cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3941181
title: IODP Expedition 375, Hole U1520C - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 375: Hikurangi Subduction Margin
DOI: 10.5281/zenodo.3941138
title: IODP Expedition 368X, Hole U1503A - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 368X: Return to Hole U1503A (South China Sea)
DOI: 10.5281/zenodo.3941137
title: IODP Expedition 368X, Hole U1503A - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 368X: Return to Hole U1503A (South China Sea)
DOI: 10.6084/m9.figshare.14318495
title: Arabidopsis cysteine-rich receptor-like protein kinase <i>CRK33</i> affects stomatal density and drought tolerance

description: Cysteine-rich receptor-like protein kinases (CRKs) are transmembrane proteins containing two domains of unknown function 26 (DUF26) RLKs in their ectodomain. Despite that CRKs control important aspects of plant development, only few proteins have functionally been characterized. In this work, we analyzed the function of CRK33 by characterizing two insertional lines. The stomatal density and stomatal index were decreased in <i>crk33-2</i> and <i>crk33-3</i> plants in comparison to wild-type plants, correlating with a decreased transpiration in transgenic plants and a higher drought tolerance. Furthermore, photosynthesis and stomatal conductance changed. Finally, all four stomata cell fate genes were upregulated, especially the expression of <i>TMM</i> and <i>SPCH</i> in the mutant background, suggesting a role for CRK33 in stomatal spacing.
DOI: 10.6084/m9.figshare.14318495.v1
title: Arabidopsis cysteine-rich receptor-like protein kinase <i>CRK33</i> affects stomatal density and drought tolerance

description: Cysteine-rich receptor-like protein kinases (CRKs) are transmembrane proteins containing two domains of unknown function 26 (DUF26) RLKs in their ectodomain. Despite that CRKs control important aspects of plant development, only few proteins have functionally been characterized. In this work, we analyzed the function of CRK33 by characterizing two insertional lines. The stomatal density and stomatal index were decreased in <i>crk33-2</i> and <i>crk33-3</i> plants in comparison to wild-type plants, correlating with a decreased transpiration in transgenic plants and a higher drought tolerance. Furthermore, photosynthesis and stomatal conductance changed. Finally, all four stomata cell fate genes were upregulated, especially the expression of <i>TMM</i> and <i>SPCH</i> in the mutant background, suggesting a role for CRK33 in stomatal spacing.
DOI: 10.25345/c5bv6h
title: MassIVE MSV000087446 - TurboID ESR1 in breast cancer cell lines
title: This submission contains the mass spectrometry files for the manuscript by Lynda Agbo et al. that describes the functional characterization of ESR1 in breast cancer cell lines. TurboID experiments were performed from MCF-7 and MDA-MB-231 cells and MS files were acquired on Orbitrap Fusion mass spectrometer. For questions, please contact Jean-Philippe Lambert (Jean-Philippe.Lambert@crchudequebec.ulaval.ca).
DOI: 10.5281/zenodo.3941184
title: IODP Expedition 376, Hole U1528D - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 376: Brothers Arc Flux
DOI: 10.5281/zenodo.3941183
title: IODP Expedition 376, Hole U1528D - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 376: Brothers Arc Flux
DOI: 10.5281/zenodo.3941186
title: IODP Expedition 376, Hole U1530A - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 376: Brothers Arc Flux
DOI: 10.5281/zenodo.3941185
title: IODP Expedition 376, Hole U1530A - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 376: Brothers Arc Flux
DOI: 10.5281/zenodo.3940093
title: IODP Expedition 362T, Hole U1473A - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 362T: Transit - Hole U1473A Remediation
DOI: 10.5281/zenodo.3940092
title: IODP Expedition 362T, Hole U1473A - Well Logging Data

description: Logging data are measurements of physical properties of the formation surrounding a borehole, acquired in situ after completion of coring (wireline logging) or during drilling (Logging-While-Drilling, LWD). The range of data (resistivity, gamma radiation, velocity, density, borehole images,…) in any hole depends on the scientific objectives and operational constraints.
description: IODP Expedition 362T: Transit - Hole U1473A Remediation
DOI: 10.15468/xwmt6d
title: Blotiella confusa Jongkind & W. de Winter, sp. nov. (Dennstaedtiaceae), a new species from lowland tropical West Africa, and its distinction from B. reducta (C. Chr) R. M. Tryon

