cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14887993
title: Confidence intervals for the common odds ratio based on the inverse sinh transformation

description: This paper proposes two new approximate confidence limit methods for the common odds ratio from multiple 2 × 2 tables. The two new procedures, based on the asymptotic distribution of Woolf estimator and Mantel-Haenszel estimator, associate with inverse sinh transformation. We employ three pseudo-frequency methods to calculate confidence intervals in order to avoid the interval failure caused by the presence of zero cells in multiple 2 × 2 tables. We develop the modified inverse sinh intervals for the common odds ratio which add one pseudo-frequency (<i>c</i><sub>1</sub>) to all the cells before computing the point estimate of common odds ratio and another pseudo-frequency (<i>c</i><sub>2</sub>) to all the cells before computing the standard error estimate. The simulation is to evaluate the 22 confidence intervals, including Woolf, Mantel-Haenszel, their inverse sinh intervals, and their pseudo-frequency modified inverse sinh intervals, in terms of their coverage probabilities and average log lengths. Simulation results demonstrate that the adjusted inverse sinh intervals by two different pseudo-frequencies perform quite well when <i>c</i><sub>2</sub> is slightly greater than <i>c</i><sub>1</sub> since the coverage probabilities of them are closer to confidence level of 95%. Larger values of <i>c</i><sub>2</sub> lead to narrow intervals and low coverage probabilities. We also find that inverse sinh intervals are shorter than untransformed intervals based on Woolf estimator and Mantel-Haenszel estimator, respectively. These procedures were illustrated with two clinical trials.
DOI: 10.6084/m9.figshare.14887993.v1
title: Confidence intervals for the common odds ratio based on the inverse sinh transformation

description: This paper proposes two new approximate confidence limit methods for the common odds ratio from multiple 2 × 2 tables. The two new procedures, based on the asymptotic distribution of Woolf estimator and Mantel-Haenszel estimator, associate with inverse sinh transformation. We employ three pseudo-frequency methods to calculate confidence intervals in order to avoid the interval failure caused by the presence of zero cells in multiple 2 × 2 tables. We develop the modified inverse sinh intervals for the common odds ratio which add one pseudo-frequency (<i>c</i><sub>1</sub>) to all the cells before computing the point estimate of common odds ratio and another pseudo-frequency (<i>c</i><sub>2</sub>) to all the cells before computing the standard error estimate. The simulation is to evaluate the 22 confidence intervals, including Woolf, Mantel-Haenszel, their inverse sinh intervals, and their pseudo-frequency modified inverse sinh intervals, in terms of their coverage probabilities and average log lengths. Simulation results demonstrate that the adjusted inverse sinh intervals by two different pseudo-frequencies perform quite well when <i>c</i><sub>2</sub> is slightly greater than <i>c</i><sub>1</sub> since the coverage probabilities of them are closer to confidence level of 95%. Larger values of <i>c</i><sub>2</sub> lead to narrow intervals and low coverage probabilities. We also find that inverse sinh intervals are shorter than untransformed intervals based on Woolf estimator and Mantel-Haenszel estimator, respectively. These procedures were illustrated with two clinical trials.
DOI: 10.25721/bw36-nh81
title: La bénédiction
DOI: 10.6084/m9.figshare.15172815
title: 2021 JNR Sucrose Contexts Data

description: Data organized by figure.
DOI: 10.25721/d68p-tb33
title: La bénédiction
DOI: 10.5281/zenodo.5648143
title: Metadata of " Synthesis of (poly)gallic acid in a bacterial growth medium"

description: Metadata of " Synthesis of (poly)gallic acid in a bacterial growth medium"
DOI: 10.5281/zenodo.5648142
title: Metadata of " Synthesis of (poly)gallic acid in a bacterial growth medium"

description: Metadata of " Synthesis of (poly)gallic acid in a bacterial growth medium"
DOI: 10.17638/datacat.liverpool.ac.uk/1487
title: Supplementary Data for A Smart and Responsive Crystalline Porous Organic Cage Membrane with Switchable Pore Apertures for Graded Molecular Sieving
DOI: 10.5525/gla.researchdata.1213
title: Improved instance generation for kidney exchange programmes
DOI: 10.25721/nfyx-rq32
title: La bénédiction
DOI: 10.5519/74n5f21g
title: A new species of tapeworm from Compsophis infralineatus (Pseudoxyrhophiidae), an endemic snake of Madagascar: another step towards unraveling unclear biogeographical affinities of Madagascan reptilian parasites

