cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14481249
title: Wide-field mosaic dataset of the corneal subbasal nerve plexus in Parkinson’s disease using in vivo confocal microscopy

description: In vivo confocal microscopy (VCM) Mosaic images (as TIFF files) representing a larger number of patients with Parkinson’s disease (n=42) and healthy controls (n=13). Dataset includes epidemiological data for the study population as well as parameters related to the IVCM images including corneal nerve fiber length (CNFL), corneal nerve branch density (CNBD), density of different types of inflammatory cells (mature and immature dendritic), in the Excel file. The dataset also includes zipped folders for each eye containing the raw IVCM images used to create the mosaic images.
DOI: 10.25500/edata.bham.00000415
title: Chitosan nanoparticle (CLEC14A siRNA) knockdown in HUVEC: microarray analysis
DOI: 10.5281/zenodo.5501792
title: Raw data for Investment casting of periodic aluminum cellular structures using slurry-cast table salt moulds

description: This dataset includes the raw data used to draw the conclusions of the paper entitled "Investment casting of periodic aluminum cellular structures using slurry-cast table salt moulds". The work presents a precision-casting process specifically designed to manufacture periodic cellular structures.
DOI: 10.5281/zenodo.5501791
title: Raw data for Investment casting of periodic aluminum cellular structures using slurry-cast table salt moulds

description: This dataset includes the raw data used to draw the conclusions of the paper entitled "Investment casting of periodic aluminum cellular structures using slurry-cast table salt moulds". The work presents a precision-casting process specifically designed to manufacture periodic cellular structures.
DOI: 10.5281/zenodo.5532703
title: Harter Pictorial Scale / Escala Pictórica de Harter // HARTER-P_Data_CC-CS_T1-Pre

description: Answers given by children in the first grade of Primary Education to the 24 items of the Pictorial Scale of Perceived Competence and Social Acceptance for Young Children by Harter and Pike (1984), translated into Spanish by García Bacete et al. (2014). Data collected in public schools in Castellón and Seville (Spain) in the autumn of the school year 2009-10. The items are written in two gendered versions, one for boys and the other for girls. The scale is administered individually. The calculation of the 4 Factors is included: Cognitive competence, Physical competence, Peer acceptance and Parents. // Respuestas que los niños/as de primer curso de Educación Primaria dan a los 24 ítems de la Escala Pictórica de Competencia Autopercibida de Harter and Pike (1984), traducida al español por García Bacete et al. (2014). Datos recogidos en centros públicos de Castellón y Sevilla (España) en otoño del curso escolar 2009-10. Los ítems están redactados en versión para chicos y en versión para chicas. Escala se administra de forma individual Se incluye el cálculo de los 4 Factores: Competencia cognitiva, competencia física, aceptación de los iguales y aceptación de los padres
description: FURTHER INFORMATION/ PARA SABER MÁS: To find out more details on the research and access to other datasets of this instrument or others, follow the web link OpenGREI Project. / Para más información sobre la investigación y el acceso a otros ficheros de datos de este instrumento u de otros, pulsar enlace web OpenGREI Project. GRANTS / SUBVENCIONES: Ministerio de Economía y Competitividad (EDU2012-35930); Ministerio de Ciencia e Innovación (PSI2008-00541/PSIC); Generalitat Valenciana (11I028); Universitat Jaume I (UJI-B2019-29; P1-1A2012-04; P1-1B2009-33) y Fundación Dávalos-Fletcher REQUEST / SOLICITUD: Researchers using this dataset are kindly asked to inform the authors / Se agradecería a los investigadores que usen este dataset que informen a los autores.
DOI: 10.5281/zenodo.5532702
title: Harter Pictorial Scale / Escala Pictórica de Harter // HARTER-P_Data_CC-CS_T1-Pre

