cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4088000
title: Endogenous Retrovirus expression activates type-I interferon signaling in an experimental mouse model of mesothelioma development

description: Datasets supporting the conclusions of the article : Endogenous Retrovirus expression activates type-I interferon signaling in an experimental mouse model of mesothelioma development by: <strong>Suna Sun</strong><sup>1</sup><strong>, Francesca Frontini</strong><sup>1</sup><strong>, Weihong Qi</strong><sup>2</sup><strong>, Ananya Hariharan</strong><sup>1</sup><strong>, Manuel Ronner</strong><sup>1</sup><strong>, Martin Wipplinger</strong><sup>1</sup><strong>, Christophe Blanquart</strong><sup>3</sup><strong>, Hubert Rehrauer</strong><sup>2</sup><strong>, Jean-François Fonteneau</strong><sup>3</sup> <strong>and Emanuela Felley-Bosco</strong><sup>1</sup>* 1 Laboratory of Molecular Oncology, Department of Thoracic Surgery, Lungen- und Thoraxonkologie Zentrum, University Hospital Zurich, Sternwartstrasse 14, 8091 Zurich, Switzerland 2Functional Genomic Center Zürich, ETH Zürich/University of Zürich, Zürich, Switzerland 3CRCINA, INSERM UMR 1232, Nantes, France
DOI: 10.21942/uva.14153114
title: Instagram images

description: All firm-generated instagram images analysed in the simplicity is not key paper. These images were downloaded in 2016 using the public Instagram API.
DOI: 10.21942/uva.14153096
title: Scraped TripAdvisor data

description: Raw data scrape with all the reviews and URLs for the corresponding user-generated imagery. All analyses were based on this datafile.
DOI: 10.21942/uva.14141039
title: Final Data

description: Final Dataset that includes all the variables in the analyses of the paper: Simplicity is not Key. This combines the raw data, with edits, plus all the information extracted from the source images using the visual complexity code.
DOI: 10.21942/uva.14141009
title: Data.rds

description: R dataset, consists of all data used for the paper: Simplicity is not Key. It has all the data collected using the public Instagram API. The data is everything related to Instagram posts made by public brands, this includes metadata about the posts, the caption corresponding to the post and the imageURL for downloading the image. The imagedata is no longer available for download, but the images, the Matlab scripts for extracting the complexity variables, and the source images are made available as well. The data consists of about 200k posts for a 1000 brands
DOI: 10.6084/m9.figshare.14261219.v1
title: Supplemental Table 2

description: OTU assignments by QIIMe2 and clinical meta-data
DOI: 10.26106/0m9c-de94
title: B-GOOD Database on Nectar & Pollen Production - concept
DOI: 10.5281/zenodo.4627545
title: Deconvolving clinically relevant cellular immune crosstalk from bulk gene expression using CODEFACS and LIRICS

description: All the processed data and codes from the manuscript "Deconvolving clinically relevant cellular immune crosstalk from bulk gene expression using CODEFACS and LIRICS" are uploaded here. Please see the README for details.
DOI: 10.5281/zenodo.4627540
title: High latitude E region neutral wind in Fall 2015

description: This is the full data used to analyze neutral wind in the E region at Poker Flat, Alaska using the measurement from PFISR during Fall 2015. Parameters including neutral winds are provided.
DOI: 10.5281/zenodo.4627539
title: High latitude E region neutral wind in Fall 2015

description: This is the full data used to analyze neutral wind in the E region at Poker Flat, Alaska using the measurement from PFISR during Fall 2015. Parameters including neutral winds are provided.
DOI: 10.6084/m9.figshare.14261354
title: Supplementary Material for: Autoimmune Movement Disorders: A Video-Based Case Series of 11 Patients

description: Autoimmune encephalitis (AIE) constitutes an important treatable cause of movement disorders. We aimed to highlight the spectrum of movement disorder and other salient features of AIE patients diagnosed at our tertiary care centre and describe their clinical symptoms, diagnostic approach, treatment, and outcome. We evaluated 11 patients who presented with movement disorder in association with AIE at our centre. Various abnormal movements observed were tremor, dyskinesias, stereotypy, dystonia, ataxia, asterixis, myoclonus, and parkinsonism. Antibodies were detected against NMDAR (<i>n</i> = 3), LGI-1 (<i>n</i> = 2), GAD-65 (<i>n</i> = 1), CASPR-2 (<i>n</i> = 1), Sox-1 (<i>n</i> = 1), Yo (<i>n</i> = 1), and thyroid peroxidase (<i>n</i> = 1). One patient was diagnosed with opsoclonus myoclonus syndrome associated with the suspected neuroblastic tumour. Six patients responded well to first-line immunotherapy (intravenous immunoglobulins or steroid or both). Three patients with anti-NMDAR antibodies received second-line therapy consisting of rituximab. Movement disorder is one of the most consistent features of AIE. Understanding of the ever-expanding spectrum of antibodies associated with movement disorders helps in the early diagnosis and better management of patients of autoimmune movement disorder.
DOI: 10.6084/m9.figshare.14261354.v1
title: Supplementary Material for: Autoimmune Movement Disorders: A Video-Based Case Series of 11 Patients

