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GenoDrawing:An Autoencoder Framework for Image Prediction from SNP Markers

Plant Phenomics 2023年第4期5卷 816-824页

作者： federico jurado-ruiz David Rousseau Juan A.Botía Maria José Aranzana Center for Research in Agricultural Genomics(CRAG) 08193 BarcelonaCerdanyolaSpain Universitéd'Angers LARISINRAe UMR IRHS49000 AngersFrance Department of Information and Communication Engineering University of Murcia30071 MurciaSpain IRTA(Institut de Recerca i Tecnologia Agroalimentàries) BarcelonaSpain

Advancements in genome sequencing have facilitated whole-genome characterization of numerous plant species,providing an abundance of genotypic data for genomic *** selection and neural networks(NNs),particularly deep learning,have been developed to predict complex traits from dense genotypic ***,an NN model to extract features from images in an unsupervised manner,has proven to be useful for plant *** study introduces an autoencoder framework,GenoDrawing,for predicting and retrieving apple images from a low-depth single-nucleotide polymorphism(SNP)array,potentially useful in predicting traits that are difficult to *** demonstrates proficiency in its task using a small dataset of shape-related *** indicate that the use of SNPs associated with visual traits has substantial impact on the generated images,consistent with biological *** using substantial SNPs is crucial,incorporating additional,unrelated SNPs results in performance degradation for simple NN architectures that cannot easily identify the most important *** proposed GenoDrawing method is a practical framework for exploring genomic prediction in fruit tree phenotyping,particularly beneficial for small to medium breeding companies to predict economically substantial heritable *** GenoDrawing has limitations,it sets the groundwork for future research in image prediction from genomic *** studies should focus on using stronger models for image reproduction,SNP information extraction,and dataset balance in terms of phenotypes for more precise outcomes.

关键词： Auto Drawing prediction

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Touristic urbanization and greening of coastal dune fields:A long-term assessment of a temperate sandy barrier of Argentina

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Journal of Geographical Sciences 2025年第1期35卷 206-230页

作者： GARZO Pedro Andrés DADON JoséRoberto ISLA federico Ignacio Instituto de Investigaciones Marinas y Costeras(IIMyC-CONICET/UNMDP) Av.Juan B.Justo 2550Mar del Plata7600Buenos AiresArgentina Instituto de Geología de Costas y del Cuaternario Dr.Enrique J.Schnack(IGCC-CIC/UNMDP) Funes 3350Mar del Plata7600Buenos AiresArgentina Facultad de Arquitectura Diseño y UrbanismoCentro de Investigaciones Gestión de Espacios Costeros(GEC-FADU/UBA)Universidad de Buenos AiresIntendente Güiraldes 2160Pabellón ⅢPiso 4Ciudad Autónoma de Buenos Aires1428Argentina Consejo Nacional de Investigaciones Científicas y Técnicas(CONICET) Buenos AiresArgentina

Dune barrier systems represent highly sought-after coastal landscapes for tourism and urban development around the ***,a century ago,they were considered hazardous environments due to their great dynamic *** a result,stabilization practices were considered *** systematic introduction of fast-growing exotic trees helped stabilize the sand,making it easier for tourism urbanization to take place,but also leading to erosion *** paper aims to assess long-term changes in vegetation cover over a large temperate barrier in *** complex region includes urban resorts,afforestation zones,and protected areas.A GIS-based geospatial analysis was conducted using a large satellite database(>350 images),and the future evolution of the vegetation was *** results revealed two primary spatiotemporal patterns associated with a gradual expansion of vegetation cover,accompanied by a concurrent reduction in sandy *** 1986,the dune area comprised 75%more surface than vegetation,whereas in 2021,it represented 60%less than ***,the 2050 scenario suggests a potential 40%reduction of dunes in certain *** is necessary to enhance management actions aimed at maintaining dune mobility and ensuring local and regional sediment ***-term management strategies must focus on restoring native plant communities and controlling invasive species,and avoiding new dune fixation initiatives based on the introduction of exotic species.

