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Optimized protoplast isolation and transfection with a breakpoint:accelerating Cas9/sgRNA cleavage efficiency validation in monocot and dicot

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aBIOTECH 2024年第2期5卷 151-168页

作者： Debasmita Panda Subhasis Karmakar Manaswini Dash Swagat kumar Tripathy Priya Das Sagar Banerjee Yiping Qi Sanghamitra Samantaray pradipta kumar mohapatra Mirza J.Baig Kutubuddin A.Molla ICAR National Rice Research Institute CuttackOdisha 753006India Department of Botany Ravenshaw UniversityCuttackOdisha 753003India Department of Plant Science and Landscape Architecture University of MarylandCollege ParkMD 20742USA

The CRISPR-Cas genome editing tools are revolutionizing agriculture and basic biology with their simplicity and precision ability to modify target genomic ***-predicted guide RNAs(gRNAs)often fail to induce efficient cleavage at target *** target loci are inaccessible due to complex chromatin ***,there is no suitable tool available to predict the architecture of genomic target sites and their ***,significant time and resources are spent on performing editing experiments with inefficient *** in vitro-cleavage assay could provide a rough assessment of gRNA efficiency,it largely excludes the interference of native genomic *** in-vivo testing gives a proper assessment of the cleavage ability of editing reagents in a native genomic ***,we developed a modified protocol that offers highly efficient protoplast isolation from rice,Arabidopsis,and chickpea,using a sucrose gradient,transfection using PEG(polyethylene glycol),and validation of single guide RNAs(sgRNAs)cleavage efficiency of *** have optimized various parameters for PEG-mediated protoplast transfection and achieved high transfection efficiency using our protocol in both monocots and *** introduced plasmid vectors containing Cas9 and sgRNAs targeting genes in rice,Arabidopsis,and chickpea *** dual sgRNAs,our CRISPRdeletion strategy offers straightforward detection of genome editing success by simple agarose gel *** sequencing of PCR products confirmed the editing efficiency of specific ***,we demonstrated that isolated protoplasts can be stored for up to 24/48 h with little loss of viability,allowing a pause between isolation and *** high-efficiency protocol for protoplast isolation and transfection enables rapid(less than 7 days)validation of sgRNA cleavage efficiency before proceeding with stable *** isolation and transfection method can als

关键词： Protoplast Genome editing Transgene-free edited plants Rice Chickpea

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Short-term mixed electricity demand and price forecasting using adaptive autoregressive moving average and functional link neural network

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Journal of Modern Power Systems and Clean Energy 2019年第5期7卷 1241-1255页

作者： Sujit kumar DASH pradipta Kishore DASH Siksha O Anusandhan Deemed to be University Bhubaneswar 751030India

A new hybrid adaptive autoregressive moving average(ARMA)and functional link neural network(FLNN)trained by adaptive cubature Kalman filter(ACKF)is presented in this paper for forecasting day-ahead mixed short-term demand and electricity prices in smart *** hybrid forecasting framework is intended to capture the dynamic interaction between the electricity consumers and the forecasted prices resulting in the shift of demand curve in electricity *** proposed model comprises a linear ARMA-FLNN obtained by using a nonlinear expansion of the weighted *** nonlinear functional block helps introduce nonlinearity by expanding the input space to higher dimensional space through basis *** train the ARMA-FLNN,an ACKF is used to obtain faster convergence and higher forecasting *** proposed method is tested on several electricity markets,and the performance metrics such as the mean average percentage error(MAPE)and error variance are compared with other forecasting methods,indicating the improved accuracy of the approach and its suitability for a real-time forecasting.

关键词： Mixed demand and price forecasting Cubature Kalman filter Price spikes Smart grids

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Color and Texture Segmentation Using an Unified MRF Model

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Journal of Computer and Communications 2022年第6期10卷 139-164页

作者： Sucheta Panda pradipta kumar Nanda Department of Computer Application VSSUT Burla India Department of Electronics and Communication Engineering Siksha O Anusandhan Deemed to be University Bhubaneswar India

The color image segmentation problem has two main issues to be solved. The proper choice of a color model and the choice of an appropriate image model are the key issues in color image segmentation. In this work, Ohta (I1, I2, I3) is taken as the color model and different variants of Markov Random Field (MRF) models are proposed. In this regard, a Compound Markov Random Field (COMRF) model is porposed to take care of inter-color-plane and intra-color-plane interactions as well. In continuation to this model, a Constrained Compound Markov Random Field Model (CCOMRF) has been proposed to model the color images. The color image segmentation problem has been formulated in an unsupervised framework. The performance of the above proposed models has been compared with the standard MRF model and some of the state-of-the-art methods, and found to exhibit improved performance.

