cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/112468
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE13-16 using a Trimble 4000DL instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/120581
title: Fluorometer data collected during research cruise PE13-17 using a Turner 10-AU instrument system onboard the platform RV Pelican
DOI: 10.6084/m9.figshare.7358144
title: Supplementary Material for: Novel Role of p53 in Septic Immunosuppression: Involvement in Loss and Dysfunction of CD4<sup>+</sup> T Lymphocytes

description: <b><i>Background/Aims:</i></b> Immunosuppression frequently occurs during the development of sepsis and is closely associated with poor outcome. Characteristics of immunosuppressive CD4<sup>+</sup> T lymphocytes in sepsis have been reported to include dramatic cell loss and inactivation. p53 acts as a pivotal transcription factor in regulating cell proliferation and apoptosis, which control tumorigenesis. However, few studies have investigated the universal role of p53 in immune cells, especially in the development of sepsis. <b><i>Methods:</i></b> A mouse model of sepsis was produced by cecal ligation and puncture (CLP), and isolated splenic CD4<sup>+</sup> T cells or Jurkat cells were exposed to lipopolysaccharide (LPS) stimulation <i>in vitro</i>. We used genetic knockout (p53<sup>-/-</sup>) mice or the specific inhibitor pifithrin-α (PFT) to investigate the regulatory mechanisms of p53. Cell proliferation ability was assessed using a Cell Counting Kit-8 assay, and apoptotic cells were stained with annexin V/propidium iodide and then analyzed using a FACScan flow cytometer. Protein and mRNA expression levels were measured by western blotting and real-time PCR, and cytokine levels in culture supernatants were determined by enzyme-linked immunosorbent assay. <b><i>Results:</i></b> Splenic CD4<sup>+</sup> T lymphocytes from CLP mice expressed gradually elevated p53 mRNA and protein levels, which resulted in extracellular regulated protein kinase 1/2 inactivation and expression of apoptotic molecules. Specific inhibition of p53 by PFT or genetic knockout (p53<sup>-/-</sup>) maintained CD4<sup>+</sup> T lymphocyte homeostasis, as indicated by protection from cell loss and restoration of immune function. A medium dose of PFT improved the survival rate of mice, while mortality rate showed only a slight improvement in p53<sup>-/-</sup> mice compared with wild-type mice. The <i>in vitro</i> responses to LPS were consistent with these results, and upregulation of p53 clearly affected the proliferation, apoptosis, and immune dysfunction of CD4<sup>+</sup> T lymphocytes. In addition, we confirmed the regulatory effect of p53 in Jurkat cells, and inhibition of p53 by either inhibition or short hairpin RNA transduction markedly protected cells from LPS stimulation. <b><i>Conclusion:</i></b> Elevation of p53 in T lymphocytes during sepsis or endotoxin challenge might be responsible for inhibiting cell proliferation and enhancing both apoptosis and immune dysfunction of T cells.
DOI: 10.7284/112473
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE13-17 using a Trimble 4000DL instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112281
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise PE13-19 using a RDI OS-75 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7358129
title: Patients’ perceptions of faecal calprotectin testing in inflammatory bowel disease: results from a prospective multicentre patient-based survey*

description: <b>Introduction:</b> Despite its success, there appears to be practical issues with Faecal Calprotectin (FC) testing in Inflammatory Bowel Diseases (IBD), including sample collection, delivery and processing delays. Patients’ perception and barriers to FC testing are yet to be explored in clinical practice. <b>Method:</b> A prospective patient survey was undertaken at IBD units in UK, Europe and Australia. A 9-point patient-based questionnaire was completed in clinic and included demographics, previous FC testing and FC sample difficulty rating score. Predictors of testing difficulty were derived using multivariable logistic regression analysis. <b>Results:</b> A total of 585 patients with IBD completed the survey; 306 males with a median age of 43 years (IQR: 31–54). There were 446 patients (76%) who had prior FC testing experience. Of these, 37% (<i>n</i> = 165) rated FC testing difficult; ‘sample collection’ (<i>n</i> = 106; 67%) being the most common reason reported. Multivariable regression analysis identified age &lt;49 years (odds ratio (OR): 2.5, CI:1.6-4.0), disease duration &lt;35 months (OR 1.4, CI:0.9–2.1) and testing location (UK centre: OR 1.9, CI:1.2-3.1) as predictors of a difficult FC rating score. <b>Conclusions:</b> A total of 37% of patients find FC testing challenging, in particular those aged &lt;49 years, disease duration &lt;35 months. Further studies understanding and addressing these practical issues may aid higher FC uptake in clinic.
DOI: 10.6084/m9.figshare.7358126
title: Supplementary Material for: Association of Dopamine Beta-Hydroxylase Polymorphisms with Alzheimer’s Disease, Parkinson’s Disease and Schizophrenia: Evidence Based on Currently Available Loci

