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GliomaCNN: An Effective Lightweight CNN Model in Assessment of Classifying Brain Tumor from Magnetic Resonance Images Using Explainable AI

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Computer Modeling in Engineering & Sciences 2024年第9期140卷 2425-2448页

作者： Md.atiqur rahman Mustavi Ibne Masum Khan Md Hasib M.F.Mridha Sultan Alfarhood Mejdl Safran Dunren Che Department of Computer Science and Engineering Ahsanullah University of Science and TechnologyDhaka1208Bangladesh Department of Computer Science and Software Engineering The University of Western AustraliaPerthWA 6009Australia Department of Computer Science American International University-BangladeshDhaka1229Bangladesh Department of Computer Science College of Computer and Information SciencesKing Saud UniversityP.O.Box 51178Riyadh11543Saudi Arabia School of Computing Southern Illinois UniversityCarbondale62901USA

Brain tumors pose a significant threat to human lives and have gained increasing attention as the tenth leading cause of global *** study addresses the pressing issue of brain tumor classification using Magnetic resonance imaging(MRI).It focuses on distinguishing between Low-Grade Gliomas(LGG)and High-Grade Gliomas(HGG).LGGs are benign and typically manageable with surgical resection,while HGGs are malignant and more *** research introduces an innovative custom convolutional neural network(CNN)model,*** stands out as a lightweight CNN model compared to its *** research utilized the BraTS 2020 dataset for its *** with the gradient-boosting algorithm,GliomaCNN has achieved an impressive accuracy of 99.1569%.The model’s interpretability is ensured through SHapley Additive exPlanations(SHAP)and Gradient-weighted Class Activation Mapping(Grad-CAM++).They provide insights into critical decision-making regions for classification *** challenges in identifying tumors in images without visible signs,the model demonstrates remarkable performance in this critical medical application,offering a promising tool for accurate brain tumor diagnosis which paves the way for enhanced early detection and treatment of brain tumors.

关键词： Deep learning magnetic resonance imaging convolutional neural networks explainable AI boosting algorithm ablation

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Advances in DNA methylation and its role in cytoplasmic male sterility in higher plants

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Journal of Integrative Agriculture 2024年第1期23卷 1-19页

作者： atiqur rahman Hasan Sofiur rahman Shakil Uddin Naima Sultana Shirin Akhter Ujjal Kumar Nath Shamsun Nahar Begum Mazadul Islam Afroz Naznin Nurul Amin Sharif Ahmed Akbar Hossain Department of Genetics and Plant Breeding Bangladesh Agricultural UniversityMymensingh 2202Bangladesh Plant Breeding Division Bangladesh Institute of Nuclear AgricultureMymensingh 2202Bangladesh Tuber Crop Research Centre Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh Horticulture Research Centre Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh Biotechnology Division Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh International Rice Research Institute Bangladesh OfficeDhaka 1213Bangladesh Division of Soil Science Bangladesh Wheat and Maize Research InstituteDinajpur 5200Bangladesh

The impact of epigenetic modifications like DNA methylation on plant phenotypes has expanded the possibilities for crop *** methylation plays a part in the regulation of both the chromatin structure and gene expression,and the enzyme involved,DNA methyltransferase,executes the methylation process within the plant *** regulating crucial biological pathways,epigenetic changes actively contribute to the creation of the ***,epigenome editing may assist in overcoming some of the drawbacks of genome editing,which can have minor off-target consequences and merely facilitate the loss of a gene’s *** drawbacks include gene knockout,which can have such off-target *** review provides examples of several molecular characteristics of DNA methylation,as well as some plant physiological processes that are impacted by these epigenetic changes in the *** also discuss how DNA alterations might be used to improve crops and meet the demands of sustainable and environmentally-friendly farming.