description: Nexus file of concatenated 18S, 28S, 16S and cox1 alignment with exclusion set indicated. This dataset was used to produce the main tree figure.A new species of proteocephalid cestodes, provisionally assigned to the non-monophyletic Ophiotaenia La Rue, 1911 (Cestoda: Proteocephalidae), is described from Compsophis infralineatus (Günther) (Serpentes: Pseudoxyrhophiidae) endemic to Madagascar. The new species, Ophiotaenia oreae n. sp. differs from all African and Asian species of Ophiotaenia from reptiles by possessing more uterine diverticula (68–82 on one side). It is also characterised by the absence of an apical organ, the relative sizes of the cirrus-sac and ovary, the almost equatorial position of the gonopore, the diameter of the embryophore, and other biometric characteristics. This is the fourth proteocephalid species described from Madagascan snakes. Phylogenetic relationships of the new species indicate its relatedness to Indomalayan and Australasian proteocephalids from reptiles. Ophiotaenia oreae formed a well-supported clade composed of species of the recently erected genus Australophiotaenia de Chambrier, Beveridge and Scholz, 2018 from Australian snakes, Macrobothriotaenia ficta (Meggitt, 1931) from the sunbeam snake Xenopeltis unicolor Reinwardt in Boie (Ophidia: Xenopeltidae) from Vietnam, Ophiotaenia sp. from Trimeresurus flavomaculatus (Gray 1842) from the Philippines, and Ophiotaenia bungari de Chambrier, Binh & Scholz, 2012 from Bungarus fasciatus (Schneider) (Ophidia: Elapidae) from Vietnam. The only proteocephalid from Madagascan snakes sequenced so far, Ophiotaenia lapata Rambeloson, Ranaivoson & de Chambrier, 2012 from Madagascarophis colubrinus (Schlegel), although closely related to the new species, they do not form a monophyletic group. The actual species diversity of reptilian cestodes in Madagascar is undoubtedly underestimated. Because of the assumed strict (oioxenous) host specificity of reptilian proteocephalids and rich fauna of snakes occurring in Madagascar, it is plausible to expect the existence of dozens new species of proteocephalids on this island.
DOI: 10.25721/0ftr-tg38
title: Information sur la façon dont le père de Monsieur Louis Pasquier et lui-même ont appris la musique
DOI: 10.25721/ebad-dc44
title: Cérémonies du 11 novembre. Au cimetière. Sonnerie aux morts devant la première tombe
DOI: 10.5281/zenodo.5648170
title: Metadata of "Effect of chemical substitution on the surface charge of the photosynthetic Reaction Center from Rhodobactersphaeroides: an in-silico investigation"

description: Metadata of "Effect of chemical substitution on the surface charge of the photosynthetic Reaction Center from Rhodobactersphaeroides: an in-silico investigation"
DOI: 10.5281/zenodo.5648169
title: Metadata of "Effect of chemical substitution on the surface charge of the photosynthetic Reaction Center from Rhodobactersphaeroides: an in-silico investigation"

description: Metadata of "Effect of chemical substitution on the surface charge of the photosynthetic Reaction Center from Rhodobactersphaeroides: an in-silico investigation"
DOI: 10.5517/ccdc.csd.cc28bcdd
title: CCDC 2095333: Experimental Crystal Structure Determination

description: Related Article: Gerzon E. Delgado, Asiloé J. Mora, Pilar Narea, Cecilia Chacón, Gustavo Marroquin, Benjamín Hernández, Jonathan Cisterna, Iván Brito|2022|J.Mol.Struct.|1250|131757|doi:10.1016/j.molstruc.2021.131757
DOI: 10.5517/ccdc.csd.cc28cc12
title: CCDC 2096283: Experimental Crystal Structure Determination

description: Related Article: Stephan Walleck, Mihail Atanasov, Jürgen Schnack, Eckhard Bill, Anja Stammler, Hartmut Bögge, Thorsten Glaser|2021|Chem.-Eur.J.|27|15240|doi:10.1002/chem.202102572
DOI: 10.6084/m9.figshare.16941091
title: Bayesian Edge Regression in Undirected Graphical Models to Characterize Interpatient Heterogeneity in Cancer

