cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25919/sv92-0j64
title: Fine-scale Gross Primary Productivity for Murray-Darling Basin wetlands

description: A seasonal basin–wide layer of terrestrial Gross Primary Productivity (GPP) of water-dependent vegetation has been developed at monthly timestep and 20-meter resolution. The layer was created using an innovative approach that combines a process-based radiative transfer model, Sentinel-2, machine learning and weather observations (Wolanin 2019). The product provides an enhanced ability to assess changes in floodplain terrestrial productivity over space and time at a Basin scale. Terrestrial GPP is highly variable across space and time in the Basin with inundation, rainfall and temperature (season) all influencing observed patterns. Generation of a Basin wide terrestrial GPP product represents the first step in creating a Basin scale remotely–sensed estimation of floodplain litter load. The layer can be used to inform both potential benefits (e.g., additional carbon for food web support) of watering actions and risks (e.g., areas that may pose hypoxic blackwater risks when inundated).
DOI: 10.6084/m9.figshare.24137442
title: Supplementary Material for: Impact of Isolated Coronary Microvascular Disease Diagnosed Using Various Measurement Modalities on Prognosis: An Updated Systematic Review and Meta- Analysis

description: Introduction: The main aim of this study was to investigate the impact of isolated coronary microvascular disease (CMD) as diagnosed via various modalities on prognosis. Method: A systematic literature review of PubMed, Embase, and Cochrane library databases was conducted to identify relevant studies published up to March 2023. Included studies were required to measure coronary microvascular function and report outcomes in patients without obstructive coronary artery disease (CAD) or any other cardiac pathological characteristics. The primary endpoint was all-cause mortality and the secondary endpoint was major adverse cardiac event (MACE). Pooled effects were calculated using random-effects models. Results: A total of 27 studies comprising 18,204 subjects were included in the meta-analysis. Indices of coronary microvascular function measurement included coronary angiography-derived index of microcirculatory resistance (caIMR), hyperemic microcirculatory resistance (HMR), coronary flow reserve (CFR), and so on. Patients with isolated CMD exhibited a significantly higher risk of mortality (OR: 2.97, 95% CI, 1.91–4.60, P &lt; 0.0001; HR: 3.38, 95% CI, 1.77–6.47, P = 0.0002) and MACE (OR: 5.82, 95% CI, 3.65–9.29, P＜0.00001; HR: 4.01, 95% CI, 2.59–6.20, P &lt; 0.00001) compared to those without CMD. Subgroup analysis by measurement modality demonstrated a consistent and robust pooled effect estimates in various subgroups. Conclusion: CMD is significantly associated with an elevated risk of mortality and MACE in patients without obstructive CAD or any other identifiable cardiac pathologies. The utilization of various measurement techniques may have potential advantages in the management of isolated CMD.
DOI: 10.6084/m9.figshare.24137442.v1
title: Supplementary Material for: Impact of Isolated Coronary Microvascular Disease Diagnosed Using Various Measurement Modalities on Prognosis: An Updated Systematic Review and Meta- Analysis

description: Introduction: The main aim of this study was to investigate the impact of isolated coronary microvascular disease (CMD) as diagnosed via various modalities on prognosis. Method: A systematic literature review of PubMed, Embase, and Cochrane library databases was conducted to identify relevant studies published up to March 2023. Included studies were required to measure coronary microvascular function and report outcomes in patients without obstructive coronary artery disease (CAD) or any other cardiac pathological characteristics. The primary endpoint was all-cause mortality and the secondary endpoint was major adverse cardiac event (MACE). Pooled effects were calculated using random-effects models. Results: A total of 27 studies comprising 18,204 subjects were included in the meta-analysis. Indices of coronary microvascular function measurement included coronary angiography-derived index of microcirculatory resistance (caIMR), hyperemic microcirculatory resistance (HMR), coronary flow reserve (CFR), and so on. Patients with isolated CMD exhibited a significantly higher risk of mortality (OR: 2.97, 95% CI, 1.91–4.60, P &lt; 0.0001; HR: 3.38, 95% CI, 1.77–6.47, P = 0.0002) and MACE (OR: 5.82, 95% CI, 3.65–9.29, P＜0.00001; HR: 4.01, 95% CI, 2.59–6.20, P &lt; 0.00001) compared to those without CMD. Subgroup analysis by measurement modality demonstrated a consistent and robust pooled effect estimates in various subgroups. Conclusion: CMD is significantly associated with an elevated risk of mortality and MACE in patients without obstructive CAD or any other identifiable cardiac pathologies. The utilization of various measurement techniques may have potential advantages in the management of isolated CMD.
DOI: 10.25934/pr00003566.1
title: Available IPD datapackage for study 'A 78 Week Open Label Extension to Trials Assessing the Safety and Efficacy of BI 10773 as Monotherapy or in Combination With Metformin in Type 2 Diabetic Patients'

