cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh3376722.08fu
title: SH3376722.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3376723.08fu
title: SH3376723.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh547715.07fu
title: SH547715.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh547716.07fu
title: SH547716.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh547717.07fu
title: SH547717.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3376724.08fu
title: SH3376724.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3376725.08fu
title: SH3376725.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh547718.07fu
title: SH547718.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh547719.07fu
title: SH547719.07FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh3376726.08fu
title: SH3376726.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.17028/rd.lboro.25288186
title: Supplementary information files for Rashba metamaterials and metasurfaces with zero reflectivity and effect of surface states in ultrathin metal films

description: © the Authors, CC-BY 4.0Supplementary files for article Rashba metamaterials and metasurfaces with zero reflectivity and effect of surface states in ultrathin metal filmsMetals, renowned for their high reflectivity, find extensive use in various technological applications, from mirrors to optical coatings in radars, telescopes, and mobile communications. However, their potential in antireflective coatings has remained largely untapped. In this study, we demonstrate that by applying an ultrathin metallic film onto an oxide layer, we can achieve a flawless optical surface with zero reflectivity. This phenomenon has been successfully observed across various metals, including Sn, Ag, Au, Pt, Bi, and Nb, showcasing its broad applicability. The underlying principle lies in the emergence of surface states, where the Rashba effect is strong, which give rise to the formation of Rashba metamaterial and metasurface (RMM) structures. Remarkably, these RMMs can be fine-tuned to act as high-resolution Veselago lenses. To illustrate, we achieved zero reflectivity with an RMM consisting of a 1 nm thick Sn metal film on a 1 nm Ge buffer, situated on a 60 nm Al<sub>2</sub>O<sub>3</sub>/Si substrate. Similar results were observed for other metals (Pt, Au, Ag, and Nb) and semimetals (Bi) by adjusting the film thickness to 2, 3, 5, 10, and 6 nm, respectively. The revelation of RMMs with zero reflectivity (R = 0) has tremendous potential to revolutionize optical device technologies, covering renewable energy, optoelectronics, and the telecommunications industry.<br><br>
DOI: 10.17028/rd.lboro.25288186.v1
title: Supplementary information files for Rashba metamaterials and metasurfaces with zero reflectivity and effect of surface states in ultrathin metal films

description: © the Authors, CC-BY 4.0Supplementary files for article Rashba metamaterials and metasurfaces with zero reflectivity and effect of surface states in ultrathin metal filmsMetals, renowned for their high reflectivity, find extensive use in various technological applications, from mirrors to optical coatings in radars, telescopes, and mobile communications. However, their potential in antireflective coatings has remained largely untapped. In this study, we demonstrate that by applying an ultrathin metallic film onto an oxide layer, we can achieve a flawless optical surface with zero reflectivity. This phenomenon has been successfully observed across various metals, including Sn, Ag, Au, Pt, Bi, and Nb, showcasing its broad applicability. The underlying principle lies in the emergence of surface states, where the Rashba effect is strong, which give rise to the formation of Rashba metamaterial and metasurface (RMM) structures. Remarkably, these RMMs can be fine-tuned to act as high-resolution Veselago lenses. To illustrate, we achieved zero reflectivity with an RMM consisting of a 1 nm thick Sn metal film on a 1 nm Ge buffer, situated on a 60 nm Al<sub>2</sub>O<sub>3</sub>/Si substrate. Similar results were observed for other metals (Pt, Au, Ag, and Nb) and semimetals (Bi) by adjusting the film thickness to 2, 3, 5, 10, and 6 nm, respectively. The revelation of RMMs with zero reflectivity (R = 0) has tremendous potential to revolutionize optical device technologies, covering renewable energy, optoelectronics, and the telecommunications industry.<br><br>
DOI: 10.6084/m9.figshare.19304979
title: Additional file 1 of Improved urine DNA methylation panel for early bladder cancer detection

description: Additional file 1.
DOI: 10.6084/m9.figshare.19304979.v1
title: Additional file 1 of Improved urine DNA methylation panel for early bladder cancer detection

description: Additional file 1.
DOI: 10.6084/m9.figshare.20353511.v1
title: Additional file 2 of The analysis of genetic structure and characteristics of the chloroplast genome in different Japanese apricot germplasm populations

description: Additional file 2.
DOI: 10.6084/m9.figshare.20353528.v1
title: Additional file 1 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 1: Table S1. Information of RNA-seq
DOI: 10.6084/m9.figshare.6722108.v1
title: Additional file 4: of New operational taxonomic units of Enterocytozoon in three marsupial species

description: Table S4. Pairwise comparisons of differences/variation among the small subunit of nuclear ribosomal DNA gene sequences (SSU) (~609 bp consensus length) representing (i) four operational taxonomic units (OTUs)/genotypes of Enterocytozoon identified/defined in the present study (bold-type); (ii) eight species of of the family Enterocytozoonidae; (iii) and the outgroup Parahepatospora carcini used for phylogenetic analysis (cf. Fig. 2; Additional file 3: Table S3). (XLSX 54 kb)
DOI: 10.6084/m9.figshare.6722126
title: Additional file 6: of Identification and differential regulation of microRNAs during thyroid hormone-dependent metamorphosis in Microhyla fissipes

