34 results on '"Mat Isa N"'
Search Results
2. The representation of cultural identity in Melaka Portuguese cookbooks.
- Author
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Azhari, Sarah Sakeenah, Pillai, Stefanie, and Mat Isa, N. A. N.
- Subjects
PORTUGUESE language ,COOKBOOKS ,PORTUGUESE people ,GROUP identity ,LINGUISTIC minorities - Abstract
The Melaka Portuguese are descendants of unions between the Portuguese, who conquered Melaka in the early 16th Century, and locals. The language and culture of this minority hybrid community have survived to this day in Malaysia. Over the last decade, there has been a push to distinguish their food, and hence, cultural identity, from other communities in Malaysia. However, there has not been much focus on the cultural representation of this "homegrown" group of people in discourses related to food. To begin addressing this gap, this paper addresses the question of cultural identity represented in four Melaka Portuguese cookbooks. The focus of this paper is on the use of linguistic and visual elements related to food heritage in four Melaka Portuguese cookbooks to examine how they are used in the construction of cultural identity among the community. These elements were analyzed using a social semiotic approach. The linguistic elements in the texts were found to be related to the cultural identity of the Melaka Portuguese people through inclusion of their family narratives and stories in the cookbooks. Visual elements were also used to portray the Melaka Portuguese culture through depictions of traditional kitchenware and food preparation techniques. [ABSTRACT FROM AUTHOR]
- Published
- 2023
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3. Body Matching Algorithm Using Normalize Dynamic Time Warping (NDTW) Skeleton Tracking for Traditional Dance Movement
- Author
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Mohamed, A. S. A., primary, Chingeng, P. S., additional, Mat Isa, N. A., additional, and Surip, S. S., additional
- Published
- 2017
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4. Classification of Breast Lesions Using Artificial Neural Network
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Mashor, Mohd Yusoff, Esugasini, S., Mat Isa, N. A., Othman, N. H., Magjarevic, R., Series Editor, Nagel, J. H., Series Editor, Ibrahim, Fatimah, editor, Osman, Noor Azuan Abu, editor, Usman, Juliana, editor, and Kadri, Nahrizul Adib, editor
- Published
- 2007
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5. Locally adaptive bilateral clustering for universal image denoising
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Toh, K. K. V. and Mat Isa, N. A.
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- 2012
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6. Optimized K-means (OKM) clustering algorithm for image segmentation
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Siddiqui, F. U. and Mat Isa, N. A.
- Published
- 2012
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7. Classification of Breast Lesions Using Artificial Neural Network
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Mashor, Mohd Yusoff, primary, Esugasini, S., additional, Mat Isa, N. A., additional, and Othman, N. H., additional
- Published
- 2007
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8. Efficacy, humoral, and cell-mediated immune response of inactivated fowl adenovirus 8b propagated in chicken embryo liver cells using bioreactor in broiler chickens
- Author
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Chidozie Clifford Ugwu, Mohd Hair-Bejo, Mat Isa Nurulfiza, Abdul Rahman Omar, and Aini Ideris
- Subjects
bioreactor ,broiler chickens ,efficacy ,fowl adenovirus serotype 8b ,humoral and cell-mediated immunity ,Animal culture ,SF1-1100 ,Veterinary medicine ,SF600-1100 - Abstract
Background and Aim: Fowl adenovirus (FAdV) 8b causes inclusion body hepatitis, resulting in major economic losses globally among chickens. The objectives were to inactivate FAdV 8b isolate propagated in chicken embryo liver (CEL) cells using a stirred tank bioreactor (UPM08136P5B1) and determine the humoral and cell-mediated immune response, efficacy, and virus shedding in broiler chickens. Materials and Methods: The FAdV 8b isolate UPM08136P5B1 was inactivated using binary ethyleneimine, adjuvanted with Montanide 71VG, inoculated into day-old broiler chickens in a booster group (BG) and non-booster group (NBG), and challenged with a pathogenic FAdV 8b strain. Clinical signs, gross lesions, body weight (BW), liver: body weight ratio, FAdV antibody titer using enzyme-linked immunosorbent assay, and histopathological changes were recorded. The CD3+, CD4+, and CD8+ T-lymphocyte profiles of the liver, spleen, and thymus using flow cytometry, and viral load in liver and cloacal shedding using quantitative polymerase chain reaction were evaluated. Results: Chickens in the challenged control group (CCG) exhibited mild clinical signs, gross lesions, and histopathological changes, which were absent in the inoculated groups, and had lower BW and higher liver BW ratio than chickens in the unchallenged control group (UCG); BG and NBG on 35- and 42-days post-inoculation (DPI). Chickens in NBG and BG had higher antibodies than UCG on 7, 21, 35, and 42 DPI. The challenged BG and NBG produced higher antibodies than the CCG on 35 DPI. T-lymphocytes were higher among the inoculated groups than UCG in the liver, spleen, and thymus. Inoculated challenged groups recorded higher CD3+, CD4+, and CD8+ T-lymphocytes on 35 and 42 DPI than CCG. The challenged control group had a significantly higher viral load in the liver than challenged that in BG on 35 DPI and BG and NBG on 42 DPI. The challenged control group had significantly higher challenge FAdV shedding than challenged inoculated groups on 35 and NBG on 42 DPI. Conclusion: UPM08136P5B1 was successfully inactivated and mixed with Montanide 71VG. The inactivated vaccine candidate that induced humoral and cellular immunity was effective, reduced FAdV load in the liver, and shedding in the cloaca, and could be useful against FAdV 8b infections in chickens.
