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restrictedMay 2023View details →

Dataset related to the article "Cardiac Magnetic Resonance for Prophylactic Implantable-Cardioverter Defibrillator Therapy in Ischemic Cardiomyopathy The DERIVATE–ICM International Registry"

This record contains raw data related to the article “Cardiac Magnetic Resonance for Prophylactic Implantable-Cardioverter Defibrillator Therapy in Ischemic Cardiomyopathy The DERIVATE–ICM International Registry” BACKGROUND Implantable cardioverter-defibrillator (ICD) therapy is the most effective prophylactic strategy against sudden cardiac death (SCD) in patients with ischemic cardiomyopathy (ICM) and left ventricle ejection fraction (LVEF) #35% as detected by transthoracic echocardiograpgy (TTE). This approach has been recently questioned because of the low rate of ICD interventions in patients who received implantation and the not-negligible percentage of patients who experienced SCD despite not fulfilling criteria for implantation. OBJECTIVES The DERIVATE (CarDiac MagnEtic Resonance for Primary Prevention Implantable CardioVerter DebrillAtor ThErapy)-ICM registry (NCT03352648) is an international, multicenter, and multivendor study to assess the net reclassification improvement (NRI) for the indication of ICD implantation by the use of cardiac magnetic resonance (CMR) as compared to TTE in patients with ICM. METHODS A total of 861 patients with ICM (mean age 65 [1] 11 years, 86% male) with chronic heart failure and TTE-LVEF <50% participated. Major adverse arrhythmic cardiac events (MAACE) were the primary endpoints. RESULTS During a median follow-up of 1,054 days, MAACE occurred in 88 (10.2%). Left ventricular end-diastolic volume index (HR: 1.007 [95% CI: 1.000-1.011]; P ¼ 0.05), CMR-LVEF (HR: 0.972 [95% CI: 0.945-0.999]; P ¼ 0.045) and late gadolinium enhancement (LGE) mass (HR: 1.010 [95% CI: 1.002-1.018]; P ¼ 0.015) were independent predictors of MAACE. A multiparametric CMR weighted predictive derived score identifies subjects at high risk for MAACE compared with TTE-LVEF cutoff of 35% with a NRI of 31.7% (P ¼ 0.007). CONCLUSIONS The DERIVATE-ICM registry is a large multicenter registry showing the additional value of CMR to stratify the risk for MAACE in a large cohort of patients with ICM compared with standard of care.

restrictedMay 2023View details →

Data set related to the article: "The Longevity-Associated Variant of BPIFB4 Reduces Senescence in Glioma Cells and in Patients' Lymphocytes Favoring Chemotherapy Efficacy"

Abstract: Glioblastoma (GBM) is the most common primary brain cancer with the median age at diagnosis around 64 years, thus pointing to aging as an important risk factor. Indeed, aging, by increasing the senescence burden, is configured as a negative prognostic factor for GBM stage. Furthermore, several anti-GBM therapies exist, such as temozolomide (TMZ) and etoposide (ETP), that unfortunately trigger senescence and the secretion of proinflammatory senescence-associated secretory phenotype (SASP) factors that are responsible for the improper burst of (i) tumorigenesis, (ii) cancer metastasis, (iii) immunosuppression, and (iv) tissue dysfunction. Thus, adjuvant therapies that limit senescence are urgently needed. The longevity-associated variant (LAV) of the bactericidal/permeability-increasing fold-containing family B member 4 (BPIFB4) gene previously demonstrated a modulatory activity in restoring age-related immune dysfunction and in balancing the low-grade inflammatory status of elderly people. Based on the above findings, we tested LAV- BPIFB4 senotherapeutic effects on senescent glioblastoma U87-MG cells and on T cells from GBM patients. We interrogated SA-β-gal and HLA-E senescence markers, SASP factors, and proliferation and apoptosis assays. The results highlighted a LAV-BPIFB4 remodeling of the senescent phenotype of GBM cells, enhancement of their sensitivity to temozolomide and a selective reduction of the T cells’ senescence from GBM patients. Overall, these findings candidate LAV-BPIFB4 as an adjuvant therapy for GBM.

