cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7500791
title: Dataset related to article "Frozen Section Analysis and Real-Time Magnetic Resonance Imaging of Surgical Specimen Oriented on 3D Printed Tongue Model to Assess Surgical Margins in Oral Tongue Carcinoma: Preliminary Results"

description: This record contains raw data related to article “Frozen Section Analysis and Real-Time Magnetic Resonance Imaging of Surgical Specimen Oriented on 3D Printed Tongue Model to Assess Surgical Margins in Oral Tongue Carcinoma: Preliminary Results" Abstract <strong>Background: </strong> A surgical margin is the apparently healthy tissue around a tumor which has been removed. In oral cavity carcinoma, a negative margin is considered ≥ 5 mm, a close margin between 1 and 5 mm, and a positive margin ≤ 1 mm. Currently, the intraoperative surgical margin status is based on the visual inspection and tissue palpation by the surgeon and intraoperative histopathological assessment of the resection margins by frozen section analysis (FSA). FSA technique is limited and susceptible to sampling errors. Definitive information on the deep resection margins requires postoperative histopathological analysis. <strong>Methods: </strong> We described a novel approach for the assessment of intraoperative surgical margins by examining a surgical specimen oriented through a 3D-printed specific patient tongue with real-time Magnetic Resonance Imaging (MRI). We reported the preliminary results of a case series of 10 patients, prospectively enrolled, with oral tongue carcinoma who underwent surgery between February 2020 and April 2021. Two radiologists with 5 and 10 years of experience, respectively, in Head and Neck radiology in consensus evaluated specimen MRI and measured the distance between the tumor and the specimen surface. We performed intraoperative bedside FSA. To compare the performance of bedside FSA and MRI in predicting definitive margin status we computed the weighted sensitivity (SE), specificity (SP), accuracy (ACC), area under the ROC curve (AUC), F1-score, Positive Predictive Value (PPV), and Negative Predictive Value (NPV). To express the concordance between FSA and <em>ex-vivo</em> MRI we reported the jaccard index. <strong>Results: </strong> Intraoperative bedside FSA showed SE of 90%, SP of 100%, F1 of 95%, ACC of 0.9%, PPV of 100%, NPV (not a number), and jaccard of 90%, and <em>ex-vivo</em> MRI showed SE of 100%, SP of 100%, F1 of 100%, ACC of 100%, PPV of 100%, NPV of 100%, and jaccard of 100%. These results needed to be validated in a larger sample size of 21- 44 patients. <strong>Conclusion: </strong> The presented method allows a more accurate evaluation of surgical margin status, and the first clinical experiences underline the high potential of integrating FSA with <em>ex-vivo</em> MRI of the fresh surgical specimen.
DOI: 10.5281/zenodo.7500790
title: Dataset related to article "Frozen Section Analysis and Real-Time Magnetic Resonance Imaging of Surgical Specimen Oriented on 3D Printed Tongue Model to Assess Surgical Margins in Oral Tongue Carcinoma: Preliminary Results"

