cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24835863
title: Repository for : <i>Establishment of reed </i><i>canarygrass</i><i> (</i><i>Phalaris </i><i>arundinacea</i><i>) in the context of floodplain restoration: Impact of companion plant and s</i><i>ow</i><i>ing rate</i><i> </i>

description: <b>About this project</b>The state of the yellow perch (<i>Perca flavescens</i>) population of the lake Saint Pierre (the largest floodplain in Québec, Canada) is concerning and has been the subject of three moratoria (2012, 2017, 2022). Agriculture intensification in the floodplain in the last century resulted in the loss of important spawning and rearing areas for the yellow perch. Reestablishing perennial vegetation during the spring floods appears essential to ensure the persistence of the population, but the prolonged flooding and fluctuating conditions found in the floodplain make the objective difficult to achieve.In response to this challenge, we evaluate the impact of companion plants (<i>Avena Sativa</i> and <i>Lolium pratense</i>) and sowing rates on the establishment success of <i>Phalaris arundinacea </i>in the floodplain of lake Saint-pierre<i>.</i><b>Description</b>This is the online repository to reproduce the results presented in: Mathieu Vaillancourt, Catherine Čapkun-Huot, Samuel Jean Jacques, Bérenger Bourgeois and Monique Poulin. 2024. Establishment of reed canarygrass (<i>Phalaris</i><i> </i><i>arundinacea</i>) in the context of floodplain restoration: Impact of companion plant and sowing rate.This repository contains all the data and code for the paper.<b>Data</b>The data required for this project are separated in two distinct data sets based on the study site:BF.csvSB.csvBF stands for Baie-du-Febvre, and SB stands for Saint-Barthélémy. Data include :Experimental treatments (species sowed and sowing rate)Weed cover and biomass (separated by species and pooled together)<i>P. arundinacea</i> cover, biomass and mean maximum heightThe complete description of these data sets can be found in Metadata_BF.txt and Metadata_SB.txt<b>Code</b>The analyses and figures are separated in two .R files:Models.RFigures.R<br>
DOI: 10.21227/20qr-2861
title: Air Filter Loading Characteristics for an Epigenetic Modeling Approach to Adaptive Prognostics

description: New capabilities involving sensors, data collection, and data analysis have enabled innovations in how engineered systems are monitored and maintained. Whereas each new evolution of maintenance philosophies has relied upon the current technological state, this research examines potential future capabilities in the field of prognostics and health management (PHM). PHM algorithms for predicting the estimated time to failure for a system are based on sensor data, physical models, or a combination of both. Each approach has its documented strengths and weaknesses; however, a common shortcoming is the limited ability to represent the individualized dynamic interplay of factors that affect system health. As materials science and engineering progress toward components that have “genetic” intelligence—inherent manufactured capabilities to sense, store, and analyze environmental and system conditions—a new paradigm for evaluating system health is required. The corresponding paper presents a natural computing approach to prognostics based on the biological phenomenon of epigenetics that is applicable to this next generation of systems. Epigenetics is concerned with how environmental factors influence an organism’s genetic expression over time, directly impacting the health of one or more systems. A multitiered framework is presented that provides a formal representation of a system and its environment, an ontology, an epigenetic degradation model, and a way to represent failure pathways. The framework components are demonstrated in an air filtration case study, illustrating the utility of the new paradigm within an existing prognostics application.   This dataset is used to provide the primary performance characteristics and their evolution over time of a fibrous air filter subject to loading from solid aerosols. A simulation of realistic aerosol filtration was conducted in order to generate the dataset, which was utilized in conjunction with the corresponding paper as a case study for filter degradation and the application of the proposed epigenetic modeling approach.
DOI: 10.6084/m9.figshare.25264552.v4
title: mpfc_bigwig

description: UCSC track hub for mouse pfc
DOI: 10.5517/ccdc.csd.cc2fw5h0
title: CCDC 2260442: Experimental Crystal Structure Determination

description: Related Article: Amina Benchohra, Julien Chong, Carlos M. Cruz, Céline Besnard, Laure Guénée, Arnulf Rosspeintner, Claude Piguet|2024|Inorg.Chem.|63|3617|doi:10.1021/acs.inorgchem.3c03422
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.cc2fw5j1
title: CCDC 2260443: Experimental Crystal Structure Determination