description: Answers given by children in the first grade of Primary Education to the 24 items of the Pictorial Scale of Perceived Competence and Social Acceptance for Young Children by Harter and Pike (1984), translated into Spanish by García Bacete et al. (2014). Data collected in public schools in Castellón and Seville (Spain) in the autumn of the school year 2009-10. The items are written in two gendered versions, one for boys and the other for girls. The scale is administered individually. The calculation of the 4 Factors is included: Cognitive competence, Physical competence, Peer acceptance and Parents. // Respuestas que los niños/as de primer curso de Educación Primaria dan a los 24 ítems de la Escala Pictórica de Competencia Autopercibida de Harter and Pike (1984), traducida al español por García Bacete et al. (2014). Datos recogidos en centros públicos de Castellón y Sevilla (España) en otoño del curso escolar 2009-10. Los ítems están redactados en versión para chicos y en versión para chicas. Escala se administra de forma individual Se incluye el cálculo de los 4 Factores: Competencia cognitiva, competencia física, aceptación de los iguales y aceptación de los padres
description: FURTHER INFORMATION/ PARA SABER MÁS: To find out more details on the research and access to other datasets of this instrument or others, follow the web link OpenGREI Project. / Para más información sobre la investigación y el acceso a otros ficheros de datos de este instrumento u de otros, pulsar enlace web OpenGREI Project. GRANTS / SUBVENCIONES: Ministerio de Economía y Competitividad (EDU2012-35930); Ministerio de Ciencia e Innovación (PSI2008-00541/PSIC); Generalitat Valenciana (11I028); Universitat Jaume I (UJI-B2019-29; P1-1A2012-04; P1-1B2009-33) y Fundación Dávalos-Fletcher REQUEST / SOLICITUD: Researchers using this dataset are kindly asked to inform the authors / Se agradecería a los investigadores que usen este dataset que informen a los autores.
DOI: 10.6084/m9.figshare.15656622
title: Metadata record for: Chinese environmentally extended input-output database for 2017 and 2018

description: This dataset contains key characteristics about the data described in the Data Descriptor Chinese environmentally extended input-output database for 2017 and 2018. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.15656622.v1
title: Metadata record for: Chinese environmentally extended input-output database for 2017 and 2018

description: This dataset contains key characteristics about the data described in the Data Descriptor Chinese environmentally extended input-output database for 2017 and 2018. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.5281/zenodo.5533997
title: Supplemental Material Surveillance Improves Outcomes for Carriers of SDHB Pathogenic Variants

description: <strong>Supplemental table for Surveillance improves outcomes for carriers of <em>SDHB</em> pathogenic variants: a multi-center study</strong>
DOI: 10.48420/16685071
title: ANNMAP Database

description: annmap provides annotation mappings for Affymetrix exon arrays and coordinate based queries to support deep sequencing data analysis. Database access is hidden behind the API which provides a set of functions such as genesInRange(), geneToExon(), exonDetails(), etc. Functions to plot gene architecture and BAM file data are also provided. Underlying data are from Ensembl.<br><br>
DOI: 10.6084/m9.figshare.16691356
title: nECS OA_Figshare.xlsx

description: Measurements were taken during four seasonal cruises of the R/V <i>Onnuri</i> in spring (May 15–21) 2017, summer (August 16–23) 2016, autumn (November 6–15) 2015, and winter (February 8–14) 2017. Depth profiles of temperature and salinity were measured using a calibrated conductivity–temperature–depth/pressure (CTD) recorder (SBE 911; Sea-Bird Electronics Inc., Bellevue, WA, USA). Seawater samples were collected using a rosette sampler with 10 L Niskin bottles mounted onto the CTD assembly at eight depths (0, 10, 20, 30, 50, 75, 100, and 150 m) for each station in both transects F (33 °N) and H (32 °N). We could not conduct winter survey in H transect. Dissolved Inorganic Carbon (DIC), total alkalinity (TA), and nutrients (phosphate and silicate) were analyzed under laboratory conditions. Bottom seawater samples were collected 5 m above the bottom at stations where the depth was less than 100 m.The DIC was measured by acid extraction with infrared CO<sub>2</sub> detection (AS-C3, Apollo SciTech Inc., USA), and the TA was determined by open-cell Gran acidimetric titration (AS-ALK2, Apollo SciTech Inc., USA). The uncertainties of measurements were evaluated daily using certified reference materials for seawater provided by the Scripps Institution of Oceanography (San Diego, USA). The DIC and TA measurements had precisions of approximately ±1.5 and ±2 μmol kg<sup>–</sup><sup>1</sup>, respectively. The seawater CaCO<sub>3</sub> saturation state for aragonite (Ωarag) was calculated with CO2SYS program version 2.1 using salinity, temperature, depth, phosphate, silicate, TA, and DIC data. The carbonic acid dissociation constants of Mehrbach et al. (1973), as refit by Dickson and Millero (1987), were used to determine Ωarag. The uncertainty in the estimation of Ωarag was approximately ±0.02.<br>
DOI: 10.6084/m9.figshare.15015132
title: Data for: Probabilistic Tsunami Forecasting for Early Warning