关键词： nature reserves afforestation sediment balance dune management NDVI

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Productive and metabolomic consequences of arginine supplementation in sows during different gestation periods in two different seasons

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Journal of Animal Science and Biotechnology 2025年第1期16卷 218-237页

作者： Sara Virdis Diana Luise federico Correa Luca Laghi Norma Arrigoni Roxana Elena Amarie Andrea Serra Giacomo Biagi Clara Negrini Francesco Palumbo Paolo Trevisi Department of Agricultural and Food Sciences University of BolognaViale G.Fanin 4440127 BolognaItaly Istituto Zooprofilattico Sperimentale Della Lombardia E Dell’Emilia Romagna(IZSLER)“Bruno Ubertini” Via Bianchi925124 BresciaItaly Department of Agriculture Food and EnvironmentUniversity of PisaVia del Borghetto 8056124 PisaItaly Department of Veterinary Medicine University of BolognaVia Tolara Di Sopra 5040064 Ozzano Dell’Emilia(BO)Italy.

Background The prolificacy of sows(litter size at birth)has markedly increased,leading to higher post-natal *** stress can exacerbate this *** plays an important role in several physiological pathways;its effect on gestating sows can depend on the period of *** study evaluated the effects of arginine supplementation on the productive performance and physiological status of sows during different gestation periods and seasons,using a multi-omics *** A total of 320 sows were divided into 4 groups over 2 seasons(warm/cold);a control group(CO)received a standard diet(including 16.5 g/d of arginine)and 3 other groups received the standard diet supplemented with 21.8 g/d of arginine(38.3 g/d of arginine)either during the first 35 d(Early35),the last 45 d(Late45)or through-out the entire gestation period(COM).The colostrum was analyzed for nutritional composition,immunoglobulins and metabolomic *** and feces were analyzed on d 35 and 106 for the metabolomic and microbial *** body weight and mortality were recorded at birth,d 6,d 26,and on d 14 *** Interactions between arginine and season were never *** Early35 group had a lower percent-age of stillborn(P<0.001),mummified(P=0.002)and low birthweight(LBW)piglets(P=0.02)than the CO *** Late45 group had a lower percentage of stillborn piglets(P=0.029)and a higher percentage of high birthweight piglets(HBW;P<0.001)than the CO *** COM group had a higher percentage of LBW(P=0.004)and crushed piglets(P<0.001)than the CO *** supplementation modifies the metabolome characterization of colos-trum,urine,and *** and nitric oxide pathways,as well as metabolites related to microbial activity,were influenced in all matrices.A slight trend in the beta diversity index was observed in the microbiome profile on d 35(P=0.064).Conclusions Arginine supplementation during early gestation reduced the percentage o

关键词： Colostrum Feces Microbiota Piglets’birth weight Stillborn Urine

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Perception of healthcare professionals on patient safety culture and associated factors:a qualitative study using MAXQDA software

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Frontiers of Nursing 2025年第1期12卷 123-132页

作者： Aileen J.Abraham Pushpanjali Krishnappa Frank federico Department of Allied Health Sciences Faculty of Life and Allied Health SciencesRamaiah University of Applied SciencesBangaloreKarnataka 560056India Department of Public Health Dentistry Ramaiah University of Applied SciencesBangaloreKarnataka 560056India Senior Patient Safety Expert Quality Improvement SpecialistInstitute for Healthcare ImprovementCambridgeMA 02138USA

Objective: Patient safety culture is a concern in every healthcare organization, therefore, the healthcare leadership is encountering issues related to patient safety across the globe. In India, there is limited research and information about patient safety culture among healthcare stakeholders and there is relatively little qualitative research available that captures the factors of patient safety culture. Hence, this study aims to explore the perception of healthcare professionals on patient safety culture. Methods: An exploratory qualitative study design was adopted in a tertiary care hospital. Structured focus group discussion (FGD) (n = 4) among healthcare professionals and two in-depth interview focus groups were audio-recorded and transcribed. Two coders reviewed transcripts using the editing approach and organized codes into themes. The data were analyzed through MAXQDA 2022 (VERBI Software GmbH, Berlin, Germany), qualitative data analysis software, and descriptive analysis technique. The main codes and themes were generated using inductive and deductive method and smart coding was done. Results: Overall, there were 190 unique mentions of codes related to patient safety culture from 4 FGDs. They were categorized into 6 major themes and subcodes were derived via smart coding using the MAXQDA software. “Resources and constraints” was the most prominent code, followed by management support, manpower shortage, burnout, and lack of personnel commitment. Conclusions: The study highlights significant gaps in patient safety culture within the healthcare setting, with resource constraints, management support, and manpower shortages emerging as critical challenges. Burnout and lack of personnel commitment further exacerbate these issues, underscoring the need for targeted interventions.