description: This dataset contains the digitized treatments in Plazi based on the original journal article Jongkind, Carel, Winter, Wim de (2015): Blotiella confusa Jongkind & W. de Winter, sp. nov. (Dennstaedtiaceae), a new species from lowland tropical West Africa, and its distinction from B. reducta (C. Chr) R. M. Tryon. Adansonia 37 (1): 7-12, DOI: 10.5252/a2015n1a1
DOI: 10.7294/14597751
title: Redlining Virginia Preservation Dataset

description: This dataset includes all content and structural components for the project Redlining Virginia (http://redliningvirginia.org/). The purpose is to provide a description of the original project, a description of the preservation package, and any specialized software to open any component with the potential for reuse, reconstruction, or recreation. <br>Project Description: “Congress created the Home Owners' Loan Corporation (HOLC) in 1933 to rescue the real estate industry and restructure the home mortgage market. In the process, HOLC also strengthened residential racial segregation. HOLC promoted racial covenants on deeds to prevent mixed-race neighborhoods and created color-coded maps of American cities that made race a key element in assessing financial risk. This exhibit explores the actions of HOLC in Virginia and its impact on Virginia cities.”<br>Additional Redlining mappings that extend beyond Virginia and West Virginia regions can be found at https://doi.org/10.7294/cnha-n469.
DOI: 10.5281/zenodo.4732372
title: Reconstructing single-cell karyotype alterations in colorectal cancer reveals punctuated and gradual diversification patterns

description: We developed ‘3D Live-Seq’, a protocol that enables the reconstruction of evolving tumor cell karyotypes across multiple consecutive cell generations by integrating live-cell imaging data of tumor organoid outgrowth and whole-genome sequencing data of each imaged cell. Using patient-derived colorectal cancer organoids and freshly isolated tumor tissue, we demonstrate that chromosomal copy-number alterations of varying complexity are prevalent and can arise within a few cell generations.Here deposited are the discrete copy-number values per bin for each single cell or bulk sequenced sample.
DOI: 10.5281/zenodo.4732371
title: Reconstructing single-cell karyotype alterations in colorectal cancer reveals punctuated and gradual diversification patterns

description: We developed ‘3D Live-Seq’, a protocol that enables the reconstruction of evolving tumor cell karyotypes across multiple consecutive cell generations by integrating live-cell imaging data of tumor organoid outgrowth and whole-genome sequencing data of each imaged cell. Using patient-derived colorectal cancer organoids and freshly isolated tumor tissue, we demonstrate that chromosomal copy-number alterations of varying complexity are prevalent and can arise within a few cell generations.Here deposited are the discrete copy-number values per bin for each single cell or bulk sequenced sample.
DOI: 10.15468/zxpygt
title: Additions to the Vietnamese species of Magnolia L., sect. Gwillimia DC. (Magnoliaceae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Vu, Tien Chinh, Duy, Nong Van, Phan, Nguyen Huu Toan, Tran, Van Tien, Tiep, Nong Van, Xia, Nianhe (2015): Additions to the Vietnamese species of Magnolia L., sect. Gwillimia DC. (Magnoliaceae). Adansonia 37 (1): 13-18, DOI: 10.5252/a2015n1a2
DOI: 10.6084/m9.figshare.12933695
title: Maternal atopy and offspring epigenome-wide methylation signature

description: The increase in the prevalence of allergic diseases is believed to partially depend on environmental changes. DNA methylation is a major epigenetic mechanism, which is known to respond to environmental factors. A number of studies have revealed that patterns of DNA methylation may potentially predict allergic diseases. Here, we examined how maternal atopy is associated with methylation patterns in the cord blood of neonates. We conducted an epigenome-wide association study in a cohort of 96 mother-child pairs. Pregnant women aged not more than 35 years old, not currently smoking or exposed to environmental tobacco smoke, who did not report obesity before conception were considered eligible. They were further tested for atopy. Converted DNA from cord blood was analysed using Infinium MethylationEPIC; for statistical analysis, RnBeads software was applied. Gestational age and sex were included as covariates in the final analysis. 83 DM sites were associated with maternal atopy. Within the top DM sites, there were CpG sites which mapped to genes SCD, ITM2C, NT5C3A and NPEPL1. Regional analysis revealed 25 tiling regions, 4 genes, 3 CpG islands and 5 gene promoters, (including PIGCP1, ADAM3A, ZSCAN12P1) associated with maternal atopy. Gene content analysis revealed pointwise enrichments in pathways related to purine-containing compound metabolism, the G1/S transition of the mitotic cell cycle, stem cell division and cellular glucose homoeostasis. These findings suggest that maternal atopy provides a unique intrauterine environment that may constitute the first environment in which exposure is associated with methylation patterns in newborn.
DOI: 10.6084/m9.figshare.12991521
title: Sex-specific associations with DNA methylation in lung tissue demonstrate smoking interactions