description: Data relative to the 2010 M8.8 Maule earthquake case study, as presented in Selva et al. (2021). Data are formatted to be the input of the Probabilistic Tsunami Forecasting Matlab code, available at: https://github.com/INGV/matPTF <br>Full reference:Selva, J., Lorito, S., Volpe, M., Romano, F., Tonini, R., Perfetti, P., Bernardi, F., Taroni, M., Scala, A., Babeyko, A., Løvholt, F., Gibbons, S.J., Macías, J., Castro, M.J., González-Vida, J.M., Sánchez-Linares, C., Bayraktar, H.B., Basili, R., Maesano, F.E., Tiberti, M.M., Mele, F., Piatanesi A., & Amato, A. Probabilistic tsunami forecasting for early warning. <i>Nat Commun</i> <b>12</b>, 5677 (2021). https://doi.org/10.1038/s41467-021-25815-w<br><br><br>
DOI: 10.6084/m9.figshare.15015132.v1
title: Data for: Probabilistic Tsunami Forecasting for Early Warning

description: Data relative to the 2010 M8.8 Maule earthquake case study, as presented in Selva et al. (2021). Data are formatted to be the input of the Probabilistic Tsunami Forecasting Matlab code, available at: https://github.com/INGV/matPTF <br>Full reference:Selva, J., Lorito, S., Volpe, M., Romano, F., Tonini, R., Perfetti, P., Bernardi, F., Taroni, M., Scala, A., Babeyko, A., Løvholt, F., Gibbons, S.J., Macías, J., Castro, M.J., González-Vida, J.M., Sánchez-Linares, C., Bayraktar, H.B., Basili, R., Maesano, F.E., Tiberti, M.M., Mele, F., Piatanesi A., & Amato, A. Probabilistic tsunami forecasting for early warning. <i>Nat Commun</i> <b>12</b>, 5677 (2021). https://doi.org/10.1038/s41467-021-25815-w<br><br><br>
DOI: 10.6084/m9.figshare.16546470
title: Database for enrichment analysis

description: gedepir is an R package that simplifies the use of deconvolution tools within a complete transcriptomics analysis pipeline. It simplify the definition of a end-to-end analysis pipeline with a set of base functions that are connected through the pipes syntax used in magrittr, tidyr or dplyrR packages
DOI: 10.6084/m9.figshare.16546470.v1
title: Database for enrichment analysis

description: gedepir is an R package that simplifies the use of deconvolution tools within a complete transcriptomics analysis pipeline. It simplify the definition of a end-to-end analysis pipeline with a set of base functions that are connected through the pipes syntax used in magrittr, tidyr or dplyrR packages
DOI: 10.6084/m9.figshare.16477779
title: Metadata record for: Optical breast atlas as a testbed for image reconstruction in optical mammography

description: This dataset contains key characteristics about the data described in the Data Descriptor Optical breast atlas as a testbed for image reconstruction in optical mammography. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.16477779.v1
title: Metadata record for: Optical breast atlas as a testbed for image reconstruction in optical mammography

description: This dataset contains key characteristics about the data described in the Data Descriptor Optical breast atlas as a testbed for image reconstruction in optical mammography. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.16691458
title: Nutrient concentrations of lower Changjiang River.xlsx

description: This file includes the nutrient concentrations data of surface river water samples. The samples were collected monthly from September 2009 to August 2010, at the Xuliujing station in the lower Changjiang main channel (31°47′ N, 120°56′ E).
DOI: 10.15161/oar.it/74136
title: CovidStat project data

