cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7898240
title: Dataset related to article "Definition of a multi-omics signature for Esophageal Adenocarcinoma prognosis prediction "

description: This record contains raw data related to article “Definition of a multi-omics signature for Esophageal Adenocarcinoma prognosis prediction " Abstract: Esophageal cancer is a highly lethal malignancy that accounts for 5% of all cancer deaths. The two main sub-types of the disease are esophageal squamous-cell carcinoma (ESCC) and esophageal adenocarcinoma (EAC). To date, most studies focused on analysing the transcriptional profile in ESCC only a few studies analysed EAC for transcriptional signatures that might be associated with diagnosis and/or prognosis. In this work we performed a single-cell RNA sequencing (scRNAseq) analysis of the CD45+ cells enriched from from tumor and matched non-tumor tissues obtained from 3 therapy-naïve patients to identify all the types of immune cells present in the tumor's immune infiltrate and their transcriptomic profiles, moreover we have analysed the whole transcriptome in a cohort of 23 patients from whom tissue biopsies were taken from tumor and matched non-tumor tissues. The transcriptional signatures derived from both types of analyses were then used to stratify a larger cohort of TCGA EAC patients showing a strong association with their prognosis. The transcriptional signatures here described have therefore proved capable of being able to predict the clinical outcome of patients and could be used to better define the prognosis in EAC after surgery and to direct patients towards effective therapies.
DOI: 10.5281/zenodo.7898239
title: Dataset related to article "Definition of a multi-omics signature for Esophageal Adenocarcinoma prognosis prediction "

description: This record contains raw data related to article “Definition of a multi-omics signature for Esophageal Adenocarcinoma prognosis prediction " Abstract: Esophageal cancer is a highly lethal malignancy that accounts for 5% of all cancer deaths. The two main sub-types of the disease are esophageal squamous-cell carcinoma (ESCC) and esophageal adenocarcinoma (EAC). To date, most studies focused on analysing the transcriptional profile in ESCC only a few studies analysed EAC for transcriptional signatures that might be associated with diagnosis and/or prognosis. In this work we performed a single-cell RNA sequencing (scRNAseq) analysis of the CD45+ cells enriched from from tumor and matched non-tumor tissues obtained from 3 therapy-naïve patients to identify all the types of immune cells present in the tumor's immune infiltrate and their transcriptomic profiles, moreover we have analysed the whole transcriptome in a cohort of 23 patients from whom tissue biopsies were taken from tumor and matched non-tumor tissues. The transcriptional signatures derived from both types of analyses were then used to stratify a larger cohort of TCGA EAC patients showing a strong association with their prognosis. The transcriptional signatures here described have therefore proved capable of being able to predict the clinical outcome of patients and could be used to better define the prognosis in EAC after surgery and to direct patients towards effective therapies.
DOI: 10.3886/icpsr35344.v1
title: Organizations Convicted in Federal Criminal Courts, 2012
title: Version 1

description: These data, collected to assist in the development of sentencing guidelines, describe offense and sentencing characteristics for organizations sentenced in federal district courts in 2012. The United States Sentencing Commission's primary function is to inform federal courts of sentencing policies and practices that include guidelines prescribing the appropriate form and severity of punishment for offenders convicted of federal crimes. Court-related variables include primary offense type, pecuniary offense loss and gain, dates of disposition and sentencing, method of determination of guilt, number of counts pled and charged, and dates and types of sentencing and restitution. Defendant organization variables include ownership structure, number of owners and employees, highest level of corporate knowledge of the criminal offense, highest level of corporate indictment and conviction for participation in the criminal offense, annual revenue, equity and financial status, whether it was a criminal organization, duration of criminal activity, and risk to national security. Organizational defendants data, 2012, covers fiscal year October 1, 2011, through September 30, 2012.
description: Datasets: DS1: Organizations Convicted in Federal Criminal Courts, 2012
description: All cases received by the United States Sentencing Commission that had sentencing dates between October 1, 2011 and September 30, 2012 and were assessed as constitutional. Smallest Geographic Unit: federal court district
description: Starting with the 1999 data, ICPSR archives ORGANIZATIONS CONVICTED IN FEDERAL CRIMINAL COURTS under a new study number for each year of data. Data for the years 1987-1998 are archived in ORGANIZATIONS CONVICTED IN FEDERAL CRIMINAL COURTS, 1987-1998: [UNITED STATES] (ICPSR 9513).
DOI: 10.6084/m9.figshare.22548544
title: Supplementary Material for: Construction of Prognostic Nomogram in Patients with N3-stage Nasopharyngeal Carcinoma