description: Cigarette smoking impacts DNA methylation, but the investigation of sex-specific features of lung tissue DNA methylation in smokers has been limited. Women appear more susceptible to cigarette smoke, and often develop more severe lung disease at an earlier age with less smoke exposure. We aimed to analyse whether there are sex differences in DNA methylation in lung tissue and whether these DNA methylation marks interact with smoking. We collected lung tissue samples from former smokers who underwent lung tissue resection. One hundred thirty samples from white subjects were included for this analysis. Regression models for sex as a predictor of methylation were adjusted for age, presence of COPD, smoking variables and technical batch variables revealed 710 associated sites. 294 sites demonstrated robust sex-specific methylation associations in foetal lung tissue. Pathway analysis identified 6 nominally significant pathways including the mitophagy pathway. Three CpG sites demonstrated a suggested interaction between sex and pack-years of smoking: GPR132, ANKRD44 and C19orf60. All of them were nominally significant in both male- and female-specific models, and the effect estimates were in opposite directions for male and female; GPR132 demonstrated significant association between DNA methylation and gene expression in lung tissue (<i>P</i>
DOI: 10.6084/m9.figshare.12933695.v2
title: Maternal atopy and offspring epigenome-wide methylation signature

description: The increase in the prevalence of allergic diseases is believed to partially depend on environmental changes. DNA methylation is a major epigenetic mechanism, which is known to respond to environmental factors. A number of studies have revealed that patterns of DNA methylation may potentially predict allergic diseases. Here, we examined how maternal atopy is associated with methylation patterns in the cord blood of neonates. We conducted an epigenome-wide association study in a cohort of 96 mother-child pairs. Pregnant women aged not more than 35 years old, not currently smoking or exposed to environmental tobacco smoke, who did not report obesity before conception were considered eligible. They were further tested for atopy. Converted DNA from cord blood was analysed using Infinium MethylationEPIC; for statistical analysis, RnBeads software was applied. Gestational age and sex were included as covariates in the final analysis. 83 DM sites were associated with maternal atopy. Within the top DM sites, there were CpG sites which mapped to genes SCD, ITM2C, NT5C3A and NPEPL1. Regional analysis revealed 25 tiling regions, 4 genes, 3 CpG islands and 5 gene promoters, (including PIGCP1, ADAM3A, ZSCAN12P1) associated with maternal atopy. Gene content analysis revealed pointwise enrichments in pathways related to purine-containing compound metabolism, the G1/S transition of the mitotic cell cycle, stem cell division and cellular glucose homoeostasis. These findings suggest that maternal atopy provides a unique intrauterine environment that may constitute the first environment in which exposure is associated with methylation patterns in newborn.
DOI: 10.6084/m9.figshare.12991521.v1
title: Sex-specific associations with DNA methylation in lung tissue demonstrate smoking interactions

description: Cigarette smoking impacts DNA methylation, but the investigation of sex-specific features of lung tissue DNA methylation in smokers has been limited. Women appear more susceptible to cigarette smoke, and often develop more severe lung disease at an earlier age with less smoke exposure. We aimed to analyse whether there are sex differences in DNA methylation in lung tissue and whether these DNA methylation marks interact with smoking. We collected lung tissue samples from former smokers who underwent lung tissue resection. One hundred thirty samples from white subjects were included for this analysis. Regression models for sex as a predictor of methylation were adjusted for age, presence of COPD, smoking variables and technical batch variables revealed 710 associated sites. 294 sites demonstrated robust sex-specific methylation associations in foetal lung tissue. Pathway analysis identified 6 nominally significant pathways including the mitophagy pathway. Three CpG sites demonstrated a suggested interaction between sex and pack-years of smoking: GPR132, ANKRD44 and C19orf60. All of them were nominally significant in both male- and female-specific models, and the effect estimates were in opposite directions for male and female; GPR132 demonstrated significant association between DNA methylation and gene expression in lung tissue (<i>P</i>
DOI: 10.6084/m9.figshare.12933695.v1
title: Maternal atopy and offspring epigenome-wide methylation signature

