cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.18715/ipgp.2023.lhqlffta
title: Atmospheric concentration of PM10 elements (including REEs) measured in Tunisian desertic region

description: Air concentration of elements collected near Medenine, Tunisia, during a two weeks field campaing from March 29th to April 7th 2016, and using two different sampling head: a newly designed stainless steel decanter, VTD, and a brand-new aluminium alloy commercial PM10 sampling head, both operating at a flow rate of about 1 m3 h−1. A total of 16 paired samples were collected during a 2-week field experiment, at the Institut des Régions Arides campus, 20 km north of the city of Medenine, Tunisia. The collection site (33°29'58.62′′ N – 10°38′35.2′′ E), surrounded by dry lands, is 5 km south-west of the Boughrara Gulf. The two sampling devices were fixed to the roof of the highest building on campus (about 20 m). Both the VTD and PM10 were attached to a tubular stand, with a distance of about 30 cm between them. This dataset was used to compare both sampling heads and could be used as an examples of desert dust.
DOI: 10.5281/zenodo.7941898
title: Output data: gcam_v6p0_seasia

description: Outputs of the Southeast Asia GCAM branch, cities configuration. Scenarios included are the reference (BAU) case, one policy scenario ("high" sectoral policies), and two carbon neutral 2050 scenarios (with and without an exogenous land use sink) for Thailand.
DOI: 10.5281/zenodo.7941897
title: Output data: gcam_v6p0_seasia

description: Outputs of the Southeast Asia GCAM branch, cities configuration. Scenarios included are the reference (BAU) case, one policy scenario ("high" sectoral policies), and two carbon neutral 2050 scenarios (with and without an exogenous land use sink) for Thailand.
DOI: 10.18112/openneuro.ds004564.v1.0.1
title: Demo
DOI: 10.25345/c5s17t33c
title: MassIVE MSV000091963 - Saturation mutagenesis of alpha-synuclein reveals monomer fold that modulates aggregation
title: LUM2_890611, 890654, 890655, 890656, 890657: 5 replicates; WT alpha-synuclein crosslinked with DMTMM for 10 min. LUM2_890612, 890658, 890659, 890660, 890661: 5 replicates; A53T alpha-synuclein crosslinked with DMTMM for 10 min. LUM2_954549-954553: 5 replicates; E13K alpha-synuclein crosslinked with DMTMM for 10 min.
DOI: 10.5281/zenodo.7942029
title: Usage Requirements on Recommender Systems for a Web Platform for Continuing Education in Public Transport in Germany

description: The dataset contains usage requirements on recommender systems for a web platform for continuing education in public transport in Germany. The underlying data was collected in 28 stakeholder interviews.
DOI: 10.5066/f70z72g1
title: Electron microprobe data for monazite and xenotime used in consideration of gold deposit formation models (ver. 2.0, May 2023)

description: The genetic origin of many gold deposits, including Pogo in Alaska, remains controversial with questions as to whether they formed due to magmatic-hydrothermal or metamorphic-hydrothermal fluids. Gaining a better understanding of the formation mechanisms for these deposits is critical for defining proper exploration criteria in gold-bearing regions and production within these deposits. Monazite are light rare earth (LREE)-bearing and xenotime are heavy rare earth (HREE)-bearing phosphate minerals that are found as alteration products in many different gold deposits. In addition to their importance in geochronological investigations, their minor element chemistry may be used to differentiate between metamorphic, magmatic, diagenetic, and hydrothermal origin. This data release provides electron microprobe geochemical data that is used to showcase differences in these phosphates when derived from magmatic-hydrothermal systems compared to metamorphic-hydrothermal systems. The electron microprobe data was collected by personnel of the Central Region Minerals Program in Denver, Colorado, for the U.S. Geological Survey (USGS) Mineral Resources Program (MRP). Appreciable differences in chemistry were noted for deposits associated with alkaline magmatic systems (Taurus, AK, and Cripple Creek, CO), calc-alkaline magmatic systems (Pebble, AK, and Butte, MT), and orogenic gold systems derived from metamorphic-hydrothermal systems (systems from Grass Valley, the Mother Lode, and the Klamath Mountains in CA). These characteristics were then applied to the controversially classified Pogo gold deposit, Alaska, in order to provide evidence for how it formed.
DOI: 10.25345/c5n873903
title: MassIVE MSV000091964 - Xenograft dataset for proteomic analysis of non-muscle invasive and muscle invasive bladder cancer highlights distinct subgroups
title: Urothelial bladder cancer ranks among the top ten malignancies worldwide, with approximately 20% of cases presenting as muscle-invasive disease. We present the proteomic profiling of a bladder cancer cohort comprising 79 cases, including treatment-naive cases of non-muscle invasive (NMIBC, N=17) and muscle-invasive bladder cancer (MIBC, N=51), as well as neoadjuvant-treated MIBC (N=11). Proteins were extracted from formalin-fixed, paraffin-embedded samples and analyzed using data-independent acquisition (DIA), yielding an average over 6,000 quantified proteins per sample. Our study found an enriched ECM and immune response signature in MIBC compared to NMIBC, with concomitant depletion of proteins involved in lipid metabolism and cell-cell adhesion. NMIBC presented two proteomic subgroups that correlate with histological grade and feature signatures of either cell adhesion or lipid/DNA metabolism. Treatment-naive MIBC presents three proteomic subgroups with signatures of metabolism, immune functionality, and ECM. The ECM and immune subgroups are enriched for markers of dendritic cells, macrophages and YAP1 signaling with the immune subgroup having additional enrichment of markers for cytotoxic T cells. Mechanistically, infiltration of CD8+ PD1+ positive cytotoxic T cells correlated with PD-L1 expression of MIBC, as demonstrated by multiplex immunofluorescence analysis. We further highlight increased endogenous proteolysis in MIBC alongside upregulation of matrix metalloproteases (MMPs), including MMP-14 whose expression silencing reduced T24 cell invasiveness in vitro. Genomic panel sequencing underlines prevalent FGFR3 mutations in NMIBC and prevalent TP53 mutations in MIBC while a genomic underpinning of the MIBC clusters remains elusive. Further proteogenomic data analysis yielded protein-level evidence for over1,300 single amino acid variants (SAAVs). The proteomes of neoadjuvant-treated, residual MIBC were like treatment-naive MIBC. Tumor-stroma interaction of MIBC was further investigated by proteomic analysis of patient-derived xenografts (PDX) of MIBC. In conclusion, our study adds to the comprehensive understanding of the proteome biology of early and advanced bladder cancer.
DOI: 10.6084/m9.figshare.22845644.v1
title: 3UTRBERT_dataset_availability

