Displaying publications 1 - 20 of 56 in total

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  1. Micro-interdigitated electrodes genosensor based on Au-deposited nanoparticles for early detection of cervical cancer
    Jaapar FN, Parmin NA, Halim NHA, Hashim U, Gopinath SCB, Halim FS, et al.
    Int J Biol Macromol, 2023 Dec 31;253(Pt 2):126745.
    PMID: 37689297 DOI: 10.1016/j.ijbiomac.2023.126745
    Genosensor-based electrodes mediated with nanoparticles (NPs) have tremendously developed in medical diagnosis. Herein, we report a facile, rapid, low cost and highly sensitive biosensing strategy for early detection of HPV 18 using gold-nanoparticles (AuNPs) deposited on micro-IDEs. This study represents surface charge transduction of micro-interdigitated electrodes (micro-IDE) alumina insulated with silica, independent and mini genosensor modified with colloidal gold NPs (AuNPs), and determination of gene hybridization for early detection of cervical cancer. The surface of AuNPs deposited micro-IDE functionalized with optimized 3-aminopropyl-triethoxysilane (APTES) followed by hybridization with deoxyribonucleic acid (DNA) virus to develop DNA genosensor. The results of ssDNA hybridization with the ssDNA target of human papillomavirus (HPV) 18 have affirmed that micro-IDE functionalized with colloidal AuNPs resulted in the lowest detection at 0.529 aM. Based on coefficient regression, micro-IDE functionalized with AuNPs produces better results in the sensitivity test (R2 = 0.99793) than unfunctionalized micro-IDE.
  2. Fulltext A gold nanoparticles coated unclad single mode fiber-optic sensor based on localized surface plasmon resonance
    Fakhri MA, Salim ET, Tariq SM, Ibrahim RK, Alsultany FH, Alwahib AA, et al.
    Sci Rep, 2023 Apr 07;13(1):5680.
    PMID: 37029253 DOI: 10.1038/s41598-023-32852-6
    In the last few decays, the fiber-optic was employed in the field of sensing because of its benefits in contrast to other types of sensors such as small size, easy to fabricate, high response, and flexibility. In this study, unclad single mode fiber-optic sensor is proposed to operate at 650 nm wavelength. COMSOL Multiphysics 5.1 finite element method (FEM) is used to design the sensor and tested it theoretically. The middle portion of the fiber cladding is removed and replaced by gold nanoparticles (Au NPs) of 50 nm thickness. Analytic layer of 3 μm thickness was immersed in different liquids in range of refractive index (RI) from 1.000281 to 1.39. These liquids are NaCl Deionized (DI) water solution, sucrose-Deionized (DI) water solution, and glycerol solution Deionized (DI) water. It was found that the highest obtained sensitivity and resolution are for glycerol-DI water solution with value of 3157.98 (nm/RIU) and 3.16 × 10-5 (RIU), respectively. Furthermore, it is easy to fabricate and of low cost. In experiments, pulsed laser ablation (PLA) was used to prepare Au NPs. X-ray diffraction (XRD) shown that the peak of the intensity grew as the ablated energy increased as well as the structure crystallization. Transmission electron microscopy (TEM) revealed an average diameter of 30 nm at the three ablated energies, while X-ray spectroscopy (EDX) spectrum has indicated the presence of Au NPs in the prepared solution. The photoluminescence (PL) and ultraviolet-visible UV-Vis transmission were used to study the optical properties of the prepared Au NPs. An optical spectrum analyzer was used to obtain the sensor's output results. It has shown that best intensity was obtained for sucrose which confined with theoretical results.
  3. An Update on Parkinson's Disease and its Neurodegenerative Counterparts
    Adam H, Gopinath SCB, Md Arshad MK, Tijjani A, Subramaniam S, Hashim U
    Curr Med Chem, 2023 Apr 03.
    PMID: 37016529 DOI: 10.2174/0929867330666230403085733
    INTRODUCTION: Neurodegenerative disorders are a group of diseases that cause nerve cell degeneration in the brain, resulting in a variety of symptoms and are not treatable with drugs. Parkinson's disease (PD), prion disease, motor neuron disease (MND), Huntington's disease (HD), spinal cerebral dyskinesia (SCA), spinal muscle atrophy (SMA), multiple system atrophy, Alzheimer's disease (AD), spinocerebellar ataxia (SCA) (ALS), pantothenate kinase-related neurodegeneration, and TDP-43 protein disorder are examples of neurodegenerative diseases. Dementia is caused by the loss of brain and spinal cord nerve cells in neurodegenerative diseases.