关键词： focus group discussion healthcare stakeholders patient safety culture qualitative study healthcare leadership

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Genetic signatures of ERCC1 and ERCC2 expression,along with SNPs variants,unveil favorable prognosis in SCLC patients undergoing platinum-based chemotherapy

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Oncology Research 2025年第1期33卷 45-55页

作者： ENRICO CALIMAN SARA FANCELLI federico SCOLARI ADRIANO PASQUI CLARA MANNESCHI DANIELE LAVACCHI FRANCESCA MAZZONI FRANCESCA GENSINI VALERIA PASINI CAMILLA EVA COMIN LUCA VOLTOLINI SERENA PILLOZZI LORENZO ANTONUZZO Clinical Oncology Unit Careggi University HospitalFlorence50134Italy Department of Experimental and Clinical Medicine University of FlorenceFlorence50134Italy Department of Health Sciences University of FlorenceFlorence50134Italy Medical Oncology Unit Careggi University HospitalFlorence50134Italy Department of Experimental and Clinical Biomedical Sciences“Mario Serio” University of FlorenceFlorence50134Italy Section of Anatomic Pathology Department of Health SciencesUniversity of FlorenceFlorence50139Italy Section of Surgery Histopathology and Molecular PathologyUniversity of FlorenceFlorence50139Italy Thoracic Surgery Unit Careggi University HospitalFlorence50134Italy

Background:Platinum chemotherapy(CT)remains the backbone of systemic therapy for patients with smallcell lung cancer(SCLC).The nucleotide excision repair(NER)pathway plays a central role in the repair of the DNA damage exerted by platinum *** in this repair mechanism may affect patients’*** and Methods:We conducted a retrospective analysis of data from 38 patients with extensive disease(ED)-SCLC who underwent platinum-CT at the Clinical Oncology Unit,Careggi University Hospital,Florence(Italy),from 2015 to *** expression analysis and single nucleotide polymorphism(SNP)characterization of three NER pathway genes—namely ERCC1,ERCC2,and ERCC5—were performed on patient tumor ***:Overall,elevated expression of ERCC genes was observed in SCLC patients compared to healthy *** with low ERCC1 and ERCC5 expression levels exhibited a better median progression-free survival(mPFS=7.1 vs.4.9 months,p=0.39 for ERCC1 and mPFS=6.9 vs.4.8 months,p=0.093 for ERCC5)and overall survival(mOS=8.7 vs.6.0 months,p=0.4 for ERCC1 and mOS=7.2 vs.6.2 months,p=0.13 for ERCC5).Genotyping analysis of five SNPs of ERCC genes showed a longer survival in patients harboring the wild-type genotype or the heterozygous variant of the ERCC1 rs11615 SNP(p=0.24 for PFS and p=0.14 for OS)and of the rs13181 and rs1799793 ERCC2 SNPs(p=0.43 and p=0.26 for PFS and p=0.21 and p=0.16 for OS,respectively)compared to patients with homozygous mutant ***:The comprehensive analysis of ERCC gene expression and SNP variants appears to identify patients who derive greater survival benefits from platinum-CT.