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- 2022
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9. Numerical analysis on centrifugal compressor with membrane type dryer
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Razali, M A, primary, Zulkafli, M F, additional, Mat Isa, N, additional, and Subari, Z, additional
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- 2017
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10. Performance and Characterization of Geopolymer Concrete Reinforced with Short Steel Fiber
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Abdullah, M M A B, primary, Faris, M A, additional, Tahir, M F M, additional, Kadir, A A, additional, Sandu, A V, additional, Mat Isa, N A A, additional, and Corbu, O, additional
- Published
- 2017
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11. Potential use of synchronous pulse coupled neural network in partial occlusion
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Tan, W. C., primary and Mat-Isa, N. A., additional
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- 2016
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12. Implementation of HMLP network with different activation function for cervical cells classification
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Yahaya, S. Z., primary and Mat Isa, N. A., additional
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- 2011
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13. Performance analysis of transparent and non-transparent relays in MMR WiMAX networks.
- Author
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Yusoff, R., Dani Baba, M.D., Abd Rahman, R., Ibrahim, M., and Mat Isa, N.
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- 2011
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14. Classification of Breast Lesions Using Artificial Neural Network.
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Magjarevic, R., Nagel, J. H., Ibrahim, Fatimah, Osman, Noor Azuan Abu, Usman, Juliana, Kadri, Nahrizul Adib, Mashor, Mohd Yusoff, Esugasini, S., Mat Isa, N. A., and Othman, N. H.
- Abstract
This paper presents a study on classification of breast lesions using artificial neural networks. Thirteen morphological features have been extracted from breast lesion cells and used as the neural network inputs for the classification. Multilayered Perceptron, Radial Basis Function and Hybrid Multilayered Perceptron networks were used to perform the classification task. Unlike the previous studies that only classify the lesion into benign and malignant, this study extends the breast lesions classification into four categories that are malignant, fibroadenoma, fibrocystic disease and other benign cells. The three neural networks were trained and compared using 1300 data samples. The classification results indicating that all the networks give good overall diagnostic performance. However, only Hybrid Multilayered Network that provides 100% accuracy, sensitivity and specificity. [ABSTRACT FROM AUTHOR]
- Published
- 2007
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15. Production and characterization of bacterial cellulose synthesized by Enterobacter chuandaensis strain AEC using Phoenix dactylifera and Musa acuminata.
- Author
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Al-Hasabe ASH, Abdull Razis AFB, Baharum NAB, Yu CY, and Mat Isa N
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- Spectroscopy, Fourier Transform Infrared, Fruit microbiology, Fruit chemistry, X-Ray Diffraction, Plant Extracts chemistry, Plant Extracts metabolism, Whole Genome Sequencing, Molecular Weight, Cellulose biosynthesis, Cellulose chemistry, Cellulose metabolism, Enterobacter genetics, Enterobacter metabolism, Phoeniceae chemistry, Phoeniceae microbiology, Musa microbiology, Musa chemistry
- Abstract
Bacterial cellulose (BC) is a biopolymer synthesized extracellularly by certain bacteria through the polymerization of glucose monomers. This study aimed to produce BC using Enterobacter chuandaensis with fruit extracts from Phoenix dactylifera (D) and Musa acuminata (M) as carbon sources. Attenuated Total Reflectance-Fourier Transform Infrared Spectroscopy (ATR-FTIR) showed characteristic cellulose vibrations, while X-ray diffraction (XRD) identified distinct peaks at 15.34°, 19.98°, 22.58°, and 34.6°, confirming the cellulose structure. Whole-genome sequencing of E. chuandaensis identified key genes involved in BC production. The BC produced then exhibited a molecular weight of 1,857,804 g/mol, with yields of 2.8 g/L and 2.5 g/L for treatments D and M, respectively. The crystallinity index of the purified BC was 74.1, and
13 C NMR analysis confirmed the dominant cellulose Iα crystalline form. The BC showed high biocompatibility in cytotoxicity assays, with cell viability between 92% and 100%, indicating its potential for use in biomedical applications. This investigation represents the first report of BC production by E. chuandaensis, which promises a new avenue for sustainable and efficient BC synthesis using fruit extracts as carbon sources., (© 2024. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.)- Published
- 2024
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16. Effect of UV-C germicidal irradiation (UVGI) on the structural integrity of N95 and KN95 respirators.
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Mat Isa N, Hamzah Y, Abdul Halim KA, Osman B, Nasruddin AB, and Amir Husin S
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- Disinfection methods, Equipment Reuse, N95 Respirators, Ventilators, Mechanical, Respiratory Protective Devices, Ultraviolet Rays
- Abstract
This study focuses on reprocessing a group of filtering facepiece respirators (FFR) using ultraviolet germicidal irradiation (UVGI). The aim is to explore the possibility of disinfecting selected KN95 FFRs, in comparison with the N95 FFRs, and assess their viability for reusage. For this purpose, five models of unused N95 and KN95 FFR models obtained from the hospital were exposed to UV-C light using a customized UVGI chamber. The material integrity of treated FFRs was examined in terms of particle penetration and strap tension. The surface morphology of all models is inspected to determine the visible changes of each FFR upon exposure to 1-100 cycles (1 cycle is equivalent to 1 J/cm
2 UV dose). The penetration test results indicate that the physical properties of the KN95 and N95 FFRs remain within permissible limits despite being reprocessed by up to 100 cycles (100 J/cm2 ). Using a microscope, the physical observations also reveal that no visible damage can be seen even after 100 J/cm2 exposure. Apart from the filter bodies, the tension of each strap was also found to not be significantly affected by UV radiation by at least 10 disinfection cycles (10 J/cm2 ). This confirms that KN95, as well as N95 FFRs, can be subjected to UV treatment as a means of disinfection.- Published
- 2022
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17. The Burden of Microplastics Pollution and Contending Policies and Regulations.
