cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20046908
title: Supplementary Material for: Diet-Induced Obesity Disrupts Histamine-Dependent Oleoylethanolamide Signaling in the Mouse Liver

description: <b><i>Introduction:</i></b> Previous work suggests the existence of a paracrine signaling mechanism in which histamine released from visceral mast cells into the portal circulation contributes to fasting-induced ketogenesis by stimulating biosynthesis of the endogenous high-affinity PPAR-α agonist oleoylethanolamide (OEA). <b><i>Methods:</i></b> Male C57Bl/6J mice were rendered obese by exposure to a high-fat diet (HFD; 60% fat). We measured histamine, OEA, and other fatty-acid ethanolamides by liquid-chromatography/mass spectrometry, gene transcription by RT-PCR, protein expression by ELISA, neutral lipid accumulation in the liver using Red Oil O and BODIPY staining, and collagen levels using picrosirius red staining. <b><i>Results:</i></b> Long-term exposure to HFD suppressed both fasting-induced histamine release into portal blood and histamine-dependent OEA production in the liver. Additionally, subchronic OEA administration reduced lipid accumulation, inflammatory responses, and fibrosis in the liver of HFD-exposed mice. <b><i>Discussion:</i></b> The results suggest that disruption of histamine-dependent OEA signaling in the liver might contribute to pathology in obesity-associated liver steatosis.
DOI: 10.6084/m9.figshare.20046908.v1
title: Supplementary Material for: Diet-Induced Obesity Disrupts Histamine-Dependent Oleoylethanolamide Signaling in the Mouse Liver

description: <b><i>Introduction:</i></b> Previous work suggests the existence of a paracrine signaling mechanism in which histamine released from visceral mast cells into the portal circulation contributes to fasting-induced ketogenesis by stimulating biosynthesis of the endogenous high-affinity PPAR-α agonist oleoylethanolamide (OEA). <b><i>Methods:</i></b> Male C57Bl/6J mice were rendered obese by exposure to a high-fat diet (HFD; 60% fat). We measured histamine, OEA, and other fatty-acid ethanolamides by liquid-chromatography/mass spectrometry, gene transcription by RT-PCR, protein expression by ELISA, neutral lipid accumulation in the liver using Red Oil O and BODIPY staining, and collagen levels using picrosirius red staining. <b><i>Results:</i></b> Long-term exposure to HFD suppressed both fasting-induced histamine release into portal blood and histamine-dependent OEA production in the liver. Additionally, subchronic OEA administration reduced lipid accumulation, inflammatory responses, and fibrosis in the liver of HFD-exposed mice. <b><i>Discussion:</i></b> The results suggest that disruption of histamine-dependent OEA signaling in the liver might contribute to pathology in obesity-associated liver steatosis.
DOI: 10.6084/m9.figshare.20046929
title: Additional file 1 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 1. Participant co-morbidities: provides sufficient statistics and statistical testing for co-morbidities experienced by more than 3 participants.
DOI: 10.6084/m9.figshare.20046929.v1
title: Additional file 1 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 1. Participant co-morbidities: provides sufficient statistics and statistical testing for co-morbidities experienced by more than 3 participants.
DOI: 10.6084/m9.figshare.20046932.v1
title: Additional file 2 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 2. Ecological diversity analyses for 16S rRNA gene amplicon sequencing data, and ordination analyses for metabolomic data: provides the sufficient statistics and statistical testing for alpha and beta diversity analyses for 16S rRNA gene sequencing data, as well as analogous information for the ordination analyses of the metabolomics data.
DOI: 10.6084/m9.figshare.20046935.v1
title: Additional file 3 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 3. Univariate statistical analyses for 16S rRNA gene amplicon sequencing, short-chain fatty acids, and metabolomic data: provides the results of univariates statistical analyses on ASVs, metabolites, and SCFAs.
DOI: 10.6084/m9.figshare.20046932
title: Additional file 2 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 2. Ecological diversity analyses for 16S rRNA gene amplicon sequencing data, and ordination analyses for metabolomic data: provides the sufficient statistics and statistical testing for alpha and beta diversity analyses for 16S rRNA gene sequencing data, as well as analogous information for the ordination analyses of the metabolomics data.
DOI: 10.6084/m9.figshare.20046935
title: Additional file 3 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 3. Univariate statistical analyses for 16S rRNA gene amplicon sequencing, short-chain fatty acids, and metabolomic data: provides the results of univariates statistical analyses on ASVs, metabolites, and SCFAs.
DOI: 10.6084/m9.figshare.20046938
title: Additional file 4 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 4. Taxonomic enrichment analyses for sequencing data, and pathway enrichment analyses for metabolomic data: provides the results of enrichment analyses done to determine if the set of features found to be significant in univariate analysis were significantly enriched for a bacterial family or metabolite category.
DOI: 10.6084/m9.figshare.20046938.v1
title: Additional file 4 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 4. Taxonomic enrichment analyses for sequencing data, and pathway enrichment analyses for metabolomic data: provides the results of enrichment analyses done to determine if the set of features found to be significant in univariate analysis were significantly enriched for a bacterial family or metabolite category.
DOI: 10.6084/m9.figshare.20046941.v1
title: Additional file 5 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 5. Predictive modeling results: provides the results of the predictive analyses run for each data source at pre-treatment, week 1, and week 2.
DOI: 10.6084/m9.figshare.20046941
title: Additional file 5 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 5. Predictive modeling results: provides the results of the predictive analyses run for each data source at pre-treatment, week 1, and week 2.
DOI: 10.6084/m9.figshare.20046947.v1
title: Additional file 6 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 6. Predictive modeling feature analysis: provides the features identified in predictive analyses that were found to affect the odds of recurrence in logistic regression or cox regression, or to be identified as important features in random forest analyses.
DOI: 10.6084/m9.figshare.20046947
title: Additional file 6 of Gut metabolites predict Clostridioides difficile recurrence