description: This record contains the daily updated data of the CovidStat project. CovidStat is a project carried out by the CovidStat Working Group at INFN, whose creation was promoted within the Italian National Institute of Nuclear Physics with the aim of making a statistical analysis of the data provided daily by the Civil Protection on the spread of the pandemic in Italy. CovidStat data can interactively be browsed at https://covid19.infn.it.
description: The software to process this Root TTree is in the related identifier. Be sure to use the right corresponding version, based on the data in which Root TTree was generated.
DOI: 10.48420/16685071.v1
title: ANNMAP Database

description: annmap provides annotation mappings for Affymetrix exon arrays and coordinate based queries to support deep sequencing data analysis. Database access is hidden behind the API which provides a set of functions such as genesInRange(), geneToExon(), exonDetails(), etc. Functions to plot gene architecture and BAM file data are also provided. Underlying data are from Ensembl.<br><br>
DOI: 10.6084/m9.figshare.13109663
title: Base datos EMPHOGEN_ VNTR

description: Case control study of gastrointestinal bleeding
DOI: 10.6084/m9.figshare.13109663.v1
title: Base datos EMPHOGEN_ VNTR

description: Case control study of gastrointestinal bleeding
DOI: 10.5281/zenodo.4928984
title: Dataset of "Atomic-level description of thermal fluctuations in inorganic lead halide perovskites" publication

description: The zip file contains a "files" folder and a jupyter notebook to plot the figures reported in the publication. The "files" folder contains several subfolders with the txt files required to plot the figures.
DOI: 10.25402/cer.16691512.v1
title: Supplementary Table 1. Robotic-assisted total hip arthroplasty: an economic analysis

description: Supplementary Table 1: Index total knee arthroplasty coding
DOI: 10.25402/cer.16691512
title: Supplementary Table 1. Robotic-assisted total hip arthroplasty: an economic analysis

description: Supplementary Table 1: Index total knee arthroplasty coding
DOI: 10.6084/m9.figshare.13238720.v2
title: Recovery of temporary pond alpha and beta diversity after wildfire disturbance: the role of dispersal and recolonization processes.

description: Wildfires are considered a world-wide disturbance which is currently being fostered by human-induced global changes. Their frequency and intensity are expected to increase in the near future in regions such as the Mediterranean basin. While terrestrial systems responses to wildfire have been thoroughly studied, aquatic systems such as temporary ponds have received less attention. Furthermore, previous works have focused on wildfire impacts in aquatics systems from a more functional and trait-based approach, but such disturbances can also impact these systems diversity at the local and regional level. In this work, we assess wildfire impacts in alpha and beta diversity of Mediterranean temporary ponds, analysing samples of pond macrofauna from before and after a wildfire that partially burned a set of temporary ponds. The wildfire did not change alpha-diversity patterns but differences in beta-diversity were observed when considering species abundance. Species with greater contribution to beta-diversity were more represented in Unburned ponds after the wildfire. These changes in species presence during the beginning of the hydroperiod increased Burned ponds regional differences (i.e., replacement increase). However, these alterations disappeared towards the middle and the end of the hydroperiod. Overall, we reported a fast recovery after the wildfire, tightly linked to a rapid recolonization that increased pond similarities. Landscape structure and ponds seasonal succession would have increased these systems resilience, but these key features against wildfire might become compromised due to global change scenarios (i.e., rise in wildfire regimes and habitat loss), representing a potential future threat to these highly diverse habitats. <br>
DOI: 10.17037/data.00000817
title: Better estimates of the costs of TB control (Value TB)
DOI: 10.25550/3-kb00
title: Osteo Imperfecta

description: This unpublished dataset is based on the [B6C3F1-Col1a2oim strain](http://www.informatics.jax.org/strain/MGI:5650881) and the [Col1a2 gene](https://www.alliancegenome.org/gene/MGI:88468), which: Enables SMAD binding activity. Acts upstream of or within several processes, including bone mineralization; extracellular matrix assembly; and protein heterotrimerization. Located in extracellular space. Part of collagen type I trimer. Is expressed in several structures, including alimentary system; cardiovascular system; central nervous system; embryo mesenchyme; and genitourinary system. Used to study osteogenesis imperfecta and osteogenesis imperfecta type 3. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome (multiple); heart valve disease; intracranial aneurysm; osteogenesis imperfecta (multiple); and osteoporosis. Orthologous to human COL1A2 (collagen type I alpha 2 chain).
DOI: 10.25550/3-kb02
title: Enhancer

