cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20161592.v1
title: Development of the Transdiagnostic Skills Scale (T2S)

description: Psychotherapy has proved its efficacy for treating a wide range of psychological disorders. Most types of psychotherapy have been developed to treat specific disorders and validated through controlled-randomized trials. In recent years, researchers have developed a new way to conceptualize patients’ difficulties, focusing on processes instead of diagnoses. However, there is no simple scale that evaluates transdiagnostic processes, and the development of such a tool is thus the aim of this study. We identified 12 processes that can be targeted in cognitive behavior therapy and created the Transdiagnostic Skills Scale (T2S) to evaluate them. We measured its internal consistency, factor structure and convergent validity in clinical and non-clinical samples. We found a 6-factor structure composed of emotion regulation, behavioral activation/planning, emotional identification, assertiveness, problem solving and emotional confrontation. The T2S has high internal consistency (Cronbach’s alpha = 0.95). We found negative associations between skills and symptoms of anxiety, depression and eating disorders. We found no association between these processes and symptoms of either alcohol or cannabis use disorder. The T2S is a useful and valid tool to identify the skills that clinicians should work on with their patients. It offers a complementary way to understand patients’ difficulties when categorical assessment is complicated.
DOI: 10.5281/zenodo.7627713
title: Contrasting Responses of Surface Heat Fluxes to Tropical Deforestation

description: 2D_GSWP3*.nc are the CLM simulation outputs with GSWP3 as input forcings. 2D_*_piControl.nc and 2D_*_deforest-globe.nc are the CMIP6 model outputs. Offline.m and LUMIP.m are matlab code files to reproduce figures in the article. nc_*.py are python code files to generate netCDF files for producing figures.
DOI: 10.5281/zenodo.7627712
title: Contrasting Responses of Surface Heat Fluxes to Tropical Deforestation

description: 2D_GSWP3*.nc are the CLM simulation outputs with GSWP3 as input forcings. 2D_*_piControl.nc and 2D_*_deforest-globe.nc are the CMIP6 model outputs. Offline.m and LUMIP.m are matlab code files to reproduce figures in the article. nc_*.py are python code files to generate netCDF files for producing figures.
DOI: 10.11588/data/sgn2cn/znzi0w
title: 5_Fluorescence.zip

description: :unav
DOI: 10.11588/data/sgn2cn/6xawjx
title: 3_CD.zip

description: :unav
DOI: 10.11588/data/sgn2cn/gwxstt
title: 1_HPLC.zip

description: :unav
DOI: 10.11588/data/sgn2cn/gg0lez
title: 2_MALDI-TOF MS.zip

description: :unav
DOI: 10.11588/data/sgn2cn/mfcc8a
title: 4_NMR.zip

description: :unav
DOI: 10.11588/data/sgn2cn/vztzxc
title: Overview_Original_Data.docx

description: :unav
DOI: 10.6084/m9.figshare.21829854.v1
title: Impact of sewer biofilms on fate of SARS-CoV-2 RNA and wastewater surveillance

description: This file contains data used and presented in Figure 2(a,b), Figure 3(a,b) and Figure 4 in the main text.
DOI: 10.6084/m9.figshare.21829854
title: Impact of sewer biofilms on fate of SARS-CoV-2 RNA and wastewater surveillance

description: This file contains data used and presented in Figure 2(a,b), Figure 3(a,b) and Figure 4 in the main text.
DOI: 10.6084/m9.figshare.22067388
title: All Matlab scripts used to generate figures, including data from A discrete shear lag model of the mechanics of hitchhiker plants, and its prospective application to tendon-to-bone repair

description: All Matlab scripts used to generate figures, including data
DOI: 10.6084/m9.figshare.22067388.v1
title: All Matlab scripts used to generate figures, including data from A discrete shear lag model of the mechanics of hitchhiker plants, and its prospective application to tendon-to-bone repair

description: All Matlab scripts used to generate figures, including data
DOI: 10.6084/m9.figshare.21638084
title: mGluR5 in amygdala modulates fear memory generalization

description: PCR data: To determine the mechanism in cytosolic mGluR5 protein increase, we examined the mRNA expression of GRM5 and its relative genes including Frmpd4, Ncdn, Tamalin, Pik3r1 and Homer1 using reverse transcriptase quantitative polymerase chain reaction. The amygdala of conditioned mice was separated immediately after CFC training. The total RNA was extracted and purified using HP Total RNA Kit (R6812-01 OMEGA bio-tek) other data were provided as well
DOI: 10.6084/m9.figshare.21638084.v2
title: mGluR5 in amygdala modulates fear memory generalization

