cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21975689
title: Antiviral Mechanism of Virucidal Sialic Acid Modified Cyclodextrin

description: raw data of immunocytochemistry assay, biolayer interferometry, RNA exposure assay and R18 release assay
DOI: 10.6084/m9.figshare.21975689.v1
title: Antiviral Mechanism of Virucidal Sialic Acid Modified Cyclodextrin

description: raw data of immunocytochemistry assay, biolayer interferometry, RNA exposure assay and R18 release assay
DOI: 10.6084/m9.figshare.20390432
title: Comparison of the outcomes between early and late anti-tumor necrosis factor therapy in patients with enthesitis-related subcategory of juvenile idiopathic arthritis: a multi-center study in Southeast Asia

description: Little is known about the impact of delayed initiation of anti-tumor necrosis factor (TNF) therapy in patients with enthesitis-related arthritis (ERA). Here, we compared the impact of delayed treatment on disease outcomes of ERA patients in Southeast Asia. This retrospective study enrolled 149 ERA patients from Thailand and Singapore. Early (e-aTNF) and late (l-aTNF) treatment groups received anti-TNF therapy starting at ≤6 months and &gt;6 months, respectively, after diagnosis. Outcomes included mean differences in disease activity parameters, Juvenile Spondyloarthritis Disease Activity (JSpADA) score, Juvenile Arthritis Diseases Activity (JADAS)-10 score, and American College of Rheumatology Pediatric (ACR Pedi) criteria, and the frequency of clinically inactive disease and first flare event. The mean changes in JSpADA (p = 0.002) and JADAS-10 (p &lt; 0.001) scores over time were significantly higher in the e-aTNF group than in the l-aTNF group. A significantly higher proportion of patients in the e-aTNF group than l-aTNF group satisfied ACR Pedi 100 criteria at 2 years (p = 0.042). All other long-term outcomes were not significantly different between the groups. Although early anti-TNF treatment improved disease activity parameters somewhat better than delayed anti-TNF therapy, there was no significant difference in long-term outcomes.
DOI: 10.6084/m9.figshare.20390432.v1
title: Comparison of the outcomes between early and late anti-tumor necrosis factor therapy in patients with enthesitis-related subcategory of juvenile idiopathic arthritis: a multi-center study in Southeast Asia

description: Little is known about the impact of delayed initiation of anti-tumor necrosis factor (TNF) therapy in patients with enthesitis-related arthritis (ERA). Here, we compared the impact of delayed treatment on disease outcomes of ERA patients in Southeast Asia. This retrospective study enrolled 149 ERA patients from Thailand and Singapore. Early (e-aTNF) and late (l-aTNF) treatment groups received anti-TNF therapy starting at ≤6 months and &gt;6 months, respectively, after diagnosis. Outcomes included mean differences in disease activity parameters, Juvenile Spondyloarthritis Disease Activity (JSpADA) score, Juvenile Arthritis Diseases Activity (JADAS)-10 score, and American College of Rheumatology Pediatric (ACR Pedi) criteria, and the frequency of clinically inactive disease and first flare event. The mean changes in JSpADA (p = 0.002) and JADAS-10 (p &lt; 0.001) scores over time were significantly higher in the e-aTNF group than in the l-aTNF group. A significantly higher proportion of patients in the e-aTNF group than l-aTNF group satisfied ACR Pedi 100 criteria at 2 years (p = 0.042). All other long-term outcomes were not significantly different between the groups. Although early anti-TNF treatment improved disease activity parameters somewhat better than delayed anti-TNF therapy, there was no significant difference in long-term outcomes.
DOI: 10.6084/m9.figshare.21975743
title: Transcriptomics_Confounded_log2FPKM_r26907c45.csv

description: We selected 45 samples from 15 batches as study samples, including three samples in each batch from three sample groups (D5, F7, and M8). In each batch, three samples from three replicates of one sample group (D5/F7/M8) were used in the confounded scenario.
DOI: 10.6084/m9.figshare.21975743.v1
title: Transcriptomics_Confounded_log2FPKM_r26907c45.csv