description: The objective of the current study is to investigate the safety and efficacy of BI 10773 in 2 different doses compared to Metformin or to Sitagliptin given for 78 weeks in different modalities of treatment in patients with type 2 diabetes mellitus.
DOI: 10.5281/zenodo.8343498
title: Deepurify: a multi-modal deep language model to remove contamination from metagenome-assembled genomes

description: The SIM1 testing set.
DOI: 10.18112/openneuro.ds003782.v1.0.1
title: Neural Correlates of Effort-Based Valuation Under Risk
DOI: 10.5281/zenodo.8343517
title: Cultivation and isolation of plant viruses

description: This dataset contains a description of our cultivation, isolation and characterization of TMV from tobacco plants.
DOI: 10.5281/zenodo.8343516
title: Cultivation and isolation of plant viruses

description: This dataset contains a description of our cultivation, isolation and characterization of TMV from tobacco plants.
DOI: 10.25934/pr00003640.2
title: Available IPD datapackage for study 'A 52-week, Randomised, Multi-centre, Parallel Group Study to Investigate the Safety and Efficacy of BI 10773 (10 mg or 25 mg Administered Orally Once Daily) as add-on Therapy to an Oral Antidiabetic Drug (Sulfonylurea, Biguanide, Thiazolidinedione, Alpha Glucosidase Inhibitor, DPP-IV Inhibitor, or Glinide) in Patients With Type 2 Diabetes Mellitus With Insufficient Glycaemic Control'

description: The objective of the study is to investigate the long-term safety and efficacy of BI 10773 given for 52 weeks as add-on therapy to one oral antidiabetic drug in patients with type 2 diabetes mellitus with insufficient glycaemic control.
DOI: 10.5281/zenodo.8343506
title: Deepurify: a multi-modal deep language model to remove contamination from metagenome-assembled genomes

description: The SIM2 testing set.
DOI: 10.15151/esrf-es-1303533482
title: Structural Biology of macromolecules and macromolecular complexes from India

description: Structural biology research groups located in India constitute the INDIA-BAG and will utilize MX, SAXS and CryoEM to study different biological macromolecules. The non-proprietary agreement signed between ESRF and the Regional Centre for Biotechnology (RCB), on behalf of the Department of Biotechnology (DBT) enables studies that provide fundamental insight regarding different biological processes . About 50 groups are part of this BAG and the allocated beamtime will be available for over 500 young researchers. A brief description of all the research groups is provided in the global summary. The ESRF-India partnership is supported by a grant provided by the DBT. Please note that a comprehensive annual report has to be sent to the DBT to obtain release of funds to pay ESRF membership dues. Consequently, all the structural biologists from India are grouped in a single BAG to enable smooth allocation of beamtime and monitoring of progress to collect the required statistics.
DOI: 10.15151/esrf-es-1306470125
title: Structural investigation of membrane and water-soluble proteins

description: The portfolio of this BAG includes structural investigation of membrane proteins as well as soluble proteins relevant to various scientific fields. These range from basic science to application-related projects with impact on biotechnology (optogenetics, biocatalysts) and medicine (understanding and combating bacterial and viral pathogens).
DOI: 10.15151/esrf-es-1306470472
title: Universities of St. Andrews, Dundee, Glasgow, and Aberdeen