description: Related Article: Amina Benchohra, Julien Chong, Carlos M. Cruz, Céline Besnard, Laure Guénée, Arnulf Rosspeintner, Claude Piguet|2024|Inorg.Chem.|63|3617|doi:10.1021/acs.inorgchem.3c03422
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.cc2fw5k2
title: CCDC 2260444: Experimental Crystal Structure Determination

description: Related Article: Amina Benchohra, Julien Chong, Carlos M. Cruz, Céline Besnard, Laure Guénée, Arnulf Rosspeintner, Claude Piguet|2024|Inorg.Chem.|63|3617|doi:10.1021/acs.inorgchem.3c03422
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.cc2gh1z0
title: CCDC 2278592: Experimental Crystal Structure Determination

description: Related Article: Amudha Sekar, Angappan Sheela|2024|Inorg.Chem.Commun.|162|112246|doi:10.1016/j.inoche.2024.112246
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.cc2gmg6s
title: CCDC 2282815: Experimental Crystal Structure Determination

description: Related Article: Clarissa Coccia, Marta Morana, Arup Mahata, Waldemar Kaiser, Marco Moroni, Benedetta Albini, Pietro Galinetto, Giulia Folpini, Chiara Milanese, Alessio Porta, Edoardo Mosconi, Annamaria Petrozza, Filippo De Angelis, Lorenzo Malavasi|2024|Angew.Chem.,Int.Ed.|63|e202318557|doi:10.1002/anie.202318557
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.cc2gmg7t
title: CCDC 2282816: Experimental Crystal Structure Determination

description: Related Article: Clarissa Coccia, Marta Morana, Arup Mahata, Waldemar Kaiser, Marco Moroni, Benedetta Albini, Pietro Galinetto, Giulia Folpini, Chiara Milanese, Alessio Porta, Edoardo Mosconi, Annamaria Petrozza, Filippo De Angelis, Lorenzo Malavasi|2024|Angew.Chem.,Int.Ed.|63|e202318557|doi:10.1002/anie.202318557
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.cc2gmg8v
title: CCDC 2282817: Experimental Crystal Structure Determination

description: Related Article: Clarissa Coccia, Marta Morana, Arup Mahata, Waldemar Kaiser, Marco Moroni, Benedetta Albini, Pietro Galinetto, Giulia Folpini, Chiara Milanese, Alessio Porta, Edoardo Mosconi, Annamaria Petrozza, Filippo De Angelis, Lorenzo Malavasi|2024|Angew.Chem.,Int.Ed.|63|e202318557|doi:10.1002/anie.202318557
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: 10.6075/j0tq61rp
title: Data and Code from: Retaining Short-Term Variability Reduces Mean State Biases in Wind Stress Overriding Simulations

description: Fortran source code developed to override wind stress with a climatology in the Community Earth System Model (CESM) v. 1.2 and resulting GCM output data from Luongo et al. (2024).

Abstract of source study:

Positive feedbacks in climate processes can make it difficult to identify the primary drivers of climate phenomena. Some recent global climate model (GCM) studies address this issue by controlling the wind stress felt by the surface ocean such that the atmosphere and ocean become mechanically decoupled. Most mechanical decoupling studies have chosen to override wind stress with an annual climatology. In this study we introduce an alternative method of interannually varying overriding which maintains higher frequency momentum forcing of the surface ocean. Using a GCM (NCAR CESM1), we then assess the size of the biases associated with these two methods of overriding by comparing with a freely evolving control integration. We find that overriding with a climatology creates sea surface temperature (SST) biases throughout the global oceans on the order of $pm1^circ$C. This is substantially larger than the biases introduced by interannually varying overriding, especially in the tropical Pacific. We attribute the climatological overriding SST biases to a lack of synoptic and subseasonal variability, which causes the mixed layer to be too shallow throughout the global surface ocean. This shoaling of the mixed layer reduces the effective heat capacity of the surface ocean such that SST biases excite atmospheric feedbacks. These results have implications for the reinterpretation of past climatological wind stress overriding studies: past climate signals attributed to momentum coupling may in fact be spurious responses to SST biases.
DOI: 10.6075/j0rf5v6p
title: Data from: Retaining Short-Term Variability Reduces Mean State Biases in Wind Stress Overriding Simulations. In Data and Code from: Retaining Short-Term Variability Reduces Mean State Biases in Wind Stress Overriding Simulations

description: GCM data used to create Figures 2-5 from Luongo et al. (2024).