关键词： DNA methylation epigenetics CMS male sterility chromatin architecture gene expression higher plants

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Nature’s Pharmacy under Siege: Investigating Antibiotic Resistance Pattern in Endophytic Bacteria of Medicinal Plants

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Advances in Microbiology 2024年第4期14卷 183-208页

作者： Bonoshree Sarkar Afroza Sultana Nabila Nawar Binti Farhana Tasnim Chowdhury Sadia Afrin Mohammad Fahim Taibur rahman atiqur rahman Infection Biology Laboratory Department of Biochemistry and Molecular Biology University of Dhaka Dhaka Bangladesh Department of Pathology University of Alabama at Birmingham Birmingham USA

Antibiotic resistance poses a significant global health threat, necessitating a thorough understanding of its prevalence in various ecological contexts. Medicinal plants, renowned for their therapeutic properties, host endophytic bacteria that produce bioactive compounds. Understanding antibiotic resistance dynamics in these bacteria is vital for human health and antibiotic efficacy preservation. In this study, we investigated antibiotic resistance profiles in endophytic bacteria from five medicinal plants: Thankuni, Neem, Aparajita, Joba, and Snake plant. We isolated and characterized 113 endophytic bacteria, with varying resistance patterns observed against multiple antibiotics. Notably, 53 strains were multidrug-resistant (MDR), with 14 exhibiting extensive drug resistance (XDR). Thankuni-associated bacteria displayed 44% MDR and 11% XDR, while Neem-associated bacteria showed higher resistance (60% MDR, 13% XDR). Aparajita-associated bacteria had lower resistance (22% MDR, 6% XDR), whereas Joba-associated bacteria exhibited substantial resistance (54% MDR, 14% XDR). Snake plant-associated bacteria showed 7% MDR and 4% XDR. Genus-specific distribution revealed Bacillus (47%), Staphylococcus (21%), and Klebsiella (11%) as major contributors to MDR. Our findings highlight diverse drug resistance patterns among plant-associated bacteria and underscore the complexity of antibiotic resistance dynamics in diverse plant environments. Identification of XDR strains emphasizes the severity of the antibiotic resistance problem, warranting further investigation into contributing factors.

关键词： Antibiotic Resistance Endophytic Bacteria Medicinal Plants Drug Resistance

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Entropy Quantization of Schwarzschild Black Hole

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Communications in Theoretical Physics 2019年第3期71卷 307-311页

作者： M.atiqur rahman Department of Applied Mathematics Rajshahi University

The surface gravity of Schwarzschild black hole can be quantized from the test particle moving around different energy states analog to the Bohr's atomic model. We have quantized the Hawking temperature and entropy of Schwarzschild black hole from quantization of surface gravity. We also have shown that the change of entropy reduces to zero when the boundary shrinks to very small size.

关键词： Hawking temperature entropy Schwarzschild black hole

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COVID-19: Challenges and viewpoints from low-and-middle-income Asian countries perspectives

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Journal of Safety Science and Resilience 2020年第2期1卷 70-72页

作者： Yasmin Jahan atiqur rahman Graduate School of Biomedical and Health Sciences Hiroshima University1-2-3 Minami-kuHiroshima-shi 734-0046Japan Department of Society and Culture(IKOS) Division Ageing and Social ChangeLinköping UniversitySweden

The crisis of coronavirus disease(COVID-19)is growing and has a potential impact on low-and-middle-income countries(LMICs),particularly in Asian regions,which,have reported less so *** main purpose of this article is to discuss the challenges of COVID-19 management in Asian LMICs and propose some future guidelines to control the transmission and *** to a highly dense population,low-resourced health system,lack of testing kit,and tracing,the ultimate impact could be *** is highly likely that Asian LMICs were not in the center of receiving high priority by the international community in order to take effective prevention *** might upsurge *** the symptoms,mode of transmission varies largely due to a number of unknown clinical features of the virus,defining a risk group only based on some limited criteria such as age and disease with comorbidity could be *** some of the Asian LMICs launched contact tracing ***,the study has identified several healthcare challenges in Asian LMICs such as shortage of supply of PPE,inadequate long-term care services,the socio-cultural differences which require utmost *** addition,to control infection and enhance prevention,some pertinent problems need to be *** on that,some multifactorial approaches can be taken in line with international ***,this paper recommends developing a strong and resilient healthcare monitoring system.