- Author
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Usman S, Abdull Razis AF, Shaari K, Azmai MNA, Saad MZ, Mat Isa N, and Nazarudin MF
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- Ecosystem, Environmental Monitoring, Environmental Pollution, Humans, Microplastics toxicity, Plastics, Policy, Drinking Water, Water Pollutants, Chemical analysis
- Abstract
The relationship between humans and plastics has become intricate due to their versatile nature and low production cost. Plastics generation has surpassed that of other manufactured products, which, coupled with the prevailing poor waste management systems, makes it a serious problem for the terrestrial and aquatic environments as its final destination. Their extensive presence has continued to pose a significant threat, not only to the aquatic ecosystem but also to the approximately 3 billion people relying on it for their livelihood. Even more disturbing were the recent findings of these plastics in food and drinking water and the evidence of human exposure, the long-term health effects of which are largely unknown. This ubiquitous phenomenon has over time put plastics under critical observation, leading to the development of many local and international policies, resolutions, and directives aimed at addressing and reversing the menace. This review provided the first snapshot of the global and local governance strategies currently aimed at mitigating plastic pollution, their limitations, and future directions. The findings of the review revealed several aspects of microplastics (MPs) pollution to be overlooked in policy formulation, a laxity in policy implementation, and an apparent lack of indices to ascertain the impact of the regulations. Furthermore, there is currently no regulation on MPs contamination of food and drinking water and an apparent lack of funding for research into the health effects of plastics and their alternatives. This, therefore, necessitates the need for a well-coordinated approach at international and national levels to scale up these policies in all countries and translate them from paper to measurable, holistic, and realizable actions that will address all forms of plastic pollution.
- Published
- 2022
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18. Polystyrene Microplastics Exposure: An Insight into Multiple Organ Histological Alterations, Oxidative Stress and Neurotoxicity in Javanese Medaka Fish ( Oryzias javanicus Bleeker, 1854).
- Author
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Usman S, Abdull Razis AF, Shaari K, Amal MNA, Saad MZ, Mat Isa N, and Nazarudin MF
- Subjects
- Acetylcholinesterase, Animals, Ecosystem, Indonesia, Microplastics, Oxidative Stress, Plastics, Polystyrenes analysis, Oryzias, Water Pollutants, Chemical analysis, Water Pollutants, Chemical toxicity
- Abstract
Microplastics (MPs) have become pollutants of concern due to their unknown human health effect and negative impact on terrestrial and aquatic ecosystems. There is increasing number of experimental research on MPs globally with its effects not fully understood; recent animal studies explore its effects on the intestines, yet on other vital organs. Javanese medaka fish was exposed to polystyrene microplastics (PS-MPs) beads for a period of 21 days. Histological alterations, intestinal oxidative stress, permeability and neurotoxicity were evaluated. Significant inflammatory changes and tissue damage were observed in the intestine, liver and kidney. Intestinal oxidative stress and permeability were found to be significantly increased. In the brain, neurotoxicity characterised by a significant induction of oxidative stress, lipid peroxidation and the inhibition of acetylcholinesterase enzyme were elucidated. This study provided an insight into the multiple organ effect of microplastics exposure, necessitating further exploration and identification of biomarkers to be utilised for biomonitoring population at risk in the future.
- Published
- 2021
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19. Functional prediction of de novo uni-genes from chicken transcriptomic data following infectious bursal disease virus at 3-days post-infection.
- Author
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Azli B, Ravi S, Hair-Bejo M, Omar AR, Ideris A, and Mat Isa N
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- Animals, Bursa of Fabricius, Chickens genetics, Transcriptome, Birnaviridae Infections genetics, Birnaviridae Infections veterinary, Infectious bursal disease virus genetics, Poultry Diseases genetics
- Abstract
Background: Infectious bursal disease (IBD) is an economically very important issue to the poultry industry and it is one of the major threats to the nation's food security. The pathogen, a highly pathogenic strain of a very virulent IBD virus causes high mortality and immunosuppression in chickens. The importance of understanding the underlying genes that could combat this disease is now of global interest in order to control future outbreaks. We had looked at identified novel genes that could elucidate the pathogenicity of the virus following infection and at possible disease resistance genes present in chickens., Results: A set of sequences retrieved from IBD virus-infected chickens that did not map to the chicken reference genome were de novo assembled, clustered and analysed. From six inbred chicken lines, we managed to assemble 10,828 uni-transcripts and screened 618 uni-transcripts which were the most significant sequences to known genes, as determined by BLASTX searches. Based on the differentially expressed genes (DEGs) analysis, 12 commonly upregulated and 18 downregulated uni-genes present in all six inbred lines were identified with false discovery rate of q-value < 0.05. Yet, only 9 upregulated and 13 downregulated uni-genes had BLAST hits against the Non-redundant and Swiss-Prot databases. The genome ontology enrichment keywords of these DEGs were associated with immune response, cell signalling and apoptosis. Consequently, the Weighted Gene Correlation Network Analysis R tool was used to predict the functional annotation of the remaining unknown uni-genes with no significant BLAST hits. Interestingly, the functions of the three upregulated uni-genes were predicted to be related to innate immune response, while the five downregulated uni-genes were predicted to be related to cell surface functions. These results further elucidated and supported the current molecular knowledge regarding the pathophysiology of chicken's bursal infected with IBDV., Conclusion: Our data revealed the commonly up- and downregulated novel uni-genes identified to be immune- and extracellular binding-related, respectively. Besides, these novel findings are valuable contributions in improving the current existing integrative chicken transcriptomics annotation and may pave a path towards the control of viral particles especially towards the suppression of IBD and other infectious diseases in chickens.
