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Comparative analysis of various modularization algorithms and species specific study of VEGF signaling pathways

Journal of Biomedical Science and Engineering 2010年第10期3卷 931-942页

作者： Namrata Tomar losiana nayak Rajat K. De 不详

In biology, signal transduction refers to a process by which a cell converts one kind of signal or stimulus into another. It involves ordered sequences of biochemical reactions inside the cell. These cascades of reactions are carried out by enzymes and activated by second messengers. Signal transduction pathways are complex in nature. Each pathway is responsible for tuning one or more biological functions in the intracellular environment as well as more than one pathway interact among themselves to carry forward a single biological function. Such kind of behavior of these pathways makes understanding difficult. Hence, for the sake of simplicity, they need to be partitioned into smaller modules and then analyzed. We took VEGF signaling pathway, which is responsible for angiogenesis for this kind of modularized study. Modules were obtained by applying the algorithm of nayak and De (nayak and De, 2007) for different complexity values. These sets of modules were compared among themselves to get the best set of modules for an optimal complexity value. The best set of modules compared with four different partitioning algorithms namely, Farhat’s (Farhat, 1998), Greedy (Chartrand and Oellermann, 1993), Kernighan-Lin’s (Kernighan and Lin, 1970) and Newman’s community finding algorithm (Newman, 2006). These comparisons enabled us to decide which of the aforementioned algorithms was the best one to create partitions from human VEGF signaling pathway. The optimal complexity value, on which the best set of modules was obtained, was used to get modules from different species for comparative study. Comparison among these modules would shed light on the trend of development of VEGF signaling pathway over these species.

关键词： Signal Transduction Pathway VEGF Pathway Complexity Value KEGG Database Modularization Newman’s Community Finding Algorithm Kernighan-Lin’s Algorithm Farhat’s Algorithm and Greedy Algorithm.

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Optimization of Wire-EDM Parameters for Ti-6Al-4V Using Taguchi-MRSN Optimization Approach

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Journal of Harbin Institute of Technology(New series) 2024年

作者： Ipsita nayak Jaydev Rana Department of Mechanical Engineering Veer Surendra Sai University of Technology

Ti-6Al-4V is a lightweight， extremely strong material with high resistance to corrosion and is widely used in aerospace industries， medical implants and many more. Contour cutting in such material with sharp corner radius， narrow kerf width， and maintaining high dimensional accuracy and surface integrity is a challenge for the modern manufacturing industry. Wire electrical discharge machining （WEDM） is a feasible process to meet the above challenges. However， proper control of process parameters is highly necessary for quality cutting of such material. In order to meet the above challenges， the present work focuses on the optimum selection of different process parameters such as pulse-on time (TON)， pulse-off time (TOFF)， spark gap voltage （SV） and wire feed rate （WF） using Taguchi-based multi response signal to noise ratio （MRSN） technique. This is a very simple multi response optimization technique to simultaneously optimize vital responses like thickness of white layer formed on the machined surfaces， average crack density， surface roughness and dimensional accuracy， without the assistance of any software. Moreover， simple regression models are developed to determine the above responses for any combination of process parameters. Industry personnel will find this study useful in utilizing this expensive non-conventional machining method in a techno-economic manner.

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Identification of galectin-3 as a novel potential prognostic/predictive biomarker and therapeutic target for cerebral cavernous malformation disease

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Genes & Diseases 2024年第1期11卷 67-71页

作者： Souvik Kar Andrea Perrelli Kiran Kumar Bali Raffaella Mastrocola Arpita Kar Bushra Khan Luis Gand Arnab nayak Christian Hartmann Wolfram SKunz Amir Samii Helmut Bertalanffy Saverio Francesco Retta International Neuroscience Institute Rudolf-PichlmayrStrasse 4Hannover 30625Germany Department of Clinical and Biological Sciences University of TorinoOrbassano(TO)10043Italy CCM Italia Research Network National Coordination Center at the Department of Clinical and Biological SciencesUniversity of TorinoOrbassano(TO)10043Italy Department of Experimental Pain Research Mannheim Center for Translational Neuroscience(MCTN)Medical Faculty MannheimHeidelberg UniversityMannheim 68167Germany Department of Kidney Liver and Metabolic DiseasesChildren’s HospitalHannover Medical SchoolHannover 30625Germany Ricarda-Huch-Street-10B Hannover 30880Germany Institute of Molecular and Cell Physiology Hannover Medical SchoolHannover 30625Germany Department of Neuropathology Institute of PathologyHannover Medical SchoolHannover 30625Germany Institute of Experimental Epileptology and Cognition Research and Department of Epileptology University Hospital BonnVenusberg-Campus 1Bonn 53127Germany epartment of Pharmacology and Physiology University of Rochester Medical CenterRochesterNY 14642USA