description: It is well-established that interpatient heterogeneity in cancer may significantly affect genomic data analyses and in particular, network topologies. Most existing graphical model methods estimate a single population-level graph for genomic or proteomic network. In many investigations, these networks depend on patient-specific indicators that characterize the heterogeneity of individual networks across subjects with respect to subject-level covariates. Examples include assessments of how the network varies with patient-specific prognostic scores or comparisons of tumor and normal graphs while accounting for tumor purity as a continuous predictor. In this paper, we propose a novel edge regression model for undirected graphs, which estimates conditional dependencies as a function of subject-level covariates. We evaluate our model performance through simulation studies focused on comparing tumor and normal graphs while adjusting for tumor purity. In application to a dataset of proteomic measurements on plasma samples from patients with hepatocellular carcinoma (HCC), we ascertain how blood protein networks vary with disease severity, as measured by HepatoScore, a novel biomarker signature measuring disease severity. Our case study shows that the network connectivity increases with HepatoScore and a set of hub genes as well as important gene connections are identified under different HepatoScore, which may provide important biological insights to the development of precision therapies for HCC.
DOI: 10.5517/ccdc.csd.cc27xp62
title: CCDC 2083144: Experimental Crystal Structure Determination

description: Related Article: Yunping Zhoujin, Xing Yang, Mingtao Zhang, Ju Guo, Sean Parkin, Tonglei Li, Faquan Yu, Sihui Long|2021|Cryst.Growth Des.|21|6155|doi:10.1021/acs.cgd.1c00619
DOI: 10.6084/m9.figshare.16941091.v1
title: Bayesian Edge Regression in Undirected Graphical Models to Characterize Interpatient Heterogeneity in Cancer

description: It is well-established that interpatient heterogeneity in cancer may significantly affect genomic data analyses and in particular, network topologies. Most existing graphical model methods estimate a single population-level graph for genomic or proteomic network. In many investigations, these networks depend on patient-specific indicators that characterize the heterogeneity of individual networks across subjects with respect to subject-level covariates. Examples include assessments of how the network varies with patient-specific prognostic scores or comparisons of tumor and normal graphs while accounting for tumor purity as a continuous predictor. In this paper, we propose a novel edge regression model for undirected graphs, which estimates conditional dependencies as a function of subject-level covariates. We evaluate our model performance through simulation studies focused on comparing tumor and normal graphs while adjusting for tumor purity. In application to a dataset of proteomic measurements on plasma samples from patients with hepatocellular carcinoma (HCC), we ascertain how blood protein networks vary with disease severity, as measured by HepatoScore, a novel biomarker signature measuring disease severity. Our case study shows that the network connectivity increases with HepatoScore and a set of hub genes as well as important gene connections are identified under different HepatoScore, which may provide important biological insights to the development of precision therapies for HCC.
DOI: 10.5517/ccdc.csd.cc27xp73
title: CCDC 2083145: Experimental Crystal Structure Determination

description: Related Article: Yunping Zhoujin, Xing Yang, Mingtao Zhang, Ju Guo, Sean Parkin, Tonglei Li, Faquan Yu, Sihui Long|2021|Cryst.Growth Des.|21|6155|doi:10.1021/acs.cgd.1c00619
DOI: 10.5517/ccdc.csd.cc27xp95
title: CCDC 2083147: Experimental Crystal Structure Determination

description: Related Article: Yunping Zhoujin, Xing Yang, Mingtao Zhang, Ju Guo, Sean Parkin, Tonglei Li, Faquan Yu, Sihui Long|2021|Cryst.Growth Des.|21|6155|doi:10.1021/acs.cgd.1c00619
DOI: 10.5517/ccdc.csd.cc27xpb6
title: CCDC 2083148: Experimental Crystal Structure Determination

description: Related Article: Yunping Zhoujin, Xing Yang, Mingtao Zhang, Ju Guo, Sean Parkin, Tonglei Li, Faquan Yu, Sihui Long|2021|Cryst.Growth Des.|21|6155|doi:10.1021/acs.cgd.1c00619
DOI: 10.5517/ccdc.csd.cc27xpd8
title: CCDC 2083150: Experimental Crystal Structure Determination

description: Related Article: Yunping Zhoujin, Xing Yang, Mingtao Zhang, Ju Guo, Sean Parkin, Tonglei Li, Faquan Yu, Sihui Long|2021|Cryst.Growth Des.|21|6155|doi:10.1021/acs.cgd.1c00619
DOI: 10.5519/qd.z6jb645c
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (262 records)
DOI: 10.21227/tse3-h285
title: Supplementary data for "Velocity Estimation of Robot Manipulators: An Experimental Comparison"