description: <b><i>Background/Aims:</i></b> The neuropathies Alzheimer’s disease (AD), Parkinson’s disease (PD), and schizophrenia (SCZ) have different pathological mechanisms but share some common neurodegenerative features, such as gradual loss of neuronal structure and function. Dopamine beta-hydroxylase (DBH), a gene located in the chromosomal region 9q34, plays a crucial role in the process of converting dopamine into norepinephrine (NE). Several case–control studies have reported this pathway in the pathogenesis of AD, PD and SCZ. However, the results are controversial. <b><i>Methods</i></b>: We conducted a meta-analysis to estimate the associations between polymorphisms in this gene and AD, PD and SCZ. Seven databases (PubMed, Embase, Web of Science, China National Knowledge Infrastructure (CNKI), Wan Fang, SZ Gene and AD Gene) were searched to identify eligible studies. Odds ratios (ORs) with 95% confidence intervals (CIs) were calculated to evaluate the associations of DBH variants with AD, PD and SCZ susceptibility. <b><i>Results:</i></b> A total of 41 studies involving 10506 cases and 15083 controls were included in our meta-analysis. The analysis results indicated that a lack of association (<i>P</i> &gt; 0.05) was observed between most of the currently available DBH polymorphisms and the neurological diseases AD, PD and SCZ; however, the DBH rs1611131 (allelic model: OR = 0.889, 95% CI: 0.815 - 0.969; dominant model: OR = 0.868, 95% CI: 0.778 - 0.968), rs2283123 (allelic model: OR = 0.285, 95% CI: 0.095 - 0.862; dominant model: OR = 0.290, 95% CI: 0.094 -0.897) and rs2007153 (allelic model: OR = 2.196, 95% CI: 1.506 - 3.200; dominant model: OR = 2.985, 95% CI: 1.465 - 6.084; recessive model: OR = 2.729, 95% CI: 1.548 - 4.812) variants were shown to be significantly associated with the risk of AD (the former variant) and SCZ (the latter two variants). <b><i>Conclusion:</i></b> On the one hand, most DBH polymorphisms from the currently available loci showed no linkage to AD, PD or SCZ, indicating the lower possibility of these loci serving as genetic markers of the risks of diseases with neurodegenerative characteristics. On the other hand, the DBH rs2283123 and rs2007153 polymorphisms could have opposite effects on SCZ development in Caucasians and be more specific in Croatians, while the DBH rs1611131 minor variant might have a protective effect on AD risk in Caucasians; however, these results require further study.
DOI: 10.6084/m9.figshare.7358129.v1
title: Patients’ perceptions of faecal calprotectin testing in inflammatory bowel disease: results from a prospective multicentre patient-based survey*

description: <b>Introduction:</b> Despite its success, there appears to be practical issues with Faecal Calprotectin (FC) testing in Inflammatory Bowel Diseases (IBD), including sample collection, delivery and processing delays. Patients’ perception and barriers to FC testing are yet to be explored in clinical practice. <b>Method:</b> A prospective patient survey was undertaken at IBD units in UK, Europe and Australia. A 9-point patient-based questionnaire was completed in clinic and included demographics, previous FC testing and FC sample difficulty rating score. Predictors of testing difficulty were derived using multivariable logistic regression analysis. <b>Results:</b> A total of 585 patients with IBD completed the survey; 306 males with a median age of 43 years (IQR: 31–54). There were 446 patients (76%) who had prior FC testing experience. Of these, 37% (<i>n</i> = 165) rated FC testing difficult; ‘sample collection’ (<i>n</i> = 106; 67%) being the most common reason reported. Multivariable regression analysis identified age &lt;49 years (odds ratio (OR): 2.5, CI:1.6-4.0), disease duration &lt;35 months (OR 1.4, CI:0.9–2.1) and testing location (UK centre: OR 1.9, CI:1.2-3.1) as predictors of a difficult FC rating score. <b>Conclusions:</b> A total of 37% of patients find FC testing challenging, in particular those aged &lt;49 years, disease duration &lt;35 months. Further studies understanding and addressing these practical issues may aid higher FC uptake in clinic.
DOI: 10.7284/116476
title: Barometer data collected during research cruise PE13-19 using a Vaisala PTB101B instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7358123
title: Shorinola et al Supplementary Figure and Table