restrictedMay 2023View details →

Supplementary material for the article: Analysis of transcriptomics data from COVID-19 patients: pilot re-search

Supplementary table 1: Genes affected by COVID-19 infection. Differentially expressed genes analysis by DESeq2 statistical test – whole result table. Comparison of gene expressions between 72 samples from COVID-19 positive patients and 24 samples from healthy donors. Significance was judged by adjusted p-vlaue, with threshold set on 0.1.  Supplementary table 2: Genes affected by severity of COVID-19. Differentially expressed genes analysis by DESeq2 statistical test – whole result table. Comparison of gene expressions between 23 samples from COVID-19 positive patients with severe symptoms and 25 with mild symptoms. Significance was judged by adjusted p-vlaue, with threshold set on 0.1.

restrictedJun 2023View details →

raw dataset related to the article "Patent foramen ovale closure with the Occlutech Figulla Flex II device: A long-term (up to 10-years) follow-up"

Abstract Background. Percutaneous closure represents the first line of treatment In patients with cryptogenic stroke and documented patent foramen ovale (PFO). Scarce data report the long-term outcomes of patients undergoing PFO closure with the Figulla Flex II device (Occlutech, Germany). Methods. Consecutive patients undergoing PFO closure with a Figulla Flex II device at a single, high-volume Institution were included. Baseline clinical and procedural features were collected and patients were followed up for up to 10 years. The device's long-term safety was assessed, as well as mortality, recurrent cerebrovascular events, new-onset atrial fibrillation (AF) and residual shunt. Results. Overall, 442 patients were included. The main indication for PFO closure was cryptogenic stroke/transitory ischemic attack (65.5%), followed by migraine (21.7%), silent lesions at MRI (10.8%), and decompression disease (2.0%). Atrial septal aneurysm was present in 20.8% of cases, Eustachian valve in 9.0%, Chiari network in 19.9%. The most frequently implanted device was the 23/25 mm (49.5% of cases). One procedural failure due to device embolization; in-hospital complications occurred in 15 cases (3.4%; 4 minor access site complications, 11 transient supraventricular tachycardias (SVT)/AF). After a follow-up of 9.2 years, 2 patients suffered recurrent TIA (with no residual R-L shunt detected). A moderate or severe residual shunt was observed in 3 patients after discharge.  Conclusions. Figulla Flex II devices for PFO closure are associated with high procedural success and low incidence of adverse events even at long-term follow-up.

restrictedJun 2023View details →

Dataset related to article "Transcriptomic profile of TNFhigh MAIT cells is linked to B cell response following SARS-CoV-2 vaccination"

This record contains raw data related to article “Transcriptomic profile of TNFhigh MAIT cells is linked to B cell response following SARS-CoV-2 vaccination" ABSTRACT Introduction: Higher frequencies of Mucosal-associated invariant T (MAIT) cells were associated with an increased adaptive response to mRNA BNT162b2 SARS-CoV-2 vaccine, however, the mechanistic insights into this relationship are unknown. Here, we hypothesized that the TNF response of MAIT cells supports B cell activation following SARS-CoV-2 immunization. Methods: To investigate the effects of repeated SARS-CoV-2 vaccinations on the peripheral blood mononuclear cells (PBMCs), we performed a longitudinal single cell (sc)RNA-seq and scTCR-seq analysis of SARS-CoV-2 vaccinated healthy adults with two doses of the Pfizer-BioNTech BNT162b2 mRNA vaccine. Collection of PBMCs was performed 1 day before, 3- and 17-days after prime vaccination, and 3-days and 3-months following vaccine-boost. Based on scRNA/TCR-seq data related to regulatory signals induced by the vaccine, we used computational approaches for the functional pathway enrichment analysis (Reactome), dynamics of the effector cell-polarization (RNA Velocity and CellRank) and cell-cell communication (NicheNet). Results: We identified MAIT cells as an important source of TNF across circulating lymphocytes in response to repeated SARS-CoV-2 BNT162b2 vaccination. The TNFhigh signature of MAIT cells was induced by the second administration of the vaccine. Notably, the increased TNF expression was associated with MAIT cell proliferation and efficient anti-SARS-CoV-2 antibody production. Finally, by decoding the ligand-receptor interactions and incorporating intracellular signaling, we predicted TNFhigh MAIT cell interplay with different B cell subsets. In specific, predicted TNF-mediated activation was selectively directed to conventional switched memory B cells, which are deputed to high-affinity long-term memory. Discussion: Overall, our results indicate that SARS-CoV-2 BNT162b2 vaccination influences MAIT cell frequencies and their transcriptional effector profile with the potential to promote B cell activation. This work also provides a blueprint for the promising use of MAIT cells as cellular adjuvants in mRNA-based vaccines.