description: The Dundee/St Andrews/Glasgow/Aberdeen BAG research interests fall into two broad areas. Firstly, we use structural information to understand mechanisms of fundamental biological processes, protein engineering, enzymes, and biological chemistry. Secondly, we utilize structural insights to guide target selection and development of lead compounds for drug development. Fundamental insights obtained into biological processes are often closely coupled to target identification and development of tools, reagents, or inhibitors, which feed into a range of biomedical applications. Our research relies heavily on high quality, reliable and tunable synchrotron radiation, along with state-of-the-art optics, detectors, sample changers, and computation, to support determination of new structures, as well as collect high resolution diffraction data to provide the level of accuracy important in structure-guided drug design.
DOI: 10.15151/esrf-es-1305993932
title: Time-Resolved SAXS Study of Colloidal Mg-stabilized Amorphous CaCO3 Precursor for Additive Manufacturing

description: The process of formation of hard materials by living organisms, termed biomineralization, is renowned for its ability to form the most intricate complex structures at ambient conditions, unmatched by current synthetic efforts. Calcium carbonate (CaCO3), the most abundant biomineral, is produced by a variety of organisms for different functionalities, morphing the CaCO3 mineral for its specific application through the use of an amorphous precursor (ACC). Our group, inspired by these processes, has studied the formation of ACC and its transformation to calcite, with regard to the presence and incorporation of organic molecules, and impurity ions such as Mg2+ and ACC particle size. We recently discovered that the addition of a defined amount of amino acids induces the formation of ACC nanoparticles with a very narrow size distribution. The influence of these amino acids, however, is unknown. We will use in-situ SAXS to understand this mechanism.
DOI: 10.15151/esrf-es-1305995198
title: The evolution of non-biting mosquitoes: morphological analysis by X-ray tomography meets genomics

description: Mosquitoes are widely recognized as the deadliest animals on the planet, responsible for more human deaths per year than any other creature. This diverse family of insects includes around 3,600 known species, each with unique ecologies, behaviors, and vectorial capacities, as well as preferences for hosts to bite. Interestingly, three genera of mosquitoes have evolved away from blood feeding altogether, exhibiting distinct behaviors and reproductive strategies. By studying these "exotic" mosquito species, we can gain insights into the evolution of blood feeding in mosquitoes and its consequences. To this end, we generated high quality reference genomes of species in which blood feeding was lost or is strikingly different than the traditional human-biting mosquitoes. We propose to scan males and females of these species to set up a new and powerful approach for studying the evolution of behavior using comparative genomics side by side with comparative morphology.
DOI: 10.15151/esrf-es-1325000009
title: XANES and XES study of sulfur compounds

description: We study the S K-edge XANES and Ka- and Kb-XES of various sulfur containing compounds.
DOI: 10.25934/pr00003543.1
title: Available IPD datapackage for study 'A Phase IIb, Randomized, Parallel Group Safety, Efficacy, and Pharmacokinetics Study of BI 10773 (5 mg, 10 mg and 25 mg) Administered Orally Once Daily Over 12 Weeks Compared Double Blind to Placebo, as Monotherapy, With an Additional Open-label Metformin Arm in Type 2 Diabetic Patients With Insufficient Glycemic Control'

description: The objective is to investigate the efficacy, safety and pharmacokinetics of three different doses of BI 10773 compared to placebo given for 12 weeks in patients with type 2 diabetes mellitus with insufficient glycemic control. In addition an open-label metformin arm will be assessed
DOI: 10.5281/zenodo.8339964
title: CASSISjuice [atlas]