description: The increase in the prevalence of allergic diseases is believed to partially depend on environmental changes. DNA methylation is a major epigenetic mechanism, which is known to respond to environmental factors. A number of studies have revealed that patterns of DNA methylation may potentially predict allergic diseases. Here, we examined how maternal atopy is associated with methylation patterns in the cord blood of neonates. We conducted an epigenome-wide association study in a cohort of 96 mother-child pairs. Pregnant women aged not more than 35 years old, not currently smoking or exposed to environmental tobacco smoke, who did not report obesity before conception were considered eligible. They were further tested for atopy. Converted DNA from cord blood was analysed using Infinium MethylationEPIC; for statistical analysis, RnBeads software was applied. Gestational age and sex were included as covariates in the final analysis. 83 DM sites were associated with maternal atopy. Within the top DM sites, there were CpG sites which mapped to genes SCD, ITM2C, NT5C3A and NPEPL1. Regional analysis revealed 25 tiling regions, 4 genes, 3 CpG islands and 5 gene promoters, (including PIGCP1, ADAM3A, ZSCAN12P1) associated with maternal atopy. Gene content analysis revealed pointwise enrichments in pathways related to purine-containing compound metabolism, the G1/S transition of the mitotic cell cycle, stem cell division and cellular glucose homoeostasis. These findings suggest that maternal atopy provides a unique intrauterine environment that may constitute the first environment in which exposure is associated with methylation patterns in newborn.
DOI: 10.5281/zenodo.4767328
title: Erigeron philadelphicus SPAdes preassembly

description: .
DOI: 10.5281/zenodo.4767327
title: Erigeron philadelphicus SPAdes preassembly

description: .
DOI: 10.6084/m9.figshare.14607543
title: Germ Granules Govern Small RNA Inheritance

description: Germ Granules Govern Small RNA Inheritance
DOI: 10.6084/m9.figshare.14607543.v2
title: Germ Granules Govern Small RNA Inheritance

description: Germ Granules Govern Small RNA Inheritance
DOI: 10.6084/m9.figshare.14607543.v1
title: Germ Granules Govern Small RNA Inheritance

description: Germ Granules Govern Small RNA Inheritance
DOI: 10.5281/zenodo.4768297
title: One-pot synthesis of high-capacity silicon-lithium anodes via on-copper growth of a semi-conducting, porous polymer

description: [This repository contains the source data for the manuscript <strong>"One-pot synthesis of high-capacity silicon-lithium anodes <em>via</em> on-copper growth of a semi-conducting, porous polymer"</strong>] Silicon-based anodes with lithium ions as charge carriers have the highest predicted charge density of 3579 mA h g<sup>-1</sup> (for Li<sub>15</sub>Si<sub>4</sub>) while being comparatively safe. Contemporary electrodes do not achieve these theoretical values largely because production paradigms remained unchanged since their inception and rely on the mixing of weakly coordinated, multiple components. In this paper, we present the one-pot synthesis of high-performance anodes that reach the theoretical capacity of the fully lithiated state of silicon. Here, a semi-conductive triazine-based graphdiyne polymer network is grown around silicon nanoparticles directly on the current collector, a copper sheet. The current collector (Cu) acts as the catalyst for the formation of a semi-conductive triazine-based graphdiyne polymer network that grows around the inorganic, active material (Si). In comparison to established electrode assemblies, this process (i) omits any steps related to curing, drying, and annealing, (ii) does away with binders and conductivity-enhancing additives that decrease volumetric and gravimetric capacity, and (iii) cancels out the detrimental effects on performance, chemical and physical stability of conventional, three-component anodes (Si, binder, carbon black). This is because, the porous, semi-conducting organic framework (i) adheres to the current collector on which it grows <em>via</em> cooperative van der Waals interactions, (ii) acts effectively as conductor for electrical charges and binder of silicon nanoparticles <em>via</em> conjugated, covalent bonds, and (iii) enables selective transport of mass and charge-carriers (electrolyte and Li-ions) through pores of defined size. As a result, the anode shows extraordinarily high capacity at the theoretical limit of fully lithiated silicon, excellent performances in terms of cycling (exceeding 70% capacity retention after 100 cycles), and high mechanical and thermal stability. Finally, we combine our anodes in proof-of-concept full battery assemblies using a number of conventional cathodes (NCM811). These high-performance anodes pave the way for use in flexible, wearable electronics and in environmentally demanding applications.