description: We selected 45 samples from 15 batches as study samples, including three samples in each batch from three sample groups (D5, F7, and M8). In each batch, three samples from three replicates of one sample group (D5/F7/M8) were used in the confounded scenario.
DOI: 10.5281/zenodo.7584330
title: B-cell receptor data from intratumoural B cells in melanoma patients

description: This record contains data used in the Crescioli et al. analysis of B-cell response in melanoma, specifically analysis concerning high-throughput BCR repertoire. Files: "Visium_all_Aug22_comboDatBoth.txt": IMGT/HighV-Quest output of the high-throughput intratumoural BCR repertoire from n=5 melanoma tumours. In tab-separated text file format. "HV_EB_COV_MEL_comb_Oct22.RDS": A R data object (readable into R with "readRDS(...)") containing combined data from the melanoma (MEL) data with analogous high-throughput BCR repertoire data from healthy volunteers (HV), Ebola convalescent patients (EB) and hospitalised COVID-19 patients (COV). HV, EB and COV data are taken from https://dx.doi.org/10.5281/zenodo.5146019. Here the sequences are filtered to contain only unique combinations of isotype and IMGT-numbered V-domain DNA sequence (to remove redundancies due to e.g. capturing BCR transcripts from plasma cells). "BM_Master_Light_Useasreftrue_140325_withPepStats_8.csv". IMGT/HighV-Quest output of the Bone Marrow light chain repertoire data. Published in Townsend et al. Front Immunol 7:388 (2016). Used here for the comparison of gene conversion frequencies against the melanoma light chain repertoire. "BM_Master_Light_Useasreftrue_140325_withPepStats_8_Vgapped.fasta". The IMGT-gapped V-gene sequence from the Townsend et al. (see above) Bone Marrow light chain repertoire data. This is the raw input to BrepConvert. Provided here for this dataset; same sequences for the melanoma/healthy data are already in the RDS object ("HV_EB_COV_MEL_comb_Oct22.RDS"). "2_IMGT-gapped-nt-sequences_visa.txt", "2_IMGT-gapped-nt-sequences_visb.txt": Raw output of IMGT/HighV-Quest containing IMGT-gapped nucleotide sequences. These files were parsed to extract the IMGT-gapped V-gene sequence for BrepConvert analysis. "BrepConvert.zip": BrepConvert gene conversion analysis results for Healthy and Melanoma repertoires. See code in https://github.com/josef0731/melanoma-ig for ways to use these input files for reproducing the analyses.
DOI: 10.6084/m9.figshare.21975734
title: LMMS-SP BERT-LARGE-CASED

description: Includes SP-USM and SP-WSD variants, at sensekey and synset level, and SVD-300d version.
DOI: 10.17632/p6x5m5hy8c.1
title: 68Ga-DOTATOC PET/MR imaging and radiomic parameters in predicting histopathological prognostic factors in patients with pancreatic neuroendocrine well-differentiated tumours

description: Purpose: To explore the role of fully hybrid 68Ga-DOTATOC PET/MR imaging and radiomic parameters in predicting histopathological prognostic factors in patients with pancreatic neuroendocrine tumours (PanNETs) undergoing surgery.

Methods: One hundred eighty-seven consecutive 68Ga-DOTATOC PET/MRI scans (March 2018-June 2020) performed for gastroenteropancreatic neuroendocrine tumour were retrospectively evaluated; 16/187 patients met the eligibility criteria (68Ga-DOTATOC PET/MRI for preoperative staging of PanNET and availability of histological data). PET/MR scans were qualitatively and quantitatively interpreted, and the following imaging parameters were derived: PET-derived SUVmax, SUVmean, somatostatin receptor density (SRD), total lesion somatostatin receptor density (TLSRD), and MRI-derived apparent diffusion coefficient (ADC), arterial and late enhancement, necrosis, cystic degeneration, and maximum diameter. Additionally, first-, second-, and higher-order radiomic parameters were extracted from both PET and MRI scans. Correlations with several PanNETs' histopathological prognostic factors were evaluated using Spearman's coefficient, while the area under the curve (AUC) of the receiver operating characteristic (ROC) curve was used to evaluate parameters' predictive performance.

