cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/bbbtsdps4k.1
title: INSANE input files of the paper "A computational framework for the constitutive modelling of non-linear micropolar media"

description: The attached XML files represents a set on input files for the open-source software for computational mechanics INSANE, that has been used in the paper "A computational framework for the constitutive modelling of non-linear micropolar media" (to be published yet). The description of each file can be found in the attached file "files-description".
DOI: 10.17632/n7h8kb4dfh.1
title: SI-Database AOP

description: Supplementary Information for Evaluation of advanced oxidation processes for water and wastewater treatment – A critical review
DOI: 10.5281/zenodo.1175190
title: Neubias Ts7 - Data Used In The Workflow Deconstruction Session On Quantifying Monolayer Cell Migration

description: Training session details (including slides): https://github.com/miura/NEUBIAS_AnalystSchool2018/tree/master/Assaf

Matlab source code: https://github.com/assafzar/MonolayerKymographs
description: Assaf Zaritsky was supported by the National Institute of Health Grant to Gaudenz Danuser (P01 GM103723). The workflow deconstruction session was developed as part of the Network of European BioImage Analysts (NEUBIAS) TS7, funded by COST Action CA15124.
description: {"references": ["Zaritsky et al. Propagating waves of directionality and coordination orchestrate collective cell migration (2014) http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003747", "Zaritsky et al. Seeds of locally aligned motion and stress coordinate a collective cell migration (2015) http://jcb.rupress.org/content/early/2017/05/15/jcb.201609095", "Zaritsky, Tseng et al. Diverse roles of guanine nucleotide exchange factors in regulating collective cell migration (2017) www.cell.com/biophysj/abstract/S0006-3495(15)01123-6"]}
DOI: 10.6073/pasta/cdccad18e832d40e9425fece741a95f0
title: Sediment characteristics in experimental seagrass meadows in Virginia, 2011
DOI: 10.17632/j3hckp2654.3
title: Data for: The analogue method for precipitation prediction - finding better analogue situations at a sub-daily time step

description: Data for the article "Horton et al., 2017, The analogue method for precipitation prediction: finding better analogue situations at a sub-daily time step". The dataset contains the required inputs in order to assess the introduction of a moving time window in the analogue method with the software AtmoSwing (www.atmoswing.org), to the exception of the reanalysis datasets. The parameters files can be used in AtmoSwing optimizer in order to calibrate the analogue method for a given dataset and moving time window size. The calibrations are performed for 6 precipitation stations in Switzerland. Results (outputs of AtmoSwing) are also provided as zip files. They contain the optimal parameters for every configuration, the performance scores, and the dates and precipitation of the selected analogues for every target date of the calibration/validation periods.
DOI: 10.6084/m9.figshare.17079158.v1
title: Additional file 5 of miR-30b-5p inhibits proliferation, invasion, and migration of papillary thyroid cancer by targeting GALNT7 via the EGFR/PI3K/AKT pathway

description: Additional file 5. The quantitative data of Transwell assay.
DOI: 10.6084/m9.figshare.17079292.v1
title: Additional file 5 of Identification of a novel metabolism-related gene signature associated with the survival of bladder cancer

description: Additional file 5: Table S4. The DEGs between normal and cancer samples in TCGA database.
DOI: 10.6084/m9.figshare.17079295
title: Additional file 6 of Identification of a novel metabolism-related gene signature associated with the survival of bladder cancer

description: Additional file 5: Table S5. Twenty-seven metabolism-related DEGs.
DOI: 10.6084/m9.figshare.17079289
title: Additional file 4 of Identification of a novel metabolism-related gene signature associated with the survival of bladder cancer

description: Additional file 4: Table S3. The DEGs between normal and cancer samples in GSE13507.
DOI: 10.5281/zenodo.10658823
title: Low-latency Visual Servoing with Event-cameras

description: The dataset can be used to test your event-based tracking algorithm in open-loop.

In the experiment, a static event-camera (640x480 pixels) placed in front of an Alienware laptop displaying videos that recorded different motion types and target speeds, including a cluttered moving background.

The dataset includes event-driven data and ground truth of 8 shapes: arrow, flag, oval, pacman, puzzle, square, star, and triangle. 