description: The dataset used in the 3UTRBERT.
DOI: 10.6084/m9.figshare.22177143
title: Neighbourhood social sustainable development and spatial scale: a qualitative case study in Sweden

description: Social sustainability has increasingly become a goal for urban policy and planning, and for local and regional developmental strategies. Neighbourhoods are a common spatial scale for studying social sustainability and there is a growing focus on social sustainability in urban neighbourhoods for both researchers and policymakers. This paper is based on a qualitative case study of a neighbourhood defined by the municipality as at-risk of negative social development in a municipality in northern Sweden. The aim is to describe the perceived threats and promoters for social sustainable development in a neighbourhood defined as at-risk, and to analyse these in relation to a perspective of spatial scale. The study is based on data from interviews with municipal representatives, local professionals and residents, representing different experiences and perspectives in the neighbourhood. Four themes illustrating threats to socially sustainable development were identified: crime, unrest and unsafety; segregation and social exclusion; reputation and stigmatisation; and low involvement in municipal processes. The promoters for socially sustainable development identified in the respondents’ stories reflect four themes: strong community spirit; safety and low criminality; lively civic society and well-functioning public services. Our results show that neighbourhood social sustainability cannot be studied or acted upon without being put in a context of spatial scale and an understanding that processes occurring at a particular scale only can be adequately understood when considered in relation to other scales, i.e. the development in the neighbourhood can only be understood in relation to the development in the city and at national level. There is also a need for an awareness of how different aspects of socially sustainable development relate to each other, by strengthening or counteracting each other. <b>Key policy highlights</b>There are no “magic bullet solutions” to ensure social sustainable development at the local level. Rather, actions and interventions must embrace complexity.The risk for counteracting processes must be acknowledged in any actions to promote social sustainability.Social sustainability processes occurring at a particular scale can only be adequately understood and addressed when considered in relation to other scales. There are no “magic bullet solutions” to ensure social sustainable development at the local level. Rather, actions and interventions must embrace complexity. The risk for counteracting processes must be acknowledged in any actions to promote social sustainability. Social sustainability processes occurring at a particular scale can only be adequately understood and addressed when considered in relation to other scales.
DOI: 10.6084/m9.figshare.22177143.v1
title: Neighbourhood social sustainable development and spatial scale: a qualitative case study in Sweden