Data related to article EFFICACY OF MINDFULNESS ADDED TO TREATMENT AS USUAL IN PATIENTS WITH CHRONIC MIGRAINE AND MEDICATION OVERUSE HEADACHE: A PHASE-III SINGLE-BLIND RANDOMIZED-CONTROLLED TRIAL (THE MIND-CM STUDY) - submitted

DATA ON PATIENTS INCLUDED IN THE MIND-CM STUDY. TWO ARMS (TAU AND TAU+MIND), AND FOUR EVALUATIONS: BASELINE, 3-MONTHS, 6-MONTHS AND 12-MONTS FOLLOW-UP.

Dataset related to the article "Diagnostic accuracy of subendocardial vs. transmural myocardial perfusion defect for the detection of in-stent restenosis or progression of coronary artery disease after percutaneous coronary intervention

This  record contains raw datarelated to the article"Diagnostic accuracy of subendocardial vs. transmural myocardial perfusion defect for the detection of in-stent restenosis or progression of coronary artery disease after percutaneous coronary intervention   Background.  The ADVANTAGE study demonstrated in a cohort of stented patients a diagnostic accuracy of stress myocardial CT perfusion (CTP) significantly higher than that of coronary CT angiography (CCTA) for the detection of in-stent restenosis (ISR) or CAD progression vs. quantitative coronary angiography (QCA). This is a pre-defined subanalysis of the ADVANTAGE aimed at assessing the difference in terms of diagnostic accuracy vs. QCA of a subendocardial vs. a transmural perfusion defect using static stress CTP. Methods. We enrolled consecutive patients who previously underwent coronary stenting and were referred for QCA. All patients underwent stress CTP and rest CTP+CCTA. The diagnostic accuracy of CCTA and CTP were evaluated in territory-based and patient-based analyses. We compared the diagnostic accuracy of “subendocardial” perfusion defect, defined as hypo-enhancement encompassing >25% but <50% of the transmural myocardial thickness within a specific coronary territory vs. “transmural” perfusion defect, defined as hypo-enhancement encompassing >50% of the transmural thickness. Results. In 150 patients (132 men, mean age 65.1±9.1 years), the diagnostic accuracy of subendocardial vs. transmural perfusion defect in a vessel-based analysis was 93.5% vs. 87.7%, respectively (p<0.0001). The sensitivity and specificity of subendocardial vs. transmural defect were 87.9% vs. 46.9% (p<0.001) and 94.9% vs. 97.9% (p=0.004), respectively. In a patient-based analysis, the diagnostic accuracy of the subendocardial vs. transmural approach was 86.6% vs. 68% (p<0.0001). Conclusions. This study shows that detection of a subendocardial perfusion defect as compared to a transmural defect is significantly more accurate to identify coronary territories with ISR or CAD progression.