- Published
- 2021
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20. Emergence of Polymeric Material Utilising Sustainable Radiation Curable Palm Oil-Based Products for Advanced Technology Applications.
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Tajau R, Rohani R, Alias MS, Mudri NH, Abdul Halim KA, Harun MH, Mat Isa N, Che Ismail R, Muhammad Faisal S, Talib M, Rawi Mohamed Zin M, Izni Yusoff I, Khairul Zaman N, and Asyila Ilias I
- Abstract
In countries that are rich with oil palm, the use of palm oil to produce bio-based acrylates and polyol can be the most eminent raw materials used for developing new and advanced natural polymeric materials involving radiation technique, like coating resins, nanoparticles, scaffold, nanocomposites, and lithography for different branches of the industry. The presence of hydrocarbon chains, carbon double bonds, and ester bonds in palm oil allows it to open up the possibility of fine-tuning its unique structures in the development of novel materials. Cross-linking, reversible addition-fragmentation chain transfer (RAFT), polymerization, grafting, and degradation are among the radiation mechanisms triggered by gamma, electron beam, ultraviolet, or laser irradiation sources. These radiation techniques are widely used in the development of polymeric materials because they are considered as the most versatile, inexpensive, easy, and effective methods. Therefore, this review summarized and emphasized on several recent studies that have reported on emerging radiation processing technologies for the production of radiation curable palm oil-based polymeric materials with a promising future in certain industries and biomedical applications. This review also discusses the rich potential of biopolymeric materials for advanced technology applications.
- Published
- 2021
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21. Microplastics Pollution as an Invisible Potential Threat to Food Safety and Security, Policy Challenges and the Way Forward.
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Usman S, Abdull Razis AF, Shaari K, Amal MNA, Saad MZ, Mat Isa N, Nazarudin MF, Zulkifli SZ, Sutra J, and Ibrahim MA
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- Animals, Ecosystem, Environmental Pollution, Humans, Plastics toxicity, Policy, Water Pollutants, Chemical analysis, Water Pollutants, Chemical toxicity, Environmental Monitoring, Environmental Policy, Environmental Pollutants, Food Safety, Microplastics
- Abstract
Technological advances, coupled with increasing demands by consumers, have led to a drastic increase in plastic production. After serving their purposes, these plastics reach our water bodies as their destination and become ingested by aquatic organisms. This ubiquitous phenomenon has exposed humans to microplastics mostly through the consumption of sea food. This has led the World Health Organization (WHO) to make an urgent call for the assessment of environmental pollution due to microplastics and its effect on human health. This review summarizes studies between 1999 and 2020 in relation to microplastics in aquatic ecosystems and human food products, their potential toxic effects as elicited in animal studies, and policies on their use and disposal. There is a paucity of information on the toxicity mechanisms of microplastics in animal studies, and despite their documented presence in food products, no policy has been in place so far, to monitor and regulates microplastics in commercial foods meant for human consumption. Although there are policies and regulations with respect to plastics, these are only in a few countries and in most instances are not fully implemented due to socioeconomic reasons, so they do not address the problem across the entire life cycle of plastics from production to disposal. More animal research to elucidate pathways and early biomarkers of microplastic toxicity that can easily be detected in humans is needed. This is to create awareness and influence policies that will address this neglected threat to food safety and security.
- Published
- 2020
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22. Differential expression of immune-related genes in the bursa of Fabricius of two inbred chicken lines following infection with very virulent infectious bursal disease virus.
- Author
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Mohd Isa F, Ahmed Al-Haj N, Mat Isa N, Ideris A, Powers C, Oladapo O, Nair V, and Omar AR
- Subjects
- Animals, Animals, Inbred Strains, B-Lymphocytes immunology, Birnaviridae Infections virology, Chemokines immunology, Chickens immunology, Chickens virology, Cytokines immunology, Host-Pathogen Interactions, Infectious bursal disease virus pathogenicity, Poultry Diseases virology, Th1 Cells immunology, Viral Load, Virulence, Birnaviridae Infections veterinary, Bursa of Fabricius immunology, Bursa of Fabricius virology, Chemokines genetics, Cytokines genetics, Poultry Diseases immunology
- Abstract
Among different inbred chickens' lines, we previously showed that lines P and N of Institute for Animal Health, Compton, UK are the most susceptible and the least affected lines, respectively, following infection with very virulent infectious bursal disease virus (vvIBDV). In this study, the differential expressions of 29 different immune-related genes were characterized. Although, birds from both lines succumbed to infection, line P showed greater bursal lesion scores and higher viral copy numbers compared to line N. Interestingly, line N showed greater down-regulation of B cell related genes (BLNK, TNFSF13B and CD72) compared to line P. While up-regulation of T-cell related genes (CD86 and CTLA4) and Th1 associated cytokines (IFNG, IL2, IL12A and IL15) were documented in both lines, the expression levels of these genes were different in the two lines. Meanwhile, the expression of IFN-related genes IFNB, STAT1, and IRF10, but not IRF5, were up-regulated in both lines. The expression of pro-inflammatory cytokines (IL1B, IL6, IL18, and IL17) and chemokines (CXCLi2, CCL4, CCL5 and CCR5) were up-regulated in both lines with greater increase documented in line P compared to line N. Strikingly, the expression of IL12B was detected only in line P whilst the expression of IL15RA was detected only in line N. In conclusion, the bursal immunopathology of IBDV correlates more with expression of proinflammatory response related genes and does not related to expression of B-cell related genes., Competing Interests: Declaration of Competing Interest The authors declare that there are no conflicts of interest., (Copyright © 2019 Elsevier Ltd. All rights reserved.)