    BACKGROUND: Even though environmental and genetic predispositions have also been involved in the process, redox metal abuse plays a crucial role in neurodegeneration since the preponderance of symptoms originates from abnormal metal metabolism.

    METHOD: Hence, this review investigates several neurodegenerative diseases that may occur symptoms similar to Parkinson's disease to understand the differences and similarities between Parkinson's disease and other neurodegenerative disorders based on reviewing previously published papers.

    RESULTS: Based on the findings, the aggregation of alpha-synuclein occurs in Parkinson's disease, multiple system atrophy, and dementia with Lewy bodies. Other neurodegenerative diseases occur with different protein aggregation or mutations.

    CONCLUSION: We can conclude that Parkinson's disease, Multiple system atrophy, and Dementia with Lewy bodies are closely related. Therefore, researchers must distinguish among the three diseases to avoid misdiagnosis of Multiple System Atrophy and Dementia with Lewy bodies with Parkinson's disease symptoms.

  4. Fulltext Recent advances in density functional theory approach for optoelectronics properties of graphene
    Olatomiwa AL, Adam T, Edet CO, Adewale AA, Chik A, Mohammed M, et al.
    Heliyon, 2023 Mar;9(3):e14279.
    PMID: 36950613 DOI: 10.1016/j.heliyon.2023.e14279
    Graphene has received tremendous attention among diverse 2D materials because of its remarkable properties. Its emergence over the last two decades gave a new and distinct dynamic to the study of materials, with several research projects focusing on exploiting its intrinsic properties for optoelectronic devices. This review provides a comprehensive overview of several published articles based on density functional theory and recently introduced machine learning approaches applied to study the electronic and optical properties of graphene. A comprehensive catalogue of the bond lengths, band gaps, and formation energies of various doped graphene systems that determine thermodynamic stability was reported in the literature. In these studies, the peculiarity of the obtained results reported is consequent on the nature and type of the dopants, the choice of the XC functionals, the basis set, and the wrong input parameters. The different density functional theory models, as well as the strengths and uncertainties of the ML potentials employed in the machine learning approach to enhance the prediction models for graphene, were elucidated. Lastly, the thermal properties, modelling of graphene heterostructures, the superconducting behaviour of graphene, and optimization of the DFT models are grey areas that future studies should explore in enhancing its unique potential. Therefore, the identified future trends and knowledge gaps have a prospect in both academia and industry to design future and reliable optoelectronic devices.
  5. Novel Approaches in Fabrication and Integration of Nanowire for Micro/Nano Systems
    Adam T, Dhahi TS, Gopinath SCB, Hashim U
    Crit Rev Anal Chem, 2022;52(8):1913-1929.
    PMID: 34254863 DOI: 10.1080/10408347.2021.1925523
    Nanowires have been utilized widely in the generation of high-performance nanosensors. Laser ablation, chemical vapor, thermal evaporation and alternating current electrodeposition are in use in developing nanowires. Nanowires are in a great attention because of their submicron feature and their potentials in the front of nanoelectronics, accelerated field effect transistors, chemical- and bio-sensors, and low power consuming light-emitting devices. With the control of nanowire size and concentration of dopant, the electrical sensitivity and other properties of nanowires can be tuned for the reproducibility. Nanowires comprise of arrays of electrodes that form a nanometer electrical circuit. One of advantages of nanowires is that they can be fabricated in nanometer-size for various applications in different approaches. Several studies have been conducted on nanowires and researchers discovered that nanowires have the potential in the applications with material properties at the nanometer scale. The unique electrical properties of nanowires have made them to be promising for numerous applications. Nowadays, for example, MOS field-effect transistors are largely used as fundamental building elements in electronic circuits. Also, the dimension of MOS transistors is gradually decreasing to the nanoscale based on the prediction made by Moor's law. However, their fabrication is challenging. This review summarized different techniques in the fabrication of nanowires, global nanowire prospect, testing of nanowires to understand the real electrical behavior using higher resolution microscopes, and brief applications in the detection of biomolecules, disease such as corona viral pandemic, heavy metal in water, and applications of nanowires in agriculture.