Partial Dataset related to the article: The prognostic role of right ventricular dysfunction in patients with hypertrophic cardiomyopathy

This record  contain partial raw data related to the article:  The prognostic role of right ventricular dysfunction in patients with hypertrophic cardiomyopathy Hypertrophic cardiomyopathy (HCM) primarily affects the left ventricle (LV) sparing the right ventricle (RV) in vast majority of cases. However, several studies employing CMR have revealed that myocardial hypertrophy may also involve the RV. To assess RV size and function in a large prospectively cohort of HCM patients and to evaluate whether these parameters in association with other MR findings can predict cardiac events. Two participating centers prospectively included patients with known or suspected HCM between 2011 and 2017. CMR studies were performed with three different scanners. Outcome measures were a composite of ventricular arrhythmias, hospitalization for HF and cardiac death. Of 607 consecutive patients with known or suspected HCM, 315 had complete follow-up information (mean 65 ± 20 months). Among them, 115 patients developed major cardiac events (MACE) during follow-up. At CMR evaluation, patients with events had higher left atrium (LA) diameter (41.5 ± 8 mm vs. 37.17 ± 7.6 mm, p < 0.0001), LV mass (156.7 vs. 144 g, p = 0.005) and myocardial LGE (4.3% vs. 1.9%, p = 0.001). Similarly, patients with events had lower RV stroke volume index (42.7 vs. 47.0, p = 0.0003) and higher prevalence of both RV hypertrophy (16.4% vs. 4.7%, p = 0.0005) and reduced RV ejection fraction (12.2% vs. 4.4%, p = 0.006). In the multivariate analysis, LA diameter and RV stroke volume index were the strongest predictors of events (p < 0.001 and p = 0.0006, respectively). Anatomic and functional RV anomalies detected and characterized with CMR may have may have a major role in predicting the prognosis of HCM patients.

Supporting Information for the article "Enhanced formation of interstellar complex organic molecules on carbon monoxide ice"

Chemical models ("Models.pkl") and structures (*.xyz files, figures 2 and 3) supporting the calculations presented in the article : "Enhanced formation of interstellar complex organic molecules on carbon monoxide ice" The chemical models are stored as a dictionary of dictionaries with the following name per model: e_XXXX_T_YYYY_CR_ZZZZ where XXXX are the values of the epsilon parameter (see original article) sampled for \epsilon=0.5 and \epsilon=1.0 (additionally we release models with \epsilon=0.40, 0.45, 0.55, 0.60, 0.65, not discussed in the original article), YYYY is the dust temperature sampled within np.linspace(8,18, 26) and ZZZZ is the cosmic ray ionization rate, sampled within np.logspace(-18, -15, 22). To open the chemical models, prepare a python script of the type: ++++ import pickle def ice(dictionary, name, species): #Similar functions for gas molecules or surface molecules can be defined     gas = dictionary[name][f"{species}"]     surface = dictionary[name]["J"+f"{species}"+"(1)"]     mantle =  dictionary[name]["K"+f"{species}"+"(1,1)"]     return surface + mantle Data = read_pkl_file('Models.pkl') name = "e_1.00_T_10.0_CR_1.00e-17" #as an example time = ice(Data, name, "Time") CO= ice(Data, name, "CO")  print(CO) ++++ Legend for large COMs: Y=CH2OH, X=CH3O, Q=NH2, M=CH2. Please check the reaction network in https://iopscience.iop.org/article/10.1088/0004-637X/765/1/60 for further details. Version 1.0: Revision release, including chemical models and cartesian coordinates supporting Figures 2 and 3 of the manuscript. If you request further data, please do not hesitate to contact us.

Supplement to the "Response to the Referee" of the article "Simulation of marine stratocumulus using the super-droplet method: Numerical convergence and comparison to a double-moment bulk scheme"

This is the supplement to the "Response to the Referee" of the article "Simulation of marine stratocumulus using the super-droplet method: Numerical convergence and comparison to a double-moment bulk scheme". <a href="https://zenodo.org/api/files/87a1c801-d2f8-4c0c-b408-db56481cf97d/Movie%201_w_theta_v_t.mp4">Movie 1_w_theta_v_t.mp4</a>: Time evolution of vertical profiles of buoyancy production and its decomposition. <a href="https://zenodo.org/api/files/6eabdd4d-61fd-4f7a-8656-0c9d1fb7ce6f/Movie%202_scatter_w_theta_v_t.mp4">Movie 2_scatter_w_theta_v_t.mp4</a>: Time evolution of scatter plots of w vs theta_v. <a href="https://zenodo.org/api/files/6eabdd4d-61fd-4f7a-8656-0c9d1fb7ce6f/Movie%203_boy_incloud_real_z_t.mp4">Movie 3_boy_incloud_real_z_t.mp4</a>: Time evolution of buoyancy production and cloud fraction, and time series of cloud cover.