Abstract of source study:

Positive feedbacks in climate processes can make it difficult to identify the primary drivers of climate phenomena. Some recent global climate model (GCM) studies address this issue by controlling the wind stress felt by the surface ocean such that the atmosphere and ocean become mechanically decoupled. Most mechanical decoupling studies have chosen to override wind stress with an annual climatology. In this study we introduce an alternative method of interannually varying overriding which maintains higher frequency momentum forcing of the surface ocean. Using a GCM (NCAR CESM1), we then assess the size of the biases associated with these two methods of overriding by comparing with a freely evolving control integration. We find that overriding with a climatology creates sea surface temperature (SST) biases throughout the global oceans on the order of $pm1^circ$C. This is substantially larger than the biases introduced by interannually varying overriding, especially in the tropical Pacific. We attribute the climatological overriding SST biases to a lack of synoptic and subseasonal variability, which causes the mixed layer to be too shallow throughout the global surface ocean. This shoaling of the mixed layer reduces the effective heat capacity of the surface ocean such that SST biases excite atmospheric feedbacks. These results have implications for the reinterpretation of past climatological wind stress overriding studies: past climate signals attributed to momentum coupling may in fact be spurious responses to SST biases.
description: CESM1.1.2 GCM data.
DOI: 10.14272/uvlhgradyisrgz-uhfffaoysa-n.11
title: copper(1+);1,1,3,3-tetramethyl-2-quinolin-8-ylguanidine;hexafluorophosphate
title: InChI=1S/2C14H18N4.Cu.F6P/c2*1-17(2)14(18(3)4)16-12-9-5-7-11-8-6-10-15-13(11)12;;1-7(2,3,4,5)6/h2*5-10H,1-4H3;;/q;;+1;-1

description: This is a physical chemical entity[CHEBI_24431] associated with a molecule[CHEBI_25367].
 The molecule[CHEBI_25367] can be described by the following structural desciptors[cheminf_000085]:
 InChI descriptor[cheminf_000113]: InChI=1S/2C14H18N4.Cu.F6P/c2*1-17(2)14(18(3)4)16-12-9-5-7-11-8-6-10-15-13(11)12;;1-7(2,3,4,5)6/h2*5-10H,1-4H3;;/q;;+1;-1, and canonical SMILES descriptor[cheminf_000007]: F[P-](F)(F)(F)(F)F.CN(C(=Nc1cccc2c1nccc2)N(C)C)C.CN(C(=Nc1cccc2c1nccc2)N(C)C)C.[Cu+], and by the IUPAC name[cheminf_000107]: copper(1+);1,1,3,3-tetramethyl-2-quinolin-8-ylguanidine;hexafluorophosphate.
 
 The physical chemical entity[CHEBI_24431] has a component solvent[CHEBI_46787] which is described by the canonical SMILES descriptor[cheminf_000007]:
 
 The physical chemical entity[CHEBI_24431] has the following Sample ID as registered in the research data repository chemotion (www.chemotion-repository.net, https://doi.org/10.25504/FAIRsharing.iagXcR): CRS-39582

 The physical chemical entity[CHEBI_24431] can be described by the physical descriptors [CHEMINF_000025]:
 Melting point descriptor[CHEMINF_000256]: 
 Boiling point descriptor[CHEMINF_000257]: 
 Refractive index descriptor[CHEMINF_000253]:

 The physical chemical entity[CHEBI_24431] can be further described by the following assays[OBI:0000070][CHMO:0001133]:
 
 CHMO:0000593 | 1H nuclear magnetic resonance spectroscopy (1H NMR)
 
 CHMO:0000595 | 13C nuclear magnetic resonance spectroscopy (13C NMR)
 
 CHMO:0000025 | cyclic voltammetry (CV)
 