cerebrovascular disease of genetic origin characterized by abnormally dilated capillaries and a wide spectrum of symptoms,including headaches,seizures,neurological deficits,and intracerebral hemorrhage.Its unpredictable clinical course and the current lack of therapies make the identification of prognostic and predictive biomarkers an imperative research challenge.1 Herein,we provide evidence that galectin-3(Gal-3),a major tissue and circulating biomarker of oxidative stress and inflammation,is significantly up-regulated both in CCM patients and experimentalmodels.Specifically,wholetranscriptome sequencing,qRT-PCR,and Western blotting studies demonstrated a significant up-regulation of Gal-3 expression levels both in surgical CCM specimens and in blood samples of CCM patients.

关键词： inflammation cerebral dilated

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Biological,pathological,and multifaceted therapeutic functions of exosomes to target cancer

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Oncology Research 2024年第1期32卷 73-94页

作者： VIGNESH BALAJI E DIVYA RAMESH MANISHA CHUNGAN SHAJU AKSHARA KUMAR SAMYAK PANDEY RAKSHA nayak V.ALKA SRISHTI MUNJAL AMIR SALIMI K.SREEDHARA RANGANATH PAI SHANKAR M.BAKKANNAVAR Department of Pharmacology Manipal College of Pharmaceutical SciencesManipal Academy of Higher EducationManipalKarnataka576104India Department of Forensic Medicine and Toxicology Kasturba Medical CollegeManipal Academy of Higher EducationManipalKarnataka576104India School of Health and Community Services Durham CollegeOshawaOntarioL1G2G5Canada Department of Pharmaceutical Regulatory Affairs and Management Manipal College of Pharmaceutical SciencesManipal Academy of Higher EducationManipalKarnataka576104India Department of Clinical Psychology Manipal College of Health ProfessionsManipal Academy of Higher EducationManipalKarnataka576104India Department of Speech and Hearing Manipal College of Health ProfessionsManipal Academy of Higher EducationManipalKarnataka576104India Department of Pharmacy Practice Manipal College of Pharmaceutical SciencesManipal Academy of Higher EducationManipalKarnataka576104India

Exosomes,small tiny vesicle contains a large number of intracellular particles that employ to cause various diseases and prevent several pathological events as well in the human body.It is considered a“double-edged sword”,and depending on its biological source,the action of exosomes varies under physiological conditions.Also,the isolation and characterization of the exosomes should be performed accurately and the methodology also will vary depending on the exosome source.Moreover,the uptake of exosomes from the recipients’cells is a vital and initial step for all the physiological actions.There are different mechanisms present in the exosomes’cellular uptake to deliver their cargo to acceptor cells.Once the exosomal uptake takes place,it releases the intracellular particles that leads to activate the physiological response.Even though exosomes have lavish functions,there are some challenges associated with every step of their preparation to bring potential therapeutic efficacy.So,overcoming the pitfalls would give a desired quantity of exosomes with high purity.

关键词： Exosomes Physiology Cancer Therapeutics Challenges

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Differential Power Based Selective Phase Tripping for Fault-resilient Microgrid

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Journal of Modern Power Systems and Clean Energy 2022年第2期10卷 459-470页

作者： Bhatraj Anudeep Paresh Kumar nayak the Department of Electrical Engineering Indian Institute of Technology(ISM)DhanbadDhanbadIndia

Modern fault-resilient microgrids(MGs)require the operation of healthy phases during unbalanced short-circuits to improve the system reliability.This study proposes a differential power based selective phase tripping scheme for MGs consisting of synchronous and inverter-interfaced distributed generators(DGs).First,the differential power is computed using the line-end superimposed voltage and current signals.Subsequently,to make the scheme threshold-free,a power coefficient index is derived and used for identifying faulted phases in an MG.The protection scheme is tested on a standard MG operating in either grid-connected or islanding mode,which is simulated using PSCAD/EMTDC.The efficacy of the scheme is also assessed on the OPAL-RT manufactured real-time digital simulation(RTDS)platform.Further,the performance of the proposed protection scheme is compared with a few existing methods.The results show that the selective tripping of faulted phases in MGs can be achieved quickly and securely using the proposed scheme.

关键词： Distributed generator differential power fault detection microgrid protection selective phase tripping.