关键词： COVID-19 Asian Low-middle income countries Challenges control Prevention

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Nature’s Pharmacy under Siege: Investigating Antibiotic Resistance Pattern in Endophytic Bacteria of Medicinal Plants

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Advances in Microbiology（微生物学） 2024年第4期 183页

作者： Bonoshree Sarkar Afroza Sultana Nabila Nawar Binti Farhana Tasnim Chowdhury Sadia Afrin Mohammad Fahim Taibur rahman atiqur rahman

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Multi-functional pharmacological credence of triterpenoid 16-hydroxy betulinic acid isolated from Mikania cordata

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中国药理学与毒理学杂志 2018年第4期32卷 253-254页

作者： M. Oliur rahman Shah Alam SIDDIQUI atiqur rahman Mohammad Ahsanul AKBAR Mohammad Ajmal ALI Department of Botany University of Dhaka Dhaka 1000 Bangladesh Department ofApplied Chemistry and Chemical Engineering Islamic University Kushtia 7003 Bangladesh Department of Clinical Pharmacy and Pharmacology University of Dhaka Dhaka 1

OBJECTIVE To isolate and characterize bioactive compound from traditionally important medicinal plant Mikania cordata,and to investigate muti-faced pharmacological activities of the isolated *** A triterpeenoid,16-hydroxy betulinic acid(16 HBA) was isolated from Mikania cordata leaf and the structure of the compound was determined by NMR spectroscopic *** activity of 16 HBA was tested by disc diffusion method and minimum inhibitory concentration(MIC) against the tested microorganisms was *** analgesic property of 16 HBA was tested using acetic acid-induced writhes in mice and hot plate thermal stimulation in *** anti-inflammatory activity was studied using carrageenin-induced paw edema *** antipyretic potential of 16 HBA was evaluated by using yeast-induced hyperthermia in *** The triterpenoid 16 HBA showed potent antibacterial activity with inhibition zone of diameter ranging from 12.0~17.5 mm and antifungal activity with mycelial growth inhibition ranges from 37.6%~54.5%.The MIC values for antibacterial and antifungal activities ranged from 31.5~125 and 250~1000 μg·mL-1 *** compound(50 and100 mg·kg^(-1) body weight) showed potent peripheral and central analgesic activity having 55.19% and41% of writhing inhibition at 90 min after administration of the compound and the highest 55.98%,79.18% elongation of reaction time,*** anti-inflammatory activity screening,the compound(100 mg·kg^(-1)) revealed the highest 77.08% edema inhibition at 4 h after administration of *** antipyretic assay,16 HBA exhibited a strong antipyretic effect in yeast-induced *** The present study confirmed that 16-hydroxy betulinic acid isolated from Mikania cordata has potent antimicrobial,analgesic,anti-inflammatory and antipyretic *** results can be seen as scientific support for the traditional and folklore usage of Mikania cordata in Bangladesh for the treatment of differen

关键词：药用植物薇甘菊活性化学物药物分析

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Infection of <i>Toxoplasma gondii</i>in Humans and Livestock Animals: An Emerging Silent Threat for Bangladesh

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Open Journal of Medical Microbiology 2018年第4期8卷 109-117页

作者： Taibur rahman atiqur rahman Sajib Chakraborty Department of Biochemistry and Molecular Biology University of Dhaka Dhaka Bangladesh

Toxoplasma gondii is an intracellular, zoonotic protozoan parasite that causes toxoplasmosis. It can potentially infect almost all mammalian and avian hosts including one-third of the human population world-wide. The major target group of the parasite includes immunocompromised patients (e.g. AIDS, cancer, organ transplantation) and fetus bearing pregnant women where it develops toxoplasmic encephalitis, myocarditis, chorioretinitis and abnormal fetal brain development or stillbirths respectively. In this review, we have presented the current status of T. gondii infection in livestock animals and human population in Bangladesh to assess the country-wide relative risk. Although exact prevalence is difficult to predict due to the scarcity of data, nevertheless existing literature suggests that 16% - 39% humans and 8% - 70% domestic animals are infected with T. gondii, which implies Bangladeshi population is at high risk of toxoplasmosis. Furthermore, we have proposed a potential area of research to decipher the genetic diversity and transmission routes of T. gondii infection into Bangladeshi population.