关键词： Color Image Color Model Image Segmentation Simulated Annealing MRF Model

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Hybrid IWD-DE:A Novel Approach to Model Cooperative Navigation Planning for Multi-robot in Unknown Dynamic Environment

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Journal of Bionic Engineering 2019年第2期16卷 235-252页

作者： Degal Chandrasekhar Rao Manas Ranjan Kabat pradipta kumar Das Prabir kumar Jena Department of Information Technology VSSUTBurlaOdisha 768018India Department of Computer Science&Engineerings VSSUT、Burla Odisha 76801&India Department of Mechanical Engineering VSSUTBurlaOdisha 76801&India

The current study emphasizes inadequacies of earlier research findings on multi-robot navigation and offers a robust approach to guide the robots in an unknown dynamic *** attain the objective,the Intelligent Water Drop(IWD)algorithm is combined with Differential Evolution(DE)in a new conceptual fashion to optimize the navigation path of multiple mobile *** hybrid IWD-DE,basic IWD and DE algorithms are then explored for multi-robot navigation in a dynamic workspace through *** simulation outcomes demonstrate the competency of the proposed method to guide the robot in predicting the nature of the obstacle and to generate an optimal and safe trajectory in a dynamic *** potency of the proposed algorithm is further validated through experimentation with fire bird robot in a real *** outcomes of the simulation and experimentation,by employing IWD-DE algorithm are compared with those of basic IWD and DE *** error estimated for Average Navigation Path Travelled(ANPT),Aggregate Navigation Path Deviation(ANPD)and number of turns between simulation and experimental results by employing IWD-DE is 8.96,9.09,and 11.13,respectively while reaching 16.43,28.61,29.15 for IWD,and 6.66,10.20,14.28 for *** efficiency of the proposed approach is further verified with the state-of-the-art in a dynamic *** outcomes reveal the efficiency and flexibility of the proposed approach in resolving the multi-robot navigation problem as compared to the state-of-the-art in a dynamic workspace.

关键词： multi-robot dynamic environment intelligent water drop differential evolution navigation planning waypoints fire bird robot

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Comparing accuracy of cochlear measurements on magnetic resonance imaging and computed tomography:A step towards radiation-free cochlear implantation

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中华耳科学杂志:英文版 2023年第4期18卷 208-213页

作者： Anurita Swarup Vinusree Karakkandy Preetam Chappity Suprava Naik Sanjay kumar Behera pradipta kumar Parida Mohnish Grover Gaurav Gupta Prajna Paramita Giri Saurav Sarkar Pradeep Pradhan Dillip kumar Samal Aswathi Kallyadan Veetil Asutosh Adhikari Saurav Nayak Department of ENT and HNS All India Institute of Medical Sciences(AIIMS)BhubaneswarOdishaIndia Department of Radiodiagnosis All India Institute of Medical Sciences(AIIMS)BhubaneswarOdishaIndia Department of Community and Family Medicine All India Institute of Medical Sciences(AIIMS)BhubaneswarOdishaIndia Department of Biochemistry All India Institute of Medical Sciences(AIIMS)BhubaneswarOdishaIndia Department of ENT Sawai Man Singh Medical CollegeJaipurRajasthanIndia Department of ENT Sardar Patel Medical CollegeBikanerRajasthanIndia

Objective:Computed Tomography(CT)and Magnetic Resonance Imaging(MRI)are commonly employed in pre-operative evaluation for cochlear implant ***,with a decrease in the age of implantation,even minor radiation exposure can cause detrimental effects on children over their *** current study compares different cochlear measurements from CT and MRI scans and evaluates the feasibility of using only an MRI scan for radiological evaluation before cochlear ***:A longitudinal observational study was conducted on 94 ears/47 children,employing CT and MRI *** CT and MRI scan measurements include,A value,B value,Cochlear duct length(CDL),twoturn cochlear length,alpha and beta angles to look for cochlear *** nerve diameter was measured using *** values were ***:The mean difference between measurements from CT and MRI scans for A value,B value,CDL,and two-turn cochlear length values was 0.567±0.413 mm,0.406±0.368 mm,2.365±1.675 mm,and 2.063±1.477 mm respectively without any significant *** alpha and beta angle measures were comparable,with no statistically significant ***:The study suggests that MRI scans can be the only radiological investigation needed with no radiation risk and reduces the cost of cochlear implant program in the paediatric *** is no significant difference between the measurements obtained from CT and MRI ***,observed discrepancies in cochlear measurements across different populations require regionally or race-specific standardized values to ensure accurate diagnosis and precision in cochlear implant *** aspect must be addressed to ensure positive outcomes for patients.