description: The files contains supplementary information on a manuscript describing the screen for novel seminal root number phenotypes in the exome-sequenced hexaploid mutant wheat population.
DOI: 10.6084/m9.figshare.7358126.v1
title: Supplementary Material for: Association of Dopamine Beta-Hydroxylase Polymorphisms with Alzheimer’s Disease, Parkinson’s Disease and Schizophrenia: Evidence Based on Currently Available Loci

description: <b><i>Background/Aims:</i></b> The neuropathies Alzheimer’s disease (AD), Parkinson’s disease (PD), and schizophrenia (SCZ) have different pathological mechanisms but share some common neurodegenerative features, such as gradual loss of neuronal structure and function. Dopamine beta-hydroxylase (DBH), a gene located in the chromosomal region 9q34, plays a crucial role in the process of converting dopamine into norepinephrine (NE). Several case–control studies have reported this pathway in the pathogenesis of AD, PD and SCZ. However, the results are controversial. <b><i>Methods</i></b>: We conducted a meta-analysis to estimate the associations between polymorphisms in this gene and AD, PD and SCZ. Seven databases (PubMed, Embase, Web of Science, China National Knowledge Infrastructure (CNKI), Wan Fang, SZ Gene and AD Gene) were searched to identify eligible studies. Odds ratios (ORs) with 95% confidence intervals (CIs) were calculated to evaluate the associations of DBH variants with AD, PD and SCZ susceptibility. <b><i>Results:</i></b> A total of 41 studies involving 10506 cases and 15083 controls were included in our meta-analysis. The analysis results indicated that a lack of association (<i>P</i> &gt; 0.05) was observed between most of the currently available DBH polymorphisms and the neurological diseases AD, PD and SCZ; however, the DBH rs1611131 (allelic model: OR = 0.889, 95% CI: 0.815 - 0.969; dominant model: OR = 0.868, 95% CI: 0.778 - 0.968), rs2283123 (allelic model: OR = 0.285, 95% CI: 0.095 - 0.862; dominant model: OR = 0.290, 95% CI: 0.094 -0.897) and rs2007153 (allelic model: OR = 2.196, 95% CI: 1.506 - 3.200; dominant model: OR = 2.985, 95% CI: 1.465 - 6.084; recessive model: OR = 2.729, 95% CI: 1.548 - 4.812) variants were shown to be significantly associated with the risk of AD (the former variant) and SCZ (the latter two variants). <b><i>Conclusion:</i></b> On the one hand, most DBH polymorphisms from the currently available loci showed no linkage to AD, PD or SCZ, indicating the lower possibility of these loci serving as genetic markers of the risks of diseases with neurodegenerative characteristics. On the other hand, the DBH rs2283123 and rs2007153 polymorphisms could have opposite effects on SCZ development in Caucasians and be more specific in Croatians, while the DBH rs1611131 minor variant might have a protective effect on AD risk in Caucasians; however, these results require further study.
DOI: 10.6084/m9.figshare.7358123.v1
title: Shorinola et al Supplementary Figure and Table

description: The files contains supplementary information on a manuscript describing the screen for novel seminal root number phenotypes in the exome-sequenced hexaploid mutant wheat population.
DOI: 10.7284/124619
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PE13-19 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7358117
title: Identification of airborne pollen allergens from two avenue trees of India