- Published
- 2020
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23. Phytochemical and anti-inflammatory properties of Scurrula ferruginea (Jack) Danser parasitising on three different host plants elucidated by NMR-based metabolomics.
- Author
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Hong X, Mat Isa N, Fakurazi S, and Safinar Ismail I
- Subjects
- Magnetic Resonance Spectroscopy, Metabolomics, Phytochemicals, Anti-Inflammatory Agents, Plant Extracts
- Abstract
Introduction: Scurrula ferruginea (Jack) Danser is a hemi-parasitic shrub that is widely used as a traditional herbal medicine., Objectives: To elucidate the anti-inflammatory activity of S. ferruginea parasitising on three different hosts of Vitex negundo L., Micromelum minutum (G. Forst.) Wight & Arn. and Tecoma stans (L.) Juss ex HBK., as well as, to determine the metabolite differences related to their anti-inflammatory properties., Materials and Methods: Two plant parts of S. ferruginea, stems and leaves, were extracted in water. The freeze-dried stem of S. ferruginea grown on T. stans was liquid-liquid partitioned into several solvents. Their potential anti-inflammatory activity was assessed via inhibition of nitric oxide (NO) production in lipopolysaccharide (LPS) and interferon-γ (IFN-γ)-induced RAW 264.7 macrophage cells. The metabolite variation was examined using proton nuclear magnetic resonance (
1 H-NMR) combined with multivariate data analysis (MVDA)., Results: Scurrula ferruginea stems parasitising on T. stans and V. negundo which were freeze dried exhibited higher anti-inflammatory activity with IC50 values of 114.47 ± 2.96 and 118.87 ± 2.31 μg/mL, respectively. The mid-polar ethyl acetate fraction of S. ferruginea hosted on T. stans displayed the highest NO inhibition with 84.80 ± 0.45% at 200 μg/mL. Principal component analysis (PCA) indicated notable and clear discriminations among the different plant parts and host plants based on the identified metabolites. Furthermore, partial least squares (PLS) regression model suggested the anti-inflammatory bioactivity might be associated with the presence of choline, isoleucine, catechin, leucine and chlorogenic acid., Conclusion: This study suggests S. ferruginea could serve as a potential anti-inflammatory agent, highlighting the importance of T. stans as the host plant., (© 2019 John Wiley & Sons, Ltd.)- Published
- 2020
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24. Molecular characterization of fowl adenovirus isolate of Malaysia attenuated in chicken embryo liver cells and its pathogenicity and immunogenicity in chickens.
- Author
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Mohamed Sohaimi N, Bejo MH, Omar AR, Ideris A, and Mat Isa N
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- Animals, Cells, Cultured, Chick Embryo, Malaysia, Adenoviridae Infections immunology, Adenoviridae Infections pathology, Adenoviridae Infections veterinary, Chickens immunology, Chickens virology, Fowl adenovirus A immunology, Fowl adenovirus A isolation & purification, Fowl adenovirus A pathogenicity, Hepatitis, Viral, Animal immunology, Hepatitis, Viral, Animal pathology, Hepatitis, Viral, Animal virology, Liver immunology, Liver virology, Poultry Diseases immunology, Poultry Diseases pathology, Poultry Diseases virology
- Abstract
Fowl adenovirus (FAdV) is the causative agent of inclusion body hepatitis (IBH) in chickens with significant economic losses due to high mortality and poor production. It was objectives of the study to attenuate and determine the molecular characteristic of FAdV isolate (UPM1137) of Malaysia passages in primary chicken embryo liver (CEL) cells. The cytopathic effect (CPE) was recorded and the present of the virus was detected by polymerase chain reaction (PCR). Nucleotide and amino acid changes were determined and a phylogenetic tree was constructed. The pathogenicity and immunogenicity of the virus at passage 35 (CEL35) with virus titre of 106.7TCID50/mL was determined in day old specific pathogen free (SPF) chicks via oral or subcutaneous route of inoculation. The study demonstrated that the FAdV isolate was successfully propagated and attenuated in CEL cells up to 35th consecutive passages (CEL35) with delayed of CPE formation within 48 to 72 post inoculation (pi) from CEL20 onwards. The virus caused typical CPE with basophilic intranuclear inclusion bodies, refractile and clumping of cells. The virus is belong to serotype 8b with substitution of amino acid at position 44, 133 and 185 in L1 loop of hexon gene and in knob of fiber gene at position 348 and 360 at CEL35. It is non-pathogenic, but immunogenic in SPF chickens. It was concluded that the FAdV isolate was successfully attenuated in CEL cells with molecular changes in major capsid proteins which affect its infectivity in cell culture and SPF chickens., Competing Interests: The authors have declared that no competing interests exist.
- Published
- 2019
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25. Complete genome sequence of fowl adenovirus-8b UPM04217 isolate associated with the inclusion body hepatitis disease in commercial broiler chickens in Malaysia reveals intermediate evolution.
