cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19524727
title: BIO290 - The Adventures of Schnappi and Banana - Julia Bernet & Franziska Cremer - 06 april 2022

description: Every milliliter of Lake Zurich water contains roughly 1 million heterotrophic bacteria that play a major role in the microbial food web. However, only a small portion have been described so far, as most of them can’t be grown on standard culture media. As it has become more and more evident how small our understanding of the microbial world is, we started to gravitate around the usage (and development) of culture-independent techniques. Thanks to these novel approaches, previously unknown species are discovered, analyzed, and assessed for their potential application in pharma, medicine and beyond. This is data relating to our report, where we discuss a third-generation sequencing technique, through which a metagenomic dataset was generated, and various database-oriented techniques used in genomic analyses. Further, we describe two new species of bacteria found within our metagenome, including their basic characteristics and some of their metabolic pathways and capabilities.
DOI: 10.6084/m9.figshare.19524727.v1
title: BIO290 - The Adventures of Schnappi and Banana - Julia Bernet & Franziska Cremer - 06 april 2022

description: Every milliliter of Lake Zurich water contains roughly 1 million heterotrophic bacteria that play a major role in the microbial food web. However, only a small portion have been described so far, as most of them can’t be grown on standard culture media. As it has become more and more evident how small our understanding of the microbial world is, we started to gravitate around the usage (and development) of culture-independent techniques. Thanks to these novel approaches, previously unknown species are discovered, analyzed, and assessed for their potential application in pharma, medicine and beyond. This is data relating to our report, where we discuss a third-generation sequencing technique, through which a metagenomic dataset was generated, and various database-oriented techniques used in genomic analyses. Further, we describe two new species of bacteria found within our metagenome, including their basic characteristics and some of their metabolic pathways and capabilities.
DOI: 10.34740/kaggle/dsv/3415358
title: AutoXGB
DOI: 10.5517/ccdc.csd.cc2bgfkt
title: CCDC 2158826: Experimental Crystal Structure Determination

description: Related Article: Alexander Hübner, Michael Bolte, Matthias Wagner|2022|CSD Communication|||
DOI: 10.5517/ccdc.csd.cc2bgflv
title: CCDC 2158827: Experimental Crystal Structure Determination

description: Related Article: Alexander Hübner, Michael Bolte, Matthias Wagner|2022|CSD Communication|||
DOI: 10.5258/soton/d1883
title: Data for "Numerical modelling of distributed acoustic sensor based on ultra-low loss-enhanced-backscattering fibers"
DOI: 10.25919/qgqd-nz79
title: Parkes observations for project P1054 semester 2021OCTS_16

description: With this proposal we ask time to continue our timing follow-up campaign of pulsars discovered with the MeerKAT telescope. Nine sources have been discovered in targeted observations of Fermi unidentified point sources, three in the Small Magellanic Cloud, 34 in Globular Clusters and six in a survey of the Galactic plane. Excluding GC sources (too dim to be followed up in the framework of this proposal), at least 12 new discoveries are recycled pulsars, one possibly with a neutron star companion, and two more have spin periods around 70 ms, making them potential mildly recycled or young pulsars. Timing observations have an essential role in exploiting the full potential of any pulsar discovery, allowing the precise measurement of rotational, astrometric and orbital parameters which, in turn, give us powerful tools to improve our understanding of the physics in extreme environments as well as of the population of neutron stars as a whole. The UWL receiver of the Parkes telescope is a sensitive, versatile instrument that is allowing us to successfully time these new sources, in the bright-end of TRAPUM discoveries. The UWL has also the unique advantage of allowing detailed studies of the eclipses of the so-called 'spider' pulsars, which make up about 1/3rd of the sources we aim at following-up with this project.
DOI: 10.17608/k6.auckland.19524763
title: PCA modeling of processed data

description: This package contains the matrix of PC coefficients, percentage explained, PC scores and reconstructed 4PCs from PCA modeling.
DOI: 10.17608/k6.auckland.19524763.v1
title: PCA modeling of processed data

description: This package contains the matrix of PC coefficients, percentage explained, PC scores and reconstructed 4PCs from PCA modeling.
DOI: 10.17608/k6.auckland.19524736
title: Preprocessed Dataset in 'mat'