  6. Designing DNA probe from HPV 18 and 58 in the E6 region for sensing element in the development of genosensor-based gold nanoparticles
    Jaapar FN, Parmin NA, Halim NHA, Hashim U, Gopinath SCB, Halim FS, et al.
    Biotechnol Appl Biochem, 2021 Sep 23.
    PMID: 34554606 DOI: 10.1002/bab.2260
    The E6 region has higher protuberant probability annealing than consensus probe focusing on another region in the human papillomavirus (HPV) genome in terms of detection and screening method. Here, we designed the first multiple virus single-stranded deoxyribonucleic acid (ssDNA) for multiple detections in an early phase of screening for cervical cancer in the E6 region and became a fundamental evolution of detection electrochemical HPV biosensor. Gene profiling of the virus ssDNA sequences has been carried by high-end bioinformatics tools such as GenBank, Basic Local Alignment Searching Tools (BLAST), and Clustal OMEGA in a row. The output from bioinformatics tools resulted in 100% of similarities between our virus ssDNA probe and HPV complete genome in the databases. The cross-validation between HPV genome and our designed virus ssDNA provided high specificity and selectivity during screening methods compared with Pap smear. The DNA probe for HPV 18, 5' COOH-GAT CCA GAA GGT ACA GAC GGG GAG GGC ACG 3', while 5'COOH-GGG CGC TGT GCA GTG TGT TGG AGA CCC CGA3' as DNA probe for HPV 58 designed with 66.77% guanine (G) and cytosine (C) content for both. Our virus ssDNA probe for the HPV biosensor promises high sensitivity, specificity, selectivity, repeatability, low fluid consumption, and will be useful in mini-size diagnostic devices for cervical cancer detection.
  7. Fulltext MicroRNA of N-region from SARS-CoV-2: Potential sensing components for biosensor development
    Halim FS, Parmin NA, Hashim U, Gopinath SCB, Dahalan FA, Zakaria II, et al.
    Biotechnol Appl Biochem, 2021 Aug 11.
    PMID: 34378814 DOI: 10.1002/bab.2239
    An oligonucleotide DNA probe has been developed for the application in the DNA electrochemical biosensor for the early diagnosis of coronavirus disease (COVID-19). Here, the virus microRNA from the N-gene of severe acute respiratory syndrome-2 (SARS-CoV-2) was used for the first time as a specific target for detecting the virus and became a framework for developing the complementary DNA probe. The sequence analysis of the virus microRNA was carried out using bioinformatics tools including basic local alignment search tools, multiple sequence alignment from CLUSTLW, microRNA database (miRbase), microRNA target database, and gene analysis. Cross-validation of distinct strains of coronavirus and human microRNA sequences was completed to validate the percentage of identical and consent regions. The percent identity parameter from the bioinformatics tools revealed the virus microRNAs' sequence has a 100% match with the genome of SARS-CoV-2 compared with other coronavirus strains, hence improving the selectivity of the complementary DNA probe. The 30 mer with 53.0% GC content of complementary DNA probe 5' GCC TGA GTT GAG TCA GCA CTG CTC ATG GAT 3' was designed and could be used as a bioreceptor for the biosensor development in the clinical and environmental diagnosis of COVID-19.
  8. Fulltext Silica and graphene mediate arsenic detection in mature rice grain by a newly patterned current-volt aptasensor
    Uda MNA, Gopinath SCB, Hashim U, Halim NH, Parmin NA, Uda MNA, et al.
    Sci Rep, 2021 Jul 19;11(1):14688.
    PMID: 34282233 DOI: 10.1038/s41598-021-94145-0
    Arsenic is a major global threat to the ecosystem. Here we describe a highly accurate sensing platform using silica nanoparticles/graphene at the surface of aluminum interdigitated electrodes (Al IDE), able to detect trace amounts of arsenic(III) in rice grain samples. The morphology and electrical properties of fabricated Al IDEs were characterized and standardized using AFM, and SEM with EDX analyses. Micrometer scale Al IDEs were fabricated with silicon, aluminum, and oxygen as primary elements. Validation of the bare Al IDE with electrolyte fouling was performed at different pH levels. The sensing surface was stable with no electrolyte fouling at pH 7. Each chemical modification step was monitored with current-volt measurement. The surface chemical bonds were characterized by fourier transform infrared spectroscopy (FTIR) and revealed different peaks when interacting with arsenic (1600-1000 cm-1). Both silica nanoparticles and graphene presented a sensitive limit of detection as measured by slope calibration curves at 0.0000001 pg/ml, respectively. Further, linear regression was established using ΔI (A) = 3.86 E-09 log (Arsenic concentration) [g/ml] + 8.67 E-08 [A] for silica nanoparticles, whereas for graphene Y = 3.73 E-09 (Arsenic concentration) [g/ml] + 8.52 E-08 on the linear range of 0.0000001 pg/ml to 0.01 pg/ml. The R2 for silica (0.96) and that of graphene (0.94) was close to the maximum (1). Modification with silica nanoparticles was highly stable. The potential use of silica nanoparticles in the detection of arsenic in rice grain extract can be attributed to their size and stability.