Results: Primary tumour was detected in all 16 patients (15/16 by 68Ga-DOTATOC PET and 16/16 by MRI). SUVmax and SUVmean resulted good predictors of lymphnodal (LN) involvement (AUC of 0.850 and 0.783, respectively). Second-order radiomic parameters GrayLevelVariance and HighGrayLevelZoneEmphasis extracted from T2 MRI demonstrated significant correlations with LN involvement (adjusted p = 0.009), also showing good predictive performance (AUC = 0.992).

Conclusion: This study demonstrates the role of the fully hybrid PET/MRI tool for the synergic function of imaging parameters extracted by the two modalities and highlights the potentiality of imaging and radiomic parameters in assessing histopathological features of PanNET aggressiveness.
DOI: 10.48420/21931770.v2
title: TPI UK ITL1 Scorecards

description: This dataset includes scorecards for all 12 ITL1 regions in the United Kingdom. These scorecards indicate for each ITL1 regions how wel the region is peforming as compared to the median of all ITL1 regions in the UK, for a broad set of indicators. These indicators are considered to be drivers of productivity and are classified according to five broad categories: Business performance & characteristics; Skills & training; Policy & institutions; Health & wellbeing; Investment, infrastructure & connectivity. The sources and methodology of the indicators, and their use in the scorecards is included, as well as a brief overview of this project.
DOI: 10.5281/zenodo.7584400
title: Does the Synergy Model Implementation Improve the Transition from In-Hospital to Primary Care? The Experience from an Italian Cardiac Surgery Unit, Perspectives, and Future Implications

description: Dellafiore F, Caruso R, Nania T, Pittella F, Fiorini T, Caruso MP, Zaffino G, Stievano A, Arrigoni C. Does the Synergy Model Implementation Improve the Transition from In-Hospital to Primary Care? The Experience from an Italian Cardiac Surgery Unit, Perspectives, and Future Implications. Int J Environ Res Public Health. 2022 May 5;19(9):5624. doi: 10.3390/ijerph19095624. PMID: 35565012; PMCID: PMC9105911. Abstract The demand for care services in the healthcare system has changed and is triggering a smooth transition from in-hospital to primary care. In this regard, patient-centered-care models of care delivery might provide a framework to follow patients' journeys throughout their transition between different levels of care. Accordingly, an Italian research group at a cardiac hospital in Northern Italy implemented the Synergy Model in a Cardiac Surgery Unit, a patient-centered-care model, and is using the framework of the model to guide a smooth transition of patients towards rehabilitation and primary care after their hospitalization. This discursive paper is focused on the experience, perspectives, and future implications of adopting the Synergy Model to facilitate the transition from in-hospital to primary care. The presented experience and discussion might be helpful to the international debate regarding the strategies to boost a smooth transition from in-hospital to primary care.
DOI: 10.5281/zenodo.7584399
title: Does the Synergy Model Implementation Improve the Transition from In-Hospital to Primary Care? The Experience from an Italian Cardiac Surgery Unit, Perspectives, and Future Implications

description: Dellafiore F, Caruso R, Nania T, Pittella F, Fiorini T, Caruso MP, Zaffino G, Stievano A, Arrigoni C. Does the Synergy Model Implementation Improve the Transition from In-Hospital to Primary Care? The Experience from an Italian Cardiac Surgery Unit, Perspectives, and Future Implications. Int J Environ Res Public Health. 2022 May 5;19(9):5624. doi: 10.3390/ijerph19095624. PMID: 35565012; PMCID: PMC9105911. Abstract The demand for care services in the healthcare system has changed and is triggering a smooth transition from in-hospital to primary care. In this regard, patient-centered-care models of care delivery might provide a framework to follow patients' journeys throughout their transition between different levels of care. Accordingly, an Italian research group at a cardiac hospital in Northern Italy implemented the Synergy Model in a Cardiac Surgery Unit, a patient-centered-care model, and is using the framework of the model to guide a smooth transition of patients towards rehabilitation and primary care after their hospitalization. This discursive paper is focused on the experience, perspectives, and future implications of adopting the Synergy Model to facilitate the transition from in-hospital to primary care. The presented experience and discussion might be helpful to the international debate regarding the strategies to boost a smooth transition from in-hospital to primary care.
DOI: 10.5281/zenodo.7584482
title: Data Table Digital Scholarship Plan