description: Autoimmune encephalitis (AIE) constitutes an important treatable cause of movement disorders. We aimed to highlight the spectrum of movement disorder and other salient features of AIE patients diagnosed at our tertiary care centre and describe their clinical symptoms, diagnostic approach, treatment, and outcome. We evaluated 11 patients who presented with movement disorder in association with AIE at our centre. Various abnormal movements observed were tremor, dyskinesias, stereotypy, dystonia, ataxia, asterixis, myoclonus, and parkinsonism. Antibodies were detected against NMDAR (<i>n</i> = 3), LGI-1 (<i>n</i> = 2), GAD-65 (<i>n</i> = 1), CASPR-2 (<i>n</i> = 1), Sox-1 (<i>n</i> = 1), Yo (<i>n</i> = 1), and thyroid peroxidase (<i>n</i> = 1). One patient was diagnosed with opsoclonus myoclonus syndrome associated with the suspected neuroblastic tumour. Six patients responded well to first-line immunotherapy (intravenous immunoglobulins or steroid or both). Three patients with anti-NMDAR antibodies received second-line therapy consisting of rituximab. Movement disorder is one of the most consistent features of AIE. Understanding of the ever-expanding spectrum of antibodies associated with movement disorders helps in the early diagnosis and better management of patients of autoimmune movement disorder.
DOI: 10.17037/data.00000600
title: Clinical Code List - Exclusion Codes

description: Medical codes and terms used to exclude people from study prior to first flucloxacillin or oxytetracycline exposure. This file supports a paper titled "Quantification of the risk of liver injury associated with flucloxacillin: a UK population-based cohort study".
DOI: 10.17033/data.00000239
title: Quantum-chemical analysis of the processes at the surfaces of Diesel fuel droplets

description: The quantum-chemical methods used for describing the processes at the surface of Diesel fuel droplets are summarised. Some results relevant to practical engineering application in Diesel engines, obtained previously, are summarised. Assuming that the droplets are so small that their interaction with individual molecules can be described using the methods of the kinetic gas theory (they can be considered as clusters/nanodrops), it was shown that the evaporation rate depends on partial pressures, temperature, and the sizes and masses of molecules and clusters/nanodrops. The results of the analysis of the collision processes between n-dodecane (approximation of Diesel fuel) molecules and clusters/nanodrops, based on the Dynamic Reaction Coordinate (DRC) method, are described. It is concluded that the probability of the attacking molecule sticking to a droplet is maximal if the molecular plane is parallel or almost parallel to the droplet surface. If the kinetic energy of the attacking molecules is high (greater than that corresponding to the boiling temperature) then it is expected that it will scatter and be removed from the cluster/nanodrop surface. The mechanisms of evaporation of microdrops and nanodrops are shown to involve rather different processes. In the case of microdrops, individual C12 molecules are evaporated from their surfaces, while in the case of nanodrops they can be disintegrated into clusters and individual molecules. The decrease in the likelihood of evaporation/condensation with temperature, predicted by the quantum-chemical (QC) approach, agrees with the prediction of the classical theory based on the MD simulations of n-dodecane molecules. The results of the estimation of the evaporation/condensation coefficient of n-dodecane molecules using the transition state theory (TST), based on the QC/DFT approach and taking into account the conformerisation of n-dodecane molecules, are summarised. It is shown that taking into account the QC effects leads to marginal modifications of the predicted evaporation/condensation coefficient, particularly at temperatures which are not close to the critical temperature.
description: Modelling
DOI: 10.25592/uhhfdm.8972
title: Dataset re the manuscript entitled "An Experience-Sampling Study on the Relevance of Affect Dynamics to Paranoid Ideation"