description: Additional file 6. Predictive modeling feature analysis: provides the features identified in predictive analyses that were found to affect the odds of recurrence in logistic regression or cox regression, or to be identified as important features in random forest analyses.
DOI: 10.6084/m9.figshare.20046962
title: Additional file 1 of Novel γδ T cell-based prognostic signature to estimate risk and aid therapy in hepatocellular carcinoma

description: Additional file 1.
DOI: 10.6084/m9.figshare.20046962.v1
title: Additional file 1 of Novel γδ T cell-based prognostic signature to estimate risk and aid therapy in hepatocellular carcinoma

description: Additional file 1.
DOI: 10.6084/m9.figshare.20046972
title: Additional file 1 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 1.
DOI: 10.6084/m9.figshare.20046972.v1
title: Additional file 1 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 1.
DOI: 10.6084/m9.figshare.20046975
title: Additional file 2 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 2.
DOI: 10.6084/m9.figshare.20046975.v1
title: Additional file 2 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 2.
DOI: 10.6084/m9.figshare.20046981
title: Additional file 4 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 4.
DOI: 10.6084/m9.figshare.20046981.v1
title: Additional file 4 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 4.
DOI: 10.6084/m9.figshare.20046984
title: Additional file 5 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 5.
DOI: 10.6084/m9.figshare.20046984.v1
title: Additional file 5 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 5.
DOI: 10.6084/m9.figshare.20046987
title: Additional file 6 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 6.
DOI: 10.6084/m9.figshare.20046987.v1
title: Additional file 6 of Genome-wide identification and expression analysis of the R2R3-MYB gene family in tobacco (Nicotiana tabacum L.)

description: Additional file 6.
DOI: 10.6084/m9.figshare.20046983
title: Additional file 2 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 2 List of the inferred CONET vertices for xenograft SA501X3F breast cancer sample.
DOI: 10.6084/m9.figshare.20046986
title: Additional file 3 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 3 List of the inferred CONET vertices for TN2 invasive ductal carcinoma sample.
DOI: 10.6084/m9.figshare.20046983.v1
title: Additional file 2 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 2 List of the inferred CONET vertices for xenograft SA501X3F breast cancer sample.
DOI: 10.6084/m9.figshare.20046986.v1
title: Additional file 3 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 3 List of the inferred CONET vertices for TN2 invasive ductal carcinoma sample.
DOI: 10.6084/m9.figshare.20046989
title: Additional file 4 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 4 Table S1 Assessment of CONET accuracy and computational time for increasing number of cells.
DOI: 10.6084/m9.figshare.20046989.v1
title: Additional file 4 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 4 Table S1 Assessment of CONET accuracy and computational time for increasing number of cells.
DOI: 10.6084/m9.figshare.20046992
title: Additional file 5 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 5 Table S2 Average estimated parameters for different versions of CONET on synthetic data with high noise, for runs shown in Fig. S12.
DOI: 10.6084/m9.figshare.20046992.v1
title: Additional file 5 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 5 Table S2 Average estimated parameters for different versions of CONET on synthetic data with high noise, for runs shown in Fig. S12.
DOI: 10.6084/m9.figshare.20046995
title: Additional file 6 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 6 Table S3 Assessment of CONET inference for biological data.
DOI: 10.6084/m9.figshare.20046995.v1
title: Additional file 6 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 6 Table S3 Assessment of CONET inference for biological data.
DOI: 10.6084/m9.figshare.20046998
title: Additional file 7 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 7 Table S4 Assessment of CN calling for biological data.
DOI: 10.6084/m9.figshare.20046998.v1
title: Additional file 7 of CONET: copy number event tree model of evolutionary tumor history for single-cell data