  9. Potentials of MicroRNA in Early Detection of Ovarian Cancer by Analytical Electrical Biosensors
    Parmin NA, Hashim U, Gopinath SCB, Nadzirah S, Salimi MN, Voon CH, et al.
    Crit Rev Anal Chem, 2021 Jun 07.
    PMID: 34092138 DOI: 10.1080/10408347.2021.1890543
    The importance of nanotechnology in medical applications especially with biomedical sensing devices is undoubted. Several medical diagnostics have been developed by taking the advantage of nanomaterials, especially with electrical biosensors. Biosensors have been predominantly used for the quantification of different clinical biomarkers toward detection, screening, and follow-up the treatment. At present, ovarian cancer is one of the severe complications that cannot be identified until it becomes most dangerous as the advanced stage. Based on the American Cancer Society, 20% of cases involved in the detection of ovarian cancer are diagnosed at an early stage and 80% diagnosed at the later stages. The patient just has a common digestive problem and stomach ache as early symptoms and people used to ignore these symptoms. Micro ribonucleic acid (miRNA) is classified as small non-coding RNAs, their expressions change due to the association of cancer development and progression. This article reviews and discusses on the currently available strategies for the early detection of ovarian cancers using miRNA as a biomarker associated with electrical biosensors. A unique miRNA-based biomarker detections are specially highlighted with biosensor platforms to diagnose ovarian cancer.
  10. Production and characterization of graphene from carbonaceous rice straw by cost-effect extraction
    Uda MNA, Gopinath SCB, Hashim U, Halim NH, Parmin NA, Uda MNA, et al.
    3 Biotech, 2021 May;11(5):205.
    PMID: 33868892 DOI: 10.1007/s13205-021-02740-9
    This paper describes the synthesis of graphene-based activated carbon from carbonaceous rice straw fly ash in an electrical furnace and the subsequent potassium hydroxide extraction. The produced graphene has a proper morphological structure; flakes and a rough surface can be observed. The average size of the graphene was defined as up to 2000 nm and clarification was provided by high-resolution microscopes (FESEM and FETEM). Crystallinity was confirmed by surface area electron diffraction. The chemical bonding from the graphene was clearly observed, with -C=C- and O-H stretching at peaks of 1644 cm-1 and 3435 cm-1, respectively. Impurities in the graphene were found using X-ray photoelectron spectroscopy and energy dispersive X-ray spectroscopy. The measured size, according to zeta-potential analysis, was 8722.2 ± 25 nm, and the average polydispersity index was 0.576. The stability of the mass reduction was analyzed by a thermogravimetric at 100 °C, with a final reduction of ~ 11%.
  11. Distinguishing normal and aggregated alpha-synuclein interaction on gold nanorod incorporated zinc oxide nanocomposite by electrochemical technique
    Adam H, Gopinath SCB, Arshad MKM, Parmin NA, Hashim U
    Int J Biol Macromol, 2021 Feb 28;171:217-224.
    PMID: 33418041 DOI: 10.1016/j.ijbiomac.2021.01.014
    Misfolding and accumulation of the protein alpha synuclein in the brain cells characterize Parkinson's disease (PD). Electrochemical based aluminum interdigitated electrodes (ALIDEs) was fabricated by using conventional photolithography method and modified the surfaces with zinc oxide and gold nanorod by using spin coating method for the analysis of PD protein biomarker. The device surface modified with gold nanorod of 25 nm diameter was used. The bare devices and the surface modified devices were characterized by Scanning Electron Microscope, 3D-Profilometer, Atomic Force Microscope and high-power microscope. The above measurement was also performed to measure the interaction of antibody with aggregated alpha-synuclein for normal, aggregated and aggregated alpha synuclein in human serum and distinguished against 3 control proteins (PARK1, DJ-1 and Factor IX). The detection limit for normal alpha synuclein was 1 f. with the sensitivity of 1 f. on a linear regression (R2 = 0.9759). The detection limit for aggregated alpha synuclein was 10 aM with the sensitivity of 1 aM on a linear regression (R2 = 0.9797). Also, the detection limit of aggregated alpha synuclein in serum was 10 aM with the sensitivity of 1 aM on a linear regression (R2 = 0.9739). These results however indicate that, serum has only minimal amount of alpha synuclein.