- Author
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Mat Isa N, Mohd Ayob J, Ravi S, Mustapha NA, Ashari KS, Bejo MH, Omar AR, and Ideris A
- Abstract
The main aim of our study was to explore the genome sequence of the inclusion body hepatitis associated Fowl adenovirus serotype 8b (FAdV-8b) UPM04217 and to study its genomic organisation. The nucleotide sequence of the whole genome of FAdV-8b UPM04217 was determined by using the 454 Pyrosequencing platform and the Sanger sequencing method. The complete genome was found to be 44,059 bp long with 57.9% G + C content and shared 97.5% genome identity with the reference FAdV-E genome (HG isolate). Interestingly, the genome analysis using ORF Finder, Glimmer3 and FGENESV predicted a total of 39 open reading frames (ORFs) compared to the FAdV-E HG that possessed 46 ORFs. Fourteen ORFs located within the central genomic region and 16 ORFs located within the left and right ends of the genome were assigned as being the high protein-coding regions. The fusion of the small ORFs at the right end terminal specifically in ORF22 and ORF33 could be the result of gene truncation in the FAdV-E HG. The frame shift mutation in ORF25 and other mutations in ORF13 and ORF17 might have lead to the emergence of genes that could have different functions. Besides, one of the minor capsid components, pVI, in FAdV-8b UPM04217 shared the highest similarity of 93% with that of FAdV-D, while only 47% similarity was found with FAdV-E. From the gene arrangement layout of the FAdV genome, FAdV-8b UPM04217 showed intermediate evolution between the FAdV-E HG and the FAdV-D although it was apparently more similar to the FAdV-E HG., (© Indian Virological Society 2019.)
- Published
- 2019
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26. Genome sequencing and analysis of Salmonella enterica subsp. enterica serovar Stanley UPM 517: Insights on its virulence-associated elements and their potentials as vaccine candidates.
- Author
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Ashari KS, Roslan NS, Omar AR, Bejo MH, Ideris A, and Mat Isa N
- Abstract
Salmonella enterica subsp. enterica serovar Stanley ( S . Stanley) is a pathogen that contaminates food, and is related to Salmonella outbreaks in a variety of hosts such as humans and farm animals through products like dairy items and vegetables. Despite the fact that several vaccines of Salmonella strains had been constructed, none of them were developed according to serovar Stanley up to this day. This study presents results of genome sequencing and analysis on our S . Stanley UPM 517 strain taken from fecal swabs of 21-day-old healthy commercial chickens in Perak, Malaysia and used Salmonella enterica subsp. enterica serovar Typhimurium LT2 ( S . Typhimurium LT2) as a reference to be compared with. First, sequencing and assembling of the Salmonella Stanley UPM 517 genome into a contiguous form were done. The work was then continued with scaffolding and gap filling. Annotation and alignment of the draft genome was performed with S . Typhimurium LT2. The other elements of virulence estimated in this study included Salmonella pathogenicity islands, resistance genes, prophages, virulence factors, plasmid regions, restriction-modification sites and the CRISPR-Cas system. The S . Stanley UPM 517 draft genome had a length of 4,736,817 bp with 4,730 coding sequence and 58 RNAs. It was discovered via genomic analysis on this strain that there were antimicrobial resistance properties toward a wide variety of antibiotics. Tcf and ste, the two fimbrial virulence clusters related with human and broiler intestinal colonizations which were not found in S . Typhimurium LT2, were atypically discovered in the S . Stanley UPM 517 genome. These clusters are involved in the intestinal colonization of human and broilers, respectively. There were seven Salmonella pathogenicity islands (SPIs) within the draft genome, which contained the virulence factors associated with Salmonella infection (except SPI-14). Five intact prophage regions, mostly comprising of the protein encoding Gifsy-1, Fels-1, RE-2010 and SEN34 prophages, were also encoded in the draft genome. Also identified were Type I-III restriction-modification sites and the CRISPR-Cas system of the Type I-E subtype. As this strain exhibited resistance toward numerous antibiotics, we distinguished several genes that had the potential for removal in the construction of a possible vaccine candidate to restrain and lessen the pervasiveness of salmonellosis and to function as an alternative to antibiotics., Competing Interests: The authors declare that they have no competing interests.
- Published
- 2019
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27. RNA sequencing of kidney and liver transcriptome obtained from wild cynomolgus macaque (Macaca fascicularis) originating from Peninsular Malaysia.
- Author
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Ee Uli J, Yong CS, Yeap SK, Alitheen NB, Rovie-Ryan JJ, Mat Isa N, and Tan SG
- Subjects
- Animals, Malaysia, High-Throughput Nucleotide Sequencing methods, Kidney, Liver, Macaca fascicularis genetics, Sequence Analysis, RNA methods, Transcriptome genetics
- Abstract
Objective: Using high-throughput RNA sequencing technology, this study aimed to sequence the transcriptome of kidney and liver tissues harvested from Peninsular Malaysia cynomolgus macaque (Macaca fascicularis). M. fascicularis are significant nonhuman primate models in the biomedical field, owing to the macaque's biological similarities with humans. The additional transcriptomic dataset will supplement the previously described Peninsular Malaysia M. fascicularis transcriptomes obtained in a past endeavour., Results: A total of 75,350,240 sequence reads were obtained via Hi-seq 2500 sequencing technology. A total of 5473 significant differentially expressed genes were called. Gene ontology functional categorisation showed that cellular process, catalytic activity, and cell part categories had the highest number of expressed genes, while the metabolic pathways category possessed the highest number of expressed genes in the KEGG pathway analysis. The additional sequence dataset will further enrich existing M. fascicularis transcriptome assemblies, and provide a dataset for further downstream studies.
- Published
- 2018
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28. Bursal transcriptome profiling of different inbred chicken lines reveals key differentially expressed genes at 3 days post-infection with very virulent infectious bursal disease virus.