To import .log files containing events, we suggest bimvee Python library.

Specifically, use the functions to import .log files:

data = importIitYarp(filePathOrName=input_path)

Ground-truth .csv files have 5 columns, each one corresponding to a different measure: 

timestamp | u | v | theta | scale

u and v refer to the target position in the image plane [pix]
DOI: 10.5281/zenodo.10658824
title: Low-latency Visual Servoing with Event-cameras

description: The dataset can be used to test your event-based tracking algorithm in open-loop.

In the experiment, a static event-camera (640x480 pixels) placed in front of an Alienware laptop displaying videos that recorded different motion types and target speeds, including a cluttered moving background.

The dataset includes event-driven data and ground truth of 8 shapes: arrow, flag, oval, pacman, puzzle, square, star, and triangle. 

To import .log files containing events, we suggest bimvee Python library.

Specifically, use the functions to import .log files:

data = importIitYarp(filePathOrName=input_path)

Ground-truth .csv files have 5 columns, each one corresponding to a different measure: 

timestamp | u | v | theta | scale

u and v refer to the target position in the image plane [pix]
DOI: 10.6084/m9.figshare.7117898
title: A temporal transcriptome and methylome in human embryonic stem cell-derived cardiomyocytes identifies novel regulators of early cardiac development

description: Stem cell-based cardiogenesis has become a powerful tool to enhance our understanding of cardiac development and test novel therapeutics for cardiovascular diseases. However, transcriptional and epigenetic regulation of multiple transitional stages from pluripotent cells to committed cardiomyocytes has not yet been fully characterized. To characterize how transcription factors, lincRNAs and DNA methylation change at temporal developmental stages, and identify potential novel regulators during cardiogenesis. We utilized a previously reported protocol that yields human cardiomyocytes (hCM) with more than 90% purity from human Embryonic Stem Cells (hESC). Leveraging the purity of cells resulting from this protocol, we systematically examined how gene expression and DNA methylation programs change at temporal developmental stages during cardiogenesis. Our results provide a comprehensive view of expression changes during cardiogenesis that extend previous studies, allowing us to identify key transcription factors as well as lincRNAs that are strongly associated with cardiac differentiation. Moreover, we incorporated a simple but powerful method to screen for novel regulators of cardiogenesis solely based on expression changes and found four novel cardiac-related transcription factors, i.e., SORBS2, MITF, DPF3, and ZNF436, which have no or few prior literature reports and we were able to validate using siRNA. Our strategy of identifying novel regulators of cardiogenesis can also be easily implemented in other stem cell-based systems. Our results provide a valuable resource for understanding cardiogenesis that extends previous findings by leveraging the purity of our cell lines, which allowed us to identify four novel cardiac-related regulators.
DOI: 10.6084/m9.figshare.17079286
title: Additional file 3 of Identification of a novel metabolism-related gene signature associated with the survival of bladder cancer

description: Additional file 3: Table S2. The metabolism-related processes and pathways enriched by h.all.v7.2.entrez.gmt gene set.
DOI: 10.6084/m9.figshare.7117898.v1
title: A temporal transcriptome and methylome in human embryonic stem cell-derived cardiomyocytes identifies novel regulators of early cardiac development

description: Stem cell-based cardiogenesis has become a powerful tool to enhance our understanding of cardiac development and test novel therapeutics for cardiovascular diseases. However, transcriptional and epigenetic regulation of multiple transitional stages from pluripotent cells to committed cardiomyocytes has not yet been fully characterized. To characterize how transcription factors, lincRNAs and DNA methylation change at temporal developmental stages, and identify potential novel regulators during cardiogenesis. We utilized a previously reported protocol that yields human cardiomyocytes (hCM) with more than 90% purity from human Embryonic Stem Cells (hESC). Leveraging the purity of cells resulting from this protocol, we systematically examined how gene expression and DNA methylation programs change at temporal developmental stages during cardiogenesis. Our results provide a comprehensive view of expression changes during cardiogenesis that extend previous studies, allowing us to identify key transcription factors as well as lincRNAs that are strongly associated with cardiac differentiation. Moreover, we incorporated a simple but powerful method to screen for novel regulators of cardiogenesis solely based on expression changes and found four novel cardiac-related transcription factors, i.e., SORBS2, MITF, DPF3, and ZNF436, which have no or few prior literature reports and we were able to validate using siRNA. Our strategy of identifying novel regulators of cardiogenesis can also be easily implemented in other stem cell-based systems. Our results provide a valuable resource for understanding cardiogenesis that extends previous findings by leveraging the purity of our cell lines, which allowed us to identify four novel cardiac-related regulators.
DOI: 10.6084/m9.figshare.17079295.v1
title: Additional file 6 of Identification of a novel metabolism-related gene signature associated with the survival of bladder cancer