 The physical chemical entity[CHEBI_24431] was deposited to the Molecule Archive of the Karlsruhe Insitute of Technology (KIT) with the following Sample ID: 

 Used ontologies:
 CHEBI - Chemical Entities of Biological Interest
 CHEMINF - chemical information ontology (information entities about chemical entities)
 CHMO - Chemical Methods Ontology
 OBI - Ontology for Biomedical Investigations
DOI: 10.14272/uvlhgradyisrgz-uhfffaoysa-n/chmo0000593.1
title: 1H nuclear magnetic resonance spectroscopy (1H NMR) (copper(1+);1,1,3,3-tetramethyl-2-quinolin-8-ylguanidine;hexafluorophosphate)
title: InChI=1S/2C14H18N4.Cu.F6P/c2*1-17(2)14(18(3)4)16-12-9-5-7-11-8-6-10-15-13(11)12;;1-7(2,3,4,5)6/h2*5-10H,1-4H3;;/q;;+1;-1

description: dataset for 1H nuclear magnetic resonance spectroscopy (1H NMR)
 
 1H NMR (400 MHz, Dichloromethane-d2 [5.32 ppm], ppm) δ = 8.49 (d, J = 3.6 Hz, 2H), 8.29 (d, J = 8.1 Hz, 2H), 7.57–7.53 (m, 2H), 7.49–7.45 (m, 4H), 6.84 (d, J = 7.3 Hz, 2H), 2.50–2.50 (m, 24H).
DOI: 10.14272/uvlhgradyisrgz-uhfffaoysa-n/chmo0000595.1
title: 13C nuclear magnetic resonance spectroscopy (13C NMR) (copper(1+);1,1,3,3-tetramethyl-2-quinolin-8-ylguanidine;hexafluorophosphate)
title: InChI=1S/2C14H18N4.Cu.F6P/c2*1-17(2)14(18(3)4)16-12-9-5-7-11-8-6-10-15-13(11)12;;1-7(2,3,4,5)6/h2*5-10H,1-4H3;;/q;;+1;-1

description: dataset for 13C nuclear magnetic resonance spectroscopy (13C NMR)
 
 13C NMR (100 MHz, Dichloromethane-d2, ppm) δ = 162.6 (2C), 147.0 (2C), 146.7 (2C), 141.3 (2C), 136.7 (2C), 130.0 (2C), 128.1 (2C), 122.2 (2C), 119.1 (2C), 117.5 (2C), 39.1 (8C).
DOI: 10.14272/uvlhgradyisrgz-uhfffaoysa-n/chmo0000025.18
title: cyclic voltammetry (CV) (copper(1+);1,1,3,3-tetramethyl-2-quinolin-8-ylguanidine;hexafluorophosphate)
title: InChI=1S/2C14H18N4.Cu.F6P/c2*1-17(2)14(18(3)4)16-12-9-5-7-11-8-6-10-15-13(11)12;;1-7(2,3,4,5)6/h2*5-10H,1-4H3;;/q;;+1;-1

description: dataset for cyclic voltammetry (CV)
 
 CV (1 mM in MeCN vs. Ref (Fc+/Fc) = 0.38 V, ν = 0.1 V/s, to pos.): E1/2 ([Cu(TMGqu)2]2+/[Cu(TMGqu)2]+, ΔEp) = −0.04 V (80 mV).
DOI: 10.25345/c5s17t41v
title: MassIVE MSV000094299 - Comprehensive Untargeted Lipidomic Profiling of Third Generation Lentiviral Vectors and Packaging Cells: Raw LCMS Data
title: Untargeted high-resolution lipidomics data of HEK 293T packaging cells and lentiviral vectors (LV) in cell culture media. HEK 293T cells are treated with either vehicle control (DMSO), myriocin (positive control), expressing the VSV G protein or producing 3rd generation LV. LV are concentrated from HEK 293T cell culture media using ultracentrifugation. HEK 293T culture media from untransfected cells is also concentrated by ultracentrifugation and acquired as a lipidomics blank which is used to subtract the abundance of background lipids from the LV samples. Also included, is a diltution series of fetal bovine serum lipid extract (FBS) which is used to asses the linear dynamic range of the instrument.
DOI: 10.17632/x7hw356g4d.1
title: Confocal imaging and microscale thermophoresis dataset from the article: "A type I interferon regulatory network for human plasmacytoid dendritic cells based on heparin, membrane-bound and soluble type II C-type lectin BDCA-2"