description: Introduction: To retrospectively identify the metastatic influence factors and predict the prognosis, and develop an individualized prognostic prediction model for patients with N3-stage nasopharyngeal carcinoma (NPC). Methods: The study collected 446 NPC patients with N3-stage from the Surveillance, Epidemiology, and End Results (SEER) database between 2010 and 2015. The patients were classified into subgroups based on the histological types and metastatic status. Multivariable logistic, Cox regression, and Kaplan-Meier (K-M) method with the log-rank test were performed. The nomogram model was created using the prognostic factors identified from Cox regression analysis. The predictive accuracy was determined based on the concordance index (c-index) and calibration curves. Results: The five-year overall survival (OS) of the NPC patients with N3-stage was 43.9%, and the prognosis of patients without any distant metastases was largely longer than that with metastases. No difference was observed between different pathological types in the entire cohort. However, patients with non-keratinized squamous cell carcinoma (NKSCC) had a better OS than that of the patients with keratinized squamous cell carcinoma (KSCC) in a nonmetastatic subgroup. Using the Cox regression analysis results, the nomogram successfully classified these patients into low- and high-risk subgroups and presented the survival difference. The c-index of the nomogram for predicting the prognosis was satisfactory. Discussion/Conclusion: This study identified metastatic risk factors and developed a convenient clinical tool for the prognosis of NPC patients. This tool can be used for individualized risk classification and decision-making regarding treatment of NPC patients with N3-stage.
DOI: 10.3886/icpsr36354.v1
title: National Crime Victimization Survey: School Crime Supplement, 2015
title: Version 1

description: The primary purpose of the School Crime Supplement (SCS) is to obtain additional information about school-related victimizations so that policymakers; academic researchers; practitioners at the federal, state, and local levels; and special interest groups who are concerned with crime in schools can make informed decisions concerning policies and programs. The SCS asks questions related to students' experiences with, and perceptions of crime and safety at school, including preventive measures employed by schools; students' participation in after school activities; students' perception of school rules and enforcement of these rules; the presence of weapons, drugs, alcohol, and gangs in school; student bullying; hate-related incidents; and attitudinal questions relating to the fear of victimization at school. These responses are linked to the National Crime Victimization Survey (NCVS) survey instrument responses for a more complete understanding of the individual student's circumstances.
description: The data contain weights for creating national estimates.
description: Persons ages 12 to 18 who were in primary or secondary education programs leading to a high school diploma (elementary through high school), and who had been enrolled sometime during the 6 months prior to the interview, were administered the 2015 SCS questionnaire.
description: Datasets: DS1: National Crime Victimization Survey: School Crime Supplement, 2015
description: NCVS household members aged 12 through 18.
description: face-to-face interview; telephone interview
DOI: 10.3886/icpsr07446.v3
title: Survey of Consumer Finances, 1966
title: Version 3