description: Dataset Abstract of submitted manuscript: Affective functioning is compromised in people who develop persecutory delusions, but the specifics of these affective disturbances remain unclear. To better understand the precise nature of affective disturbance in this group, it could prove helpful to focus not only on average or momentary affect intensities but also on the dynamic properties of affect, that is, the patterns and regularities with which affect fluctuates over time. This study used experience-sampling in a community sample with varying levels of paranoid ideation (<em>n</em> = 144) to capture different aspects of temporal affect dynamics in the two affective dimensions of valence and arousal. Specifically, we aimed to elucidate whether paranoid ideation is associated with high affective instability (i.e., both high affective variability and low inertia) or only with high affective variability or low affective inertia, and whether these effects would be maintained when mean affect levels are controlled for. Results showed that the intensity and frequency of paranoid ideation were significantly associated with high variability of affective arousal but for paranoia frequency the effect was not robust against controlling for average arousal levels. Paranoia frequency was also associated with low inertia in affective valence and paranoia intensity was associated with high valence variability. We discuss the implications of these findings for future research and clinical practice.
DOI: 10.25592/uhhfdm.898
title: Dataset re the manuscript entitled "An Experience-Sampling Study on the Relevance of Affect Dynamics to Paranoid Ideation"

description: Dataset Abstract of submitted manuscript: Affective functioning is compromised in people who develop persecutory delusions, but the specifics of these affective disturbances remain unclear. To better understand the precise nature of affective disturbance in this group, it could prove helpful to focus not only on average or momentary affect intensities but also on the dynamic properties of affect, that is, the patterns and regularities with which affect fluctuates over time. This study used experience-sampling in a community sample with varying levels of paranoid ideation (<em>n</em> = 144) to capture different aspects of temporal affect dynamics in the two affective dimensions of valence and arousal. Specifically, we aimed to elucidate whether paranoid ideation is associated with high affective instability (i.e., both high affective variability and low inertia) or only with high affective variability or low affective inertia, and whether these effects would be maintained when mean affect levels are controlled for. Results showed that the intensity and frequency of paranoid ideation were significantly associated with high variability of affective arousal but for paranoia frequency the effect was not robust against controlling for average arousal levels. Paranoia frequency was also associated with low inertia in affective valence and paranoia intensity was associated with high valence variability. We discuss the implications of these findings for future research and clinical practice.
DOI: 10.6084/m9.figshare.14139521
title: Data_Socioeconomic Development Evaluation for Chinese Poverty-stricken Counties with Indexes Derived from Remotely Sensed Data.xls

description: The remotely sensed indicator and socioeconomic index data used for socioeconomic development assessment of poverty-stricken counties, and the evaluation results based on the two types of indicators.
DOI: 10.6084/m9.figshare.14139521.v1
title: Data_Socioeconomic Development Evaluation for Chinese Poverty-stricken Counties with Indexes Derived from Remotely Sensed Data.xls

description: The remotely sensed indicator and socioeconomic index data used for socioeconomic development assessment of poverty-stricken counties, and the evaluation results based on the two types of indicators.
DOI: 10.6084/m9.figshare.14251196
title: GM12878

description: test
DOI: 10.6084/m9.figshare.14261432
title: Supplemental Table 3

description: OTU assignments by QIIMe2 and clinical meta-data
DOI: 10.6084/m9.figshare.14261432.v1
title: Supplemental Table 3

description: OTU assignments by QIIMe2 and clinical meta-data
DOI: 10.34688/10gh-1446
title: Simulated COVID-19 Remdesivir Study
DOI: 10.6084/m9.figshare.13370498
title: An ATAC-seq atlas of chromatin accessibility in rat tissues

description: The Norway rat (Rattus norvegicus) serves as a valuable model for investigating complex disorders and social behaviors due to its available previous researches and easily to characterize and quantify the different type of social behavior. However, a comprehensive profiling of epigenetic regulation in rats is lacking, which is essential for a deeper understanding of diseases and social behaviors. Here, we profiled chromatin accessibility using ATAC-seq (Assay for Transposase-Accessible Chromatin coupled with next-generation sequencing) of 10 body tissues and 12 brain regions from adult rats and produced a large collection of datasets with replicates. This comprehensive ATAC-seq atlas is consisted of 397,691 accessible elements. In addition, by comparing the open chromatin landscapes among rat tissues, a total of 72,721 tissue-specific peaks and a list of putative tissue-specific transcription factors are unbiasedly identified. We further showed that many established tissue-specific transcriptional characteristics have been recapitulated in this ATAC-seq atlas, indicating that our study may pave the way for future mechanistic discoveries in diseases and social behaviors using rat as a model.
DOI: 10.6084/m9.figshare.13370498.v6
title: An ATAC-seq atlas of chromatin accessibility in rat tissues