description: Confocal imaging and microscale thermophoresis dataset from the article: A novel type I interferon regulatory network for human plasmacytoid dendritic cells based on heparin, membrane-bound and soluble type II C-type lectin BDCA-2.
DOI: 10.17632/26ykd8gnct.1
title: HCT116 MCM10 RNF4 Chromosomal Microarray Analysis

description: For CNV analyses, cells were submitted to the UMGC for DNA extraction and chromosomal microarray analysis (CMA). Microarrays were carried out in HCT116 WT, MCM10+/- Clone 8, RNF4-/- Clone 3, MCM10+/-:RNF4-/- Clone 8-4, and MCM10+/-:RNF4-/- 8-4 complemented with HA-RNF4 Clone F for one biological replicate. CMA was performed with the Infinium CytoSNP-850K v1.2 Beadchip (Illumina), according to the manufacturer’s instructions. The array contains approximately 850,000 single nucleotide polymorphisms (SNPs) markers spanning the entire genome with an average probe spacing of 1.8 kb. The data was analyzed using GenomeStudio Data Analysis Software version 2.0.5 based on the reference human genome (hg19/GRCh37). To generate a list of all CNV regions (CNVRs) between two cell lines, R Statistical Software (version 4.1.2; R Core Team 2021) was used with the handyCNV R package (version 1.1.7). For the different cell line comparisons, each identified CNVR was manually verified as a true CNV event by inspecting both the B allele frequency and log R ratio plots at the specified genomic locus in GenomeStudio (Figure 5c-d). True CNV events show changes in both the B allele frequency and log R ratio plots which measure the genotypes and signal intensity, respectively, for each SNP marker in the Beadchip array.
DOI: 10.17632/8nnwkmby22.1
title: Data from Belluardo, F., Pellitteri-Rosa, D., Cocca, W., Liuzzi, C., Rato, C., Crottini, A. and Bellati, A. - Multilocus phylogeography of Italian Moorish geckos adds insights into the evolutionary history of European populations

description: Research Data:
File S1. DNA sequence alignment of 16S gene used in the phylogenetic analysis.
File S2. DNA sequence alignment of 16S gene used in the haplotype phylogenetic network analysis.
File S3. Complete dataset (n = 269; 28 localities) of microsatellite genotypes generated in this study.
File S4. Reduced dataset (n = 93; 8 localities) of microsatellite genotypes used in genetic structure analyses.
DOI: 10.25345/c5n87398z
title: MassIVE MSV000094300 - Cholic acid reaction with mixture of 400 Tripeptides SXX
title: MS/MS fragmentation data of Cholic acid and tripeptide acquired on Q Exactive - with chromatographic separation on a Phenomenex polar C18 column.
DOI: 10.6084/m9.figshare.23983929
title: Dynamics of litterfall production in a forest damaged by oak wilt disease: a case study in a warm-temperate secondary forest

description: Quantification of litterfall production is crucial for evaluating net primary productivity and nutrient cycling in forest ecosystems. High mortality among trees in the family Fagaceae due to Japanese oak wilt disease (JOW) might affect litterfall production in secondary forests; however, few studies have quantified these effects. We investigated litterfall production and forest structure in warm-temperate secondary forests in the Kaisho Forest over 6 and 12 years, respectively, and compared the dynamics among different phases of a JOW outbreak to assess the impacts of JOW on litterfall production. We found that total annual litterfall and leaf fall showed little change in peak to post-JOW periods and that changes in basal area were unrelated to total litterfall and leaf fall. The observed fluctuation in BA in the Kaisho Forest may not have been large enough to clearly reveal the effect of JOW during these periods. Canopy gaps formed by JOW may enhance the recruitment and growth rates of sub-canopy and understory trees. Our results may only be applicable to warm secondary forests where evergreen trees are replacing deciduous trees. Additional information on litterfall production in JOW-disturbed secondary forests is needed.