- Author
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Farhanah MI, Yasmin AR, Mat Isa N, Hair-Bejo M, Ideris A, Powers C, Oladapo O, Nair V, Khoo JS, Ghazali AK, Yee WY, and Omar AR
- Subjects
- Animals, Animals, Inbred Strains, Apoptosis Regulatory Proteins genetics, Apoptosis Regulatory Proteins immunology, Birnaviridae Infections genetics, Birnaviridae Infections immunology, Birnaviridae Infections virology, Bursa of Fabricius immunology, Bursa of Fabricius metabolism, Bursa of Fabricius virology, Chickens, Cytokines genetics, Cytokines immunology, Disease Susceptibility, Gene Expression Profiling, Gene Ontology, Host-Pathogen Interactions, Infectious bursal disease virus growth & development, Molecular Sequence Annotation, Poultry Diseases immunology, Poultry Diseases virology, Tumor Suppressor Protein p53 genetics, Tumor Suppressor Protein p53 immunology, Viral Load, Virulence, Birnaviridae Infections veterinary, Gene Expression Regulation, Infectious bursal disease virus pathogenicity, Poultry Diseases genetics, Transcriptome
- Abstract
Infectious bursal disease is a highly contagious disease in the poultry industry and causes immunosuppression in chickens. Genome-wide regulations of immune response genes of inbred chickens with different genetic backgrounds, following very virulent infectious bursal disease virus (vvIBDV) infection are poorly characterized. Therefore, this study aims to analyse the bursal tissue transcriptome of six inbred chicken lines 6, 7, 15, N, O and P following infection with vvIBDV strain UK661 using strand-specific next-generation sequencing, by highlighting important genes and pathways involved in the infected chicken during peak infection at 3 days post-infection. All infected chickens succumbed to the infection without major variations among the different lines. However, based on the viral loads and bursal lesion scoring, lines P and 6 can be considered as the most susceptible lines, while lines 15 and N were regarded as the least affected lines. Transcriptome profiling of the bursa identified 4588 genes to be differentially expressed, with 2985 upregulated and 1642 downregulated genes, in which these genes were commonly or uniquely detected in all or several infected lines. Genes that were upregulated are primarily pro-inflammatory cytokines, chemokines and IFN-related. Various genes that are associated with B-cell functions and genes related to apoptosis were downregulated, together with the genes involved in p53 signalling. In conclusion, bursal transcriptome profiles of different inbred lines showed differential expressions of pro-inflammatory cytokines and chemokines, Th1 cytokines, JAK-STAT signalling genes, MAPK signalling genes, and their related pathways following vvIBDV infection.
- Published
- 2018
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29. Whole-Genome Sequence of Salmonella enterica subsp. enterica Serovar Typhimurium Strain UPM 260, Isolated from a Broiler Chicken in Perak, Malaysia.
- Author
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Roslan NS, Jabeen S, Mat Isa N, Omar AR, Bejo MH, and Ideris A
- Abstract
Salmonella enterica subsp. enterica serovar Typhimurium is one of several well-categorized Salmonella serotypes recognized globally. Here, we report the whole-genome sequence of S Typhimurium strain UPM 260, isolated from a broiler chicken., (Copyright © 2017 Roslan et al.)
- Published
- 2017
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30. Complete Genome Sequence of Pasteurella multocida Serotype A Strain PMTB2.1 Isolated from Buffaloes That Died of Septicemia in Malaysia.
- Author
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Jabeen S, Yong YH, Abdullah FJF, Zakaria Z, Mat Isa N, Tan YC, Yee WY, and Omar AR
- Abstract
Pasteurella multocida causes pneumonic pasteurellosis and hemorrhagic septicemia (HS) in large ruminants. In this study, we determined the complete genome sequence of P. multocida strain PMTB2.1 capsular serotype A isolated from buffaloes that died of septicemia., (Copyright © 2017 Jabeen et al.)
- Published
- 2017
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31. RNA sequencing (RNA-Seq) of lymph node, spleen, and thymus transcriptome from wild Peninsular Malaysian cynomolgus macaque ( Macaca fascicularis ).
- Author
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Ee Uli J, Yong CSY, Yeap SK, Rovie-Ryan JJ, Mat Isa N, Tan SG, and Alitheen NB
- Abstract
The cynomolgus macaque ( Macaca fascicularis ) is an extensively utilised nonhuman primate model for biomedical research due to its biological, behavioural, and genetic similarities to humans. Genomic information of cynomolgus macaque is vital for research in various fields; however, there is presently a shortage of genomic information on the Malaysian cynomolgus macaque. This study aimed to sequence, assemble, annotate, and profile the Peninsular Malaysian cynomolgus macaque transcriptome derived from three tissues (lymph node, spleen, and thymus) using RNA sequencing (RNA-Seq) technology. A total of 174,208,078 paired end 70 base pair sequencing reads were obtained from the Illumina Hi-Seq 2500 sequencer. The overall mapping percentage of the sequencing reads to the M. fascicularis reference genome ranged from 53-63%. Categorisation of expressed genes to Gene Ontology (GO) and KEGG pathway categories revealed that GO terms with the highest number of associated expressed genes include Cellular process, Catalytic activity, and Cell part, while for pathway categorisation, the majority of expressed genes in lymph node, spleen, and thymus fall under the Global overview and maps pathway category, while 266, 221, and 138 genes from lymph node, spleen, and thymus were respectively enriched in the Immune system category. Enriched Immune system pathways include Platelet activation pathway, Antigen processing and presentation, B cell receptor signalling pathway, and Intestinal immune network for IgA production. Differential gene expression analysis among the three tissues revealed 574 differentially expressed genes (DEG) between lymph and spleen, 5402 DEGs between lymph and thymus, and 7008 DEGs between spleen and thymus. Venn diagram analysis of expressed genes revealed a total of 2,630, 253, and 279 tissue-specific genes respectively for lymph node, spleen, and thymus tissues. This is the first time the lymph node, spleen, and thymus transcriptome of the Peninsular Malaysian cynomolgus macaque have been sequenced via RNA-Seq. Novel transcriptomic data will further enrich the present M. fascicularis genomic database and provide future research potentials, including novel transcript discovery, comparative studies, and molecular markers development., Competing Interests: The authors declare there are no competing interests.