description: An attempt has been made to detect airborne pollen of <i>Lagerstroemia speciosa</i> (LS) and S<i>pathodea campanulata</i> (SC) – two common avenue trees of India as potential sources of aeroallergens and also to identify the major IgE-reactive components present in them. The airborne pollen concentration was assessed using a Burkard sampler. A detailed questionnaire on clinical data of 1490 patients was recorded based on hospital data. We assessed the allergenicity of pollen by <i>in vivo</i> and <i>in vitro</i> tests. The correlation among meteorological factors, pollen seasons and allergenic potency of patients was assessed by multiple regression analysis. The sensitivity of patients to pollen antigens was highly correlated with pollen seasons. In SDS–PAGE, 15 protein bands were detected from LS pollen, while 14 bands from SC. The IgE-specific immunoblotting with patients’ sera allergic to LS displayed five major allergens, while four major allergens were detected from SC. This would be the first report from India to prove the allergenic potentiality of airborne pollen of these two common avenue trees of India.
DOI: 10.6084/m9.figshare.7358117.v1
title: Identification of airborne pollen allergens from two avenue trees of India

description: An attempt has been made to detect airborne pollen of <i>Lagerstroemia speciosa</i> (LS) and S<i>pathodea campanulata</i> (SC) – two common avenue trees of India as potential sources of aeroallergens and also to identify the major IgE-reactive components present in them. The airborne pollen concentration was assessed using a Burkard sampler. A detailed questionnaire on clinical data of 1490 patients was recorded based on hospital data. We assessed the allergenicity of pollen by <i>in vivo</i> and <i>in vitro</i> tests. The correlation among meteorological factors, pollen seasons and allergenic potency of patients was assessed by multiple regression analysis. The sensitivity of patients to pollen antigens was highly correlated with pollen seasons. In SDS–PAGE, 15 protein bands were detected from LS pollen, while 14 bands from SC. The IgE-specific immunoblotting with patients’ sera allergic to LS displayed five major allergens, while four major allergens were detected from SC. This would be the first report from India to prove the allergenic potentiality of airborne pollen of these two common avenue trees of India.
DOI: 10.7284/112403
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE13-19 using a Trimble 4000DL instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7358069
title: Supplementary Material for: Cancer-Associated Fibroblasts Accelerate Malignant Progression of Non-Small Cell Lung Cancer via Connexin 43-Formed Unidirectional Gap Junctional Intercellular Communication

description: <b><i>Background/Aims:</i></b> Gap junctions, which are assembled by connexins, can directly connect the cytoplasm of adjacent cells and enable gap junctional intercellular communication (GJIC) as well as metabolic coupling between neighboring cells. Here, we investigated the role of connexin 43 (Cx43) and its derived GJIC in the interplay between non-small cell lung cancer (NSCLC) cells and cancer-associated fibroblasts (CAFs). <b><i>Methods:</i></b> CAFs and NSCLC cells were co-cultured with direct contact and separated using flow cytometry. Glucose uptake, lactate production, and the expression and activity of PKM-2 and LDH-A in sorted CAFs were measured by a colorimetric assay, western blotting, and enzyme-linked immunosorbent assay (ELISA). Meanwhile, E-cadherin and N-cadherin expression and the migration and invasion of sorted NSCLC cells were detected by western blotting, wound width, and Transwell assays. Pyruvate, acetyl-CoA, and citric acid levels, ATP levels, and LDH-B and α-KG activity in sorted NSCLC cells were determined by a colorimetric or fluorometric assay and ELISA, respectively. Functional GJIC between cells and the subcellular location of connexins were detected by a “Parachute” assay and immunofluorescence. Levels of α-SMA, Cx43, and LDH-B in tissue from patients with NSCLC were determined by immunohistochemistry. <b><i>Results:</i></b> Cx43 accumulated in the plasma membrane, which favored the assembly of asymmetric unidirectional GJIC from CAFs to NSCLC cells. CAFs underwent increased aerobic glycolysis and promoted the epithelial-mesenchymal transition, migration, and invasion of NSCLC cells. In contrast, NSCLC cells experienced enhanced oxidative phosphorylation upon CAF stimulation, with an increase in ATP generation and thereby activation of the PI3K/Akt and MAPK/ERK pathways. Metabolic coupling between CAFs and NSCLC cells was under the strict control of Cx43-formed unidirectional GJIC. Patients with high tri-expression of α-SMA, Cx43, and LDH-B had the shortest overall survival and relapse-free survival compared with those with individual overexpression or high bi-expression. <b><i>Conclusion:</i></b> Cx43-formed unidirectional GJIC plays a critical role in mediating close metabolic cooperation between CAFs and NSCLC cells to support the malignant progression of NSCLC.
DOI: 10.6084/m9.figshare.7358069.v1
title: Supplementary Material for: Cancer-Associated Fibroblasts Accelerate Malignant Progression of Non-Small Cell Lung Cancer via Connexin 43-Formed Unidirectional Gap Junctional Intercellular Communication

