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Genomics, Proteomics & Bioinformatics 2009年第1期7卷 71-76页

作者： Antonio d’Acierno angelo facchiano Anna Marabotti Laboratory of Bioinformatics and Computational Biology Institute of Food Science Italian National Research Council (CNR)

We describe the GALT-Prot database and its related web-based application that have been developed to collect information about the structural and functional effects of mutations on the human enzyme galactose-l-phosphate uridyltransferase （GALT） involved in the genetic disease named galactosemia type I. Besides a list of missense mutations at gene and protein sequence levels, GALT-Prot reports the analysis results of mutant GALT structures. In addition to the structural information about the wild-type enzyme, the database also includes structures of over 100 single point mutants simulated by means of a computational procedure, and the analysis to each mutant was made with several bioinformatics programs in order to investigate the effect of the mutations. The web-based interface allows querying of the database, and several links are also provided in order to guarantee a high integration with other resources already present on the web. Moreover, the architecture of the database and the web application is flexible and can be easily adapted to store data related to other proteins with point mutations. GALT-Prot is freely available at http：//***/GALT/.

关键词： database mutation homology modeling galactosemia GALT enzyme

FASMA:A Service to Format and Analyze Sequences in Multiple Alignments

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Genomics, Proteomics & Bioinformatics 2007年第3期5卷 253-255页

作者： Susan Costantini Giovanni Colonna angelo M.facchiano Laboratory of Bioinformatics and Computational Biology Institute of Food ScienceCNRvia Roma 52 A/C83100 AvellinoItaly CRISCEBResearch Center of Computational and Biotechnological SciencesSecond University of Naplesvia Costantinopoli 1680138 NaplesItaly. CRISCEB Research Center of Computational and Biotechnological SciencesSecond University of Naplesvia Costantinopoli 1680138 NaplesItaly.

Multiple sequence alignments are successfully applied in many studies for understanding the structural and functional relations among single nucleic acids and protein sequences as well as whole families. Because of the rapid growth of sequence databases, multiple sequence alignments can often be very large and difficult to visualize and analyze. We offer a new service aimed to visualize and analyze the multiple alignments obtained with different external algorithms, with new features useful for the comparison of the aligned sequences as well as for the creation of a final image of the alignment. The service is named FASMA and is available at http： / /*** /FASMA /.

关键词： multiple alignment sequence analysis web tools

Spatial sensitivity to absorption changes for various near-infrared spectroscopy methods:A compendium review

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Journal of Innovative Optical Health Sciences 2024年第4期17卷 1-115页

作者： Giles Blaney angelo Sassaroli Sergio Fantini Department of Biomedical Engineering Tufts University 4 Colby StreetMedfordMA 02155USA

This compendium review focuses on the spatial distribution of sensitivity to localized absorption changes in optically diffuse media,particularly for measurements relevant to near-infrared *** three temporal domains,continuous wave,frequency domain,and time domain,each obtain different optical data types whose changes may be related to effective homogeneous changes in the absorption *** is the relationship between a localized perturbation and the recovered effective homogeneous absorption ***,spatial sensitivity maps representing the perturbation location can be generated for the numerous optical data types in the three temporal *** review first presents a history of the past 30 years of work investigating this sensitivity in optically diffuse *** works are experimental and theoretical,presenting one-,two-,and three-dimensional sensitivity maps for different Near-Infrared Spectroscopy methods,domains,and data *** this history,we present a compendium of sensitivity maps organized by temporal domain and then data *** compendium provides a valuable tool to compare the spatial sensitivity of various measurement methods and parameters in one *** for one to generate these maps are provided in Appendix A,including the *** historical review and comprehensive sensitivity map compendium provides a single source researchers may use to visualize,investigate,compare,and generate sensitivity to localized absorption change maps.