description: Summary of the types of data linked to my doctoral project.
DOI: 10.5281/zenodo.7584481
title: Data Table Digital Scholarship Plan

description: Summary of the types of data linked to my doctoral project.
DOI: 10.34740/kaggle/dsv/4919144
title: YouTube Daily
DOI: 10.5281/zenodo.7584509
title: seed germination data of species native to the Sahara

description: Germination data of 43 species native to and dominant in camel rangelands in Saharan Algeria : <em>Agathophora alopecuroides</em> (Delile) Fenzl ex Bunge <em>Anabasis articulata </em>(Forssk.) Moq. <em>Atriplex dimorphostegia</em> Kar. & Kir. <em>Bassia muricata</em> (L.) Asch. <em>Cornulaca monacantha </em>Delile <em>Ammodaucus leucotrichus</em> Coss. & Durieu <em>Foeniculum vulgare </em>Mill. <em>Pergularia tomentosa </em>L. <em>Asphodelus tenuifolius </em>Cav. <em>Cotula cinerea </em>Delile <em>Ifloga spicata </em>(Forssk.) Sch.Bip <em>Launaea capitata</em> (Spreng.) Dandy <em>Launaea nudicaulis</em> (L.) Hook. F. <em>Perralderia coronopifolia</em> Coss. <em>Scorzonera laciniata</em> L. <em>Echium trygorrhizum </em>Pomel. <em>Moltkiopsis ciliata </em>(Forssk.) I. M. Johnst. <em>Diplotaxis harra </em>(Forssk.) Boiss. <em>Eremobium aegyptiacum </em>(Spreng.) Asch. & Schweinf. ex Boiss. <em>Henophyton deserti </em>Coss. & Durieu <em>Savignya parviflora </em>subsp. <em>longistyla</em> (Boiss. & Reut.) Maire <em>Sisymbrium reboudianum </em>Verl<em>.</em> <em>Paronychia arabica </em>(L.) DC. <em>Polycarpaea robbairea </em>(Kuntze) Greuter & Burdet <em>Spergularia salina</em> J. & C.Presl <em>Helianthemum lippii </em>(L.) Dum. Cours. <em>Cleome africana </em>Botsch. <em>Euphorbia guyoniana </em>Boiss. & Reut. <em>Argyrolobium uniflorum</em> (Dc) Jaub. & Spach <em>Astragalus arpilobus </em>subsp. <em>hauarensis</em> (Boiss.) Podlech <em>Astragalus boeticus</em> L. <em>Astragalus gombo</em> Bunge <em>Astragalus mareoticus</em> Delile <em>Erodium glaucophyllum </em>L’Héritier <em>Neurada procumbens </em>L. <em>Plantago ciliata </em>Desf. <em>Limoniastrum guyonianum</em> Boiss. <em>Centropodia forsskalii </em>(Vahl) Cope <em>Sphenopus divaricatus </em>(Gouan) Rchb. <em>Stipagrostis plumosa </em>(L.) Munro ex T. Anderson <em>Stipagrostis pungens </em>(Desf.) De Winter <em>Fagonia glutinosa </em>Delile <em>Peganum harmala </em>L.
DOI: 10.5281/zenodo.7584508
title: seed germination data of species native to the Sahara