  12. Production and characterization of silica nanoparticles from fly ash: conversion of agro-waste into resource
    Uda MNA, Gopinath SCB, Hashim U, Halim NH, Parmin NA, Afnan Uda MN, et al.
    Prep Biochem Biotechnol, 2021;51(1):86-95.
    PMID: 32713293 DOI: 10.1080/10826068.2020.1793174
    A chemical method to synthesize amorphous silica nanoparticles from the incinerated paddy straw has been introduced. The synthesis was conducted through the hydrolysis by alkaline-acidic treatments. As a result, silica particles produced with the sizes were ranging at 60-90 nm, determined by high-resolution microscopy. The crystallinity was confirmed by surface area electron diffraction. Apart from that, chemical and diffraction analyses for both rice straw ash and synthesized silica nanoparticles were conducted by X-ray diffraction and Fourier-transform infrared spectroscopy. The percentage of silica from the incinerated straw was calculated to be 28.3. The prominent surface chemical bonding on the generated silica nanoparticles was with Si-O-Si, stretch of Si-O and symmetric Si-O bonds at peaks of 1090, 471, and 780 cm-1, respectively. To confirm the impurities of the elements in the produced silica, were analyzed using X-ray photoelectron spectroscopy and energy dispersive X-ray spectroscopy. The stability of silica nanoparticles was investigated using thermogravimetric analysis and zeta potential. The measured size from zeta potential analysis was 411.3-493 nm and the stability of mass reduction was located at 200 °C with final amount of mass reduced ∼88% and an average polydispersity Index was 0.195-0.224.
  13. Gold-Nanohybrid Biosensors for Analyzing Blood Circulating Clinical Biomacromolecules: Current Trend toward Future Remote Digital Monitoring
    Letchumanan I, Gopinath SCB, Md Arshad MK, Mohamed Saheed MS, Perumal V, Voon CH, et al.
    Crit Rev Anal Chem, 2020 Sep 08.
    PMID: 32897761 DOI: 10.1080/10408347.2020.1812373
    Mortality level is worsening the situation worldwide thru blood diseases and greatly jeopardizes the human health with poor diagnostics. Due to the lack of successful generation of early diagnosis, the survival rate is currently lower. To overcome the present hurdle, new diagnostic methods have been choreographed for blood disease biomarkers analyses with the conjunction of ultra-small ideal gold nanohybrids. Gold-hybrids hold varieties of unique features, such as high biocompatibility, increased surface-to-volume ratio, less-toxicity, ease in electron transfer and have a greater localized surface plasmon resonance. Gold-nanocomposites can be physically hybrid on the sensor surface and functionalize with the biomolecules using appropriate chemical conjugations. Revolutionizing biosensor platform can be prominently linked for the nanocomposite applications in the current research on medical diagnosis. This review encloses the new developments in diagnosing blood biomarkers by utilizing the gold-nanohybrids. Further, the current state-of-the-art and the future envision with digital monitoring for facile telediagnosis were narrated.
  14. Titanium dioxide-mediated resistive nanobiosensor for E. coli O157:H7
    Nadzirah S, Hashim U, Gopinath SCB, Parmin NA, Hamzah AA, Yu HW, et al.
    Mikrochim Acta, 2020 03 17;187(4):235.