关键词： Diffuse optics diffusion theory Monte Carlo spatial sensitivity absorption perturbations near-infrared spectroscopy continuous-wave frequency-domain time-domain

Quartz-enhanced multiheterodyne resonant photoacoustic spectroscopy

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Light(Science & Applications) 2024年第4期13卷 696-705页

作者： Jiapeng Wang Hongpeng Wu angelo Sampaolo Pietro Patimisco Vincenzo Spagnolo Suotang Jia Lei Dong State Key Laboratory of Quantum Optics and Quantum Optics Devices Institute of Laser SpectroscopyShanxi UniversityTaiyuan 030006China. Collaborative Innovation Center of Extreme Optics Shanxi UniversityTaiyuan 030006China. PolySense Lab Dipartimento Interateneo di FisicaUniversity and Politecnico of BariCNR-IFNVia Amendola 17370126 BariItaly

The extension of dual-comb spectroscopy(DCS)to all wavelengths of light along with its ability to provide ultralarge dynamic range and ultra-high spectral resolution,renders it extremely useful for a diverse array of applications in physics,chemistry,atmospheric science,space science,as well as medical *** this work,we report on an innovative technique of quartz-enhanced multiheterodyne resonant photoacoustic spectroscopy(QEMR-PAS),in which the beat frequency response from a dual comb is frequency down-converted into the audio frequency *** this way,gas molecules act as an optical-acoustic converter through the photoacoustic effect,generating heterodyne sound *** conventional DCS,where the light wave is detected by a wavelengthdependent photoreceiver,QEMR-PAS employs a quartz tuning fork(QTF)as a high-Q sound transducer and works in conjunction with a phase-sensitive detector to extract the resonant sound component from the multiple heterodyne acoustic tones,resulting in a straightforward and low-cost hardware *** novel QEMRPAS technique enables wavelength-independent DCS detection for gas sensing,providing an unprecedented dynamic range of 63 dB,a remarkable spectral resolution of 43 MHz(or~0.3 pm),and a prominent noise equivalent absorption of 5.99×10^(-6)cm^(-1)·Hz-1/2.

关键词： Quartz hardware resonant

Ultra-highly sensitive dual gases detection based on photoacoustic spectroscopy by exploiting a long-wave,high-power,wide-tunable,singlelongitudinal-mode solid-state laser

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Light(Science & Applications) 2024年第5期13卷 941-956页

作者： Shunda Qiao Ying He Haiyue Sun Pietro Patimisco angelo Sampaolo Vincenzo Spagnolo Yufei Ma National Key Laboratory of Laser Spatial Information Harbin Institute of TechnologyHarbinChina PolySense Lab Dipartimento Interateneo di FisicaUniversity and Politecnico of BariVia AmendolaBariItaly

Photoacoustic spectroscopy(PAS)as a highly sensitive and selective trace gas detection technique has extremely broad application in many ***,the laser sources currently used in PAS limit the sensing *** to diode laser and quantum cascade laser,the solid-state laser has the merits of high optical power,excellent beam quality,and wide tuning *** we present a long-wave,high-power,wide-tunable,singlelongitudinal-mode solid-state laser used as light source in a PAS sensor for trace gas *** self-built solid-state laser had an emission wavelength of~2μm with Tm:YAP crystal as the gain material,with an excellent wavelength and optical power stability as well as a high beam *** wide wavelength tuning range of 9.44 nm covers the absorption spectra of water and ammonia,with a maximum optical power of~130 mW,allowing dual gas detection with a single laser *** solid-state laser was used as light source in three different photoacoustic detection techniques:standard PAS with microphone,and external-and intra-cavity quartz-enhanced photoacoustic spectroscopy(QEPAS),proving that solid-state laser is an attractive excitation source in photoacoustic spectroscopy.