description: Germination data of 43 species native to and dominant in camel rangelands in Saharan Algeria : <em>Agathophora alopecuroides</em> (Delile) Fenzl ex Bunge <em>Anabasis articulata </em>(Forssk.) Moq. <em>Atriplex dimorphostegia</em> Kar. & Kir. <em>Bassia muricata</em> (L.) Asch. <em>Cornulaca monacantha </em>Delile <em>Ammodaucus leucotrichus</em> Coss. & Durieu <em>Foeniculum vulgare </em>Mill. <em>Pergularia tomentosa </em>L. <em>Asphodelus tenuifolius </em>Cav. <em>Cotula cinerea </em>Delile <em>Ifloga spicata </em>(Forssk.) Sch.Bip <em>Launaea capitata</em> (Spreng.) Dandy <em>Launaea nudicaulis</em> (L.) Hook. F. <em>Perralderia coronopifolia</em> Coss. <em>Scorzonera laciniata</em> L. <em>Echium trygorrhizum </em>Pomel. <em>Moltkiopsis ciliata </em>(Forssk.) I. M. Johnst. <em>Diplotaxis harra </em>(Forssk.) Boiss. <em>Eremobium aegyptiacum </em>(Spreng.) Asch. & Schweinf. ex Boiss. <em>Henophyton deserti </em>Coss. & Durieu <em>Savignya parviflora </em>subsp. <em>longistyla</em> (Boiss. & Reut.) Maire <em>Sisymbrium reboudianum </em>Verl<em>.</em> <em>Paronychia arabica </em>(L.) DC. <em>Polycarpaea robbairea </em>(Kuntze) Greuter & Burdet <em>Spergularia salina</em> J. & C.Presl <em>Helianthemum lippii </em>(L.) Dum. Cours. <em>Cleome africana </em>Botsch. <em>Euphorbia guyoniana </em>Boiss. & Reut. <em>Argyrolobium uniflorum</em> (Dc) Jaub. & Spach <em>Astragalus arpilobus </em>subsp. <em>hauarensis</em> (Boiss.) Podlech <em>Astragalus boeticus</em> L. <em>Astragalus gombo</em> Bunge <em>Astragalus mareoticus</em> Delile <em>Erodium glaucophyllum </em>L’Héritier <em>Neurada procumbens </em>L. <em>Plantago ciliata </em>Desf. <em>Limoniastrum guyonianum</em> Boiss. <em>Centropodia forsskalii </em>(Vahl) Cope <em>Sphenopus divaricatus </em>(Gouan) Rchb. <em>Stipagrostis plumosa </em>(L.) Munro ex T. Anderson <em>Stipagrostis pungens </em>(Desf.) De Winter <em>Fagonia glutinosa </em>Delile <em>Peganum harmala </em>L.
DOI: 10.5281/zenodo.7584502
title: Stream and groundwater dissolved organic carbon (DOC) concentrations along a boreal headwater

description: Dataset supporting the manuscript entitled "Groundwater flow paths drive longitudinal patterns of stream dissolved organic carbon (DOC) concentrations in boreal landscapes" published in Hydrology and Earth System Sciences. The following datasets are available: <strong>df_Q.csv and error_Q.csv: </strong>observed discharge in l/s at gauging stations C5 and C6 (Figure 1; main manuscript) and assumed normally distributed errors for Q<sub>c5</sub> and Q<sub>c6</sub> <strong>df_Q_gw_diff.csv, df_Q_gw_uca.csv:</strong> calculated groundwater discharge in l/s corresponding to equations (2) and (3) in the main manuscript <strong>df_channel.csv: </strong>channel characteristics between gauging stations C5 and C6 <strong>sampling_actions.csv:</strong> sampling action ID's and corresponding dates <strong>df_DOC_stream.csv, df_DOC_stream_prsd.csv:</strong> stream DOC concentrations in mg/l, and associated percent standard deviation (prsd) <strong>df_DOC_gw.csv, df_DOC_gw_prsd.csv:</strong> groundwater DOC concentrations in mg/l, and associated percent standard deviation (prsd)
description: This research has been supported by the Svenska Forskningsrådet Formas (grant no. 2015-00531), Hori- zon 2020 (BP3 – grant no. 801370), and the Stiftelsen Oscar och Lili Lamms Minne.
DOI: 10.5281/zenodo.7584374
title: Dataset and structure database for an ML model to predict diffusivity in ZIF variants

description: This dataset accompanies the publication titled "Data Mining for Predicting Gas Diffusivity in Zeolitic-imidazolate Frameworks (ZIFs)" (DOI: https://doi.org/10.1039/D2TA02624D) ESI_2_dataset.xlsx: Descriptors for all ZIFs of the publication and simulations output, in the form of diffusivities of gas molecules (He up to iso-butane), in all ZIFs. ZIF_database.zip: ZIP file containing all ZIFs prepared by the authors (as discussed in the publication), through various units replacements, in the SOD topology, in .pdb format.
DOI: 10.5281/zenodo.6389956
title: Dataset and structure database for an ML model to predict diffusivity in ZIF variants

