An in-silico approach to design potential siRNAs against the ORF57 of Kaposi's sarcoma-associated herpesvirus

Rahman, Anisur,Gupta, Shipan Das,Rahman, Md. Anisur,Tamanna, Saheda Korea Genome Organization 2021 Genomics & informatics Vol.19 No.4

Kaposi's sarcoma-associated herpesvirus (KSHV) is one of the few human oncogenic viruses, which causes a variety of malignancies, including Kaposi's sarcoma, multicentric Castleman disease, and primary effusion lymphoma, particularly in human immunodeficiency virus patients. The currently available treatment options cannot always prevent the invasion and dissemination of this virus. In recent times, siRNA-based therapeutics are gaining prominence over conventional medications as siRNA can be designed to target almost any gene of interest. The ORF57 is a crucial regulatory protein for lytic gene expression of KSHV. Disruption of this gene translation will inevitably inhibit the replication of the virus in the host cell. Therefore, the ORF57 of KSHV could be a potential target for designing siRNA-based therapeutics. Considering both sequence preferences and target site accessibility, several online tools (i-SCORE Designer, Sfold web server) had been utilized to predict the siRNA guide strand against the ORF57. Subsequently, off-target filtration (BLAST), conservancy test (fuzznuc), and thermodynamics analysis (RNAcofold, RNAalifold, and RNA Structure web server) were also performed to select the most suitable siRNA sequences. Finally, two siRNAs were identified that passed all of the filtration phases and fulfilled the thermodynamic criteria. We hope that the siRNAs predicted in this study would be helpful for the development of new effective therapeutics against KSHV.

Internal Quality Analysis of Garlic (Allium sativum) Using Hyperspectral Imaging Technique

( Anisur Rahman ),( Mohammad Akbar Faqeerzada ),( Byoung-kwan Cho ) 한국농업기계학회 2017 한국농업기계학회 학술발표논문집 Vol.22 No.2

A non-destructive method based on hyperspectral imaging technique was used to predict the allicin, and soluble solid contents of Garlic cloves (Allium sativum) in the range of 1000-1700 nm. The mean spectra of the 200 garlic cloves were extracted from the hyperspectral images, and the reference allicin, and soluble solid contents of the same sample were measured. The spectral data were used to develop partial least square (PLS) regression models with different preprocessing method such as weighted moving average smoothing, multiplicative scatter correction (MSC), standard normal variate (SNV), and derivatives based on the Savitzky-Golay (S-G) algorithms and selected the best preprocessing method based on coefficients of determination (R²_pred), and standard errors of prediction (SEP). Then, the most effective wavelengths were selected using the variable importance in projection (VIP) technique from the best PLS regression model, which selected optimal variables for the target quality parameters of garlic cloves from a full set of variables. Subsequently, the selected variables were used to develop a PLS-VIP model for simplifying the prediction model and finally chemical images was derived by applying the respective regression coefficient on the spectral image in a pixel-wise manner. The resulting chemical images provided detailed information on allicin, and soluble solid contents of Garlic cloves. Therefore, these research demonstrated that HIS technique has a potential for rapid and non-destructive evaluation of the allicin, and soluble solid contents of Garlic cloves.

Hollow silica nanosphere having functionalized interior surface with thin manganese oxide layer: nanoreactor framework for size-selective Lewis acid catalysis

Anisur, Rahman Md,Shin, Jongmin,Choi, Hyung Ho,Yeo, Kyung Min,Kang, Eun Joo,Lee, In Su Royal Society of Chemistry 2010 Journal of materials chemistry Vol.20 No.47

<P>A novel selective nanoscale etching process that generated a well defined hollow nanostructure was developed by treating manganese oxide nanoparticles with a hydroxylamine solution. This selective etching process was used for exploiting a novel method of differentially functionalizing the internal surface of a hollow silica shell with a catalytically active Mn<SUB>3</SUB>O<SUB>4</SUB> layer and creating a novel nanoreactor framework. The nanoreactor fabricated by the newly developed method catalyzed the cyanosilylation reactions of various aromatic aldehydes with size and shape selectivity. Moreover, the substrate selectivity in the cyanosilylation reactions was efficiently tuned by modifying the outer silica shell with silane coupling reagents.</P> <P>Graphic Abstract</P><P>Nanoscale etching process generated a nanoreactor framework, consisting of a hollow and porous silica shell and a functionalized interior surface with Mn<SUB>3</SUB>O<SUB>4</SUB> layer, which catalyzes cyanosilylation reactions with size selectivity. <IMG SRC='http://pubs.rsc.org/services/images/RSCpubs.ePlatform.Service.FreeContent.ImageService.svc/ImageService/image/GA?id=c0jm02647f'> </P>

Consequences of Domestic Violence against Women: Some Reflections from Rural Bangladesh

Anisur R. Khan 한국사회복지학회 2015 Asian Social Work and Policy Review Vol.9 No.3

The aim of this study was to explore the consequences of domestic violence against rural Bangladeshi women. Drawing on in-depth qualitative phenomenological interviews with 39 female victims of domestic violence from 8 rural settings of the Netrokona and Mymensingh districts, it was found that domestic violence not only causes serious consequences to the overall health and wellbeing of victims, it also causes negative impacts to their children and family members. For victims, consequences were physical, sexual, reproductive, psychological, and economic. For the children of the victims, consequences were mostly behavioral and psychological, while for family members of the victims, consequences were mainly economic and psychological. This study has significant academic implications because it could trace the consequences of domestic violence in a three dimensional manner. Based on empirical findings, this study proposes policy recommendations, such as campaigning against domestic violence and the proper implementation of laws related to domestic violence.