description: The Survey of Consumer Attitudes and Behavior series (also known as the Surveys of Consumers) was undertaken to measure changes in consumer attitudes and expectations, to understand why such changes occur, and to evaluate how they relate to consumer decisions to save, borrow, or make discretionary purchases. The data regularly include the Index of Consumer Sentiment, the Index of Current Economic Conditions, and the Index of Consumer Expectations. This data collection is one in a series of financial surveys of consumers conducted annually since 1946. In a nationally representative sample, the head of each family unit was interviewed. Starting in 1966, in order to examine the effect that increased car ownership was having on American families, the data collected in this series were organized so that they could be analyzed by both family unit and car unit. The 1966 data are based on car unit. Survey questions regarding automobiles included number of drivers and car owners in the family, make and model of each car, purchase method, car financing and installment debt, and expectations of car purchases in the coming year. Other questions in the 1966 survey covered the respondent's attitudes toward national economic conditions (e.g., the effect of Vietnam War involvement and relations with other communist countries on United States business) and price activity, as well as the respondent's own financial situation. Other questions examined the family unit head's occupation, and the nature and amount of the family's income, debts, liquid assets, changes in liquid assets, savings, investment preferences, and actual and expected purchases of major durables. In addition, the survey explored in detail the subject of housing, e.g., previous and present home ownership, value of respondent's dwelling, and mortgage information. Each respondent also was asked about unemployment, job history, hours of part- and full-time employment, and retirement plans. Personal data include age and education of head, household composition, and occupation.
description: The purpose of this survey series is to forecast changes in aggregate consumer behavior.
description: The sample was made up of a national cross-section of family units.
description: Datasets: DS1: Survey of Consumer Finances, 1966
description: The population of the United States. Smallest Geographic Unit: Primary Sampling Units (PSUs)
description: Data on a family unit basis have a record for each family, with car information only for the first (usually the newest) car owned. Data on a car unit basis have a record for every car owned by the family. By using a global filter, data on a car unit basis can also be analyzed on a family unit basis.Additional information on the Surveys of Consumers can be found by visiting the Surveys of Consumers Website.
DOI: 10.15151/esrf-es-1057335618
title: Austrian Crystallographic Diffraction Consortium

description: This proposed Austrian Crystallographic.... TO BE FILLED IN
DOI: 10.15151/esrf-es-1059299981
title: Macromolecular Crystallography in Bordeaux/Lyon/Toulouse IECB IBGC CBMN / IBCP-MMSB ICBMS / IPBS

description: The different research teams who are part of this BAG are located in Bordeaux, Lyon and Toulouse. They are mainly working on worldwide health concerns or biotechnological relevant projects. In more details, infectiology, molecular assemblies, biosynthetic pathways or glycobiology are their main research axises. Important results have been obtained so far regarding the development of new therapeutic strategies against several infectious diseases or regarding plastic bioremediation. In order to go further into details of all these studies, access to ESRF facilities is a requirement.
DOI: 10.15151/esrf-es-1059606891
title: Berlin-Karlsruhe - Macromolecular Crystallography BAG - Structural Biology of light responsive, signal transducing and metalloproteins

description: The project aims to investigate structure-function relationships in different groups of soluble and membrane proteins, most of which are involved in signal transduction or energy conversion. We investigate the signalling mechanisms of phytochromes by focusing on the structures of the intermediates of the photocycle and by analysing domain movements or by introducing unnatural amino acids. We analyse the structures of different G protein-coupled receptors (GPCRs; e.g. melanocortin-4 receptor and rhodopsin), either alone or in complex with their cognate G-proteins, to understand their signalling mechanisms. In our work on the biocatalytic splitting of molecular hydrogen into protons and electrons, we analyse the membrane-bound and soluble [NiFe] hydrogenases, proteins of the remarkably small subgroup of hydrogenases that are active under aerobic conditions. Other research areas include mechanosensitive channels, microbial rhodopsins, cytomegalovirus proteins and DNA photolyases.
DOI: 10.15151/esrf-es-1057221253
title: IBS BAG

description: The IBS BAG includes in this proposal IBS teams and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study structure-function relationships of proteins emphasizing in human health, biotechnology and methodology. Most of the projects are a continuation of the MX-2398 proposal and can be grouped into different topics as follows: host-pathogen interaction, new drug targets, fundamental cellular mechanisms, membrane proteins, biotechnological applications and methodology. Some of these projects use integrative approaches (X-ray crystallography, SAXS, NMR (and cryo-EM), together with other biophysical studies) with the aim to fully understand the complexity of the biological macromolecular systems on study.
DOI: 10.6084/m9.figshare.22501459
title: Supplementary Material for: Loss of MD1 promotes inflammatory and apoptotic atrial remodelling in diabetic cardiomyopathy by activating the TLR4/NF-κB signalling pathway