description: This package contains the processed (ready-for-use) dataset of joint angles, moments and contact forces in well-organized matrices.
DOI: 10.17608/k6.auckland.19524736.v1
title: Preprocessed Dataset in 'mat'

description: This package contains the processed (ready-for-use) dataset of joint angles, moments and contact forces in well-organized matrices.
DOI: 10.17608/k6.auckland.19524733
title: Raw Dataset in C3D

description: This package contains the raw datasets collected from the motion capture experiments in C3D format of both left and right limbs of walking and running during a pre 5k and post 5k run.
DOI: 10.6073/pasta/299a76635e0da957cf02933969c1aa94
title: Bonanza Creek LTER: Hourly Wind Speed and Direction at Various Heights from 1988 to Present in the Caribou-Poker Creeks Research Watershed near Fairbanks, Alaska

description: Hourly wind data from sefveral sites with the the Caribou Poker Creeks Research Watershed. Wind data should be used cautiously during winter months due to ice and snow build up on sensors.
DOI: 10.35110/c12ca075-e2aa-41b9-962c-99111897b86e
title: Indicateurs de sensibilité, d'exposition, de capacité d'adaptation et de vulnérabilité des navires de pêche de coquilles Saint-Jacques en Manche-Est face aux impacts des efflorescences algales nuisibles (HABs)

description: Ce jeu de données a été construit dans le cadre du projet Interreg France-Manche-Angleterre S3-EUROHAB. Il contient les indicateurs de vulnérabilité et de ses composantes (sensibilité, exposition et capacité d'adaptation) des navires de pêche de coquilles Saint-Jacques de la Manche-Est face aux fermetures des zones de production en raison des contaminations par les phytoplanctons toxiques (HABs). Les indicateurs ont été calculés pour chaque catégorie de navires de pêche, par zone de production et par saison de pêche entre 2012-2013 et 2018-2019. L'identification et le calcul des indicateurs sont basés sur une caractérisation (1) de l'activité de la pêche et (2) de l'impact des occurrences de HABs au niveau des côtes françaises de la Manche-Est.
DOI: 10.6084/m9.figshare.16566814
title: Participatory variety selection and stability of agronomic performance of advanced sorghum lines in Zimbabwe

description: Traditional variety selection practices rarely involve end-users of breeding products, which is regarded as a major factor for the continued reliance by farmers on unproductive landraces and old varieties. Here, we report on a participatory variety selection (PVS) approach involving on-farm trials established across five drought-prone districts of Zimbabwe during the 2018–19 summer season. The objective of this study was to evaluate nine prereleased sorghum lines developed by ICRISAT against three commercial check varieties to identify the high-yielding, stable sorghum (<i>Sorghum bicolor</i> (L.) Moench) improved breeding lines, with desirable agronomic attributes as per farmers’ perceptions. Results demonstrated that although there was a positive and significant relationship between the across-location grain yield (GY) and the overall genotype performance score (OGPS, ranking by farmers), farmers’ choices were related to locality (i.e., resident districts) and grain color. Arid locations were the most ideal for sorghum evaluation. Advanced lines IESV91070DL (1.41 t ha<sup>−1</sup>) and ASARECA 12-3-1 (1.9 t ha<sup>−1</sup>), as well as a commercial variety (Macia, 1.73 t ha<sup>−1</sup>) were high-yielding, stable and most preferred by farmers. Although the selection criteria of both the farmers and researchers pointed to selection for high yield performance, red sorghum genotypes (e.g., IESV99061DL and SDS3472), which showed high GY performance and stability were not among the most preferred by farmers. Overall, results demonstrated that PVS approaches should be combined with traditional varietal selection tools as this may increase adoption of new varieties.
DOI: 10.6084/m9.figshare.16566814.v2
title: Participatory variety selection and stability of agronomic performance of advanced sorghum lines in Zimbabwe

