you use this data: 

Arora A, Belenzon S, Sheer L (2021) Matching patents to Compustat firms, 1980–2015: Dynamic reassignment, name changes, and ownership structures. Research Policy 50(5):104217.
DOI: 10.5281/zenodo.5172146
title: Measuring the Position and Differentiation of Firms in Technology Space

description: This website describes data collection, processing, and different open access data files related to measuring the position and differentiation of firms in technology space. The document "0_Data Description Zenodo.pdf" below provides more details. If you use the code or data, please cite the following paper: 

Arts S, Cassiman B, Hou J (2023). Position and Differentiation of Firms in Technology Space. Management Science 69 (12): 7253-7265. https://doi.org/10.1287/mnsc.2023.00282 

The data matching U.S. public firms to U.S. patents comes from the DISCERN patent database (available from: https://zenodo.org/record/3709084). Please cite the following paper if you use this data: 

Arora A, Belenzon S, Sheer L (2021) Matching patents to Compustat firms, 1980–2015: Dynamic reassignment, name changes, and ownership structures. Research Policy 50(5):104217.
DOI: 10.34740/kaggle/dsv/7236334
title: AutoXGB
DOI: 10.25505/fiz.icsd.cc2c7j49
title: CSD 2181970: Experimental Crystal Structure Determination

description: Related Article: Ranuri S. Dissanayaka Mudiyanselage, Tomasz Klimczuk, Danrui Ni, Robert J. Cava, Weiwei Xie|2022|Inorg.Chem.|61|18010|doi:10.1021/acs.inorgchem.2c02232
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25505/fiz.icsd.cc2c7j7d
title: CSD 2181973: Experimental Crystal Structure Determination

description: Related Article: Ranuri S. Dissanayaka Mudiyanselage, Tomasz Klimczuk, Danrui Ni, Robert J. Cava, Weiwei Xie|2022|Inorg.Chem.|61|18010|doi:10.1021/acs.inorgchem.2c02232
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.10404300
title: Initial experiments with Uroprint tensile tester V1-1

description: Data for tensile tests on PLMA samples  as measured on the version 1 tensile tester. Data is contained within two columns with voltages for position (column 2)and force (column 1). Conversion to position in mm is by the equation 15.66-position_voltage*4.2. Conversion to force in Newtons is by force_voltage*100*261*1.71*(-1/1000000). Data for tensile tests on PLMA, whole mouse bladder, and soft PDMS as measured on the version 1 tensile tester. Area is estimated from the included images with reference on the metal grips with a width of 4.4 mm and thickness of 0.3 mm.