description: PCR data: To determine the mechanism in cytosolic mGluR5 protein increase, we examined the mRNA expression of GRM5 and its relative genes including Frmpd4, Ncdn, Tamalin, Pik3r1 and Homer1 using reverse transcriptase quantitative polymerase chain reaction. The amygdala of conditioned mice was separated immediately after CFC training. The total RNA was extracted and purified using HP Total RNA Kit (R6812-01 OMEGA bio-tek) other data were provided as well
DOI: 10.6084/m9.figshare.21638084.v1
title: all data

description: PCR data: To determine the mechanism in cytosolic mGluR5 protein increase, we examined the mRNA expression of GRM5 and its relative genes including Frmpd4, Ncdn, Tamalin, Pik3r1 and Homer1 using reverse transcriptase quantitative polymerase chain reaction. The amygdala of conditioned mice was separated immediately after CFC training. The total RNA was extracted and purified using HP Total RNA Kit (R6812-01 OMEGA bio-tek) other data were provided as well
DOI: 10.6084/m9.figshare.22067394
title: Code for 'Bayesian cluster analysis'

description: Bayesian cluster analysis offers substantial benefits over algorithmic approaches by providing not only point estimates but also uncertainty in the clustering structure and patterns within each cluster. An overview of Bayesian cluster analysis is provided, including both model-based and loss-based approaches, along with a discussion on the importance of the kernel or loss selected and prior specification. Advantages are demonstrated in an application to cluster cells and discover latent cell types in single-cell RNA sequencing data to study embryonic cellular development. Lastly, we focus on the ongoing debate between finite and infinite mixtures in a model-based approach and robustness to model misspecification. While much of the debate and asymptotic theory focuses on the marginal posterior of the number of clusters, we empirically show that quite a different behaviour is obtained when estimating the full clustering structure.This article is part of the theme issue ‘Bayesian inference: challenges, perspective, and prospects’.
DOI: 10.6084/m9.figshare.22067400.v1
title: R script from Turn-taking in human face-to-face interaction is multimodal: gaze direction and manual gestures aid the coordination of turn transitions

description: Human communicative interaction is characterized by rapid and precise turn-taking. This is achieved by an intricate system that has been elucidated in the field of conversation analysis, based largely on the study of the auditory signal. This model suggests that transitions occur at points of possible completion identified in terms of linguistic units. Despite this, considerable evidence exists that visible bodily actions including gaze and gestures also play a role. To reconcile disparate models and observations in the literature, we combine qualitative and quantitative methods to analyse turn-taking in a corpus of multimodal interaction using eye-trackers and multiple cameras. We show that transitions seem to be inhibited when a speaker averts their gaze at a point of possible turn completion, or when a speaker produces gestures which are beginning or unfinished at such points. We further show that while the direction of a speaker's gaze does not affect the speed of transitions, the production of manual gestures does: turns with gestures have faster transitions. Our findings suggest that the coordination of transitions involves not only linguistic resources but also visual gestural ones and that the transition-relevance places in turns are multimodal in nature.This article is part of a discussion meeting issue ‘Face2face: advancing the science of social interaction’.
DOI: 10.6084/m9.figshare.22067400
title: R script from Turn-taking in human face-to-face interaction is multimodal: gaze direction and manual gestures aid the coordination of turn transitions

description: Human communicative interaction is characterized by rapid and precise turn-taking. This is achieved by an intricate system that has been elucidated in the field of conversation analysis, based largely on the study of the auditory signal. This model suggests that transitions occur at points of possible completion identified in terms of linguistic units. Despite this, considerable evidence exists that visible bodily actions including gaze and gestures also play a role. To reconcile disparate models and observations in the literature, we combine qualitative and quantitative methods to analyse turn-taking in a corpus of multimodal interaction using eye-trackers and multiple cameras. We show that transitions seem to be inhibited when a speaker averts their gaze at a point of possible turn completion, or when a speaker produces gestures which are beginning or unfinished at such points. We further show that while the direction of a speaker's gaze does not affect the speed of transitions, the production of manual gestures does: turns with gestures have faster transitions. Our findings suggest that the coordination of transitions involves not only linguistic resources but also visual gestural ones and that the transition-relevance places in turns are multimodal in nature.This article is part of a discussion meeting issue ‘Face2face: advancing the science of social interaction’.
DOI: 10.6084/m9.figshare.22067403
title: Data from Turn-taking in human face-to-face interaction is multimodal: gaze direction and manual gestures aid the coordination of turn transitions