关键词： power tunable tuning

RepDNet:A re-parameterization despeckling network for autonomous underwater side-scan sonar imaging with prior-knowledge customized convolution

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Defence Technology（防务技术） 2024年第5期35卷 259-274页

作者： Zhuoyi Li Zhisen Wang Deshan Chen Tsz Leung Yip angelo P.Teixeira Department of Logistics and Maritime Studies The Hong Kong Polytechnic UniversityChina State Key Laboratory of Maritime Technology and Safety Wuhan University of TechnologyChina School of Transportation and Logistics Engineering Wuhan University of TechnologyChina National Engineering Research Center for Water Transport Safety Wuhan University of TechnologyChina Centre for Marine Technology and Ocean Engineering(CENTEC) Instituto Superior TecnicoUniversidade de LisboaPortugal

Side-scan sonar(SSS)is now a prevalent instrument for large-scale seafloor topography measurements,deployable on an autonomous underwater vehicle(AUV)to execute fully automated underwater acoustic scanning imaging along a predetermined ***,SSS images often suffer from speckle noise caused by mutual interference between echoes,and limited AUV computational resources further hinder noise *** approaches for SSS image processing and speckle noise reduction rely heavily on complex network structures and fail to combine the benefits of deep learning and domain *** address the problem,Rep DNet,a novel and effective despeckling convolutional neural network is *** DNet introduces two re-parameterized blocks:the Pixel Smoothing Block(PSB)and Edge Enhancement Block(EEB),preserving edge information while attenuating speckle *** training,PSB and EEB manifest as double-layered multi-branch structures,integrating first-order and secondorder derivatives and smoothing *** inference,the branches are re-parameterized into a 3×3 convolution,enabling efficient inference without sacrificing *** DNet comprises three computational operations:3×3 convolution,element-wise summation and Rectified Linear Unit *** on benchmark datasets,a real SSS dataset and Data collected at Lake Mulan aestablish Rep DNet as a well-balanced network,meeting the AUV computational constraints in terms of performance and latency.

关键词： Side-scan sonar Sonar image despeckling Domain knowledge Re-parameterization

Therapeutic advances in neural regeneration for Huntington’s disease

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Neural Regeneration Research 2024年第9期19卷 1991-1997页

作者： Francesco D’Egidio Vanessa Castelli Giorgia Lombardozzi Fabrizio Ammannito Annamaria Cimini Michele d’angelo Department of Life Health and Environmental SciencesUniversity of L’AquilaL’AquilaItaly

Huntington’s disease is a neurodegenerative disease caused by the expansion mutation of a cytosine-adenine-guanine triplet in the exon 1 of the HTT gene which is responsible for the production of the huntingtin (Htt) protein. In physiological conditions, Htt is involved in many cellular processes such as cell signaling, transcriptional regulation, energy metabolism regulation, DNA maintenance, axonal trafficking, and antiapoptotic activity. When the genetic alteration is present, the production of a mutant version of Htt (mHtt) occurs, which is characterized by a plethora of pathogenic activities that, finally, lead to cell death. Among all the cells in which mHtt exerts its dangerous activity, the GABAergic Medium Spiny Neurons seem to be the most affected by the mHtt-induced excitotoxicity both in the cortex and in the striatum. However, as the neurodegeneration proceeds ahead the neuronal loss grows also in other brain areas such as the cerebellum, hypothalamus, thalamus, subthalamic nucleus, globus pallidus, and substantia nigra, determining the variety of symptoms that characterize Huntington’s disease. From a clinical point of view, Huntington’s disease is characterized by a wide spectrum of symptoms spanning from motor impairment to cognitive disorders and dementia. Huntington’s disease shows a prevalence of around 3.92 cases every 100,000 worldwide and an incidence of 0.48 new cases every 100,000/year. To date, there is no available cure for Huntington’s disease. Several treatments have been developed so far, aiming to reduce the severity of one or more symptoms to slow down the inexorable decline caused by the disease. In this context, the search for reliable strategies to target the different aspects of Huntington’s disease become of the utmost interest. In recent years, a variety of studies demonstrated the detrimental role of neuronal loss in Huntington’s disease condition highlighting how the replacement of lost cells would be a reasonable strategy to o

关键词： cell therapy exosomes extracellular vesicles Huntingtin Huntington’s disease medium spiny neurons neurodegenerative disease neurogenesis neuronal loss stem cells

Hepatocellular carcinoma-the role of the underlying liver disease in clinical practice