description: <b><i>Background/Aims:</i></b> Gap junctions, which are assembled by connexins, can directly connect the cytoplasm of adjacent cells and enable gap junctional intercellular communication (GJIC) as well as metabolic coupling between neighboring cells. Here, we investigated the role of connexin 43 (Cx43) and its derived GJIC in the interplay between non-small cell lung cancer (NSCLC) cells and cancer-associated fibroblasts (CAFs). <b><i>Methods:</i></b> CAFs and NSCLC cells were co-cultured with direct contact and separated using flow cytometry. Glucose uptake, lactate production, and the expression and activity of PKM-2 and LDH-A in sorted CAFs were measured by a colorimetric assay, western blotting, and enzyme-linked immunosorbent assay (ELISA). Meanwhile, E-cadherin and N-cadherin expression and the migration and invasion of sorted NSCLC cells were detected by western blotting, wound width, and Transwell assays. Pyruvate, acetyl-CoA, and citric acid levels, ATP levels, and LDH-B and α-KG activity in sorted NSCLC cells were determined by a colorimetric or fluorometric assay and ELISA, respectively. Functional GJIC between cells and the subcellular location of connexins were detected by a “Parachute” assay and immunofluorescence. Levels of α-SMA, Cx43, and LDH-B in tissue from patients with NSCLC were determined by immunohistochemistry. <b><i>Results:</i></b> Cx43 accumulated in the plasma membrane, which favored the assembly of asymmetric unidirectional GJIC from CAFs to NSCLC cells. CAFs underwent increased aerobic glycolysis and promoted the epithelial-mesenchymal transition, migration, and invasion of NSCLC cells. In contrast, NSCLC cells experienced enhanced oxidative phosphorylation upon CAF stimulation, with an increase in ATP generation and thereby activation of the PI3K/Akt and MAPK/ERK pathways. Metabolic coupling between CAFs and NSCLC cells was under the strict control of Cx43-formed unidirectional GJIC. Patients with high tri-expression of α-SMA, Cx43, and LDH-B had the shortest overall survival and relapse-free survival compared with those with individual overexpression or high bi-expression. <b><i>Conclusion:</i></b> Cx43-formed unidirectional GJIC plays a critical role in mediating close metabolic cooperation between CAFs and NSCLC cells to support the malignant progression of NSCLC.
DOI: 10.7284/116509
title: Hygrometer data collected during research cruise PE13-19 using a Vaisala HMP45 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/116564
title: Meteorological Station data collected during research cruise PE13-19 using a CWS Magellan instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112289
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise PE13-21 using a RDI OS-75 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7358057
title: Statistical data for the 25 bathymetric cross-section profiles, Mariana Trench

description: 518 observation points, crossing 4 tectonic plates (Mariana, Caroline, Pacific and Philippine). Statistical data (Min, Max, Mean, quantiles), nr of observation points by plates, nr. of points within the igneous volcanic areas, slope angle, slope class, sediment thickness, class of hillshade, aspect degree. Data are received from the QGIS vector layers by spatial analysis.
DOI: 10.7284/116162
title: Anemometer data collected during research cruise PE13-21 using a RM Young 50260 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/116478
title: Barometer data collected during research cruise PE13-21 using a Vaisala PTB101B instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/124621
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise PE13-21 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/120583
title: Fluorometer data collected during research cruise PE13-21 using a Turner 10-AU instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/112405
title: GNSS (Global Navigation Satellite System) data collected during research cruise PE13-21 using a Trimble 4000DL instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/116511
title: Hygrometer data collected during research cruise PE13-21 using a Vaisala HMP45 instrument system onboard the platform RV Pelican

description: Original (unprocessed) data collected during a Field_expedition