description: Table S3. Conserved miRNAs in M. fissipes. (XLS 61 kb)
DOI: 10.6084/m9.figshare.6722108
title: Additional file 4: of New operational taxonomic units of Enterocytozoon in three marsupial species

description: Table S4. Pairwise comparisons of differences/variation among the small subunit of nuclear ribosomal DNA gene sequences (SSU) (~609 bp consensus length) representing (i) four operational taxonomic units (OTUs)/genotypes of Enterocytozoon identified/defined in the present study (bold-type); (ii) eight species of of the family Enterocytozoonidae; (iii) and the outgroup Parahepatospora carcini used for phylogenetic analysis (cf. Fig. 2; Additional file 3: Table S3). (XLSX 54 kb)
DOI: 10.6084/m9.figshare.6722126.v1
title: Additional file 6: of Identification and differential regulation of microRNAs during thyroid hormone-dependent metamorphosis in Microhyla fissipes

description: Table S3. Conserved miRNAs in M. fissipes. (XLS 61 kb)
DOI: 10.6084/m9.figshare.20353528
title: Additional file 1 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 1: Table S1. Information of RNA-seq
DOI: 10.6084/m9.figshare.20353540
title: Additional file 5 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 5: Table S5. Values for the significantly different lipid class
DOI: 10.6084/m9.figshare.20353531.v1
title: Additional file 2 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 2: Table S2. Information of differentially expressed genes between RT and Cold group.
DOI: 10.6084/m9.figshare.20353540.v1
title: Additional file 5 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 5: Table S5. Values for the significantly different lipid class
DOI: 10.6084/m9.figshare.20353537.v1
title: Additional file 4 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 4: Table S4. Values for all the lipid class
DOI: 10.6084/m9.figshare.20353531
title: Additional file 2 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 2: Table S2. Information of differentially expressed genes between RT and Cold group.
DOI: 10.6084/m9.figshare.20353534
title: Additional file 3 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 3: Table S3. Information of enriched KEGG terms of  upregulated genes by cold exposure.
DOI: 10.6084/m9.figshare.20353543
title: Additional file 6 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 6: Table S6. The length of fatty acyl chains associated with TG
DOI: 10.6084/m9.figshare.20353534.v1
title: Additional file 3 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 3: Table S3. Information of enriched KEGG terms of  upregulated genes by cold exposure.
DOI: 10.6084/m9.figshare.20353543.v1
title: Additional file 6 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 6: Table S6. The length of fatty acyl chains associated with TG
DOI: 10.6084/m9.figshare.20353537
title: Additional file 4 of Cold exposure induces lipid dynamics and thermogenesis in brown adipose tissue of goats

description: Additional file 4: Table S4. Values for all the lipid class
DOI: 10.6084/m9.figshare.6722153
title: Additional file 10: of Transferring knowledge of bacterial protein interaction networks to predict pathogen targeted human genes and immune signaling pathways: a case study on M. tuberculosis

description: Text file contains the summary of the derived or predicted M.TB-human PPIs. (TXT 2888 kb)
DOI: 10.6084/m9.figshare.6722153.v1
title: Additional file 10: of Transferring knowledge of bacterial protein interaction networks to predict pathogen targeted human genes and immune signaling pathways: a case study on M. tuberculosis

description: Text file contains the summary of the derived or predicted M.TB-human PPIs. (TXT 2888 kb)
DOI: 10.6084/m9.figshare.6722165
title: Additional file 11: of Transferring knowledge of bacterial protein interaction networks to predict pathogen targeted human genes and immune signaling pathways: a case study on M. tuberculosis

description: Text file contains the human cancer/immune signaling pathways that M. tuberculosis H37Rv genes are predicted to target. (TXT 106 kb)
DOI: 10.6084/m9.figshare.6722165.v1
title: Additional file 11: of Transferring knowledge of bacterial protein interaction networks to predict pathogen targeted human genes and immune signaling pathways: a case study on M. tuberculosis

description: Text file contains the human cancer/immune signaling pathways that M. tuberculosis H37Rv genes are predicted to target. (TXT 106 kb)
DOI: 10.6084/m9.figshare.21926518
title: Bayesian Trend Filtering via Proximal Markov Chain Monte Carlo

description: Proximal Markov Chain Monte Carlo is a novel construct that lies at the intersection of Bayesian computation and convex optimization, which helped popularize the use of nondifferentiable priors in Bayesian statistics. Existing formulations of proximal MCMC, however, require hyperparameters and regularization parameters to be prespecified. In this work, we extend the paradigm of proximal MCMC through introducing a novel new class of nondifferentiable priors called epigraph priors. As a proof of concept, we place trend filtering, which was originally a nonparametric regression problem, in a parametric setting to provide a posterior median fit along with credible intervals as measures of uncertainty. The key idea is to replace the nonsmooth term in the posterior density with its Moreau-Yosida envelope, which enables the application of the gradient-based MCMC sampler Hamiltonian Monte Carlo. The proposed method identifies the appropriate amount of smoothing in a data-driven way, thereby automating regularization parameter selection. Compared with conventional proximal MCMC methods, our method is mostly tuning free, achieving simultaneous calibration of the mean, scale and regularization parameters in a fully Bayesian framework. Supplementary materials for this article are available online.