restrictedOct 2021View details →

Dataset related to article "Parkinson's disease midbrain organoids link GBA1 to Lewy pathology"

This record contains data related to the article "Parkinson’s disease midbrain organoids link GBA1 to Lewy pathology". Abstract Aggregation of α-synuclein protein in “Lewy bodies” or “Lewy neurites” is a defining hallmark of Parkinson’s disease neuropathology. Mutations in GBA1, encoding the glucosylceramide-hydrolyzing enzyme glucocerebrosidase, cause Gaucher’s disease and are the most frequent genetic risk factor for Parkinson’s disease. However, a defined link between mutations in GBA1 and α-synuclein pathology is yet to be determined, largely because of the absence of experimental models able to recapitulate the key neuropathological signatures of the disease. Here, we present an innovative midbrain organoid culture system derived from subjects with GBA1-related Parkinson’s disease as the first patient-based model able to reproduce fundamental neuropathological features of the disease. We show that retention of mutant glucocerebrosidase in the endoplasmic reticulum and increased glucosylceramide levels are determinants of α-synuclein aggregation into inclusions resembling Lewy bodies and Lewy neurites in both mono- and biallelic GBA1 mutated midbrain organoids. In this process, the entity of glucocerebrosidase activity reduction acts as an accelerating factor in the progression of α-synuclein pathology by favoring the conversion of soluble α-synuclein to its insoluble forms. We provide evidence that α-synuclein extracted from Parkinson’s samples displays seeding activity in vitro and, following inoculation in unaffected organoids, propagates the pathology. Finally, we demonstrate pharmacological rescue of pathological phenotypes with molecules engaging in the glucocerebrosidase pathway, suggesting that midbrain organoids could represent valuable in vitro platforms for drug testing in Parkinson’s disease and potentially other Lewy body disorders still lacking a definitive therapy.

Dataset related to the article "A deep-learning approach for myocardial fibrosis detection in early contrast-enhanced cardiac CT images"

This record contains raw data related to the article "A deep-learning approach for myocardial fibrosis detection in early contrast-enhanced cardiac CT images" Aims: Diagnosis of myocardial fibrosis is commonly performed with late gadolinium contrast-enhanced (CE) cardiac magnetic resonance (CMR), which might be contraindicated or unavailable. Coronary computed tomography (CCT) is emerging as an alternative to CMR. We sought to evaluate whether a deep learning (DL) model could allow identification of myocardial fibrosis from routine early CE-CCT images. Methods and results: Fifty consecutive patients with known left ventricular (LV) dysfunction (LVD) underwent both CE-CMR and (early and late) CE-CCT. According to the CE-CMR patterns, patients were classified as ischemic (n =&thinsp;15, 30%) or non-ischemic (n =&thinsp;35, 70%) LVD. Delayed enhancement regions were manually traced on late CE-CCT using CE-CMR as reference. On early CE-CCT images, the myocardial sectors were extracted according to AHA 16-segment model and labeled as with scar or not, based on the late CE-CCT manual tracing. A DL model was developed to classify each segment. A total of 44,187 LV segments were analyzed, resulting in accuracy of 71% and area under the ROC curve of 76% (95% CI: 72%−81%), while, with the bull’s eye segmental comparison of CE-CMR and respective early CE-CCT findings, an 89% agreement was achieved. Conclusions: DL on early CE-CCT acquisition may allow detection of LV sectors affected with myocardial fibrosis, thus without additional contrast-agent administration or radiational dose. Such tool might reduce the user interaction and visual inspection with benefit in both efforts and time.

restrictedAug 2023View details →

Dataset of the article "Exploring Biomarkers of Mental Flexibility in Healthy Aging: A Computational Psychometric Study"