description: Introduction: Myeloid differentiation protein 1 (MD1), a negative regulator of Toll-like receptor 4 (TLR4), is widely expressed in the heart. Recent studies have shown that MD1 plays an important role in cardiac remodelling. However, the effects and potential mechanisms underlying MD1-mediated atrial remodelling in diabetic cardiomyopathy (DCM) remain unclear. Therefore, this study was designed to explore the role of MD1 in DCM-related atrial remodelling. Methods: MD1 knockout (MD1-KO) mice and wild-type (WT) littermates were injected with streptozotocin (STZ) to establish a diabetic mouse model. These mice were then used to evaluate MD1 expression and its effects on atrial remodelling in vivo. Results: MD1 expression was significantly decreased in STZ-induced diabetic mice. The loss of MD1 aggravated atrial fibrosis, inflammation, and apoptosis in DCM mice and promoted atrial remodelling. MD1-KO diabetic mice also showed higher susceptibility to atrial fibrillation (AF) and worse cardiac function. Mechanistically, the deletion of MD1 promoted the activation of the TLR4/NF-κB signalling pathway, resulting in atrial remodelling in DCM mice via increased p65 phosphorylation. Conclusions: The deletion of MD1 plays an important role in inflammatory and apoptotic atrial remodelling and increases susceptibility to AF in DCM mice, providing a new target for the preventive treatment of DCM-related atrial remodelling.
DOI: 10.6084/m9.figshare.22501459.v1
title: Supplementary Material for: Loss of MD1 promotes inflammatory and apoptotic atrial remodelling in diabetic cardiomyopathy by activating the TLR4/NF-κB signalling pathway

description: Introduction: Myeloid differentiation protein 1 (MD1), a negative regulator of Toll-like receptor 4 (TLR4), is widely expressed in the heart. Recent studies have shown that MD1 plays an important role in cardiac remodelling. However, the effects and potential mechanisms underlying MD1-mediated atrial remodelling in diabetic cardiomyopathy (DCM) remain unclear. Therefore, this study was designed to explore the role of MD1 in DCM-related atrial remodelling. Methods: MD1 knockout (MD1-KO) mice and wild-type (WT) littermates were injected with streptozotocin (STZ) to establish a diabetic mouse model. These mice were then used to evaluate MD1 expression and its effects on atrial remodelling in vivo. Results: MD1 expression was significantly decreased in STZ-induced diabetic mice. The loss of MD1 aggravated atrial fibrosis, inflammation, and apoptosis in DCM mice and promoted atrial remodelling. MD1-KO diabetic mice also showed higher susceptibility to atrial fibrillation (AF) and worse cardiac function. Mechanistically, the deletion of MD1 promoted the activation of the TLR4/NF-κB signalling pathway, resulting in atrial remodelling in DCM mice via increased p65 phosphorylation. Conclusions: The deletion of MD1 plays an important role in inflammatory and apoptotic atrial remodelling and increases susceptibility to AF in DCM mice, providing a new target for the preventive treatment of DCM-related atrial remodelling.
DOI: 10.15151/esrf-es-1185394236
title: Understanding interactions between C and Pat the microscale in Amazonian Dark Earths

description: Phosphorus (P) is essential for all organisms, yet in many tropical soils P is often both, present only in low concentrations and strongly bound to the soil’s mineral phase. Thereby plant growth and ecosystem productivity is often limited by P in tropical ecosystems. Amazonian Dark Earths (ADE) are an exception to this general rule by its significantly higher concentrations of bioavailable P. In this project, we aim to resolve the microscale heterogeneous spatial distribution of bioavailable P forms in ADE and whether these are co- localized and potentially mediated by soil organic matter. To unravel this relation, we aim to correlate synchrotron SXM and NanoSIMS analyses.
DOI: 10.15151/esrf-es-1112061719
title: Localisation of glycol oxidants on polysaccharides