关键词： Small cell lung cancer(SCLC) Nucleotide excision repair(NER)pathway ERCC genes Single nucleotide polymorphisms(SNPs) Platinumchemotherapy(CT)

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Small bites,big impact:The importance of evening snacks in patients with advanced chronic liver disease

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World Journal of Hepatology 2025年第1期17卷 1-4页

作者： Federica Perazza federico Ravaioli Department of Medical and Surgical Sciences University of BolognaBologna 40138Italy

People with advanced chronic liver disease(ACLD)have an enhanced risk of malnutrition,which has multifactorial etiology and is mainly linked to a reduced energy and protein intake;malnutrition is critical for patients with cirrhosis since it is often associated with sarcopenia,a skeletal muscle depletion with a loss of muscle mass and ***-evening snacks have been extensively studied,and guidelines are recommended to counteract the effects of prolonged fasting at night in patients with ***,it has not been fully explored whether late evening snacking is clarified as a milestone to address the nutritional needs of people with ACLD or whether it has a potential role in improving body *** this randomised control trial,Yu et al demonstrated that long-term nocturnal snacks have the potential to significantly improve body composition by body fat mass,visceral fat area and body cell mass in patients with *** the improvement in skeletal muscle mass was minor,the promising results in other compositions provide hope for future research and patient care.

关键词： Nutrition Cirrhosis Advanced chronic liver disease Malnutrition Sarco-penia Skeletal muscle mass

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Artificial intelligence in gastroenterology:Ethical and diagnostic challenges in clinical practice

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World Journal of Gastroenterology 2025年第10期31卷 144-150页

作者： Davide Ramoni Alessandro Scuricini federico Carbone Luca Liberale Fabrizio Montecucco Department of Internal Medicine University of GenoaGenoa 16132Italy First Clinic of Internal Medicine Department of Internal MedicineItalian Cardiovascular NetworkIRCCS Ospedale Policlinico San MartinoGenoa 16132Italy

This article discusses the manuscript recently published in the World Journal of Gastroenterology,which explores the application of deep learning models in decision-making processes via wireless capsule *** artificial intelligence(AI)into gastrointestinal disease diagnosis represents a transformative step toward precision medicine,enhancing real-time accuracy in detecting multi-category lesions at earlier stages,including small bowel lesions and precancerous polyps,ultimately improving patient ***,the use of AI in clinical settings raises ethical considerations that extend beyond technological *** of patient privacy,data security,and potential diagnostic biases require careful *** models must prioritize diverse and representative datasets to mitigate inequities and ensure diagnostic accuracy across ***,balancing AI with clinical expertise is crucial,positioning AI as a supportive tool rather than a replacement for physician *** these ethical challenges will support the responsible deployment of AI,through equitable contribution to patient-centered care.

关键词： Artificial intelligence Endoscopy Ethical implication Gastrointestinal disease Machine learning Omics Precision medicine Wireless capsule endoscopy

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HLA class Ⅰ loss in colorectal cancer:implications for immune escape and immunotherapy

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Cellular & Molecular Immunology 2021年第3期18卷 556-565页

作者： Per Anderson Natalia Aptsiauri Francisco ruiz-Cabello federico Garrido Instituto de Investigaci6n Biosanitaria(ibs.GRANADA) GranadaSpain Servicio de Analisis Clinicos e Inmunologia Hospital Universitario Virgen de las Nieves18014 GranadaSpain Departamento de Bioqufmica Bioiogta Molecular 3 e InmunologiaUniversidad de GranadaGranadaSpain

T cell-mediated immune therapies have emerged as a promising treatment modality in different malignancies including colorectal cancer(CRC).However,only a fraction of patients currently respond to *** the lack of responses and finding biomarkers with predictive value is of great *** is evidence that CRC is a heterogeneous disease and several classification systems have been proposed that are based on genomic instability,immune cell infiltration,stromal content and molecular subtypes of gene *** leukocyte antigen class Ⅰ(HLA-Ⅰ)plays a pivotal role in presenting processed antigens to T lymphocytes,including tumour *** molecules are frequently lost in different types of cancers,including CRC resulting in tumour immune escape from cytotoxic T lymphocytes during the natural history of cancer *** aim of this review is to(i)summarize the prevalence and molecular mechanisms behind HLA-Ⅰ loss in CRC,(ii)discuss HLA-Ⅰ expression/loss in the context of the newly identified CRC molecular subtypes,(iii)analyze the HLA-Ⅰ phenotypes of CRC metastases disseminated via blood or the lymphatic system,(iv)discuss strategies to recover/circumvent HLA-I expression/loss and finally(v)review the role of HLA class Ⅱ(HLA-Ⅱ)in CRC prognosis.