Mental flexibility (MF) has long been defined as cognitive flexibility. Specifically, it has been mainly studied within the executive functions domain. However, there has recently been increased attention towards its affective and physiological aspects. As a result, MF has been described as an ecological and cross-subject skill consisting of responding variably and flexibly to environmental cognitive-affective demands. Cross-sectional studies have mainly focused on samples composed of healthy individual and of patients with chronic conditions such as Mild Cognitive Impairment and Parkinson’s, emphasizing their behavioral rigidity. Our study is the first to consider a sample of healthy older subjects and to outline physiological and psychological markers typical of mental flexibility, to identify functional biomarkers associated with successful aging. Our results reveal that biomarkers (respiratory and heart rate variability assessments) distinguished between individuals high vs. low in mental flexibility more reliably than traditional neuropsychological tests. This unveiled the multifaceted nature of mental flexibility composed of both cognitive and affective aspects, which emerged only if non-linear multi-variate analytic approaches, such as Supervised Machine Learning, were used.

restrictedSep 2023View details →

Dataset related to article "Clinical and radiological outcomes of an uncemented metaphyseal short stem at minimum 10 years of follow‑up: a prospective observational study".

This record contains raw data related to article "Clinical and radiological outcomes of an uncemented metaphyseal short stem at minimum 10 years of follow‑up: a prospective observational study" Abstract Purpose: There is growing interest around short stems as they provide a less invasive approach for total hip arthroplasty preserving bone stock for a possible revision surgery if required. The main purpose of this work was to assess the long-term performance of an uncemented metaphyseal short stem in terms of survival rate and in addition its clinical and radiological outcomes. Materials and methods: From January to December 2010, we prospectively enrolled all consecutive patients undergoing primary total hip arthroplasty with an uncemented metaphyseal short stem in our institution with a minimum follow-up of 10 years. The radiographic features investigated were the varus-valgus stem orientation, areas of osteolysis and radiolucencies, stress shielding, and heterotopic calcifications. The clinical outcomes were measured using the HHS. Results: A total of 163 patients (172 hips) were finally included and the measured survival rate at 10 years was 99.6%. The average HHS increased from 55.0 preoperatively to 97.8 at the last follow-up (p < 0.0001). Among them, 137 patients (164 hips) were also available for radiographic assessment. Mild varus malalignment was observed in 40% of cases and remained stable in the serial X-rays and was not associated with step loosening. Mild stress shielding was observed around 13 stems (9%) and moderate only around 3 implants. Conclusion: In conclusion, the uncemented metaphyseal short stems showed excellent survival and clinical results at 10 years and at a radiographical level very low stress shielding was observed; moreover, besides the high frequency of varus alignment the implanted stems was not associated with revision surgery or with worse clinical outcomes. Keywords: Long-term; Outcomes; Short stem; THA.

restrictedSep 2023View details →

Impacts of invasive alien species on riparian plant communities in South-African savanna - data to the article

Data on plant species richness, Shannon's diversity, Pielou's evenness, and abundance (cover) of individual plant species in the plots.

restrictedSep 2023View details →

Dataset related to article "Clinical Outcomes and Complication Rate after Single-Stage Hardware Removal and Total Hip Arthroplasty: A Matched-Pair Controlled Study"

This record contains raw data related to article "Clinical Outcomes and Complication Rate after Single-Stage Hardware Removal and Total Hip Arthroplasty: A Matched-Pair Controlled Study" Abstract: Background: Single-stage hardware removal and total hip arthroplasty is a complex surgical procedure, comparable to revision surgery. The purpose of the current study is to evaluate singlestage hardware removal and THA outcomes, compare this technique with a matched control group that has undergone primary THA and assess the risk of periprosthetic joint infection with a 24-month minimum follow-up. Methods: This study included all those cases treated with THA and concomitant hardware removal from 2008 to 2018. The control group was selected on a 1:1 ratio among patients who underwent THA for primary OA. The Harris Hip (HHS) and University of California at Los Angeles Activity (UCLA) scores, infection rate and early and delayed surgical complications were recorded. Results: One hundred and twenty-three consecutive patients (127 hips) were included, and the same number of patients was assigned to the control group. The final functional scores were comparable between the two groups; a longer operative time and transfusion rate were recorded in the study group. Finally, an increased incidence of overall complications was reported (13.8% versus 2.4%), but no cases of early or delayed infection were found. Conclusions: Single-stage hardware removal and THA is a safe and effective but technically demanding technique, with a higher incidence of overall complications, making it more similar to revision THA than to primary THA. Keywords: conversion THA; hardware removal; periprosthetic joint disease; one-stage.