关键词： Toxoplasma gondii Seroprevalence Livestock Animals Humans Bangladesh

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Serologic Detection of <i>Toxoplasma gondii</i>in Cat Owners Residing at Dhaka Metropolitan Area of Bangladesh

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Advances in Microbiology 2021年第5期11卷 257-265页

作者： Jerin-E- Gulshan Niladri Paul atiqur rahman Taibur rahman Laboratory of Infection Biology Department of Biochemistry and Molecular Biology University of Dhaka Dhaka Bangladesh

Toxoplasma gondii is a zoonotic protozoan that can infect any warm-blooded mammal. T. gondii infects about one-third of the human population on the planet. Infection with the parasite in human causes toxoplasmosis that may pose a high risk in immunocompromised individuals under certain clinical conditions. Cats are the ultimate hosts of T. gondii where oocysts are formed through mating of male and female gametes. Infected cats can expel T. gondii oocysts in their feces, and thereby capable of pass on a disease to humans and other animals through consumption of foods, vegetables and water that are polluted with cat feces. The study was conducted to detect the presence of anti-T. gondii IgM and IgG antibodies in the blood of individuals with or without cat contact to determine if there is any relationship between cat contacts and T. gondii infection in humans. To address this, we enrolled subjects who contacted with the cat as target group and individuals with no cat contact as control group. Following register of different demographic data (including age, sex, education, foods habit, income status, etc.), whole blood from each enrolled subject of both the target group and control group was collected for serum preparation. T. gondii infected subjects were detected by Toxo Rapid test kit through identifying anti-T. gondii IgM and IgG antibodies in their serum. We found that only three out of twenty subjects who were in contact with cat showed positive IgG response while IgM antibody response was absent for all subjects. When compared with the data from control group, we did not find any significant association (p = 0.33) of cat contact with the transmission of T. gondii into human. However, with this small number of study subjects, we cannot conclusively say that there is no impact of cat contact on the transmission of T. gondii into human. Whether any association exists or not can be ascertained wit

关键词： Toxoplasma gondii Cat Owner Seropositivity Transmission

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Ameliorating effects of Raphanus sativus leaves on sodium arsenite-induced perturbation of blood indices in Swiss albino mice

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Asian Pacific Journal of Tropical Biomedicine 2017年第10期7卷 915-920页

作者： Sayada Dilruba MMHasibuzzaman Mashiur rahman Nayan Chandra Mohanto Sharmin Aktar atiqur rahman Md Imam Hossain Abu Shadat Mohammod Noman Farjana Nikkon Zahangir Alam Saud Khaled Hossain Department of Biochemistry and Molecular Biology University of RajshahiRajshahi 6205Bangladesh Department of Biochemistry EXIM Bank Agricultural University BangladeshChapainawabganj 6300Bangladesh Department of Biochemistry and Molecular Biology Shahjalal University of Science and TechnologySylhet 3114Bangladesh Department of Biochemistry and Molecular Biology Mawlana Bhashani Science and Technology UniversitySantoshTangail 1902Bangladesh Department of Biotechnology and Genetic Engineering Mawlana Bhashani Science and Technology UniversitySantoshTangail 1902Bangladesh Department of Biochemistry and Molecular Biology University of ChittagongChittagong 4331Bangladesh

Objective: To evaluate the ameliorating effects of Raphanus sativus leaves(RSL)against sodium arsenite(Sa)-induced adverse effects through mice ***: Swiss albino mice were divided into four equal groups: control, Sa, RSL,RSL + Sa. Sa(10 mg/kg body weight/day), and powder form of RSL(50 mg/kg body weight/day) were provided as food supplement orallty. Blood indices were measured using commercially available kits through colorimetric ***: It was observed that lactate dehydrogenase, alkaline phosphatase, alanine aminotransferase, and aspartate aminotransferase activities were significantly(P < 0.05)higher in Sa-treated mice than those in the control group. RSL significantly reduced Sainduced elevation of the activities of these enzymes in serum significantly(P < 0.05).Serum butyrylcholinesterase activity and high density lipoproteins cholesterol levels in Satreated mice were significantly(P < 0.05) lower than the control group, and the food supplementation of RSL could significantly(P < 0.05) prevent the reduction of Sa-mediated serum butyryl cholinesterase activity and high density lipoproteins cholesterol levels. RSL could also reduce the Sa-induced elevation of serum urea level significantly(P < 0.05).Conclusions: Results of this study suggest the protective or ameliorating effects of RSL on Sa-induced perturbation of blood indices are related to the hepatic, cardiovascular and kidney dysfunction. Therefore, RSL may be useful to reduce arsenic toxicity in human in the future.

关键词： Sodium arsenite Raphanus sativus leaves Ameliorating effect Serum indices

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