description: This dataset accompanies the publication titled "Data Mining for Predicting Gas Diffusivity in Zeolitic-imidazolate Frameworks (ZIFs)" (DOI: https://doi.org/10.1039/D2TA02624D) ESI_2_dataset.xlsx: Descriptors for all ZIFs of the publication and simulations output, in the form of diffusivities of gas molecules (He up to iso-butane), in all ZIFs. ZIF_database.zip: ZIP file containing all ZIFs prepared by the authors (as discussed in the publication), through various units replacements, in the SOD topology, in .pdb format.
DOI: 10.5281/zenodo.7565546
title: Acacia (Acacia dealbata) UAV imagery and reference data (raw)

description: This dataset includes drone (Uncrewed Aerial Vehicles, UAV) orthomosaics (RGB, n =2) of Pinus radiata acquired between 2016-2017 in Chile. The resolution (ground sampling distance) of the orthomosaics amounts to approx. 3-4 cm. The orthomosaics are partially labelled (polygon shapefiles) in terms of Pinus cover. Each orthomosaic comes with an AOI (area of interest, polygon shapefile) that indicates the areas where the labelling was performed. Within the extent of this AOI Pinus canopies are assumed to be completely delineated (by visual interpretation). For visual inspection of the imagery we recommend to generate image pyramids since the image data has a very high spatial resolution. Details on the dataset are mentioned in the corresponding publication: Kattenborn, T., Lopatin, J., Förster, M., Braun, A. C., & Fassnacht, F. E. (2019). UAV data as alternative to field sampling to map woody invasive species based on combined Sentinel-1 and Sentinel-2 data. <em>Remote sensing of environment</em>, <em>227</em>, 61-73. https://doi.org/10.1016/j.rse.2019.03.025 https://www.sciencedirect.com/science/article/abs/pii/S0034425719301166
DOI: 10.5281/zenodo.7565545
title: Acacia (Acacia dealbata) UAV imagery and reference data (raw)

description: This dataset includes drone (Uncrewed Aerial Vehicles, UAV) orthomosaics (RGB, n =2) of Pinus radiata acquired between 2016-2017 in Chile. The resolution (ground sampling distance) of the orthomosaics amounts to approx. 3-4 cm. The orthomosaics are partially labelled (polygon shapefiles) in terms of Pinus cover. Each orthomosaic comes with an AOI (area of interest, polygon shapefile) that indicates the areas where the labelling was performed. Within the extent of this AOI Pinus canopies are assumed to be completely delineated (by visual interpretation). For visual inspection of the imagery we recommend to generate image pyramids since the image data has a very high spatial resolution. Details on the dataset are mentioned in the corresponding publication: Kattenborn, T., Lopatin, J., Förster, M., Braun, A. C., & Fassnacht, F. E. (2019). UAV data as alternative to field sampling to map woody invasive species based on combined Sentinel-1 and Sentinel-2 data. <em>Remote sensing of environment</em>, <em>227</em>, 61-73. https://doi.org/10.1016/j.rse.2019.03.025 https://www.sciencedirect.com/science/article/abs/pii/S0034425719301166
DOI: 10.5281/zenodo.7565490
title: Ulex (Ulex europaeus) UAV imagery and reference data (raw)

description: This dataset includes drone (Uncrewed Aerial Vehicles, UAV) orthomosaics (RGB, n =4) of Ulex europaeus acquired between 2016-2017 in Chile. The resolution (ground sampling distance) of the orthomosaics amounts to approx. 3-4 cm. The orthomosaics are partially labelled (polygon shapefiles) in terms of Ulex cover. Each orthomosaic comes with an AOI (area of interest, polygon shapefile) that indicates the areas where the labelling was performed. Within the extent of this AOI Ulex canopies are assumed to be completely delineated (by visual interpretation). For visual inspection of the imagery we recommend to generate image pyramids since the image data has a very high spatial resolution. Details on the dataset are mentioned in the corresponding publication: Kattenborn, T., Lopatin, J., Förster, M., Braun, A. C., & Fassnacht, F. E. (2019). UAV data as alternative to field sampling to map woody invasive species based on combined Sentinel-1 and Sentinel-2 data. <em>Remote sensing of environment</em>, <em>227</em>, 61-73. https://doi.org/10.1016/j.rse.2019.03.025 https://www.sciencedirect.com/science/article/abs/pii/S0034425719301166