description: This record contains raw data related to article “Frozen Section Analysis and Real-Time Magnetic Resonance Imaging of Surgical Specimen Oriented on 3D Printed Tongue Model to Assess Surgical Margins in Oral Tongue Carcinoma: Preliminary Results" Abstract <strong>Background: </strong> A surgical margin is the apparently healthy tissue around a tumor which has been removed. In oral cavity carcinoma, a negative margin is considered ≥ 5 mm, a close margin between 1 and 5 mm, and a positive margin ≤ 1 mm. Currently, the intraoperative surgical margin status is based on the visual inspection and tissue palpation by the surgeon and intraoperative histopathological assessment of the resection margins by frozen section analysis (FSA). FSA technique is limited and susceptible to sampling errors. Definitive information on the deep resection margins requires postoperative histopathological analysis. <strong>Methods: </strong> We described a novel approach for the assessment of intraoperative surgical margins by examining a surgical specimen oriented through a 3D-printed specific patient tongue with real-time Magnetic Resonance Imaging (MRI). We reported the preliminary results of a case series of 10 patients, prospectively enrolled, with oral tongue carcinoma who underwent surgery between February 2020 and April 2021. Two radiologists with 5 and 10 years of experience, respectively, in Head and Neck radiology in consensus evaluated specimen MRI and measured the distance between the tumor and the specimen surface. We performed intraoperative bedside FSA. To compare the performance of bedside FSA and MRI in predicting definitive margin status we computed the weighted sensitivity (SE), specificity (SP), accuracy (ACC), area under the ROC curve (AUC), F1-score, Positive Predictive Value (PPV), and Negative Predictive Value (NPV). To express the concordance between FSA and <em>ex-vivo</em> MRI we reported the jaccard index. <strong>Results: </strong> Intraoperative bedside FSA showed SE of 90%, SP of 100%, F1 of 95%, ACC of 0.9%, PPV of 100%, NPV (not a number), and jaccard of 90%, and <em>ex-vivo</em> MRI showed SE of 100%, SP of 100%, F1 of 100%, ACC of 100%, PPV of 100%, NPV of 100%, and jaccard of 100%. These results needed to be validated in a larger sample size of 21- 44 patients. <strong>Conclusion: </strong> The presented method allows a more accurate evaluation of surgical margin status, and the first clinical experiences underline the high potential of integrating FSA with <em>ex-vivo</em> MRI of the fresh surgical specimen.
DOI: 10.5281/zenodo.7499479
title: A Fine-Grained Vehicle Detection (FGVD) Dataset for Unconstrained Roads

description: The previous fine-grained datasets mainly focus on classification and are often captured in a controlled setup, with the camera focusing on the objects. We introduce the first Fine-Grained Vehicle Detection (FGVD) dataset in the wild, captured from a moving camera mounted on a car. It contains 5502 scene images with 210 unique fine-grained labels of multiple vehicle types organized in a three-level hierarchy. While previous classification datasets also include makes for different kinds of cars, the FGVD dataset introduces new class labels for categorizing two-wheelers, autorickshaws, and trucks. The FGVD dataset is challenging as it has vehicles in complex traffic scenarios with intra-class and inter-class variations in types, scale, pose, occlusion, and lighting conditions. The current object detectors like yolov5 and faster RCNN perform poorly on our dataset due to a lack of hierarchical modeling. Along with providing baseline results for existing object detectors on FGVD Dataset, we also present the results of a combination of an existing detector and the recent Hierarchical Residual Network (HRN) classifier for the FGVD task. Finally, we show that FGVD vehicle images are the most challenging to classify among the fine-grained datasets.
description: These are the weights of the model that were used in the FGVD paper.
DOI: 10.5281/zenodo.7499478
title: A Fine-Grained Vehicle Detection (FGVD) Dataset for Unconstrained Roads

description: The previous fine-grained datasets mainly focus on classification and are often captured in a controlled setup, with the camera focusing on the objects. We introduce the first Fine-Grained Vehicle Detection (FGVD) dataset in the wild, captured from a moving camera mounted on a car. It contains 5502 scene images with 210 unique fine-grained labels of multiple vehicle types organized in a three-level hierarchy. While previous classification datasets also include makes for different kinds of cars, the FGVD dataset introduces new class labels for categorizing two-wheelers, autorickshaws, and trucks. The FGVD dataset is challenging as it has vehicles in complex traffic scenarios with intra-class and inter-class variations in types, scale, pose, occlusion, and lighting conditions. The current object detectors like yolov5 and faster RCNN perform poorly on our dataset due to a lack of hierarchical modeling. Along with providing baseline results for existing object detectors on FGVD Dataset, we also present the results of a combination of an existing detector and the recent Hierarchical Residual Network (HRN) classifier for the FGVD task. Finally, we show that FGVD vehicle images are the most challenging to classify among the fine-grained datasets.
description: These are the weights of the model that were used in the FGVD paper.
DOI: 10.5281/zenodo.7500739
title: Gaussian Approximation Potential for C-doped Boron Nitride