description: The Norway rat (Rattus norvegicus) serves as a valuable model for investigating complex disorders and social behaviors due to its available previous researches and easily to characterize and quantify the different type of social behavior. However, a comprehensive profiling of epigenetic regulation in rats is lacking, which is essential for a deeper understanding of diseases and social behaviors. Here, we profiled chromatin accessibility using ATAC-seq (Assay for Transposase-Accessible Chromatin coupled with next-generation sequencing) of 10 body tissues and 12 brain regions from adult rats and produced a large collection of datasets with replicates. This comprehensive ATAC-seq atlas is consisted of 397,691 accessible elements. In addition, by comparing the open chromatin landscapes among rat tissues, a total of 72,721 tissue-specific peaks and a list of putative tissue-specific transcription factors are unbiasedly identified. We further showed that many established tissue-specific transcriptional characteristics have been recapitulated in this ATAC-seq atlas, indicating that our study may pave the way for future mechanistic discoveries in diseases and social behaviors using rat as a model.
DOI: 10.6084/m9.figshare.13370498.v5
title: An ATAC-seq atlas of chromatin accessibility in rat tissues

description: The Norway rat (Rattus norvegicus) serves as a valuable model for investigating complex disorders and social behaviors due to its available previous researches and easily to characterize and quantify the different type of social behavior. However, a comprehensive profiling of epigenetic regulation in rats is lacking, which is essential for a deeper understanding of diseases and social behaviors. Here, we profiled chromatin accessibility using ATAC-seq (Assay for Transposase-Accessible Chromatin coupled with next-generation sequencing) of 10 body tissues and 12 brain regions from adult rats and produced a large collection of datasets with replicates. This comprehensive ATAC-seq atlas is consisted of 187,930 accessible elements. In addition, by comparing the open chromatin landscapes among rat tissues, a total of 24,238 tissue-specific peaks and a list of putative tissue-specific transcription factors are unbiasedly identified. We further showed that many established tissue-specific transcriptional characteristics have been recapitulated in this ATAC-seq atlas, indicating that our study may pave the way for future mechanistic discoveries in diseases and social behaviors using rat as a model.
DOI: 10.6084/m9.figshare.14261123
title: FOB microscopy - adipocytes

description: Fluorescence, optical diffraction tomography and Brillouin microscopy data of adipocytes.
DOI: 10.6084/m9.figshare.14261123.v2
title: FOB microscopy - adipocytes

description: Fluorescence, optical diffraction tomography and Brillouin microscopy data of adipocytes.
DOI: 10.6084/m9.figshare.14261123.v1
title: FOB microscopy - adipocytes

description: Fluorescence, optical diffraction tomography and Brillouin microscopy data of adipocytes.
DOI: 10.3886/e116769v2
title: Bankrupt in America

description: This set of replication files generates tables and figures for Mary Eschelbach Hansen and Bradley A. Hansen, Bankrupt in America: A History of Debtors, Their Creditors, and the Law in the Twentieth Century (University of Chicago Press, 2020). ISBN: 9780226679563. <br><br><br><br><br>
description: There are two types of data: bankruptcy statistics and bankruptcy court case files. The universe for the bankruptcy statistics is US Federal District Courts. The universe for bankruptcy court case files is households filing for non-business bankruptcy in Missouri from 1898-1930 and in Maryland from 1945-2000.<br>.
description: The appendices to the chapters of Bankrupt in America (University of Chicago Press, 2020) serve as the complete user guide to the data and methods. <br><br><br><br><br>
DOI: 10.6084/m9.figshare.14261324
title: F2 Mandibular Landmark Measurements

description: F2s were generated by crossing two partially inbred lines of Gough Island mice with the WSB inbred line.<br><br>This file contains mandibular phenotype data, including raw and Procrustes coordinates for 32 landmarks in 626 F2s.
DOI: 10.6084/m9.figshare.14261324.v2
title: F2 Mandibular Landmark Measurements

description: F2s were generated by crossing two partially inbred lines of Gough Island mice with the WSB inbred line.<br><br>This file contains mandibular phenotype data, including raw and Procrustes coordinates for 32 landmarks in 626 F2s.
DOI: 10.6084/m9.figshare.14261324.v1
title: F2s_ProcrustesCoordinates.csv