description: Accurate velocity information is often essential to the control of robot manipulators, especially for precise tracking of fast trajectories. However, joint velocities are rarely directly measured and instead estimated to save costs. While many approaches have been proposed for the velocity estimation of robot joints, no comprehensive experimental evaluation exists, making it difficult to choose the appropriate method. This paper compares multiple estimation methods running on a six degrees-of-freedom manipulator. We evaluate: 1) the estimation error using a high-accuracy ground-truth signal, 2) the closed- loop tracking error, 3) convergence behavior, 4) sensor fault tolerance, 5) implementation and tuning effort. To ensure a fair comparison, we optimally tune the estimators using a genetic algorithm. All estimation methods have a similar estimation error and similar closed-loop tracking performance, except for the nonlinear high-gain observer, which is not accurate enough. Sliding-mode observers can provide a precise velocity estimation despite sensor faults.This dataset contains the implemented estimation methods, as well as the recorded data for the comparison.
DOI: 10.5281/zenodo.5528028
title: The diagrams of GC content and Nanopore reads depth, SNP number and Nanopore reads depth, and analyses of co-linearity against Nipponbare reference genome in 251 accessions.

description: Syntenic dot plots were the completeness of assembly sequences, and the Nanopore reads coverage and the number of SNPs indicated that few, if any, false duplications were present. The average GC content and nanopore reads coverage showed only one independent cluster means little to no contamination.
DOI: 10.5281/zenodo.5648266
title: adammetcalf/paperData: Paper data release

description: Releasing data for publishing
DOI: 10.5281/zenodo.5648265
title: adammetcalf/paperData: Paper data release

description: Releasing data for publishing
DOI: 10.6084/m9.figshare.16941103
title: Comparison of clinical characteristics and short-term outcomes among COVID-19 patients in a tertiary care center during second wave pandemic in Nepal: a cross-sectional study

description: This is a spss dataset of COVID-19 patients during second wave pandemic in Nepal
DOI: 10.5519/wl5o4dhz
title: aererwer

description: werwerwer
DOI: 10.15468/4ekcq3
title: Nesting Biologies and Immature Stages of the Tapinotaspidine Bee Genera Monoeca and Lanthanomelissa and of Their Osirine Cleptoparasites Protosiris and Parepeolus (Hymenoptera: Apidae: Apinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article ROZEN, JEROME G., MELO, GABRIEL A. R., AGUIAR, ANTÔNIO JOSÉ CAMILLO, ALVES-DOS-SANTOS, ISABEL (2006): Nesting Biologies and Immature Stages of the Tapinotaspidine Bee Genera Monoeca and Lanthanomelissa and of Their Osirine Cleptoparasites Protosiris and Parepeolus (Hymenoptera: Apidae: Apinae). American Museum Novitates 3501 (1): 1-60, DOI: 10.1206/0003-0082(2006)501[0001:NBAISO]2.0.CO;2, URL: http://www.bioone.org/perlserv/?request=get-abstract&doi=10.1206%2F0003-0082(2006)501%5B0001%3ANBAISO%5D2.0.CO%3B2
DOI: 10.5281/zenodo.5648297
title: Data for temperature relaxation in strongly-coupled binary ionic mixtures

description: This data set contains data and scripts used to generate figures in "Temperature relaxation in strongly-coupled binary ionic mixtures," R. Tucker Sprenkle, L. G. Silvestri, M. S. Murillo, S. D. Bergeson. The data for each figure is contained in a separate zip file. Funding for this research is gratefully acknowledged. M.S.M. and L.G.S. were supported by the U.S. Air Force Office of Scientific Research Grant No. FA9550-17-1-0394. R.T.S and S.D.B. acknowledge support from the U.S. Air Force Office of Scientific Research Grant No. FA9550-17-1-0302 and the National Science Foundation Grant No. PHY-2009999.
DOI: 10.5281/zenodo.5648296
title: Data for temperature relaxation in strongly-coupled binary ionic mixtures

description: This data set contains data and scripts used to generate figures in "Temperature relaxation in strongly-coupled binary ionic mixtures," R. Tucker Sprenkle, L. G. Silvestri, M. S. Murillo, S. D. Bergeson. The data for each figure is contained in a separate zip file. Funding for this research is gratefully acknowledged. M.S.M. and L.G.S. were supported by the U.S. Air Force Office of Scientific Research Grant No. FA9550-17-1-0394. R.T.S and S.D.B. acknowledge support from the U.S. Air Force Office of Scientific Research Grant No. FA9550-17-1-0302 and the National Science Foundation Grant No. PHY-2009999.
DOI: 10.6084/m9.figshare.16458153
title: The antimicrobial resistance landscape of Neisseria gonorrhoeae in New Zealand from November 2018 to March 2019 and the role of sexual orientation in transmission