description: Additional file 7 Table S4 Assessment of CN calling for biological data.
DOI: 10.6084/m9.figshare.20047007
title: Additional file 1 of An epigenome-wide study of DNA methylation profiles and lung function among American Indians in the Strong Heart Study

description: Additional file 1. Table S1. DMPs selected by elastic-net for FEV1. Table S2. DMPs selected by elastic-net for FVC. Table S3. DMPs selected by elastic-net for FEV1/FVC. Table S4. DMPs selected by elastic-net for airflow limitation. Table S5. DMPs selected by elastic-net for restrictive pattern. Table S6. Protein-protein interaction network nodes for airflow limitation. Table S7. Protein-protein interaction network edges for airflow limitation. Table S8. Protein-protein interaction network nodes for restrictive pattern. Table S9. Protein-protein interaction network edges for restrictive pattern. Table S10. Protein-protein interaction network enrichment analysis for airflow limitation. Table S11. Protein-protein interaction network enrichment analysis for restrictive pattern. Table S12. Toppcluster enrichment for FEV1, FVC, FEV1/FVC, airflow limitation and restrictive pattern. Table S13. DMPs selected by elastic-net for airflow limitation restricted to self-reported never smokers. Table S14. DMPs selected by elastic-net for airflow limitation restricted to never smokers as reported by EpiSmokEr.
DOI: 10.6084/m9.figshare.20047007.v1
title: Additional file 1 of An epigenome-wide study of DNA methylation profiles and lung function among American Indians in the Strong Heart Study

description: Additional file 1. Table S1. DMPs selected by elastic-net for FEV1. Table S2. DMPs selected by elastic-net for FVC. Table S3. DMPs selected by elastic-net for FEV1/FVC. Table S4. DMPs selected by elastic-net for airflow limitation. Table S5. DMPs selected by elastic-net for restrictive pattern. Table S6. Protein-protein interaction network nodes for airflow limitation. Table S7. Protein-protein interaction network edges for airflow limitation. Table S8. Protein-protein interaction network nodes for restrictive pattern. Table S9. Protein-protein interaction network edges for restrictive pattern. Table S10. Protein-protein interaction network enrichment analysis for airflow limitation. Table S11. Protein-protein interaction network enrichment analysis for restrictive pattern. Table S12. Toppcluster enrichment for FEV1, FVC, FEV1/FVC, airflow limitation and restrictive pattern. Table S13. DMPs selected by elastic-net for airflow limitation restricted to self-reported never smokers. Table S14. DMPs selected by elastic-net for airflow limitation restricted to never smokers as reported by EpiSmokEr.
DOI: 10.6084/m9.figshare.20046830
title: test

description: test
DOI: 10.6084/m9.figshare.20046830.v1
title: test

description: test
DOI: 10.26186/146429
title: The Northwest Offshore Otway Basin Well Folio

description: The Otway Basin is a northwest-southeast trending rift basin which spans from onshore Victoria and South Australia into the deep-water offshore. The prospective supersequences within the basin are largely of Cretaceous age which host three possible petroleum systems (Austral 1, 2 and 3). While there is production from onshore depocentres, and the inboard Shipwreck Trough, the majority of the offshore basin remains underexplored. Recent regional studies have highlighted the need for further work across the underexplored parts of the basin and here we focus on the offshore northwest Otway Basin, integrating reinterpreted historical well data, newly acquired and recently reprocessed seismic data. This new Well Folio consists of composite logs and supporting data which includes interpreted lithologies, petrophysical analyses, the analysis of historic organic geochemistry and organic petrology. In addition, updated well markers are provided based on seismic interpretation and new biostratigraphy in key wells. This integrated study provides the basis for renewed prospectivity assessment in the northwest offshore portion of the Otway Basin.
DOI: 10.5281/zenodo.6361273
title: Compatibility

description: not open
DOI: 10.5281/zenodo.6361272
title: Compatibility

description: not open
DOI: 10.6084/m9.figshare.20047037
title: test-2

description: test
DOI: 10.6084/m9.figshare.20047037.v1
title: test-2

description: test
DOI: 10.34740/kaggle/dsv/3774614
title: Russian Invasion of Ukraine
DOI: 10.34658/rdb.uuoqvd/jiikmi
title: ERT_Vis_1.mlapp

description: :unav
DOI: 10.34658/rdb.uuoqvd/yxcyg1
title: Reference_Data_demo.txt

description: :unav
DOI: 10.34658/rdb.uuoqvd/bsuiiv
title: Experimental_Data_demo.txt

description: :unav
DOI: 10.34658/rdb.uuoqvd
title: Monitoring and Visualization of Crystallization Processes Using Electrical Resistance Tomography: CaCO3 and Sucrose Crystallization Case Studies

description: Data linked to the article published in the Sensors journal
DOI: 10.5281/zenodo.6630337
title: Global coarse and fine mode aerosol optical depth (cAOD, fAOD) from 2001 to 2020