description: Traditional variety selection practices rarely involve end-users of breeding products, which is regarded as a major factor for the continued reliance by farmers on unproductive landraces and old varieties. Here, we report on a participatory variety selection (PVS) approach involving on-farm trials established across five drought-prone districts of Zimbabwe during the 2018–19 summer season. The objective of this study was to evaluate nine prereleased sorghum lines developed by ICRISAT against three commercial check varieties to identify the high-yielding, stable sorghum (<i>Sorghum bicolor</i> (L.) Moench) improved breeding lines, with desirable agronomic attributes as per farmers’ perceptions. Results demonstrated that although there was a positive and significant relationship between the across-location grain yield (GY) and the overall genotype performance score (OGPS, ranking by farmers), farmers’ choices were related to locality (i.e., resident districts) and grain color. Arid locations were the most ideal for sorghum evaluation. Advanced lines IESV91070DL (1.41 t ha<sup>−1</sup>) and ASARECA 12-3-1 (1.9 t ha<sup>−1</sup>), as well as a commercial variety (Macia, 1.73 t ha<sup>−1</sup>) were high-yielding, stable and most preferred by farmers. Although the selection criteria of both the farmers and researchers pointed to selection for high yield performance, red sorghum genotypes (e.g., IESV99061DL and SDS3472), which showed high GY performance and stability were not among the most preferred by farmers. Overall, results demonstrated that PVS approaches should be combined with traditional varietal selection tools as this may increase adoption of new varieties.
DOI: 10.6084/m9.figshare.16566814.v1
title: Participatory variety selection and stability of agronomic performance of advanced sorghum lines in Zimbabwe

description: Traditional variety selection practices rarely involve end-users of breeding products, which is regarded as a major factor for the continued reliance by farmers on unproductive landraces and old varieties. Here, we report on a participatory variety selection (PVS) approach involving on-farm trials established across five drought-prone districts of Zimbabwe during the 2018–19 summer season. The objective of this study was to evaluate nine prereleased sorghum lines developed by ICRISAT against three commercial check varieties to identify the high-yielding, stable sorghum (<i>Sorghum bicolor</i> (L.) Moench) improved breeding lines, with desirable agronomic attributes as per farmers’ perceptions. Results demonstrated that although there was a positive and significant relationship between the across-location grain yield (GY) and the overall genotype performance score (OGPS, ranking by farmers), farmers’ choices were related to locality (i.e., resident districts) and grain color. Arid locations were the most ideal for sorghum evaluation. Advanced lines IESV91070DL (1.41 t ha<sup>−1</sup>) and ASARECA 12-3-1 (1.9 t ha<sup>−1</sup>), as well as a commercial variety (Macia, 1.73 t ha<sup>−1</sup>) were high-yielding, stable and most preferred by farmers. Although the selection criteria of both the farmers and researchers pointed to selection for high yield performance, red sorghum genotypes (e.g., IESV99061DL and SDS3472), which showed high GY performance and stability were not among the most preferred by farmers. Overall, results demonstrated that PVS approaches should be combined with traditional varietal selection tools as this may increase adoption of new varieties.
DOI: 10.5281/zenodo.6417269
title: Raw data for High temperature superconductivity arising in a metal sheet full of holes

description: All raw data for the paper entitled "High temperature superconductivity arising in a metal sheet full of holes" are deposited here, together with the GDSII file used for the sample patterning. The author assumes no responsibility for any problem that may result from dealing with these data. In particular, the addition of the author as a responsible author and/or an inventor in any publication, including electronic publications, is prohibited.
description: [Changes from the previous version V2] 1. Figure numbers were changed due to manuscript revision. V2 V3 (this version) Figure1.csv Figure4.csv Figure2.csv Figure5.csv Figure3b.xlsx Figure6.xlsx Figure4a-XRD.xlsx Figure3a-XRD.xlsx Figure4b-EDX.xlsx Figure3b-EDX.xlsx The R--T data (Figure4.csv) for the fourth cooling process from 300 K to 125 K could not be obtained, because of an annoying maintenance procedure for the PPMS. From 125 K, the measurement was continued. A source of a small vertical resistance offset confirmed in Figure4.csv, which started to appear by repeating temperature cycles, is not well understood yet. The offset is seemingly related to the dynamics of magnetic vortices that should emerge in the voids each time the PnM sample underwent the superconducting transition. 2. Raw data for the supplementary material were newly added: FigureS1.csv -- FigureS8.csv. FigureS1.csv includes Figure4.csv. FigureS3.csv, During the ninth cooling process at 89 K, the PPMS was once powered down, and the temperature automatically increased to 110 K. From 110 K, the measurement was continued. FigureS7.csv, In the middle of the third cooling process to the end of the sixth warming process, the resistance was lost because of disconnection of bonded wires. Prior to the seventh cycle, they were repaired. After the 9th cycle finished, the samples were taken out of the PPMS and were kept in a laboratory environment. Two weeks later, subsequent 10--17th R--T cycles were performed with an excitation current changed from 10 uA to 100 uA.
DOI: 10.6084/m9.figshare.19388759.v1
title: Use of a multiscalar GRACE-based standardized terrestrial water storage index for assessing global hydrological droughts