description: This is an GAP potential for amorphous boron nitride samples. It is trained based on datasets generated with ab-initio molecular dynamics and DFT. It can be used with pair_style quip command.
DOI: 10.5281/zenodo.7500738
title: Gaussian Approximation Potential for C-doped Boron Nitride

description: This is an GAP potential for amorphous boron nitride samples. It is trained based on datasets generated with ab-initio molecular dynamics and DFT. It can be used with pair_style quip command.
DOI: 10.5519/qd.j8b2wtr2
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (19 records)
DOI: 10.34740/kaggle/dsv/4802418
title: Elon Musk Tweets
DOI: 10.25540/c4rh-6sv4
title: Data for Dissolved lead (Pb) and Pb isotope along the East China Sea and Kuroshio transect – evidence for isopycnal transport and particle exchange

description: Lead (Pb) isotopes are widely used in tracing processes that transport Pb within the environment due to the globally-spread Pb pollution. In today’s ocean, Pb is mainly sourced from anthropogenic emissions and is removed by particle scavenging. However, recent efforts involving Pb isotopes started to point that sediments at ocean boundary, either suspended or benthic, as a previously underestimated source and sink of Pb to the seawater dissolved pool. To assess the contributions of Pb from seawater-sediment boundary, we measured the dissolved Pb concentrations and isotopic compositions in seawater from the outer East China Sea (ECS) and along the Kuroshio. Along the Kuroshio, depth profiles exhibit highly similar Pb concentrations across constant density planes, suggesting isopycnal transport. Pb isotope ratios in most of the samples show strong contributions of aerosol Pb, except for seawaters from the East China Sea and deep Okinawa Trough (&gt;800m), which show evidences of crustal Pb contribution. The Okinawa Trough deep water has overlapping Pb isotope ratios with East China Sea water, where the suspended particulate matter is abundant. Our data on Pb isotopes in the East China Sea and the Okinawa Trough deep water, together with data from previous studies at other continental margins suggest that the seawater-sediment boundary along the continental shelves may be an important source and sink in marine Pb cycling.
DOI: 10.25678/0007ac
title: Data for: Socio-technical challenges towards data-driven and integrated urban water management: a socio-technical network approach

description: The files contain the data and the R scripts needed to replicate the analysis of three case study urban water systems as described in: Manny, L. (2023) Socio-technical challenges towards data-driven and integrated urban water management: a socio-technical network approach. https://doi.org/10.1016/j.scs.2022.104360Data-driven and integrated urban water management have been proposed to reduce surface water pollution in light of climate change and urbanization impacts. Besides technological innovation, data-driven and integrated management require information exchange among many actors, e.g., operators, engineers, or authorities. With the aim of achieving a more profound understanding of socio-technical infrastructures, such as urban water systems, I draw on the approach of socio-technical networks to study actors and infrastructure elements as well as multiple relations in-between. In this article, I investigate whether underlying socio-technical dependencies influence social interactions such as information exchange. More specifically related to data-driven and integrated management, I analyze potential challenges, such as organizational fragmentation, data access, and diverging perceptions. Based on empirical data from three case studies in Switzerland, I provide inferential results obtained from fitting exponential random graph models. Findings showed that actors’ relatedness to infrastructure elements affects their information exchange. Among the cases, the presence of the three challenges varied and is potentially contingent upon system size, organizational form, or progress in terms of data-driven and integrated management. Thus, incorporating a socio-technical perspective on social actors and infrastructure elements could help to improve policy design and implementation aiming to achieve more sustainable cities.
DOI: 10.23729/68cbfdf2-e05d-498f-9c3c-9bab0d2739ca
title: Reference databases for mNGS projects