description: Additional file 5: Table S5. Twenty-seven metabolism-related DEGs.
DOI: 10.6084/m9.figshare.23896183
title: Additional file 2 of A novel metabolic subtype with S100A7 high expression represents poor prognosis and immuno-suppressive tumor microenvironment in bladder cancer

description: Additional file 2: Supplementary Table S1. The results of differentially expression analysis performed by R package "limma" in the TCGA-BLCA cohort. Supplementary Table S2. Related to Figure 2. Results of GSEA using gene sets of metabolic pathways comparing the MRS1 group versus MRS2 group in the TCGA cohort. Supplementary Table S3. The results of differentially expression analysis performed by R package "limma" in GSE13057. Supplementary Table S4. Highly expressed genes in MRS1- and MRS2-tumor cells.
DOI: 10.6084/m9.figshare.23577069
title: Source_data_for_non_volatile_polarization_switching

description: The data is used to support the conclusion in the manuscript
 entitled "Non-volatile electrical polarization switching via domain wall release in 3R-MoS2 bilayer"
DOI: 10.6084/m9.figshare.23896183.v1
title: Additional file 2 of A novel metabolic subtype with S100A7 high expression represents poor prognosis and immuno-suppressive tumor microenvironment in bladder cancer

description: Additional file 2: Supplementary Table S1. The results of differentially expression analysis performed by R package "limma" in the TCGA-BLCA cohort. Supplementary Table S2. Related to Figure 2. Results of GSEA using gene sets of metabolic pathways comparing the MRS1 group versus MRS2 group in the TCGA cohort. Supplementary Table S3. The results of differentially expression analysis performed by R package "limma" in GSE13057. Supplementary Table S4. Highly expressed genes in MRS1- and MRS2-tumor cells.
DOI: 10.6084/m9.figshare.7117898.v2
title: A temporal transcriptome and methylome in human embryonic stem cell-derived cardiomyocytes identifies novel regulators of early cardiac development

description: Stem cell-based cardiogenesis has become a powerful tool to enhance our understanding of cardiac development and test novel therapeutics for cardiovascular diseases. However, transcriptional and epigenetic regulation of multiple transitional stages from pluripotent cells to committed cardiomyocytes has not yet been fully characterized. To characterize how transcription factors, lincRNAs and DNA methylation change at temporal developmental stages, and identify potential novel regulators during cardiogenesis. We utilized a previously reported protocol that yields human cardiomyocytes (hCM) with more than 90% purity from human Embryonic Stem Cells (hESC). Leveraging the purity of cells resulting from this protocol, we systematically examined how gene expression and DNA methylation programs change at temporal developmental stages during cardiogenesis. Our results provide a comprehensive view of expression changes during cardiogenesis that extend previous studies, allowing us to identify key transcription factors as well as lincRNAs that are strongly associated with cardiac differentiation. Moreover, we incorporated a simple but powerful method to screen for novel regulators of cardiogenesis solely based on expression changes and found four novel cardiac-related transcription factors, i.e., SORBS2, MITF, DPF3, and ZNF436, which have no or few prior literature reports and we were able to validate using siRNA. Our strategy of identifying novel regulators of cardiogenesis can also be easily implemented in other stem cell-based systems. Our results provide a valuable resource for understanding cardiogenesis that extends previous findings by leveraging the purity of our cell lines, which allowed us to identify four novel cardiac-related regulators.
DOI: 10.6084/m9.figshare.7642328
title: Anion-induced structural varieties of Cu<sup>II</sup> coordination complexes with 3-phenyl-4-(3-pyridyl)-5-(4-pyridyl)-1,2,4-triazole