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World Journal of Gastroenterology 2024年第19期30卷 2488-2495页

作者： angelo Zambam de Mattos Isadora Zanotelli Bombassaro Arndt Vogel Jose D Debes Department of Internal Medicine Universidade Federal de Ciências da Saúde de Porto AlegreRSPorto Alegre 90020090Brazil Graduate Program in Medicine:Hepatology Federal University of Health Sciences of Porto AlegreRSPorto Alegre 90050-170Brazil Division of Gastroenterology Hepatology University of TorontoHannover M5R 0A3Canada Department of Medicine University of MinnesotaMinneapolisMN 55455United States

Hepatocellular carcinoma(HCC)is one of the most common causes of cancerrelated *** particular type of cancer has the distinctive characteristic of mostly happening in individuals with an underlying liver *** makes the management of patients more challenging,since physicians must take into consideration two different conditions,the chronic liver disease and the *** underlying liver disease has several implications in clinical practice,because different kinds of chronic liver disease can lead to varying degrees of risk of developing HCC,obstacles in surveillance,and differences in the efficacy of the treatment against HCC.A shift in the prevalence of liver diseases has been evident over the last few years,with viral hepatitis gradually losing the leading position as cause of HCC and metabolic dysfunction-associated steatotic liver disease gaining ***,in an era of personalized medicine,it is imperative that physicians are aware of the underlying liver disease of individuals with HCC and its impact in the management of their tumors.

关键词： Hepatocellular carcinoma Etiology Epidemiology Surveillance Therapy

Gastroesophageal signet ring cell carcinoma morbidity and mortality: A retrospective review

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World Journal of Gastrointestinal Surgery 2024年第6期16卷 1629-1636页

作者： Megan Grinlinton Chris Furkert Andrew Maurice Neville angelo Michael Booth Department of General Surgery North Shore HospitalAuckland 0620New Zealand Department of Pathology North Shore HospitalAuckland 0620New Zealand

BACKGROUND Upper gastrointestinal(GI)signet ring cell carcinomas(SRCC)confer a poor *** benefit of operative intervention for this patient group is contro-versial in terms of overall *** To investigate factors relating to survival in patients with upper GI *** A retrospective,tertiary,single-centre review of patients who were diagnosed with oesophageal,gastroesophageal junction and gastric SRCC was *** primary outcome was to compare mortality of patients who underwent operative management with those who had nonoperative ***-dary outcomes included assessing the relationship between demographic and histopathological factors,and *** One hundred and thirty-one patients were *** one-year survival for the operative group was 81%and for the nonoperative group was 19.1%.The five-year survival in the operative group was 28.6%vs 1.5%in the nonoperative *** difference in overall survival between groups was statistically significant(HR 0.19,95%CI(0.13-0.30),P<0.001).There was no difference in survival when ad-justing for age,smoking status or *** multivariate analysis,patients who underwent surgical management,those with a lower stage of disease,and those with a lower Charlson Comorbidity Index(CCI)had significantly improved *** Well-selected patients with upper GI SRCC appear to have reasonable medium-term survival following *** surgery to a carefully selected patient group may improve the outcome for this disease.

关键词： Signet ring cell carcinoma Gastric cancer Oesophageal cancer Poorly cohesive gastric cancer Diffuse gastric cancer

Simple Formulas of πin Terms of Φ

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Journal of Applied Mathematics and Physics 2024年第5期12卷 1904-1918页

作者： angelo Pignatelli Independent Researcher Roma Italy

The paper presents a novel exploration of π through a re-calculation of formulas using Archimedes’ algorithm, resulting in the identification of a general family equation and three new formulas involving the golden ratio Φ, in the form of infinite nested square roots. Some related geometrical properties are shown, enhancing the link between the circle and the golden ratio. Applying the same criteria, a fourth formula is given, that brings to the known Dixon’s squaring the circle approximation, thus an easier approach to this problem is suggested, by a rectangle with both sides proportional to the golden ratio Φ.

关键词： π Φ Golden Ratio Squaring the Circle