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Impact of Hierarchical Architecture of Cryptotermes brevis Wing on the Modulation of Bacterial Adhesion

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Journal of Bionic Engineering 2022年第2期19卷 516-529页

作者： Sanjeev Kumar Paikra Sumit Mukherjee Nibedita nayak Janmejaya Bag Monalisa Mishra Neural Developmental Biology Laboratory Department of Life ScienceNational Institute of Technology769008RourkelaSundergarhOdishaIndia

The wing architecture is an inspiration to fabricate novel materials with exquisite properties.The current study characterizes the structure and biological function of a termite’s wing.The topography of the surface of the wing was studied by electron microscopy,and surface profilometer.The physicochemical property of the surface was analyzed by Fourier transform infrared spectroscopy,X-ray diffraction spectroscopy,energy-dispersive X-ray spectroscopy,and gas chromatography-mass spectrometry analysis of the epicuticle content.Water Contact Angle measurement confirmed the hydrophobicity of the wing surface.When microorganisms come in contact with the surface of the wing,they adhere to the wing surface due to cell surface properties of their own and the surface chemistry of the wing.The current study reported the adhesion behavior of two bacterial species.The bactericidal activity of the wing was confirmed by counting the bacterial cell viability and examination under a confocal laser scanning microscope.Adhesion of bacteria was observed under the electron microscope.Bacterial oxidative stress,the topography of the wing,and the surface chemistry of the wing are the crucial factors that induce bactericidal activity.The nanostructure along with the chemical composition of the wing can be mimicked for the fabrication of novel material with antibacterial properties.

关键词： Bacterial adhesion Bactericidal Chitin Nanostructure Pseudomonas aeruginosa Staphylococcus aureus

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Indian Traditional Treatments for Psoriasis:A Critical Appraisal of Available Evidence Supporting Efficacy

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Chinese Journal of Integrative Medicine 2023年第1期29卷 69-73页

作者： nayak Deeksha Dayanand Arul Amuthan Sathish Pai Ballambat Shama Prasada Kabbekodu Vasudha Devi Department of Pharmacology Kasturba Manipal Medical CollegeManipal Academy of Higher EducationManipal576104India Department of Dermatology Venerology and LeprosyKasturba Medical CollegeManipal Academy of Higher EducationManipal576104India Department of Cell and Molecular Biology Manipal School of Life SciencesManipal Academy of Higher EducationManipal576104India Centre for Cardiovascular Pharmacology Manipal Academy of Higher EducationManipal576104India

Objective To examine data from studies supporting the clinical efficacy of medical approaches from India traditional systems of medicines like Ayurveda,Unani,Siddha,and Homeopathy for psoriasis using outcome indicators employed in clinical practice and research.Methods Searches were conducted between December 2019 and September 2020 in databases PubMed,Scopus,Web of Science and Ovid Medline using search terms including traditional,complementary,psoriasis,Kushtha,Ayurveda,Siddha,Unani,Homeopathy and clinical.Controlled trials,case series and case reports published from India were included.Results Data of 17 selected studies were extracted.Treatment efficacy in terms of improvement in Psoriasis Area and Severity Index(PASI)score or/and percentage reduction in score(PASI 50,PASI 75 and PASI 90)or/and patient-reported outcomes using instruments like Dermatology Life Quality Index and Psoriasis Disability Index were noted.All studies reported good improvement as per the study specific outcome.However,study characteristics,including study design,sample size,follow-up period,inclusion and exclusion criteria were heterogeneous,and the choice of outcome measures was not adequate to conclude the effectiveness of intervention.The use of some herbs as common ingredients in several formulations across different systems of medicines were noted in analyzing individual formulation.Conclusions Future studies must incorporate a comprehensive study design with specific outcome measures like PASI,PASI 75,PASI 90,quality of life parameters,compliance to medications,adverse reactions,remission period,relapse rate and cost-effectiveness with long term follow-up.The currently available evidence on the roles of these herbs at molecular level in psoriasis is preliminary.

关键词： psoriasis traditional treatment Indian efficacy herb clinical

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Light gradient boosting machine with optimized hyperparameters for identification of malicious access in IoT network

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Digital Communications and Networks 2023年第1期9卷 125-137页

作者： Debasmita Mishra Bighnaraj Naik Janmenjoy nayak Alireza Souri Pandit Byomakesha Dash S.Vimal Department of Computer Application Veer Surendra Sai University of TechnologyBurlaSambalpur768018OdishaIndia Department of Computer Science Maharaja Sriram Chandra Bhanja Deo(MSCB)UniversityBaripada757003OdishaIndia Department of Software Engineering HaliçUniversity34394IstanbulTurkey Department of Information Technology Aditya Institute of Technology and Management(AITAM)Tekkali532201Andhra PradeshIndia Data Analytics Lab Department of Artificial Intelligence and Data ScienceRamco Institute of TechnologyNorth Venganallur VillageRajapalayam 626117 Virudhunagar DistrictTamilnaduIndia