description: Social sustainability has increasingly become a goal for urban policy and planning, and for local and regional developmental strategies. Neighbourhoods are a common spatial scale for studying social sustainability and there is a growing focus on social sustainability in urban neighbourhoods for both researchers and policymakers. This paper is based on a qualitative case study of a neighbourhood defined by the municipality as at-risk of negative social development in a municipality in northern Sweden. The aim is to describe the perceived threats and promoters for social sustainable development in a neighbourhood defined as at-risk, and to analyse these in relation to a perspective of spatial scale. The study is based on data from interviews with municipal representatives, local professionals and residents, representing different experiences and perspectives in the neighbourhood. Four themes illustrating threats to socially sustainable development were identified: crime, unrest and unsafety; segregation and social exclusion; reputation and stigmatisation; and low involvement in municipal processes. The promoters for socially sustainable development identified in the respondents’ stories reflect four themes: strong community spirit; safety and low criminality; lively civic society and well-functioning public services. Our results show that neighbourhood social sustainability cannot be studied or acted upon without being put in a context of spatial scale and an understanding that processes occurring at a particular scale only can be adequately understood when considered in relation to other scales, i.e. the development in the neighbourhood can only be understood in relation to the development in the city and at national level. There is also a need for an awareness of how different aspects of socially sustainable development relate to each other, by strengthening or counteracting each other. <b>Key policy highlights</b>There are no “magic bullet solutions” to ensure social sustainable development at the local level. Rather, actions and interventions must embrace complexity.The risk for counteracting processes must be acknowledged in any actions to promote social sustainability.Social sustainability processes occurring at a particular scale can only be adequately understood and addressed when considered in relation to other scales. There are no “magic bullet solutions” to ensure social sustainable development at the local level. Rather, actions and interventions must embrace complexity. The risk for counteracting processes must be acknowledged in any actions to promote social sustainability. Social sustainability processes occurring at a particular scale can only be adequately understood and addressed when considered in relation to other scales.
DOI: 10.25345/c5hm52v85
title: MassIVE MSV000091965 - Xenograft dataset for proteomic analysis of non-muscle invasive and muscle invasive bladder cancer highlights distinct subgroups
title: Urothelial bladder cancer ranks among the top ten malignancies worldwide, with approximately 20% of cases presenting as muscle-invasive disease. We present the proteomic profiling of a bladder cancer cohort comprising 79 cases, including treatment-naive cases of non-muscle invasive (NMIBC, N=17) and muscle-invasive bladder cancer (MIBC, N=51), as well as neoadjuvant-treated MIBC (N=11). Proteins were extracted from formalin-fixed, paraffin-embedded samples and analyzed using data-independent acquisition (DIA), yielding an average over 6,000 quantified proteins per sample. Our study found an enriched ECM and immune response signature in MIBC compared to NMIBC, with concomitant depletion of proteins involved in lipid metabolism and cell-cell adhesion. NMIBC presented two proteomic subgroups that correlate with histological grade and feature signatures of either cell adhesion or lipid/DNA metabolism. Treatment-naive MIBC presents three proteomic subgroups with signatures of metabolism, immune functionality, and ECM. The ECM and immune subgroups are enriched for markers of dendritic cells, macrophages and YAP1 signaling with the immune subgroup having additional enrichment of markers for cytotoxic T cells. Mechanistically, infiltration of CD8+ PD1+ positive cytotoxic T cells correlated with PD-L1 expression of MIBC, as demonstrated by multiplex immunofluorescence analysis. We further highlight increased endogenous proteolysis in MIBC alongside upregulation of matrix metalloproteases (MMPs), including MMP-14 whose expression silencing reduced T24 cell invasiveness in vitro. Genomic panel sequencing underlines prevalent FGFR3 mutations in NMIBC and prevalent TP53 mutations in MIBC while a genomic underpinning of the MIBC clusters remains elusive. Further proteogenomic data analysis yielded protein-level evidence for over1,300 single amino acid variants (SAAVs). The proteomes of neoadjuvant-treated, residual MIBC were like treatment-naive MIBC. Tumor-stroma interaction of MIBC was further investigated by proteomic analysis of patient-derived xenografts (PDX) of MIBC. In conclusion, our study adds to the comprehensive understanding of the proteome biology of early and advanced bladder cancer
DOI: 10.6084/m9.figshare.22853645
title: SATINN - demo files and neural networks (r.230516)

description: Demo data for the development of SATINN - a neural network-based approach to analyzing mouse seminiferous images. This rar file contains the components to run SATINN for the first time: a sample test image as well as the pre-trained neural networks. As SATINN is still in a developmental phase, these data may eventually become outdated. We will continually release updated demo data along with SATINN releases, so please make sure you have the latest files!
DOI: 10.5281/zenodo.7942234
title: Supplementary material: Accuracy of finite fault slip estimates in subduction zone regions with topographic Green's functions and seafloor geodesy

description: # Code attached to the manuscript entitled "Accuracy of finite fault slip estimates in subduction zone regions with topographic Green's functions and seafloor geodesy" These python scripts are for producing Figure 1 (trench-perpendicular topographic profile for regions where some megathrust earthquakes occurred) and the average topographic profile that is used in the paper.
DOI: 10.5066/p9n9fnqz
title: MODFLOW-NWT model used to simulate Potential Effects of Changes in Water Use in the Middle Carson River Basin for Eagle, Dayton, and Churchill Valleys, West-Central, Nevada