description: Coarse and fine mode aerosol optical depth (cAOD, fAOD) is critical for understanding the impact of different particle sizes on climate. Currently, the limited data length and high uncertainty of satellite products impair the applicability of cAOD and fAOD for climate research. Here, we propose a spatio-temporal co-action deep learning model (SCAM) for the retrieval of global land cAOD and fAOD (500 nm) from 2001 to 2020, at daily temporal resolution and 1° spatial resolution. The cAOD and fAOD products are uploaded as Geotiff format, stretched from -89.5° to 89.5° latitude and from -179.5° to 179.5° longitude. In some certain days the products might be inavailable, due to the missing MODIS satellite data used for calculating cAOD and fAOD.
DOI: 10.5281/zenodo.6630336
title: Global coarse and fine mode aerosol optical depth (cAOD, fAOD) from 2001 to 2020

description: Coarse and fine mode aerosol optical depth (cAOD, fAOD) is critical for understanding the impact of different particle sizes on climate. Currently, the limited data length and high uncertainty of satellite products impair the applicability of cAOD and fAOD for climate research. Here, we propose a spatio-temporal co-action deep learning model (SCAM) for the retrieval of global land cAOD and fAOD (500 nm) from 2001 to 2020, at daily temporal resolution and 1° spatial resolution. The cAOD and fAOD products are uploaded as Geotiff format, stretched from -89.5° to 89.5° latitude and from -179.5° to 179.5° longitude. In some certain days the products might be inavailable, due to the missing MODIS satellite data used for calculating cAOD and fAOD.
DOI: 10.6084/m9.figshare.16850994
title: Monitoring basal autophagy in the retina utilizing CAG-mRFP-EGFP-MAP1LC3B reporter mouse: technical and biological considerations

description: We describe the utility of a tandem-tagged autophagy reporter mouse model (CAG-RFP-EGFP-MAP1LC3B) in investigating basal macroautophagic/autophagic flux in the neural retina. Western blot, <i>in situ</i> hybridization, immunohistochemistry, and confocal microscopy showed that CAG promoter-driven expression of RFP-EGFP-MAP1LC3B increased “cytosolic” RFP-EGFP-LC3B-I levels, whereas RFP-EGFP-LC3B-II decorates true phagosomes. We verified that the electroretinographic (ERG) responses of tandem-tagged LC3B mice were comparable to those of age-matched controls. Optimized microscope settings detected lipofuscin autofluorescence in retinas of <i>abca4<sup>−/-</sup></i> mice. The majority of retinal phagosomes in the reporter mice exhibited only RFP (not EGFP) fluorescence, suggesting rapid maturation of phagosomes. Only ~1.5% of the total phagosome population was EGFP-labeled; RFP-labeled (mature) phagosomes colocalized with lysosomal markers LAMP2 and CTSD. In the outer retina, phagosome sizes were as follows (in µm<sup>2</sup>, ave ± SEM): RPE, 0.309 ± 0.015; photoreceptor inner segment-myoid, 0.544 ± 0.031; and outer nuclear layer, 0.429 ± 0.011. Detection of RPE phagosomes by fluorescence microscopy is challenging, due to the presence of melanin. Increased lipofuscin autofluorescence, such as observed in the <i>abca4<sup>−/-</sup></i> mouse model of Stargardt disease, is a strong confounding factor when attempting to study autophagy in the RPE. In addition to RPE and photoreceptor cells, phagosomes were detected in inner retinal cell types, microglia, astrocytes, and endothelial cells. We conclude that the tandem-tagged LC3B mouse model serves as a useful system for studying autophagy in the retina. This utility, however, is dependent upon several technical and biological factors, including microscope settings, transgene expression, choice of fluorophores, and lipofuscin autofluorescence. <b>Abbreviations</b>: ACTB: actin, beta; AIF1: allograft inflammatory factor 1; ATG: autophagy related; CTSD: cathepsin D; DAPI: (4’,6-diamido-2-phenylindole); DIC: differential interference contrast; EGFP: enhanced green fluorescent protein; ELM: external limiting membrane; ERG: electroretinography; GCL: ganglion cell layer; GLUL: glutamine-ammonia ligase (glutamine synthetase); INL: inner nuclear layer; IS-E/M: inner segment – ellipsoid/myoid; ISH: <i>in situ hybridization</i>; LAMP2: lysosomal-associated membrane protein 2; L.I.: laser Intensity; MAP1LC3B: microtubule-associated protein 1 light chain 3 beta; MTOR: mechanistic target of rapamycin kinase; O.C.T.: optimal cutting temperature; OS: outer segment; ONL: outer nuclear layer; PE: phosphatidylethanolamine; RFP: red fluorescent protein; R.O.I.: region of interest; RPE: retinal pigment epithelium