description: Collection of reference databases for metagenomic NGS projects. For more info please see https://www2.helsinki.fi/en/projects/lazypipe Database: NCBI nt archaeal, bacterial and virus sequences. File: 2023_01_01.nt_abv.tar.gz Composition: by accession: ar(14,297) + ba(540,016) + vi(235,395) 16,842,845 sequences 356,180,464,604 bp Updated: 2023/01/01 Database: NCBI GeneBank Viruses Complete genomes 2023_01_01 86,641 sequences; 2,391,589,518 total bases Date: Jan 1, 2023 4:32 PM BLASTDB Version: 5 Database: NCBI GeneBank Viruses Complete genomes 2022_11_04 86,352 sequences; 2,371,168,247 total bases Date: Nov 4, 2022 5:03 PM BLASTDB Version: 5 Citing: Ilya Plyusnin, Ravi Kant, Anne J. Jaaskelainen, Tarja Sironen, Liisa Holm, Olli Vapalahti, Teemu Smura. (2020) Novel NGS Pipeline for Virus Discovery from a Wide Spectrum of Hosts and Sample Types. Virus Evolution, veaa091, https://doi.org/10.1093/ve/veaa091.
DOI: 10.5281/zenodo.7457650
title: Biochemical analysis

description: Biochemical analysis of similarities between human and SARS-CoV-2 proteins
DOI: 10.5281/zenodo.7457649
title: Biochemical analysis

description: Biochemical analysis of similarities between human and SARS-CoV-2 proteins
DOI: 10.6084/m9.figshare.21805380
title: Table S3: Lower crustal hot zones as zircon incubators? Inherited zircon antecrysts in diorites from a mafic mush reservoir

description: Zircon U–Pb and Hf isotope compositions of the SKD, MME, GJ1 and 91500
DOI: 10.6084/m9.figshare.21805380.v1
title: Table S3: Lower crustal hot zones as zircon incubators? Inherited zircon antecrysts in diorites from a mafic mush reservoir

description: Zircon U–Pb and Hf isotope compositions of the SKD, MME, GJ1 and 91500
DOI: 10.6084/m9.figshare.21805386
title: Table S4: Lower crustal hot zones as zircon incubators? Inherited zircon antecrysts in diorites from a mafic mush reservoir

description: Zr enrichment-Zircon saturation model by Boehnke <i>et al</i>. (2013), REFC (Lee <i>et al</i>. 2014), after experimental data of Nandedkar <i>et al</i>. (2014)
DOI: 10.6084/m9.figshare.21805386.v1
title: Table S4: Lower crustal hot zones as zircon incubators? Inherited zircon antecrysts in diorites from a mafic mush reservoir

description: Zr enrichment-Zircon saturation model by Boehnke <i>et al</i>. (2013), REFC (Lee <i>et al</i>. 2014), after experimental data of Nandedkar <i>et al</i>. (2014)
DOI: 10.6084/m9.figshare.21805389
title: Tables S1 and S2: Lower crustal hot zones as zircon incubators? Inherited zircon antecrysts in diorites from a mafic mush reservoir

description: Method: U–Pb in zircon (Table S1) and Method: Hf isotopes in zircon (Table S2)
DOI: 10.6084/m9.figshare.21805389.v1
title: Tables S1 and S2: Lower crustal hot zones as zircon incubators? Inherited zircon antecrysts in diorites from a mafic mush reservoir

description: Method: U–Pb in zircon (Table S1) and Method: Hf isotopes in zircon (Table S2)
DOI: 10.23729/eda18834-acea-4b09-a513-88146ced9e94
title: Reference databases for virus metagenomics