关键词： Colorectal cancer Immune escape HLA ClassⅠ

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Development and validation of a decision algorithm for eyelid reconstruction following oncological resection

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World Journal of Transplantation 2025年第2期15卷 309-319页

作者： Giovanni Miotti Davide Quaglia federico Cesare Novati Pier Camillo Parodi Martina Grando Carlo Salati Leopoldo Spadea Caterina Gagliano Mutali Musa Marco Zeppieri Department of Plastic Surgery University Hospital of UdineUdine 33100Italy Department of Medical Surgical and Health SciencesPlastic and Reconstructive Surgery UnitUniversity of TriesteTrieste 34123Italy Department of Internal Medicine Azienda Sanitaria Friuli OccidentaleSan Vito al Tagliamento 33078Italy Department of Ophthalmology University Hospital of UdineUdine 33100Italy Eye Clinic Policlinico Umberto I“Sapienza”University of RomeRome 00142Italy Department of Medicine and Surgery University of Enna“Kore”Enna 94100Italy Mediterranean Foundation“G.B.Morgagni” Catania 95125Italy Department of Optometry University of BeninBenin 300283Nigeria Department of Ophthalmology Centre for Sight AfricaNkpor 434112Nigeria

BACKGROUND Eyelid reconstruction is an intricate process,addressing both aesthetic and functional aspects post-trauma or oncological *** concerns and oncological radicality guide personalized *** complex anatomy,involving anterior and posterior lamellae,requires tailored reconstruction for optimal *** To formulate an eyelid reconstruction algorithm through an extensive literature review and to validate it by juxtaposing surgical outcomes from Cattinara Hos-in dry eye and tears,which may lead to long-term consequences such as chronic conjunctivitis,discomfort,or *** prevent this issue,scars should be oriented vertically or perpendicularly to the free eyelid margin when the size of the tumor *** employing a malar flap to repair a lower eyelid defect,the malar incision must ascend diagonally;this facilitates enhanced flap advancement and mitigates ectropion by restricting vertical ***-quently,it is imperative to maintain that the generated tension remains consistently horizontal and never vertical[9].Lagophthalmos is a disorder characterized by the inability to completely close the eyelids,leading to corneal exposure and an increased risk of keratitis or ulceration;it may arise following upper eyelid *** avert this issue,it is essential to preserve a minimum of 1 cm of skin between the superior edge of the excision and the inferior boundary of the *** may occur in cancers involving the lacrimal puncta,requiring their *** previously stated,when employing a glabellar flap to rectify medial canthal abnormalities,it is essential to prevent a trapdoor effect or thickening of the flap relative to the eyelid skin to which it is *** about our proposed algorithm enco-mpass limited sample sizes and possible publication biases in existing *** investigations ought to examine long-term results to further refine the *** research should evaluate t

关键词： Cartilage grafts Decision algorithm Eyelid lamella grafts Eyelid reconstruction Flap transplantation Graft transplantation Mucosa grafts

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Algebro-geometrical orientifold and IR dualities

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Communications in Theoretical Physics 2023年第12期75卷 44-56页

作者： federico Manzoni Mathematics and Physics Department Roma TreVia della Vasca Navale 84RomeItaly INFN Roma Tre section Physics DepartmentVia della Vasca Navale 84RomeItaly

Orientifold projections are an important ingredient in the geometrical engineering of Quantum Field ***,an orientifold can break down the superconformal symmetry and no new superconformal fixed points are admitted(scenario Ⅱ);nevertheless,in some cases,dubbed scenarios Ⅰ and Ⅲ orientifold,a new IR fixed point is achieved and,for scenario Ⅲ examples,some still not fully understood IR duality seems to *** we give an algebro-geometrical point of view of orientifold for toric varieties and we propose the existence of relevant operators that deform the starting oriented Conformal Field Theory triggering a *** briefly discuss a possible holographic description of this flow.

关键词： non-perturbative orientifold IR dualities toric geometry RG flow

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