description: A three-dimensional MODFLOW-NWT groundwater flow model was developed to evaluate the impacts of alternative water management scenarios on the groundwater resources of Eagle, Dayton, and Churchill Valleys, Nevada. In addition, the resulting impact on flows in the Carson River and Lahontan Reservoir are also evaluated. During the economic boom that occurred from 2004-2006 in northwestern Nevada, municipal and housing growth increased stress on the limited water resources of this semi-arid region. In 2008, when the economy slowed, new housing development stopped, and immediate pressure on finite groundwater resources abated. In anticipation of economic recovery and resumed growth, however, the U.S. Geological Survey (USGS), in cooperation with the Bureau of Reclamation, began a hydrogeologic study of the middle Carson River Basin. The three-dimensional, transient numerical model of groundwater and surface-water flow for the middle Carson River Basin extending from Eagle Valley to Churchill Valley was developed as part of this project. This model was used to evaluate the potential effects of three alternative water-management scenarios, and variations of the scenarios, on groundwater storage within the aquifer system and impact on river flows. Information from the model can provide a basis for basin-wide investigations seeking to quantitatively evaluate the effects of climate change or yet-to-be-determined alternative management strategies. This USGS data release contains all of the input and output files for the simulations described in the associated model documentation report (https://doi.org/10.3133/sir20235008).
DOI: 10.6084/m9.figshare.21563523.v2
title: a case-control study and systematically evaluate on association between H. pylori infection and IL4, TNFA, and IL10 polymorphisms

description: a case-control study and systematically evaluate on association between <em>H. pylori </em>infection and<em> IL4, TNFA, </em>and <em>IL10</em> polymorphisms in a Chinese Han population in northwestern China
DOI: 10.5517/ccdc.csd.cc2bm9z8
title: CCDC 2163520: Experimental Crystal Structure Determination

description: Related Article: Ming Bao, Xiongda Xie, Jingjing Huang, Michael P. Doyle, Zhi Ren, Haibo Yue, Xinfang Xu|2023|Chem.-Eur.J.|29|e202300140|doi:10.1002/chem.202300140
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bpqqh
title: CCDC 2165837: Experimental Crystal Structure Determination

description: Related Article: Zongkang Wang, Ye Wang, Yang Yuan, Yingge Gu, Yilin Zhu, Lijie Liu, Ziyi Zhuang, Lingkai Kong, Yanzhong Li|2023|Org.Lett.|25|3094|doi:10.1021/acs.orglett.3c00945
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7kx3
title: CCDC 2182025: Experimental Crystal Structure Determination

description: Related Article: Jingqiang Han, Rixin Liu, Zitong Lin, Weiwei Zi|2023|Angew.Chem.,Int.Ed.|62|e202215714|doi:10.1002/anie.202215714
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7ky4
title: CCDC 2182026: Experimental Crystal Structure Determination

description: Related Article: Jingqiang Han, Rixin Liu, Zitong Lin, Weiwei Zi|2023|Angew.Chem.,Int.Ed.|62|e202215714|doi:10.1002/anie.202215714
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.21994/loar8563
title: Newspapers from 1883

description: Newspapers from 1883. OCR text in csv file.
DOI: 10.6084/m9.figshare.22857062
title: Epigenome wide association study in peripheral blood of pregnant women identifies potential metabolic pathways related to gestational diabetes

description: Gestational diabetes mellitus (GDM) increases the risk of developing metabolic disorders in both pregnant women and their offspring. Factors such as nutrition or the intrauterine environment may play an important role, through epigenetic mechanisms, in the development of GDM. The aim of this work is to identify epigenetic marks involved in the mechanisms or pathways related to gestational diabetes. A total of 32 pregnant women were selected, 16 of them with GDM and 16 non-GDM. DNA methylation pattern was obtained from Illumina Methylation Epic BeadChip, from peripheral blood samples at the diagnostic visit (26–28 weeks). Differential methylated positions (DMPs) were extracted using ChAMP and limma package in R 2.9.10, with a threshold of FDR &lt;0.05, deltabeta &gt;|5|% and B &gt;0. A total of 1.141 DMPs were found, and 714 were annotated in genes. A functional analysis was performed, and we found 23 genes significantly related to carbohydrate metabolism. Finally, a total of 27 DMPs were correlated with biochemical variables such as glucose levels at different points of oral glucose tolerance test, fasting glucose, cholesterol, HOMAIR and HbA1c, at different visits during pregnancy and postpartum. Our results show that there is a differentiated methylation pattern between GDM and non-GDM. Furthermore, the genes annotated to the DMPs could be implicated in the development of GDM as well as in alterations in related metabolic variables.