关键词： Cochlear implant Hearing loss Cochlea anatomy Radiology

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Primary endoscopic stapedotomy using 3 mm nasal endoscope:Audiologic and clinical outcomes

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Journal of Otology 2020年第4期15卷 133-137页

作者： Pradeep Pradhan Chappity Preetam pradipta kumar Parida Department of ENT and Head Neck Surgery All India Institute of Medical SciencesBhubaneswarOdisha751019India

Objective:To report the use of a 3 mm rigid nasal endoscope in primary endoscopic stapedotomy and clinical and audiological *** and methods:Thirty patients diagnosed with primary otosclerosis underwent endoscopic stapedotomy that was performed using a 3 mm nasal endoscope(Karl Storz).At 6 months follow-up,the patients were evaluated for intraoperative findings,postoperative hearing outcomes and ***:Canaloplasty was performed in 2(6.66%)patients,and no curettage of the canal wall was required in 12(40%)*** of the chorda tympani nerve was conducted in 11(36.66%)*** average duration of surgery was 36 min(range 31e65 min).The air-bone gap(ABG)was 35 dB(range 24e50 dB)preoperatively and 14.63 dB(range 9e20 dB)postoperatively(p?0.00).At 6 months follow-up,<20 dB ABG was achieved in 93.33%of the *** major intraoperative/postoperative complications were ***:A 3 mm rigid nasal endoscope can be effectively used in stapedotomy to obtain adequate audiological *** can be considered as a better alternative to the standard microscope or 4 mm endoscope in preserving the posterior canal wall and chorda tympani nerve while minimizing operative time without causing significant complications.

关键词： Endoscope Otosclerosis Outcomes

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Submental island flap reconstruction for carcinoma of the oral cavity: Experience in 30 cases

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World Journal of Otorhinolaryngology-Head and Neck Surgery 2019年第2期5卷 65-70页

作者： Pradeep Pradhan Swagatika Samal Dillip kumar Samal Chappity Preetam pradipta kumar Parida Department of Otorhinolaryngology All India Institute of Medical SciencesBhubaneswarOdisha751019India Department of Pathology All India Institute of Medical SciencesBhubaneswarOdisha751019India

Objective:The submental flap can be utilized for soft tissue reconstruction in oral cavity malignancies because due to its close approximation to the surgical site,fewer donor site morbidity and the cost effectiveness of the ***:A total of 30 patients with squamous cell carcinoma of the oral cavity were included in the study from July 2012 to August 2015 in a tertiary care referral *** with clinical staging Ⅰ/Ⅱ/Ⅲ (T1/T2/T3,N0) oral malignancy were included in the *** with nodal metastasis irrespective of the stage of disease and patients with chronic medical illness/revision cases were excluded from the *** island flap was utilized for the reconstruction of the soft tissue defect in each *** were followed at monthly interval till 6 months in the postoperative ***:The buccal mucosa (12 patients),tongue (10 patients) and floor of mouth (8 patients) were the subsites in the oral *** and complete skin necrosis was found in 4 and 2 patients *** chemoradiation was required in 5 *** of the patients had loco regional recurrence till 6 months of ***:The submental island flap is considered to be the reliable option for the soft tissue reconstruction in oral cancer because of dependent vascular pedicle,less donor site morbidity and the lower cost compared to the free flaps,often preferred in patients with a lower socioeconomic condition.