description: Human communicative interaction is characterized by rapid and precise turn-taking. This is achieved by an intricate system that has been elucidated in the field of conversation analysis, based largely on the study of the auditory signal. This model suggests that transitions occur at points of possible completion identified in terms of linguistic units. Despite this, considerable evidence exists that visible bodily actions including gaze and gestures also play a role. To reconcile disparate models and observations in the literature, we combine qualitative and quantitative methods to analyse turn-taking in a corpus of multimodal interaction using eye-trackers and multiple cameras. We show that transitions seem to be inhibited when a speaker averts their gaze at a point of possible turn completion, or when a speaker produces gestures which are beginning or unfinished at such points. We further show that while the direction of a speaker's gaze does not affect the speed of transitions, the production of manual gestures does: turns with gestures have faster transitions. Our findings suggest that the coordination of transitions involves not only linguistic resources but also visual gestural ones and that the transition-relevance places in turns are multimodal in nature.This article is part of a discussion meeting issue ‘Face2face: advancing the science of social interaction’.
DOI: 10.6084/m9.figshare.22067403.v1
title: Data from Turn-taking in human face-to-face interaction is multimodal: gaze direction and manual gestures aid the coordination of turn transitions

description: Human communicative interaction is characterized by rapid and precise turn-taking. This is achieved by an intricate system that has been elucidated in the field of conversation analysis, based largely on the study of the auditory signal. This model suggests that transitions occur at points of possible completion identified in terms of linguistic units. Despite this, considerable evidence exists that visible bodily actions including gaze and gestures also play a role. To reconcile disparate models and observations in the literature, we combine qualitative and quantitative methods to analyse turn-taking in a corpus of multimodal interaction using eye-trackers and multiple cameras. We show that transitions seem to be inhibited when a speaker averts their gaze at a point of possible turn completion, or when a speaker produces gestures which are beginning or unfinished at such points. We further show that while the direction of a speaker's gaze does not affect the speed of transitions, the production of manual gestures does: turns with gestures have faster transitions. Our findings suggest that the coordination of transitions involves not only linguistic resources but also visual gestural ones and that the transition-relevance places in turns are multimodal in nature.This article is part of a discussion meeting issue ‘Face2face: advancing the science of social interaction’.
DOI: 10.5281/zenodo.7627803
title: PAGER: constructing PAGs and new PAG–PAG relationships for network biology

description: Pathway and Annotated-list Gene-signature Electronic Repository (PAGER) is an online systems biology tool for constructing and visualizing gene and PAG networks from multiple PAG genesets. PAG stands for Pathway, Annotated-list and Gene-signature. A PAG geneset represents a set of genes that share a common feature, whether they belong within the same pathway, share common biological processes, are co-differentially expressed under a particular condition of an experiment or clinical sample, or share a common downstream target or function. <strong>Available at:</strong> http://discovery.informatics.uab.edu/PAGER <strong>Acknowledgements:</strong> Zongliang Yue, Qi Zheng, Michael T Neylon, Minjae Yoo, Jimin Shin, Zhiying Zhao, Aik Choon Tan, Jake Y Chen, PAGER 2.0: an update to the pathway, annotated-list and gene-signature electronic repository for Human Network Biology, Nucleic Acids Research, Volume 46, Issue D1, 4 January 2018, Pages D668–D676,https://doi.org/10.1093/nar/gkx1040 <strong>File description</strong> The GMT file format is a tab delimited file format that describes gene sets. In the GMT format, each row represents a PAG. The first column is PAG identifier, the second column is PAG link and the third and left columns are PAG genes.
description: U-BRITE location: /data/project/ubrite/nih-data-management/projects/pager-webapp/PAGERV3.gmt
DOI: 10.5281/zenodo.7627802
title: PAGER: constructing PAGs and new PAG–PAG relationships for network biology