description: **Abstract(s):** **(1) Fine tuning of craniofacial morphology by distant-acting enhancers:** The shape of the human face and skull is largely genetically determined, but the genetic drivers of craniofacial morphology remain poorly understood. Here, the authors used a combination of epigenomic profiling, in vivo characterization of candidate enhancer sequences in transgenic mice, and targeted deletion experiments to examine the role of distant-acting enhancers in craniofacial development. They identified complex regulatory landscapes, consisting of enhancers that drive a remarkable spatial complexity of developmental expression patterns. Deletion of individual craniofacial enhancers from the mouse genome resulted in significant alterations of craniofacial shape, demonstrating their functional importance in defining face and skull morphology. These results demonstrate that enhancers play a pervasive role in mammalian craniofacial development and suggest that enhancer sequence variation contributes to human facial morphology. **(2) HDAC9 structural variants disrupting TWIST1 transcriptional regulation lead to craniofacial and limb malformations:** Structural variants (SVs) can affect protein-coding sequences as well as gene regulatory elements. However, SVs disrupting protein-coding sequences that also function as cis-regulatory elements remain largely uncharacterized. Here, Hirsch et al. (2021) show that craniosynostosis patients with SVs containing the Histone deacetylase 9 (HDAC9) protein-coding sequence are associated with disruption of TWIST1 regulatory elements that reside within HDAC9 sequence. Based on SVs within the HDAC9-TWIST1 locus, we defined the 3’ HDAC9 sequence (~500Kb) as a critical TWIST1 regulatory region, encompassing craniofacial TWIST1 enhancers and CTCF sites. Deletions of either Twist1 enhancers (eTw5-7Δ/Δ) or Ctcf site (CtcfΔ/Δ) within the Hdac9 protein-coding sequence in mice led to decreased Twist1 expression and altered anterior\posterior limb expression patterns of Shh pathway genes. This decreased Twist1 expression results in a smaller sized and asymmetric skull and polydactyly that resembles Twist1+/- mouse phenotype. Chromatin conformation analysis revealed that the Twist1 promoter region interacts with Hdac9 sequences that encompass Twist1 enhancers and a Ctcf site and that interactions depended on the presence of both regulatory regions. Finally, a large inversion of the entire Hdac9 sequence (Hdac9INV/+) in mice that does not disrupt Hdac9 expression but repositions Twist1 regulatory elements showed decreased Twist1 expression and led to a craniosynostosis-like phenotype and polydactyly. Thus, this study elucidated essential components of TWIST1 transcriptional machinery that reside within the HDAC9 sequence, suggesting that SVs, encompassing protein-coding sequence, such as HDAC9, could lead to a phenotype that is not attributed to its protein function but rather to a disruption of the transcriptional regulation of a nearby gene, such as TWIST1.
DOI: 10.25550/3-kb0j
title: Nipbl

description: **Abstract(s):** Cornelia de Lange Syndrome (CdLS) is a multi-organ system birth defects disorder linked, in at least half of cases, to heterozygous mutations in the NIPBL gene. In animals and fungi, orthologs of NIPBL regulate cohesin, a complex of proteins that is essential for chromosome cohesion and is also implicated in DNA repair and transcriptional regulation. Mice heterozygous for a gene-trap mutation in Nipbl were produced and exhibited defects characteristic of CdLS, including small size, craniofacial anomalies, microbrachycephaly, heart defects, hearing abnormalities, delayed bone maturation, reduced body fat, behavioral disturbances, and high mortality (75–80%) during the first weeks of life. These phenotypes arose despite a decrease in Nipbl transcript levels of only ∼30%, implying extreme sensitivity of development to small changes in Nipbl activity. Gene expression profiling demonstrated that Nipbl deficiency leads to modest but significant transcriptional dysregulation of many genes. Expression changes at the protocadherin beta (Pcdhb) locus, as well as at other loci, support the view that NIPBL influences long-range chromosomal regulatory interactions. In addition, evidence is presented that reduced expression of genes involved in adipogenic differentiation may underlie the low amounts of body fat observed both in Nipbl+/− mice and in individuals with CdLS.