Dataset related to article "Pancreatic neuroendocrine tumor progression and resistance to everolimus: the crucial role of NF-kB and STAT3 interplay"

record contains raw data related to article " Pancreatic neuroendocrine tumor progression and resistance to everolimus: the crucial role of NF-kB and STAT3 interplay" The finding of mTOR overactivation in patients affected by pancreatic neuroendocrine tumors (Pa-NETs) led to their treatment with the mTOR inhibitor everolimus. Unfortunately, the efficacy of everolimus is restricted by the occurrence of resistance. The mechanisms leading to Pa-NETs' progression and resistance are not well understood. Notably, chronic inflammation is implicated in NET development. NF-kB is involved in inflammation and drug resistance mechanisms through the activation of several mediators, including STAT3. In this respect, NF-κB and STAT3 interaction is implicated in the crosstalk between inflammatory and tumor cells. We found that the increased expression of NF-kB is correlated with a higher grade in Pa-NETs. The activation of the STAT3 pathway induced by TNFα is mediated by NF-kB p65. NF-kB p65 and STAT3 inhibitors decrease QGP-1 viability, spheroids growth, and Pa-NETs cell proliferation. These effects are maintained in everolimus-resistant QGP-1R cells. Interestingly, we found that NF-kB, STAT3, IL-8, and SOCS3 are overexpressed in QGP-1R compared to QGP-1. Since the NF-kB pathway is implicated in Pa-NETs’ progression and resistance to everolimus, these data could explain the potential use of NF-kB as a novel therapeutic target in Pa-NET patients.

Dataset related to article "Deep learning and atlas-based models to streamline the segmentation workflow of Total Marrow and Lymphoid Irradiation"

This record contains raw data related to article “Deep learning and atlas-based models to streamline the segmentation workflow of Total Marrow and Lymphoid Irradiation" Abstract: Purpose: To improve the workflow of Total Marrow and Lymphoid Irradiation (TMLI) by enhancing the delineation of organs-at-risk (OARs) and clinical target volume (CTV) using deep learning (DL) and atlas-based (AB) segmentation models. Materials and Methods: Ninety-five TMLI plans optimized in our institute were analyzed. Two commercial DL software were tested for segmenting 18 OARs. An AB model for lymph node CTV (CTV_LN) delineation was built using 20 TMLI patients. The AB model was evaluated on 20 independent patients and a semi-automatic approach was tested by correcting the automatic contours. The generated OARs and CTV_LN contours were compared to manual contours in terms of topological agreement, dose statistics, and time workload. A clinical decision tree was developed to define a specific contouring strategy for each OAR. Results: The two DL models achieved a median Dice Similarity Coefficient (DSC) of 0.84 [0.73;0.92] and 0.84 [0.77;0.93] across the OARs. The absolute median dose (Dmedian) difference between manual and the two DL models was 2% [1%;5%] and 1% [0.2%;1%]. The AB model achieved a median DSC of 0.70 [0.66;0.74] for CTV_LN delineation, increasing to 0.94 [0.94;0.95] after manual revision, with minimal Dmedian differences. Since September 2022, our institution has implemented DL and AB models for all TMLI patients, reducing from 5 to 2 hours the time required to complete the entire segmentation process. Conclusion: DL models can streamline the TMLI contouring process of OARs. Manual revision is still necessary for lymph node delineation using AB models.   Statements & Declarations Funding: This work was funded by the Italian Ministry of Health, grant AuToMI (GR-2019-12370739). Competing Interests: The authors have no conflict of interests to disclose. Author Contributions: All authors contributed to the study conception and design. Material preparation, data collection and analysis were performed by D.D., N.L., L.C., R.C.B., D.L., and P.M. The first draft of the manuscript was written by D.D. and all authors commented on previous versions of the manuscript. All authors read and approved the final manuscript. Ethics approval: The study was conducted in accordance with the Declaration of Helsinki and approved by the Institutional Ethics Committee of IRCCS Humanitas Research Hospital (ID 2928, 26 January 2021). ClinicalTrials.gov identifier: NCT04976205. Consent to participate: Informed consent was obtained from all individual participants included in the study.