description: Pathway and Annotated-list Gene-signature Electronic Repository (PAGER) is an online systems biology tool for constructing and visualizing gene and PAG networks from multiple PAG genesets. PAG stands for Pathway, Annotated-list and Gene-signature. A PAG geneset represents a set of genes that share a common feature, whether they belong within the same pathway, share common biological processes, are co-differentially expressed under a particular condition of an experiment or clinical sample, or share a common downstream target or function. <strong>Available at:</strong> http://discovery.informatics.uab.edu/PAGER <strong>Acknowledgements:</strong> Zongliang Yue, Qi Zheng, Michael T Neylon, Minjae Yoo, Jimin Shin, Zhiying Zhao, Aik Choon Tan, Jake Y Chen, PAGER 2.0: an update to the pathway, annotated-list and gene-signature electronic repository for Human Network Biology, Nucleic Acids Research, Volume 46, Issue D1, 4 January 2018, Pages D668–D676,https://doi.org/10.1093/nar/gkx1040 <strong>File description</strong> The GMT file format is a tab delimited file format that describes gene sets. In the GMT format, each row represents a PAG. The first column is PAG identifier, the second column is PAG link and the third and left columns are PAG genes.
description: U-BRITE location: /data/project/ubrite/nih-data-management/projects/pager-webapp/PAGERV3.gmt
DOI: 10.6084/m9.figshare.19525708.v7
title: Table_S3_summary_bacteria_sample_features

description: <strong>Table S3</strong>. Key features of the bacterial samples. Fraction is the fraction of all genes that were plasmid-encoded. Plasmid_Plasmid_PPI is the number of PPIs exclusively between plasmid-encoded proteins. Plasmid_PPI is the number of PPIs between a chromosomal protein and a plasmid protein. Chrom_PPI is the number of PPIs between chromosomal proteins. PPIs is the total number of PPIs. CTri indicates the number of chromosomal protein trios. Loops indicates the number of indirect connections for chromosomal proteins. Ccs indicates the number of connected components for chromosomal proteins. CTri_all indicates the number of all protein trios. Loops_all indicates the number of indirect connections for all proteins. Ccs_all indicates the number of connected components for all proteins. APMNLE indicates the chromosomal proteins' aPMNLE (indirect connectivity). APMNLE_all indicates the aPMNLE for all proteins. DiffPMNLE stands for the % difference in aPMNLE when plasmid proteins are added to the chromosomal ones. Proteins_ccs_all is the number of connected components per protein for all proteins. Proteins_ccs_chrom is the number of connected components per protein for chromosomal proteins. Indirect_all is the number of indirect connections per protein for all proteins. indirect_chrom is the number of indirect connections per protein for chromosomal proteins.
DOI: 10.5281/zenodo.7439055
title: CGGA data

description: Total 6,148 cells, involving in 73 regions from 13 patients.
DOI: 10.5281/zenodo.7439056
title: CGGA data

description: Total 6,148 cells, involving in 73 regions from 13 patients.
DOI: 10.5281/zenodo.7615142
title: Montelukast inhibits platelet activation induced by plasma from COVID-19 patients

description: Leukotrienes are important proinflammatory lipid mediators derived from the arachidonic acid metabolism. In particular, cysteinyl leukotrienes, LTC<sub>4</sub>, LTD<sub>4</sub> and LTE<sub>4</sub>, are involved in many of the principal features of asthma, while more recently they have also been implicated in cardiovascular diseases. COVID-19 is characterized by an overwhelming state of inflammation, sometimes resulting in an acute respiratory distress syndrome. Furthermore, severe COVID-19 patients present an endothelial cell damage characterized by an hyperinflammatory/procoagulant state and a widespread thrombotic disease. Leukotriene receptor antagonists, such as montelukast, have long been proven to have an efficacy in asthma, while more recently they have been suggested to have a protective role also in cardiovascular diseases. As elevated levels of LTE<sub>4</sub> have been detected in bronchoalveolar lavage of COVID-19 patients, and montelukast, in addition to its anti-inflammatory properties, has been suggested to have a protective role in cardiovascular diseases, we decided to investigate whether this drug could also affect platelet activation characteristic of COVID-19 syndrome. In this contribution we demonstrate that montelukast inhibits platelet activation induced by plasma from COVID-19 patients by preventing the surface expression of tissue factor (TF) and P-selectin, reducing the formation of circulating monocyte- and granulocyte-platelet aggregates, and, finally, in completely inhibiting the release of TF<sup>pos</sup> circulating microvescicles. These data suggest the use of montelukast as a possible innovative treatment for COVID-19 syndrome.
DOI: 10.5281/zenodo.7615143
title: Montelukast inhibits platelet activation induced by plasma from COVID-19 patients