description: F2s were generated by crossing two partially inbred lines of Gough Island mice with the WSB inbred line.<br><br>This file contains mandibular phenotype data, including raw and Procrustes coordinates for 32 landmarks in 626 F2s.
DOI: 10.17632/6bgtjp2496.1
title: Data for: Astronomical time scale of a middle Eocene lacustrine sequence from the Dongpu Sag, Bohai Bay Basin, Eastern China

description: The original data that used to analysis
DOI: 10.5525/gla.researchdata.1128
title: Donor-free oligothiophene based dyes with di-anchor architecture for Dye-Sensitized Solar Cells
DOI: 10.6084/m9.figshare.14261641.v1
title: The raw data of Development of paclitaxel-loaded poly(lactic acid)/hydroxyapatite core–shell nanoparticles as a stimuli-responsive drug delivery system

description: Biodegradable nanoparticles have been well studied as biocompatible delivery systems. Nanoparticles of less than 200 nm in size can facilitate the passive targeting of drugs to tumour tissues and their accumulation therein via the enhanced permeability and retention (EPR) effect. Recent studies have focused on stimuli-responsive drug delivery systems (DDS) for improving the effectiveness of chemotherapy; for example, pH-sensitive DDS depend on the weakly acidic and neutral extracellular pH of tumour and normal tissues, respectively. In our previous work, core–shell nanoparticles composed of the biodegradable polymer poly(lactic acid) (PLA) and the widely used inorganic biomaterial hydroxyapatite (HAp, which exhibits pH sensitivity) were prepared using a surfactant-free method. These PLA/HAp core–shell nanoparticles could load 750 wt% of a hydrophobic model drug. In this work, the properties of the PLA/HAp core–shell nanoparticles loaded with the anti-cancer drug paclitaxel (PTX) were thoroughly investigated <i>in vitro</i>. Because the PTX-containing nanoparticles were approximately 80 nm in size, they can be expected to facilitate efficient drug delivery via the EPR effect. The core–shell nanoparticles were cytotoxic towards cancer cells (4T1). This was due to the pH sensitivity of the HAp shell, which is stable in neutral conditions and dissolves in acidic conditions. The cytotoxic activity of the PTX-loaded nanoparticles was sustained for up to 48 h, which was suitable for tumour growth inhibition. These results suggest that the core–shell nanoparticles can be suitable drug carriers for various water-insoluble drugs.
DOI: 10.6084/m9.figshare.14261641
title: The raw data of Development of paclitaxel-loaded poly(lactic acid)/hydroxyapatite core–shell nanoparticles as a stimuli-responsive drug delivery system

description: Biodegradable nanoparticles have been well studied as biocompatible delivery systems. Nanoparticles of less than 200 nm in size can facilitate the passive targeting of drugs to tumour tissues and their accumulation therein via the enhanced permeability and retention (EPR) effect. Recent studies have focused on stimuli-responsive drug delivery systems (DDS) for improving the effectiveness of chemotherapy; for example, pH-sensitive DDS depend on the weakly acidic and neutral extracellular pH of tumour and normal tissues, respectively. In our previous work, core–shell nanoparticles composed of the biodegradable polymer poly(lactic acid) (PLA) and the widely used inorganic biomaterial hydroxyapatite (HAp, which exhibits pH sensitivity) were prepared using a surfactant-free method. These PLA/HAp core–shell nanoparticles could load 750 wt% of a hydrophobic model drug. In this work, the properties of the PLA/HAp core–shell nanoparticles loaded with the anti-cancer drug paclitaxel (PTX) were thoroughly investigated <i>in vitro</i>. Because the PTX-containing nanoparticles were approximately 80 nm in size, they can be expected to facilitate efficient drug delivery via the EPR effect. The core–shell nanoparticles were cytotoxic towards cancer cells (4T1). This was due to the pH sensitivity of the HAp shell, which is stable in neutral conditions and dissolves in acidic conditions. The cytotoxic activity of the PTX-loaded nanoparticles was sustained for up to 48 h, which was suitable for tumour growth inhibition. These results suggest that the core–shell nanoparticles can be suitable drug carriers for various water-insoluble drugs.
DOI: 10.17632/shs4r6xvfd.1
title: Data for: Impacts of traffic on temporal variations in roadside particle concentrations

description: This is the row data obtained through the field experiments. It contains all the monitored roadside particle concentrations.