Dataset related to article "Important functional role of the protein osteopontin in the progression of malignant pleural mesothelioma"

This record contains raw data related to article "Important functional role of the protein osteopontin in the progression of malignant pleural mesothelioma"Background: Malignant Pleural Mesothelioma (MPM) is an aggressive cancer of the mesothelial lining associated with exposure to airborne non-degradable asbestos fibers. Its poor response to currently available treatments prompted us to explore the biological mechanisms involved in its progression. MPM is characterized by chronic non-resolving inflammation; in this study we investigated which inflammatory mediators are mostly expressed in biological tumor samples from MPM patients, with a focus on inflammatory cytokines, chemokines and matrix components.Methods: Expression and quantification of Osteopontin (OPN) was detected in tumor and plasma samples of MPM patients by mRNA, immunohistochemistry and ELISA. The functional role of OPN was investigated in mouse MPM cell lines in vivo using an orthotopic syngeneic mouse model.Results: In patients with MPM, the protein OPN was significantly more expressed in tumors than in normal pleural tissues and predominantly produced by mesothelioma cells; plasma levels were elevated in patients and associated with poor prognosis. However, modulation of OPN levels was not significantly different in a series of 18 MPM patients receiving immunotherapy with durvalumab alone or with pembrolizumab in combination with chemotherapy, some of whom achieved a partial clinical response. Two established murine mesothelioma cell lines: AB1 and AB22 of sarcomatoid and epithelioid histology, respectively, spontaneously produced high levels of OPN. Silencing of the OPN gene (Spp1) dramatically inhibited tumor growth in vivo in an orthotopic model, indicating that OPN has an important promoting role in the proliferation of MPM cells. Treatment of mice with anti-CD44 mAb, blocking a major OPN receptor, significantly reduced tumor growth in vivo.Conclusion: These results demonstrate that OPN is an endogenous growth factor for mesothelial cells and inhibition of its signaling may be helpful to restrain tumor progression in vivo. These findings have translational potential to improve the therapeutic response of human MPM.

Dataset related to article "Stereotactic Body Radiation Therapy for Lung and Liver Oligometastases from Breast Cancer: Toxicity Data of a Prospective Non-Randomized Phase II Trial"

This record contains raw data related to article "Stereotactic Body Radiation Therapy for Lung and Liver Oligometastases from Breast Cancer: Toxicity Data of a Prospective Non-Randomized Phase II Trial"AbstractAims: We report the mature toxicity data of a phase II non-randomized trial on the use of SBRT for lung and liver oligometastases.Methods: Oligometastatic patients from breast cancer were treated with SBRT for up to five lung and/or liver lesions. Inclusion criteria were: age > 18 years, ECOG 0-2, diagnosis of breast cancer, less than five lung/liver lesions (with a maximum diameter <5 cm), metastatic disease confined to the lungs and liver or extrapulmonary or extrahepatic disease stable or responding to systemic therapy. Various dose-fractionation schedules were used. Then, a 4D-CT scan and FDG-CTPET were acquired for simulation and fused for target definition.Results: From 2015 to 2021, 64 patients and a total of 90 lesions were irradiated. Treatment was well tolerated, with no G 3-4 toxicities. No grade ≥3 toxicities were registered and the coprimary endpoint of the study was met. Median follow-up was 19.4 months (range 2.6-73.1).Conclusions: The co-primary endpoint of this phase II trial was met, showing excellent tolerability of SBRT for lung and liver oligometastatic in breast cancer patients. Until efficacy data will mature with longer follow-up, SBRT should be regarded as an opportunity for oligometastatic breast cancer patients.