description: Leukotrienes are important proinflammatory lipid mediators derived from the arachidonic acid metabolism. In particular, cysteinyl leukotrienes, LTC<sub>4</sub>, LTD<sub>4</sub> and LTE<sub>4</sub>, are involved in many of the principal features of asthma, while more recently they have also been implicated in cardiovascular diseases. COVID-19 is characterized by an overwhelming state of inflammation, sometimes resulting in an acute respiratory distress syndrome. Furthermore, severe COVID-19 patients present an endothelial cell damage characterized by an hyperinflammatory/procoagulant state and a widespread thrombotic disease. Leukotriene receptor antagonists, such as montelukast, have long been proven to have an efficacy in asthma, while more recently they have been suggested to have a protective role also in cardiovascular diseases. As elevated levels of LTE<sub>4</sub> have been detected in bronchoalveolar lavage of COVID-19 patients, and montelukast, in addition to its anti-inflammatory properties, has been suggested to have a protective role in cardiovascular diseases, we decided to investigate whether this drug could also affect platelet activation characteristic of COVID-19 syndrome. In this contribution we demonstrate that montelukast inhibits platelet activation induced by plasma from COVID-19 patients by preventing the surface expression of tissue factor (TF) and P-selectin, reducing the formation of circulating monocyte- and granulocyte-platelet aggregates, and, finally, in completely inhibiting the release of TF<sup>pos</sup> circulating microvescicles. These data suggest the use of montelukast as a possible innovative treatment for COVID-19 syndrome.
DOI: 10.5281/zenodo.7627844
title: Anti-predator behavior in two brown frogs: differences in the mean behaviors and in the structure of animal personality variation

description: Predators are a major source of selection and preys have evolved the ability to flexibly respond to them. These responses often vary among species, because of their different evolutionary history, and among individuals, because of their different experiences. We analyzed both these sources of behavioral variation in two closely related brown frogs, <em>Rana dalmatina </em>and <em>R. latastei</em>. We raised tadpoles either with or without predators and tested them in open field trials both with and without predators. The effects of the raising environment were similar in the two species, whereas the effects of the testing arena differed. Both species decreased activity and increased speed and tortuosity with predators, but <em>R. dalmatina </em>moved always more and faster than <em>R. latastei </em>and it showed higher plasticity, larger variation among and within individuals, and relatively higher values in repeatability.
DOI: 10.5281/zenodo.7627843
title: Anti-predator behavior in two brown frogs: differences in the mean behaviors and in the structure of animal personality variation

description: Predators are a major source of selection and preys have evolved the ability to flexibly respond to them. These responses often vary among species, because of their different evolutionary history, and among individuals, because of their different experiences. We analyzed both these sources of behavioral variation in two closely related brown frogs, <em>Rana dalmatina </em>and <em>R. latastei</em>. We raised tadpoles either with or without predators and tested them in open field trials both with and without predators. The effects of the raising environment were similar in the two species, whereas the effects of the testing arena differed. Both species decreased activity and increased speed and tortuosity with predators, but <em>R. dalmatina </em>moved always more and faster than <em>R. latastei </em>and it showed higher plasticity, larger variation among and within individuals, and relatively higher values in repeatability.
DOI: 10.5281/zenodo.7627869
title: Coenogonium nimisii – a new isidiate epiphytic lichen similar to Porina rosei

description: Final concatenated (ITS+mtSSU) mycobiont and rbcL photobiont alignments used in analyses of the paper.
DOI: 10.5281/zenodo.7627868
title: Coenogonium nimisii – a new isidiate epiphytic lichen similar to Porina rosei

description: Final concatenated (ITS+mtSSU) mycobiont and rbcL photobiont alignments used in analyses of the paper.
DOI: 10.6084/m9.figshare.21674960.v2
title: All-summary.zip

description: Simplification algorithms comparison dataset
DOI: 10.6084/m9.figshare.21674960.v3
title: All-summary.zip

description: Simplification algorithms comparison dataset