description: Periodate and lead tetraacetate are oxidants that selectively cleave glycols with vicinal alcohol groups, abundant in polysaccharides. Kinetics studies suggest that those oxidants combine rapidly to the vicinal alcohol groups followed by slow oxidation process. Due to the very selective and controlled oxidation, they are used as modifiers of polysaccharides to create aldehydes in many potential applications. We use the high Xray scattering power of iodine and lead compared to cellulose, to investigate their spatial distribution at the beginning of oxidation process at different conditions. We want to verify at what concentration they penetrate cellulose crystals in heterogeneous system, whether it forms regular structure, and whether the oxidants are more concentrated on the side chains when mixed with xyloglucans that are brush-like polysaccharides in solution. Furthermore Anomalous scattering capacity will be applied for lead acetate system.
DOI: 10.15151/esrf-es-1161572207
title: Investigation of dark field contrast in speckle based imaging

description: Near field ptychography precharacterisation, followed by speckle based imaging.
DOI: 10.3886/icpsr38551.v1
title: Organizations Convicted in Federal Criminal Courts, 2020
title: Version 1

description: These data, collected to assist in the development of sentencing guidelines, describe offense and sentencing characteristics for organizations sentenced in federal district courts in 2020. The United States Sentencing Commission's primary function is to inform federal courts of sentencing policies and practices that include guidelines prescribing the appropriate form and severity of punishment for offenders convicted of federal crimes. Court-related variables include primary offense type, pecuniary offense loss and gain, dates of disposition and sentencing, method of determination of guilt, number of counts pled and charged, and dates and types of sentencing and restitution. Defendant organization variables include ownership structure, number of owners and employees, highest level of corporate knowledge of the criminal offense, highest level of corporate indictment and conviction for participation in the criminal offense, annual revenue, equity and financial status, whether it was a criminal organization, duration of criminal activity, and risk to national security. Organizational defendants data, 2020, covers fiscal year October 1, 2019, through September 30, 2020.
description: Datasets: DS1: Organizations Convicted in Federal Criminal Courts, 2020
description: All cases received by the United States Sentencing Commission that had sentencing dates between October 1, 2019 and September 30, 2020 and were assessed as constitutional. Smallest Geographic Unit: federal court district
description: Starting with the 1999 data, ICPSR archives ORGANIZATIONS CONVICTED IN FEDERAL CRIMINAL COURTS under a new study number for each year of data. Data for the years 1987-1998 are archived in ORGANIZATIONS CONVICTED IN FEDERAL CRIMINAL COURTS, 1987-1998 (ICPSR 9513).
DOI: 10.15151/esrf-es-1187821875
title: SAXS studies of microemulsion samples

description: The microstructure of dilute lyotropic phases will be measured by high resolution SAXS.
DOI: 10.15151/esrf-es-1191026102
title: Align optics for next experiment and training.

description: Teach new staff to align the beamline. Also test drive the wavelength monitor.
DOI: 10.15151/esrf-es-1109541253
title: Room Temperature CDW induced by Pressure in 2D organic-inorganic perovskite

description: We will measure nano beam single crystal XRD under extremely condition on (HA)2(FA)Pb2I7, which exhibits an edge state at ambient condition and a CDW and long-range order structure with pressure. This experiment will clarify below questions: 1) the origin of edge state at ambient condition, allowing a conclusion on the existence of the edge when the characteristic photoluminescence (PL) is suppressed at high pressure. This is important for the photovoltaic (PV) device design and applications. 2) detect the -vector of the CDW and long-range order phase originating from pressure. The results will give a complete explanation for our previous results.
DOI: 10.5281/zenodo.7896669
title: SPRS correlation matrix

description: Polygenic risk scores pairwise correlations from a cohort of 2190 unrelated Spanish individuals
DOI: 10.5281/zenodo.7896668
title: SPRS correlation matrix

description: Polygenic risk scores pairwise correlations from a cohort of 2190 unrelated Spanish individuals