description: Mid-infrared spectroscopy provides many important diagnostics on gas and dust features in a wide variety of astrophysical objects. In the JWST era, it is important to maintain a durable database of observations with previous facilities, for preparing new observations or completing existing ones. The Spitzer Infrared Spectrograph observed more than 20000 targets with wavelengths as low as 5.2um and as long as 38.0um, thereby complementing JWST/MIRI data for the long wavelength diagnostics and providing overall invaluable diagnostics together with JWST or in view of future IR facilities. In order to maximize the science output of Spitzer/IRS, the CASSIS atlas has provided reduced IRS spectra since 2011, selecting the best spectrum from various methods. We present CASSISjuice, an offline version of the pipeline (https://zenodo.org/record/8339954) and atlas (https://zenodo.org/record/8339965), adding several hundred sources that had never cleared the pipeline in order to make it complete for the first time. We updated the low- and high-resolution pipelines in order to be able to process every IRS staring mode observation (i.e., all observations but maps), and we also upgraded the high-resolution pipeline to version 2. The new pipeline also associates the pointings within ``cluster'' observations resulting in a single spectrum (possibly low- and high-resolution) per position and therefore overall a single CASSISjuice ID per targeted position. Independent observations at the same position are still not combined. The repositories, available at Zenodo and https://gitlab.com/cassisjuice, provide the open-source pipeline code and the atlas itself with specific attention to producing the smallest dataset possible. Python notebooks are included to illustrate the offline manipulation of the full atlas. The offline CASSISjuice atlas is meant to facilitate the analysis of large samples and the identification of potentially interesting or relevant spectra.
description: Snapshot from https://gitlab.com/cassisjuice/atlas and Snapshot from https://gitlab.com/cassisjuice/idcards
description: {"references": ["\"CASSIS: The Cornell Atlas of Spitzer/Infrared Spectrograph Sources\": Lebouteiller, V. et al. 2011, ApJS, 196, 8 [10.1088/0067-0049/196/1/8]", "\"CASSIS: The Cornell Atlas of Spitzer/Infrared Spectrograph Sources. II. High-resolution Observations\": Lebouteiller, V. et al. 2015, ApJS, 218, 21 [10.1088/0067-0049/218/2/21]", "\"CASSISjuice: open-source pipeline and offline complete atlas of Spitzer/IRS staring observations\": Lebouteiller, V. 2023 [2309.06876]"]}
DOI: 10.5281/zenodo.8339965
title: CASSISjuice [atlas]

description: Mid-infrared spectroscopy provides many important diagnostics on gas and dust features in a wide variety of astrophysical objects. In the JWST era, it is important to maintain a durable database of observations with previous facilities, for preparing new observations or completing existing ones. The Spitzer Infrared Spectrograph observed more than 20000 targets with wavelengths as low as 5.2um and as long as 38.0um, thereby complementing JWST/MIRI data for the long wavelength diagnostics and providing overall invaluable diagnostics together with JWST or in view of future IR facilities. In order to maximize the science output of Spitzer/IRS, the CASSIS atlas has provided reduced IRS spectra since 2011, selecting the best spectrum from various methods. We present CASSISjuice, an offline version of the pipeline (https://zenodo.org/record/8339954) and atlas (https://zenodo.org/record/8339965), adding several hundred sources that had never cleared the pipeline in order to make it complete for the first time. We updated the low- and high-resolution pipelines in order to be able to process every IRS staring mode observation (i.e., all observations but maps), and we also upgraded the high-resolution pipeline to version 2. The new pipeline also associates the pointings within ``cluster'' observations resulting in a single spectrum (possibly low- and high-resolution) per position and therefore overall a single CASSISjuice ID per targeted position. Independent observations at the same position are still not combined. The repositories, available at Zenodo and https://gitlab.com/cassisjuice, provide the open-source pipeline code and the atlas itself with specific attention to producing the smallest dataset possible. Python notebooks are included to illustrate the offline manipulation of the full atlas. The offline CASSISjuice atlas is meant to facilitate the analysis of large samples and the identification of potentially interesting or relevant spectra.
description: Snapshot from https://gitlab.com/cassisjuice/atlas and Snapshot from https://gitlab.com/cassisjuice/idcards
description: {"references": ["\"CASSIS: The Cornell Atlas of Spitzer/Infrared Spectrograph Sources\": Lebouteiller, V. et al. 2011, ApJS, 196, 8 [10.1088/0067-0049/196/1/8]", "\"CASSIS: The Cornell Atlas of Spitzer/Infrared Spectrograph Sources. II. High-resolution Observations\": Lebouteiller, V. et al. 2015, ApJS, 218, 21 [10.1088/0067-0049/218/2/21]", "\"CASSISjuice: open-source pipeline and offline complete atlas of Spitzer/IRS staring observations\": Lebouteiller, V. 2023 [2309.06876]"]}
DOI: 10.15156/bio/sh1338951.08fu
title: SH1338951.08FU

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/sh2019191.08fu
title: SH2019191.08FU

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/sh2019192.08fu
title: SH2019192.08FU

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/sh1338952.08fu
title: SH1338952.08FU

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/sh1338953.08fu
title: SH1338953.08FU

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.