description: Two Cu<sup>II</sup> coordination complexes {[Cu(L<sup>430</sup>)(H<sub>2</sub>O)<sub>2</sub>](NO<sub>3</sub>)<sub>2</sub>}<i><sub>n</sub></i> (I) and {[Cu(L<sup>430</sup>)<sub>2</sub>(H<sub>2</sub>O)<sub>2</sub>](ClO<sub>4</sub>)<sub>2</sub>(H<sub>2</sub>O)<sub>0.3</sub>}<i><sub>n</sub></i> (II) have been synthesized based on 3-phenyl-4-(3-pyridyl)-5-(4-pyridyl)-1,2,4-triazole (L<sup>430</sup>) in the presence of different anions (CIF file CCDC nos. 1489348 (I) and 1489349 (II)). Notably, complex I shows a 2D coordination network while polymer II represents a 1D box-like structure. Further, extended supramolecular architectures are constructed via secondary interactions in both structures. The structural distinction on both compounds fully demonstrates the role of lattice anions NO<sub>3</sub><sup>–</sup> or ClO<sub>4</sub><sup>–</sup> in the assembly of infinite coordination solids. In addition, complex II exhibits some certain efficiency for dichromate (Cr<sub>2</sub>O<sub>7</sub><sup>2−</sup>) capture in the water system.
DOI: 10.6084/m9.figshare.10264697
title: MOESM3 of Study protocol for a parallel-group, double-blinded, randomized, controlled, noninferiority trial: the effect and safety of hybrid electroconvulsive therapy (Hybrid-ECT) compared with routine electroconvulsive therapy in patients with depression

description: Additional file 3: Table S2. Results of preliminary trial.
DOI: 10.6084/m9.figshare.10264697.v1
title: MOESM3 of Study protocol for a parallel-group, double-blinded, randomized, controlled, noninferiority trial: the effect and safety of hybrid electroconvulsive therapy (Hybrid-ECT) compared with routine electroconvulsive therapy in patients with depression

description: Additional file 3: Table S2. Results of preliminary trial.
DOI: 10.6084/m9.figshare.20224658
title: Additional file 1 of Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication

description: Additional file 1. Table S1. Three methods used to determine the optimal number of clusters in the Juglans STRUCTURE analyses.
DOI: 10.6084/m9.figshare.20224679
title: Additional file 7 of Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication

description: Additional file 7. Table S6. Information on the haploid sequences of each haplotype of the shell-thickness gene.
DOI: 10.6084/m9.figshare.20224676
title: Additional file 6 of Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication

description: Additional file 6. Table S5. Annotations of the six genes involved in biotic and abiotic stress responses.
DOI: 10.6084/m9.figshare.20224679.v1
title: Additional file 7 of Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication

description: Additional file 7. Table S6. Information on the haploid sequences of each haplotype of the shell-thickness gene.
DOI: 10.34740/kaggle/dsv/7635577
title: Egypt Gold Prices | Daily Updated
DOI: 10.6084/m9.figshare.20224658.v1
title: Additional file 1 of Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication

description: Additional file 1. Table S1. Three methods used to determine the optimal number of clusters in the Juglans STRUCTURE analyses.
DOI: 10.6084/m9.figshare.20224670
title: Additional file 4 of Population-genomic analyses reveal bottlenecks and asymmetric introgression from Persian into iron walnut during domestication

description: Additional file 4. Table S3. Parameter estimation of ghost models in IMa3 with generation times of 50 and 30 years.
DOI: 10.6084/m9.figshare.11313398
title: DACT1 Involvement in the Cytoskeletal Arrangement of Cardiomyocytes in Atrial Fibrillation by Regulating Cx43