description: A multiscalar standardized terrestrial water storage index (STI) is proposed to assess global hydrological droughts in this study. STI is defined as the standardized statistical deviation of terrestrial water storage (TWS) measured by CSR GRACE to the climatology at multiple time scales. STI follows the definition of water deficit in multiscale standardized drought indices such as SPI and SPEI, and the accumulative TWS is ftted by the cumulative normal distribution in the calculation procedure.
DOI: 10.6084/m9.figshare.19388759.v2
title: Use of a multiscalar GRACE-based standardized terrestrial water storage index for assessing global hydrological droughts

description: A multiscalar standardized terrestrial water storage index (STI) is proposed to assess global hydrological droughts in this study. STI is defined as the standardized statistical deviation of terrestrial water storage (TWS) measured by CSR GRACE to the climatology at multiple time scales. STI follows the definition of water deficit in multiscale standardized drought indices such as SPI and SPEI, and the accumulative TWS is ftted by the cumulative normal distribution in the calculation procedure.
DOI: 10.6084/m9.figshare.14518007.v1
title: Prenatal medication exposure and epigenetic outcomes: a systematic literature review and recommendations for prenatal pharmacoepigenetic studies

description: When used during pregnancy, analgesics and psychotropics pass the placenta to enter the foetal circulation and may induce epigenetic modifications. Where such modifications occur and whether they disrupt normal foetal developme nt, are currently unanswered questions. This field of prenatal pharmacoepigenetics has received increasing attention, with several studies reporting associations between <i>in utero</i> medication exposure and offspring epigenetic outcomes. Nevertheless, no recent systematic review of the literature is available. Therefore, the objectives of this review were to (i) provide an overview of the literature on the association of prenatal exposure to psychotropics a nd analgesics with epigenetic outcomes, and (ii) suggest recommendations for future studies within prenatal pharmacoepigenetics. We performed systematic literature searches in five databases. The eligible studies assessed human prenatal exposure to psychotropics or analgesics, with epigenetic analyses of offspring tissue as an outcome. We identified 18 eligible studies including 4,419 neonates exposed to either antidepressants, antiepileptic drugs, paracetamol, acetylsalicylic acid, or methadone. The epigenetic outcome in all studies was DNA methylation in cord blood, placental tissue or buccal cells. Although most studies found significant differences in DNA methylation upon medication exposure, almost no differences were persistent across studies for similar medications and sequencing methods. The reviewed studies were challenging to compare due to poor transparency in reporting, and heterogeneous methodology, design, genome coverage, and statistical modelling. We propose 10 recommendations for future prenatal pharmacoepigenetic studies considering both epidemiological and epigenetic perspectives. These recommendations may improve the quality, comparability, and clinical relevance of such studies. PROSPERO registration ID: CRD42020166675.
DOI: 10.6084/m9.figshare.14617706
title: Epigenome-wide scan identifies differentially methylated regions for lung cancer using pre-diagnostic peripheral blood