In this paper,an advanced and optimized Light Gradient Boosting Machine(LGBM)technique is proposed to identify the intrusive activities in the Internet of Things(IoT)network.The followings are the major contributions:i)An optimized LGBM model has been developed for the identification of malicious IoT activities in the IoT network;ii)An efficient evolutionary optimization approach has been adopted for finding the optimal set of hyper-parameters of LGBM for the projected problem.Here,a Genetic Algorithm(GA)with k-way tournament selection and uniform crossover operation is used for efficient exploration of hyper-parameter search space;iii)Finally,the performance of the proposed model is evaluated using state-of-the-art ensemble learning and machine learning-based model to achieve overall generalized performance and efficiency.Simulation outcomes reveal that the proposed approach is superior to other considered methods and proves to be a robust approach to intrusion detection in an IoT environment.

关键词： IoT security Ensemble method Light gradient boosting machine Machine learning Intrusion detection

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Deep Convolutional Network Based Machine Intelligence Model for Satellite Cloud Image Classification

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Big Data Mining and Analytics 2023年第1期6卷 32-43页

作者： Kalyan Kumar Jena Sourav Kumar Bhoi Soumya Ranjan nayak Ranjit Panigrahi Akash Kumar Bhoi Department of Computer Science and Engineering Parala Maharaja Engineering CollegeBerhampur 761003India Amity School of Engineering and Technology Amity UniversityUttar Pradesh 201303India Department of Computer Applications Sikkim Manipal Institute of TechnologySikkim Manipal UniversitySikkim 737102India Directorate of Research Sikkim Manipal UniversityGangtokSikkim 737102India

As a huge number of satellites revolve around the earth,a great probability exists to observe and determine the change phenomena on the earth through the analysis of satellite images on a real-time basis.Therefore,classifying satellite images plays strong assistance in remote sensing communities for predicting tropical cyclones.In this article,a classification approach is proposed using Deep Convolutional Neural Network(DCNN),comprising numerous layers,which extract the features through a downsampling process for classifying satellite cloud images.DCNN is trained marvelously on cloud images with an impressive amount of prediction accuracy.Delivery time decreases for testing images,whereas prediction accuracy increases using an appropriate deep convolutional network with a huge number of training dataset instances.The satellite images are taken from the Meteorological&Oceanographic Satellite Data Archival Centre,the organization is responsible for availing satellite cloud images of India and its subcontinent.The proposed cloud image classification shows 94% prediction accuracy with the DCNN framework.

关键词： satellite images satellite image classification cyclone prediction Deep Convolutional Neural Network(DCNN) features layers down-sampling process

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Load dependent microstructural evolution in an as-cast 26%Cr high chromium cast iron during unlubricated sliding

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Friction 2022年第8期10卷 1258-1275页

作者： U.Pranav nayak Sebastian SUÁREZ Valentin PESNEL Frank MÜCKLICH María Agustina GUITAR Department of Materials Science Saarland UniversitySaarbrücken 66123Germany Materials Engineering Center Saarland Saarbrücken 66123Germany Ecole Européenne d’ingénieurs en Génie des Matériaux Universitéde LorraineNancy 54000France

In the current study,an as-cast 26%Cr high chromium cast iron(HCCI)alloy was subjected to dry-sliding linear wear tests,under different loads.The loads were selected based on analytically computing the critical load(PC)i.e.,the load necessary to induce plastic deformation.The PC was calculated to be 15 N and accordingly,a sub-critical load(5 N)and an over-critical load(20 N)were chosen.The influence of increasing the load during the wear test was investigated in terms of the matrix microstructural behaviour and its ability to support the surrounding carbides.The morphological aspects of the wear tracks,and the deformed matrix microstructure adjacent and underneath the track was analysed by confocal laser scanning microscope(CLSM)and scanning electron microscope(SEM),respectively.No evidence of plastic deformation of the matrix was observed below PC.On the contrary,at loads equal to and higher than PC,the austenitic matrix plastically deformed as evidenced by the presence of slip bands.Electron backscattered diffraction(EBSD)measurements in terms of grain reference orientation deviation,and micro-Vickers hardness of the austenitic matrix indicated a deformation depth of about 40μm at the maximum applied load of 20 N.The active wear mechanisms during sliding were a combination of both adhesive and abrasive wear,although increasing the load shifted the dominant mechanism towards abrasion.This was primarily attributable to the increased propensity for carbide cracking and fracturing,combined with the inability of the hardened austenitic matrix surface and sub-surface to adequately support the broken carbide fragments.Moreover,the shift in the dominant wear mechanism was also reflected in the wear volume and subsequently,the wear rate.

关键词： high chromium cast iron unlubricated sliding plastic deformation wear resistance carbide spallation matrix hardness

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