description: This is a collection of reference databases for virus metagenomics. File: 2022_11_04.nt_abv.tar.gz Archaeal, bacterial and virus sequences from NCBI nt database. Composition by sequence accessions: archaea (14,266), bacteria (537,783) and viruses (234,136). 16,842,845 sequences; 356,180,464,604 total bases Date: Nov 4, 2022 File: blast_gb_vi_2022_11_04.tar.gz Database: NCBI GeneBank Viruses Complete genomes 2022_11_04 86,352 sequences; 2,371,168,247 total bases Date: Nov 4, 2022 5:03 PM BLASTDB Version: 5 File: nt_2021_12_habv_cent.tar.gz Database: Centrifuge index for NCBI nt Archaea + nt Bacteria + nt Viruses + human GRCh38 reference assembly Description: NCBI nt fasta database and human reference assembly GRCh38 were download on 30/12/2021. Sequences for Archaea, Bacteria and Viruses were selected from the nt database using NCBI taxonomy and the latest human assembly was added to this collection. Centrifuge index was compiled with centrifuge-build. File: nt_2020_12_vi_blastn.tar.gz NCBI GeneBank Viruses Complete genomes 13/12/2020 Description: NCBI nt fasta database was downloaded on 13/12/2020. Virus sequences were selected using NCBI taxonomy. Blastn index was compiled with makeblastdb. Project website: https://www2.helsinki.fi/en/projects/lazypipe Citing: Ilya Plyusnin, Ravi Kant, Anne J. Jaaskelainen, Tarja Sironen, Liisa Holm, Olli Vapalahti, Teemu Smura. (2020) Novel NGS Pipeline for Virus Discovery from a Wide Spectrum of Hosts and Sample Types. Virus Evolution, veaa091, https://doi.org/10.1093/ve/veaa091.
DOI: 10.5281/zenodo.7500857
title: Large-scale movement patterns in a social vulture are influenced by seasonality, sex, and breeding region

description: Dataset (in RData format) and Scripts corresponding to each of the analyses carried out for the manuscript entitled "Large-scale movement patterns in a social vulture are influenced by seasonality, sex, and breeding region".
DOI: 10.5281/zenodo.7500856
title: Large-scale movement patterns in a social vulture are influenced by seasonality, sex, and breeding region

description: Dataset (in RData format) and Scripts corresponding to each of the analyses carried out for the manuscript entitled "Large-scale movement patterns in a social vulture are influenced by seasonality, sex, and breeding region".
DOI: 10.5281/zenodo.5169872
title: R1A-R1AB-SPIKE-ACE2_Dataset

description: SARS-Cov-2 proteins: a comparison with ACE2 protein
DOI: 10.5281/zenodo.5169871
title: R1A-R1AB-SPIKE-ACE2_Dataset

description: SARS-Cov-2 proteins: a comparison with ACE2 protein
DOI: 10.6084/m9.figshare.21378327
title: Dataset of LLSM, Spinning disk, MFM and STED for SPITFIR(e) algorithm

description: Dataset of Spitfir(e). <br> This dataset includes LLSM, spinning disk and STED data. Data was deconvolved using Spitfir(e) and Richardson-Lucy.
DOI: 10.25440/smu.21804423
title: Web appendix for "Does Disclosure of Advertising Spending Help Investors and Analysts?"

description: Detailed Web appendix that outlines the construction of publicly available secondary data and different robustness tests conducted. <br> This is the web appendix for "Does Disclosure of Advertising Spending Help Investors and Analysts?" published in Journal of Public Policy and Marketing in 2022. <br> <br>
DOI: 10.25440/smu.21804423.v1
title: Web appendix for "Does Disclosure of Advertising Spending Help Investors and Analysts?"