关键词： Oral malignancies Submental island flap Surgical technique Outcome

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Screening and antibacterial efficacy of selected Indian medicinal plants

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Asian Pacific Journal of Tropical Biomedicine 2016年第3期6卷 185-191页

作者： Suresh Mickymaray Mohammad Saleh Al Aboody pradipta kumar Rath Panneerselvam Annamalai Thajuddin Nooruddin Department of Medical Laboratories College of Science Al-Zulfi Majmaah University Department of Diagnostic Microbiology and Molecular Biology Doctors' Diagnostic Centre Post Graduate & Research Department of Botany & Microbiology A. Veeriya Vandayar Memorial Sri Pushpam College(Autonomous) Department of Microbiology School of Life Sciences Bharathidasan University

Objective: To evaluate the antibacterial efficacy of five Indian medicinal plants such as Acalypha indica L.(A. indica), Aerva lanata(L.) Juss. ex Schult.(A. lanata), Clerodendrum inerme(L.) Gaertn., Pergularia daemia(Forsk.) Chiov. and Solanum surattense Burm. f. against opportunistic bacterial pathogens isolated from HIV infected patients for the potential phytoconstituents in plant ***: The opportunistic bacterial pathogens such as Escherichia coli(E. coli),Pseudomonas aeruginosa, Salmonella typhi and Serratia marcescens from Gramnegative group and Staphylococcus aureus from Gram-positive group were isolated from HIV infected patients. The antibacterial efficacy of ethanolic extracts of selected medicinal plants was carried out by disc diffusion method. The potential phytoconstituents of medicinal plant extracts were identified by gas chromatography and mass spectrometry(GC–MS) ***: Among the five medicinal plants tested, A. indica and A. lanata showed the significant antibacterial activity. A. indica showed potential activity against Staphylococcus aureus and E. coli. A. lanata significantly exhibited antibacterial activity against E. coli, Salmonella typhi and Pseudomonas aeruginosa. A total of 19 phytoconstituents were identified in the ethanolic extract of A. indica and A. lanata by GC–MS analysis ***: The results of the present investigation revealed that A. indica and A. lanata, possessed significant antibacterial activity when compared with the other plant extracts tested. The presence of 3-O-methyl-D-glucose by GC–MS analysis in both A. indica and A. lanata extracts has not been reported elsewhere in the literature and the findings in this study could be the first one to report.

关键词： Antibacterial efficacy Medicinal plants Bacterial pathogens Phytoconstituents

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Classical Hodgkin＇s Lymphoma Presenting as Acute Hepatic Failure One Case Report

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Clinical oncology and cancer resexreh 2010年第6期7卷 373-376页

作者： pradipta Guha Shivesh Shanker Sahai Sekhar Mukherjee Sanjoy kumar Chatterjee Department of cardiology G.B. Pant Hospital New Delhi 110002 India. Department of General Medicine Medica College Kolkata-700073 West Bengal India.

A 20-year-old boy presenting daily febrile episodes was suspected to have developed acute hepatic failure. Serologic tests ruled out infectious and autoimmune causes apart from drug toxicity. During clinical examinations, he was found to have generalized enlarged lymph nodes that were then taken biopsy. It was diagnosed as classical Hodgkin’s lymphoma based on histological examination of the lymph node. A bone marrow biopsy showed marrow infiltration by Hodgkin’s lymphoma with hemophagocytosis and secondary myelofibrosis. A percutaneous liver biopsy demonstrated hepatic involvement of the same disease. After an extensive work-up, the cause of liver failure was figure out to be only attributed to the involvement of the lymphoma. Hodgkin’s lymphoma as a cause of hepatic failure is rare and young patients diagnosed as Hodgkin’s lymphoma causing hepatic failure has been reported very rarely so far.

关键词：肝功能衰竭淋巴瘤病例报告急性金编制自身免疫性药物毒性

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Iodocyclization of Diallyl-Dihydroxy Naphthalenes Using <i>N</i>-Iodosuccinimide vs Molecular Iodine in Aqueous Micelle

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International Journal of Organic Chemistry 2013年第3期3卷 176-184页

作者： pradipta kumar Basu Amrita Ghosh Department of Chemistry Hooghly Mohsin College Chinsurah India

A number of doubly-fused [1,2] naphthodifurans have been synthesized from the corresponding diallyl-dihydroxy naphthalene precursors involving N-iodosuccinimide in acetonitrile and also by molecular iodine in aqueous micelle using CTAB as surfactant. The electrophilic cyclization occurs regioselectively by a 5-exo-trig mode of cyclization.

关键词： Di-Allyl-Dihydroxy Naphthalene N-Iodosuccinimide CTAB Micelle 5-Exo-Trig Mode Regioselective Cyclization

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