    PMID: 32185529 DOI: 10.1007/s00604-020-4214-y
    A titanium dioxide nanoparticle (TiO2 NP)-mediated resistive biosensor is described for the determination of DNA fragments of Escherichia coli O157:H7 (E. coli O157:H7). The sol-gel method was used to synthesize the TiO2 NP, and microlithography was applied to fabricate the interdigitated sensor electrodes. Conventional E. coli DNA detections are facing difficulties in long-preparation-and-detection-time (more than 3 days). Hence, electronic biosensor was introduced by measuring the current-voltage (I-V) DNA probe without amplification of DNA fragments. The detection scheme is based on the interaction between the electron flow on the sensor and the introduction of negative charges from DNA probe and target DNA. The biosensor has a sensitivity of 1.67 × 1013 Ω/M and a wide analytical range. The limit detection is down to 1 × 10-11 M of DNA. The sensor possesses outstanding repeatability and reproducibility and is cabable to detect DNA within 15 min in a minute-volume sample (1 μL). Graphical abstract Fig. (a) Graphical illustration of electronic biosensor set up and (b) relationship between limit of detection (LOD) and the unaffected poultry samples on E. coli O157:H7.
  15. Voltammetric determination of human papillomavirus 16 DNA by using interdigitated electrodes modified with titanium dioxide nanoparticles
    Parmin NA, Hashim U, Gopinath SCB, Nadzirah S, Rejali Z, Afzan A, et al.
    Mikrochim Acta, 2019 05 08;186(6):336.
    PMID: 31069542 DOI: 10.1007/s00604-019-3445-2
    A gene sensor for rapid detection of the Human Papillomavirus 16 (HPV 16) which is associated with the appearance of cervical cancer was developed. The assay is based on voltammetric determination of HPV 16 DNA by using interdigitated electrodes modified with titanium dioxide nanoparticles. Titanium dioxide nanoparticles (NPs) were used to modify a semiconductor-based interdigitated electrode (IDE). The surface of the NPs was then functionalized with a commercial 24-mer oligomer DNA probe for HPV 16 that was modified at the 5' end with a carboxyl group. If the probe interacts with the HPV 16 ssDNA, the current, best measured at a working voltage of 1.0 V, increases. The gene sensor has has a ∼ 0.1 fM limit of detection which is comparable to other sensors. The dielectric voltammetry analysis was carried out from 0 V to 1 V. The electrochemical sensitivity of the IDE is 2.5 × 10-5 μA·μM-1·cm-2. Graphical abstract Schematic of an interdigitated electrode (IDE) modified with titanium dioxide nanoparticles for voltammetric determination of HPV 16 DNA by using an appropriate DNA probe.
  16. Human Papillomavirus E6 biosensing: Current progression on early detection strategies for cervical Cancer
    Parmin NA, Hashim U, Gopinath SCB, Nadzirah S, Rejali Z, Afzan A, et al.
    Int J Biol Macromol, 2019 Apr 01;126:877-890.
    PMID: 30597241 DOI: 10.1016/j.ijbiomac.2018.12.235
    Prognosis of early cancer detection becomes one of the tremendous issues in the medical health system. Medical debates among specialist doctor and researcher in therapeutic approaches became a hot concern for cervix cancer deficiencies early screening, risk factors cross-reaction, portability device, rapid and free labeling system. The electrical biosensing based system showed credibility in higher specificity and selectivity due to hybridization of DNA duplex between analyte target and DNA probes. Electrical DNA sensor for cervix cancer has attracted too many attentions to researcher notification based on high performance, easy to handle, rapid system and possible to miniaturize. This review explores the current progression and future insignificant for HPV E6 genobiosensing for early Detection Strategies of Cervical Cancer.
  17. Designing probe from E6 genome region of human Papillomavirus 16 for sensing applications
    Parmin NA, Hashim U, Gopinath SCB
    Int J Biol Macromol, 2018 Feb;107(Pt B):1738-1746.
    PMID: 29030179 DOI: 10.1016/j.ijbiomac.2017.10.051
    Human Papillomavirus (HPV) is a standout amongst the most commonly reported over 100 types, among them genotypes 16, 18, 31 and 45 are the high-risk HPV. Herein, we designed the oligonucleotide probe for the detection of predominant HPV type 16 for the sensing applications. Conserved amino acid sequences within E6 region of the open reading frame in the HPV genome was used as the basis to design oligonucleotide probe to detect cervical cancer. Analyses of E6 amino acid sequences from the high-risk HPVs were done to check the percentage of similarity and consensus regions that cause different cancers, including cervical cancer. Basic local alignment search tools (BLAST) have given extra statistical parameters, for example, desire values (E-values) and score bits. The probe, 'GGG GTC GGT GGA CCG GTC GAT GTA' was designed with 66.7% GC content. This oligonucleotide probe is designed with the length of 24 mer, GC percent is between 40 and 70, and the melting point (Tm) is above 50°C. The probe needed an acceptable length between 22 and 31 mer. The choice of region is identified here can be used as a probe, has implications for HPV detection techniques in biosensor especially for clinical determination of cervical cancer.