description: Supplementary material for "The antimicrobial resistance landscape of <i>Neisseria gonorrhoeae</i> in New Zealand from November 2018 to March 2019 and the role of sexual orientation in transmission", as published in <i>Microbial Genomics</i>.<br>
DOI: 10.6084/m9.figshare.16458153.v1
title: The antimicrobial resistance landscape of Neisseria gonorrhoeae in New Zealand from November 2018 to March 2019 and the role of sexual orientation in transmission

description: Supplementary material for "The antimicrobial resistance landscape of <i>Neisseria gonorrhoeae</i> in New Zealand from November 2018 to March 2019 and the role of sexual orientation in transmission", as published in <i>Microbial Genomics</i>.<br>
DOI: 10.25790/bml0cm.94
title: Brain Aging in Detroit Longitudinal Studies
DOI: 10.18739/a21g0hw24
title: Helheim subglacial hydrological simulation results 2011-2021

description: This dataset contains a series of simulations using Elmer/Ice of the subglacial hydrology of the Helheim basin for the years 2011-2021 (2021 ends 31st August due to data availability). These simulations were done as part of a study looking at the input of water to the fjord. Each year is provided as a separate tar.xz archive and contains .vtu and .pvtu files for that year. These should be opened in Paraview (open the pvtu file sequence for the easiest visualisation). A corresponding dataTable has been added to elaborate on the variables within each file type of the tar archives.
DOI: 10.6084/m9.figshare.14938336
title: The Avian Pathogenic <i>Escherichia coli</i> (APEC) pathotype is comprised of multiple distinct, independent genotypes

description: Avian Pathogenic <i>E. coli</i> (APEC) is the causative agent of avian colibacillosis, resulting in economic losses to the poultry industry through morbidity, mortality and carcass condemnation, and impacts the welfare of poultry. Colibacillosis remains a complex disease to manage, hampered by diagnostic and classification strategies for <i>E. coli</i> that are inadequate for defining APEC. However, increased accessibility of whole genome sequencing (WGS) technology has enabled phylogenetic approaches to be applied to the classification of <i>E. coli</i> and genomic characterization of the most common APEC serotypes associated with colibacillosis O1, O2 and O78. These approaches have demonstrated that the O78 serotype is representative of two distinct APEC lineages, ST-23 in phylogroup C and ST-117 in phylogroup G. The O1 and O2 serotypes belong to a third lineage comprised of three sub-populations in phylogroup B2; ST-95, ST-140 and ST-428/ST-429. The frequency with which these genotypes are associated with colibacillosis implicates them as the predominant APEC populations and distinct from those causing incidental or opportunistic infections. The fact that these are disparate clusters from multiple phylogroups suggests that these lineages may have become adapted to the poultry niche independently. WGS studies have highlighted the limitations of traditional APEC classification and can now provide a path towards a robust and more meaningful definition of the APEC pathotype. Future studies should focus on characterizing individual APEC populations in detail and using this information to develop improved diagnostics and interventions.
DOI: 10.6084/m9.figshare.14938336.v1
title: The Avian Pathogenic <i>Escherichia coli</i> (APEC) pathotype is comprised of multiple distinct, independent genotypes

description: Avian Pathogenic <i>E. coli</i> (APEC) is the causative agent of avian colibacillosis, resulting in economic losses to the poultry industry through morbidity, mortality and carcass condemnation, and impacts the welfare of poultry. Colibacillosis remains a complex disease to manage, hampered by diagnostic and classification strategies for <i>E. coli</i> that are inadequate for defining APEC. However, increased accessibility of whole genome sequencing (WGS) technology has enabled phylogenetic approaches to be applied to the classification of <i>E. coli</i> and genomic characterization of the most common APEC serotypes associated with colibacillosis O1, O2 and O78. These approaches have demonstrated that the O78 serotype is representative of two distinct APEC lineages, ST-23 in phylogroup C and ST-117 in phylogroup G. The O1 and O2 serotypes belong to a third lineage comprised of three sub-populations in phylogroup B2; ST-95, ST-140 and ST-428/ST-429. The frequency with which these genotypes are associated with colibacillosis implicates them as the predominant APEC populations and distinct from those causing incidental or opportunistic infections. The fact that these are disparate clusters from multiple phylogroups suggests that these lineages may have become adapted to the poultry niche independently. WGS studies have highlighted the limitations of traditional APEC classification and can now provide a path towards a robust and more meaningful definition of the APEC pathotype. Future studies should focus on characterizing individual APEC populations in detail and using this information to develop improved diagnostics and interventions.