description: Abstract Objective: To determine the role of the dishevelled binding antagonist of beta catenin 1 (DACT1) in the cytoskeletal arrangement of cardiomyocytes in atrial fibrillation (AF). Methods: The DACT1 expression and its associations with the degree of fibrosis and β-catenin in valvular disease patients were analyzed by immunohistochemistry and Masson’s staining. DACT1 was overexpressed in the atrial myocyte cell line (HL-1) and the cardiac cell line (H9C2) by adenoviral vectors. Alterations in the fibrous actin (F-actin) content and organization and the expression of β-catenin were detected by flow cytometry, immunofluorescence, and Western blotting. Additionally, the association of DACT1 with gap junctions connexin 43 (Cx43) was detected by immunohistochemistry, immunofluorescence, and Western blotting. Results: Decreased cytoplasmic DACT1 expression in the myocardium was associated with AF (P=0.037) and a high degree of fibrosis (weak vs. strong, P=0.028; weak vs. very strong, P=0.029). A positive association was observed between DACT1 and β-catenin expression in clinical samples (P=0.028, Spearman’s rho=0.408). Furthermore, overexpression of DACT1 in HL-1 and H9C2 cells induced an increase in β-catenin and subsequent partial colocalization of DACT1 and β-catenin. In addition, F-actin content and organization were enhanced. Interestingly, DACT1 was positively correlated with the Cx43 expression in clinical samples (P=0.048, Spearman’s rho=0.370) and changed the Cx43 distribution in cardiac cell lines. Conclusion: DACT1 proved to be a novel AF-related gene by regulating Cx43 via cytoskeletal organization induced by β-catenin accumulation in cardiomyocytes. DACT1 could thus serve as a potential therapeutic marker for AF.
DOI: 10.6084/m9.figshare.11313398.v1
title: DACT1 Involvement in the Cytoskeletal Arrangement of Cardiomyocytes in Atrial Fibrillation by Regulating Cx43

description: Abstract Objective: To determine the role of the dishevelled binding antagonist of beta catenin 1 (DACT1) in the cytoskeletal arrangement of cardiomyocytes in atrial fibrillation (AF). Methods: The DACT1 expression and its associations with the degree of fibrosis and β-catenin in valvular disease patients were analyzed by immunohistochemistry and Masson’s staining. DACT1 was overexpressed in the atrial myocyte cell line (HL-1) and the cardiac cell line (H9C2) by adenoviral vectors. Alterations in the fibrous actin (F-actin) content and organization and the expression of β-catenin were detected by flow cytometry, immunofluorescence, and Western blotting. Additionally, the association of DACT1 with gap junctions connexin 43 (Cx43) was detected by immunohistochemistry, immunofluorescence, and Western blotting. Results: Decreased cytoplasmic DACT1 expression in the myocardium was associated with AF (P=0.037) and a high degree of fibrosis (weak vs. strong, P=0.028; weak vs. very strong, P=0.029). A positive association was observed between DACT1 and β-catenin expression in clinical samples (P=0.028, Spearman’s rho=0.408). Furthermore, overexpression of DACT1 in HL-1 and H9C2 cells induced an increase in β-catenin and subsequent partial colocalization of DACT1 and β-catenin. In addition, F-actin content and organization were enhanced. Interestingly, DACT1 was positively correlated with the Cx43 expression in clinical samples (P=0.048, Spearman’s rho=0.370) and changed the Cx43 distribution in cardiac cell lines. Conclusion: DACT1 proved to be a novel AF-related gene by regulating Cx43 via cytoskeletal organization induced by β-catenin accumulation in cardiomyocytes. DACT1 could thus serve as a potential therapeutic marker for AF.
DOI: 10.6084/m9.figshare.17079491
title: Additional file 1 of U2-VC: one-shot voice conversion using two-level nested U-structure

description: Additional file 1 Demo samples of the proposed approach. The conversion samples are available on the demo page: https://tjulfk.github.io/U2VC/ .
DOI: 10.6084/m9.figshare.23896434
title: Automatically Generated FAIR Datasets: A Survey of Present and Potential Outdoor Self-Cleaning Coating Materials by an Advanced Literature Screening Strategy

description: In this work, we use Natural Language Processing (NLP) strategies to generate open- and traceable-sourced FAIR (findable, accessible, interoperable and reusable) datasets about self-cleaning coating materials from 39,011 multi-disciplinary papers. The data are from function-based and property-based corpora for self-cleaning purposes. These datasets are presented in four different formats for diverse uses or combined uses: material frequency statistics, material dictionary, measurement value datasets for self-cleaning-related properties and optical properties, and sentiment statistics of material stability and durability. This provides a literature-based, comprehensive and highly-refined data resource for the development of self-cleaning coatings and also offers potential pathways for material discovery and prediction by machine learning.