description: Detailed Web appendix that outlines the construction of publicly available secondary data and different robustness tests conducted. <br> This is the web appendix for "Does Disclosure of Advertising Spending Help Investors and Analysts?" published in Journal of Public Policy and Marketing in 2022. <br> <br>
DOI: 10.20372/eiar-rdm/hmozpq/d14nbi
title: 142878-Article Text-379707-1-10-20160826 (1).pdf

description: :unav
DOI: 10.20372/eiar-rdm/hmozpq
title: Cell Mean Versus Best Linear Unbiased Predictors in Biplot Analysis of Genotype × Environment Interaction in Barley

description: In multi-environment trials, accurate estimation of yields in individual environments and astute choice of models to extract and display agronomically relevant signals enhance genotype evaluation and accelerate breeding progress. The objective of this study is to (i) compare patterns of genotype × environment interaction (GE) using additive main effect and multiplicative interaction (AMMI) biplots arising from cell means versus best linear unbiased predictors (BLUPs), and (ii) examine some features of the genotype main effect plus GE interaction (GGE) in relation to AMMI in comprehending the GE patterns. A data set generated from 39 barley genotypes grown in 18 environments (three sowing dates and two crop protection treatments over three years) in the central highlands of Ethiopia was used. AMMI analysis of variance based on cell means depicted the first five principal components (PCs) to be significant. However, only the first two PCs were significant when BLUPs were used. Partitioning of the original GE sum of squares into signal and noise confirmed that only the first two AMMI PCs contained signals required to explain the real GE pattern. AMMI PC1 contained 76.5% and AMMI PC2 15.9% of the total GE variance. AMMI biplot based on BLUPs depicted patterns that were more in tandem with agronomic interpretations than biplot based on cell mean data. PC1 of GGE contained 66.9%, PC2 11.2% and PC3 14.5% of the total GE variance. AMMI2 explained as much GE variance as PC1, PC2 and PC3 of GGE put together. AMMI2 biplot depicted a GE pattern that was not obvious from GGE2. AMMI2 biplot was more similar to GGE PC1 versus PC3 biplot than GGE2 biplot. AMMI2 was more efficient than GGE2 for displaying patterns of GE interaction in this data set. However, GGE2 was quite elegant and simple for presenting G and GE combined in a biplot graph including the which-wonwhere pattern. BLUPs might improve yield estimation and pattern recognition, and that attempting both AMMI and GGE analysis might provide important insights on genotype performance and GE.
DOI: 10.5281/zenodo.7491595
title: Raw data of the publication: Does moderate hyperkalemia influence survival in HF? Insights from the MECKI score data (Int J Cardiol . 2023 Jan 15;371:273-277. doi: 10.1016/j.ijcard.2022.09.030. Epub 2022 Sep 15)

description: <strong>Background: </strong>The prognostic role of moderate hyperkalemia in reduced ejection fraction (HFrEF) patients is still controversial. Despite this, it affects the use of renin-angiotensin-aldosterone system inhibitors (RAASi) with therapy down-titration or discontinuation. <strong>Objectives: </strong>Aim of the study was to assess the prognostic impact of moderate hyperkalemia in chronic HFrEF optimally treated patients. <strong>Methods and results: </strong>We retrospectively analyzed MECKI (Metabolic Exercise test data combined with Cardiac and Kidney Indexes) database, with median follow-up of 4.2 [IQR 1.9-7.5] years. Data on K<sup>+</sup> levels were available in 7087 cases. Patients with K<sup>+</sup> plasma level ≥ 5.6 mEq/L and &lt; 4 mEq/L were excluded. Remaining patients were categorized into normal &gt;4 and &lt; 5 mEq/L (n = 4826, 68%) and moderately high ≥5.0 and ≤ 5.5 mEq/L (n = 496, 7%) K<sup>+</sup>. Then patients were matched by propensity score in 484 couplets of patients. MECKI score value was 7% [IQR 3.1-14.1%] and 7.3% [IQR 3.4-15%] (p = 0.678) in patients with normal and moderately high K<sup>+</sup> values while cardiovascular mortality events at two years follow-up were 41 (4.2%) and 33 (3.4%) (p = 0.333) in each group respectively. <strong>Conclusions: </strong>Moderate hyperkalemia does not influence patients' outcome in a large cohort of ambulatory HFrEF patients.