- Published
- 2017
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32. Cell Wall-Treated Lactococcus lactis Increases the Plasmid Transfer Efficiency of Internal Ribosome Entry Site-Incorporated Lactococcal Bicistronic Vector into DF1 Cells.
- Author
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Mat Isa N, Abdul Mutalib NE, Alitheen NB, Song AA, and Rahim RA
- Subjects
- Animals, Blotting, Western, Cell Line, Cell Wall drug effects, Chickens, Genetic Vectors, Glycine metabolism, Green Fluorescent Proteins genetics, Microscopy, Fluorescence, Muramidase metabolism, Cell Wall metabolism, Internal Ribosome Entry Sites, Lactococcus lactis genetics, Lactococcus lactis metabolism, Plasmids genetics
- Abstract
This study demonstrates that cell wall treatment of Lactococcus lactis harbouring the internal ribosome entry site-incorporated lactococcal bicistronic vector pNZ:VIG mediated the delivery of genes into an eukaryotic cell line, DF1 cells, through bactofection. Bactofection analysis showed that the pNZ:VIG plasmid in L. lactis can be transferred into DF1 cells and that both the VP2 and gfp genes cloned in the plasmid can be transcribed and translated. The protein band relative to the Mr of VP2 protein (49 kDa) was successfully detected via Western blot analysis, while green fluorescence was successfully detected using a fluorescence microscope. The intensity of the bands detected increased for samples treated with both 1.5% (w/v) glycine and 10 μg/mL of lysozyme when compared to L. lactis treated with glycine alone and without treatment. Cell wall treatment of L. lactis with a combination of both glycine and lysozyme was not only shown to mediate plasmid transfer to DF1 cells, but also to increase the plasmid transfer efficiency., (© 2017 S. Karger AG, Basel.)
- Published
- 2017
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33. IRES-incorporated lactococcal bicistronic vector for target gene expression in a eukaryotic system.
- Author
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Abdul Mutalib NE, Mat Isa N, Alitheen NB, Song AA, and Rahim RA
- Subjects
- Blotting, Western, Genetic Vectors metabolism, Green Fluorescent Proteins genetics, Humans, Promoter Regions, Genetic genetics, Viral Structural Proteins genetics, Genetic Vectors genetics, Green Fluorescent Proteins metabolism, Peptide Chain Initiation, Translational, Regulatory Elements, Transcriptional genetics, Ribosomes metabolism, Viral Structural Proteins metabolism
- Abstract
Plasmid DNAs isolated from lactic acid bacteria (LAB) such as Lactococcus lactis (L. lactis) has been gaining more interests for its positive prospects in genetic engineering-related applications. In this study, the lactococcal plasmid, pNZ8048 was modified so as to be able to express multiple genes in the eukaryotic system. Therefore, a cassette containing an internal ribosome entry site (IRES) was cloned between VP2 gene of a very virulent infectious bursal disease (vvIBDV) UPM 04190 of Malaysian local isolates and the reporter gene, green fluorescent protein (GFP) into pNZ:CA, a newly constructed derivative of pNZ8048 harboring the cytomegalovirus promoter (Pcmv) and polyadenylation signal. The new bicistronic vector, denoted as pNZ:vig was subjected to in vitro transcription/translation system followed by SDS-PAGE and Western blot analysis to rapidly verify its functionality. Immunoblotting profiles showed the presence of 49 and 29kDa bands that corresponds to the sizes of the VP2 and GFP proteins respectively. This preliminary result shows that the newly constructed lactococcal bicistronic vector can co-express multiple genes in a eukaryotic system via the IRES element thus suggesting its feasibility to be used for transfection of in vitro cell cultures and vaccine delivery., (Copyright © 2014 Elsevier Inc. All rights reserved.)
- Published
- 2014
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34. Image Cytometry Data From Breast Lesions Analyzed using Hybrid Networks.
- Author
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Mat Sakim HA, Mat Isa NA, G Naguib R, and Sherbet G
- Abstract
The treatment and therapy to be administered on breast cancer patients are dependent on the stage of the disease at time of diagnosis. It is therefore crucial to determine the stage at the earliest time possible. Tumor dissemination to axillary lymph nodes has been regarded as an indication of tumor aggression, thus the stage of the disease. Neural networks have been employed in many applications including breast cancer prognosis. The performance of the networks have often been quoted based on accuracy and mean squared error. In this paper, the performance of hybrid networks based on Multilayer Perceptron and Radial Basis Function networks to predict axillary lymph node involvement have been investigated. A measurement of how confident the networks are with respect to the results produced is also proposed. The input layer of the networks include four image cytometry features extracted from fine needle aspiration of breast lesions. The highest accuracy achieved by the hybrid networks was 69% only. However, most of the correctly predicted cases had a high confidence level.
- Published
- 2005
- Full Text
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