  18. Multi-analyte validation in heterogeneous solution by ELISA
    Lakshmipriya T, Gopinath SCB, Hashim U, Murugaiyah V
    Int J Biol Macromol, 2017 Dec;105(Pt 1):796-800.
    PMID: 28732727 DOI: 10.1016/j.ijbiomac.2017.07.115
    Enzyme Linked Immunosorbent Assay (ELISA) is a standard assay that has been used widely to validate the presence of analyte in the solution. With the advancement of ELISA, different strategies have shown and became a suitable immunoassay for a wide range of analytes. Herein, we attempted to provide additional evidence with ELISA, to show its suitability for multi-analyte detection. To demonstrate, three clinically relevant targets have been chosen, which include 16kDa protein from Mycobacterium tuberculosis, human blood clotting Factor IXa and a tumour marker Squamous Cell Carcinoma antigen. Indeed, we adapted the routine steps from the conventional ELISA to validate the occurrence of analytes both in homogeneous and heterogeneous solutions. With the homogeneous and heterogeneous solutions, we could attain the sensitivity of 2, 8 and 1nM for the targets 16kDa protein, FIXa and SSC antigen, respectively. Further, the specific multi-analyte validations were evidenced with the similar sensitivities in the presence of human serum. ELISA assay in this study has proven its applicability for the genuine multiple target validation in the heterogeneous solution, can be followed for other target validations.
  19. DNA extraction on bio-chip: history and preeminence over conventional and solid-phase extraction methods
    Ayoib A, Hashim U, Gopinath SCB, Md Arshad MK
    Appl Microbiol Biotechnol, 2017 Nov;101(22):8077-8088.
    PMID: 28942548 DOI: 10.1007/s00253-017-8493-0
    This review covers a developmental progression on early to modern taxonomy at cellular level following the advent of electron microscopy and the advancement in deoxyribonucleic acid (DNA) extraction for expatiation of biological classification at DNA level. Here, we discuss the fundamental values of conventional chemical methods of DNA extraction using liquid/liquid extraction (LLE) followed by development of solid-phase extraction (SPE) methods, as well as recent advances in microfluidics device-based system for DNA extraction on-chip. We also discuss the importance of DNA extraction as well as the advantages over conventional chemical methods, and how Lab-on-a-Chip (LOC) system plays a crucial role for the future achievements.
  20. Highly sensitive Escherichia coli shear horizontal surface acoustic wave biosensor with silicon dioxide nanostructures
    Ten ST, Hashim U, Gopinath SC, Liu WW, Foo KL, Sam ST, et al.
    Biosens Bioelectron, 2017 Jul 15;93:146-154.
    PMID: 27660016 DOI: 10.1016/j.bios.2016.09.035
    Surface acoustic wave mediated transductions have been widely used in the sensors and actuators applications. In this study, a shear horizontal surface acoustic wave (SHSAW) was used for the detection of food pathogenic Escherichia coli O157:H7 (E.coli O157:H7), a dangerous strain among 225 E. coli unique serotypes. A few cells of this bacterium are able to cause young children to be most vulnerable to serious complications. Presence of higher than 1cfu E.coli O157:H7 in 25g of food has been considered as a dangerous level. The SHSAW biosensor was fabricated on 64° YX LiNbO3 substrate. Its sensitivity was enhanced by depositing 130.5nm thin layer of SiO2 nanostructures with particle size lesser than 70nm. The nanostructures act both as a waveguide as well as a physical surface modification of the sensor prior to biomolecular immobilization. A specific DNA sequence from E. coli O157:H7 having 22 mers as an amine-terminated probe ssDNA was immobilized on the thin film sensing area through chemical functionalization [(CHO-(CH2)3-CHO) and APTES; NH2-(CH2)3-Si(OC2H5)3]. The high-performance of sensor was shown with the specific oligonucleotide target and attained the sensitivity of 0.6439nM/0.1kHz and detection limit was down to 1.8femto-molar (1.8×10(-15)M). Further evidence was provided by specificity analysis using single mismatched and complementary oligonucleotide sequences.
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