description: Background: DNA methylation markers have been associated with lung cancer risk and may identify aetiologically relevant genomic regions, or alternatively, be markers of disease risk factors or biological processes associated with disease development. Methods: In a nested case–control study, we measured blood leukocyte DNA methylation levels in pre-diagnostic samples collected from 430 participants (208 cases; 222 controls) in the 1989 CLUE II cohort. We compared DNA methylation levels with case/control status to identify novel genomic regions, both single CpG sites and differentially methylated regions (DMRs), while controlling for known DNA methylation changes associated with smoking using a previously described pack-years-based smoking methylation score. Stratification analyses were conducted over time from blood draw to diagnosis, histology, and smoking status. Results: We identified 16 single CpG sites and 40 DMRs significantly associated with lung cancer risk (q Conclusion: The single CpG sites and DMRs that we identified represented significant measurable differences in lung cancer risk, providing potential biomarkers for lung cancer risk stratification. Future studies will need to examine whether these regions are causally related to lung cancer.
DOI: 10.6084/m9.figshare.14518007
title: Prenatal medication exposure and epigenetic outcomes: a systematic literature review and recommendations for prenatal pharmacoepigenetic studies

description: When used during pregnancy, analgesics and psychotropics pass the placenta to enter the foetal circulation and may induce epigenetic modifications. Where such modifications occur and whether they disrupt normal foetal developme nt, are currently unanswered questions. This field of prenatal pharmacoepigenetics has received increasing attention, with several studies reporting associations between <i>in utero</i> medication exposure and offspring epigenetic outcomes. Nevertheless, no recent systematic review of the literature is available. Therefore, the objectives of this review were to (i) provide an overview of the literature on the association of prenatal exposure to psychotropics a nd analgesics with epigenetic outcomes, and (ii) suggest recommendations for future studies within prenatal pharmacoepigenetics. We performed systematic literature searches in five databases. The eligible studies assessed human prenatal exposure to psychotropics or analgesics, with epigenetic analyses of offspring tissue as an outcome. We identified 18 eligible studies including 4,419 neonates exposed to either antidepressants, antiepileptic drugs, paracetamol, acetylsalicylic acid, or methadone. The epigenetic outcome in all studies was DNA methylation in cord blood, placental tissue or buccal cells. Although most studies found significant differences in DNA methylation upon medication exposure, almost no differences were persistent across studies for similar medications and sequencing methods. The reviewed studies were challenging to compare due to poor transparency in reporting, and heterogeneous methodology, design, genome coverage, and statistical modelling. We propose 10 recommendations for future prenatal pharmacoepigenetic studies considering both epidemiological and epigenetic perspectives. These recommendations may improve the quality, comparability, and clinical relevance of such studies. PROSPERO registration ID: CRD42020166675.
DOI: 10.5281/zenodo.4432943
title: Three‐level hybrid modeling for systematic optimization of biocatalytic synthesis: α‐glucosyl glycerol production by enzymatic trans‐glycosylation from sucrose

description: We provide here the underlying data of the publication "Three‐level hybrid modeling for systematic optimization of biocatalytic synthesis: α‐glucosyl glycerol production by enzymatic trans‐glycosylation from sucrose". Please find the abstract below. Mechanism-based kinetic models are rigorous tools to analyze enzymatic reactions, but their extension to actual conditions of the biocatalytic synthesis can be difficult. Here, we demonstrate (mechanistic-empirical) hybrid modeling for systematic optimization of the sucrose phosphorylase-catalyzed glycosylation of glycerol from sucrose, to synthesize the cosmetic ingredient α-glucosyl glycerol (GG). The empirical model part was developed to capture nonspecific effects of high sucrose concentrations (up to 1.5 M) on microscopic steps of the enzymatic trans-glycosylation mechanism. Based on verified predictions of the enzyme performance under initial rate conditions (Level 1), the hybrid model was expanded by microscopic terms of the reverse reaction to account for the full-time course of GG synthesis (Level 2). Lastly (Level 3), the application of the hybrid model for comprehensive window-of-operation analysis and constrained optimization of the GG production (~250 g/L) was demonstrated. Using two candidate sucrose phosphorylases (from <em>Leuconostoc mesenteroides</em> and <em>Bifidobacterium adolescentis</em>), we reveal the hybrid model as a powerful tool of “process decision making” to guide rational selection of the best-suited enzyme catalyst. Our study exemplifies a closing of the gap between enzyme kinetic models considered for mechanistic research and applicable in technologically relevant reaction conditions; and it highlights the important benefit thus realizable for biocatalytic process development.