Homeopathic mother tincture of Conium initiates reactive oxygen species mediated DNA damage and makes HeLa cells prone to apoptosis

Anisur Rahman Khuda-Bukhsh,Kausik Bishayee,Avinaba Mukherjee,Avijit Paul 셀메드 세포교정의약학회 2012 TANG Vol.2 No.3

Adverse side-effects and lack of scientific validation of some chemotherapeutic agents prevent the use of many traditional medicines claimed to have anti-cancer effects. Ethanolic extract of Conium maculatum has long been used in traditional and alternative systems of medicine including homeopathy for the treatment of glandular enlargements, cancerous tumours or hard lumps of testicles, prostate, ovaries, breasts and/ or uterus, particularly in the breast. However, if and how it acts still remains scientifically unknown. This study aims to test if Conium extract (CE), used as mother tincture of Conium in homeopathy, has demonstrable anti-cancer potentials without having much cytotoxicity in normal cells. Cytotoxicity of the drug was tested by conducting MTT assay on both normal (peripheral blood mononuclear cells) and HeLa cells. We also evaluated DNA fragmentation and DNA damage by DAPI and diphenylamine assay. The LDH activity assay was done to evaluate the percentages of apoptosis and necrosis. ROS accumulation also was evaluated to pin-point the actual events of apoptosis. Administration of drug clearly demonstrated its anti-cancer potentials as evidenced by the DNA damage analysis. The ROS activity also increased in case of the CE treated cells. LDH data revealed that the mode of cell death was mainly apoptotic and not necrotic. CE appears to induce apoptosis of cancer cells through ROS mediated pathway, and has negligible cytotoxicity against normal cells.

3-D Image Reconstruction Techniques for Plant and Animal Morphological Analysis - A Review

( Anisur Rahman ),( Changyeun Mo ),( Byoung-kwan Cho ) 한국농업기계학회 2017 바이오시스템공학 Vol.42 No.4

Purpose: This review focuses on the major 3-D image reconstruction techniques and their applications in plant and animal morphological analysis. Methods &Results: This paper begins with an overview of major 3-D image reconstruction techniques and their basic principles. Subsequently, their applications in plant and animal morphological analysis are reviewed. A discussion on the limitations and future research direction of 3-D imaging techniques for accurate, fast measurements and modeling of plant and animal morphological analysis follows. Conclusions: Owing to the increasing demand for plant and animal morphological analysis, the application of 3-D imaging techniques will increase in popularity among researchers and the agricultural industry.

Bruise Detection using Short Wavelength Infrared (SWIR) Hyperspectral Imaging System for Tomato

( Anisur Rahman ),( Byoung-kwan Cho ) 한국농업기계학회 2016 한국농업기계학회 학술발표논문집 Vol.21 No.2

The Bruising in tomato and its detection is a great concern for quality to the consumers, and for these phenomena of economic losses to industry. Therefore, the objective of this research was to develop a technique for the detection of bruises in tomato using SWIR hyperspectral imaging. Using 60 tomatoes that were received of bruising force (25 N), spectral images were taken from 1000 to 2500nm wavelength after brushing. To differentiate between bruise and non-bruise tomato, a multivariate classification model was developed with partial least square discrimination analysis (PLS-DA). Furthermore, the PLS-DA and images were provided the visual information of a bruise on the tomato.

Attenuation of p-dimethylaminoazobenzene initiated genotoxicity and cytotoxicity in mice by the combined treatment of a traditional homeopathic remedy Chelidonium Majus 200C and vitamin-C

Anisur Rahman Khuda-Bukhsh,Surjyo Jyoti Biswas,Susanta Roy Karmakar 셀메드 세포교정의약학회 2012 셀메드 (CellMed) Vol.2 No.4

The homeopathic remedy Chelidonium majus 200C (Chel-200) is traditionally used by homeopathic practitioners in liver ailments arising out of hepatotoxicity. The present investigation was aimed at examining whether vitamin C (L-ascorbic acid or AA), used in both traditional and orthodox medicines, can show better effects when used in combination with Chel-200, in favorably modifying the toxicological effects induced by the chronic feeding of p-dimethylaminoazobenzene (p-DAB, initiator) and phenobarbital (PB, promoter) in mice for 7 days through 120 days to induce hepatotoxicity and liver tumors. Mice were euthanized at 7, 15, 30, 60, 90, and 120 days of carcinogen feeding to assess various cytogenetical, biochemical and histological changes occurring in them. In a placebo controlled study, Chel-200 or the respective placebo (Alcohol-200C or Alc, “vehicle” of homeopathic drug), was orally administered to toxicant-fed mice. Sub-groups of the mice receiving Chel-200 were also fed either AA or an Alc placebo and their individual and conjoint effects were studied against the respective controls, to evaluate if the combination therapy of Chel-200 with AA can be of additional help in the amelioration of the toxicities generated by the toxicants. The combined feeding of Chel- 200 and AA appeared to reduce the cytotoxic and genotoxic effects significantly, when compared to either only the Chel-200 or AA fed group. A similar trend was also obtained in the results of scanning and transmission electron microscopic studies of the livers. Experiments in other mammalian models are warranted to confirm if these drugs in combination could be used in palliative care of human patients with liver diseases including cancer.

Women’s coping strategies and help-seeking practices : Some observations on domestic violence in rural Bangladesh

Anisur Rahman KHAN 이화여자대학교 아시아여성학센터 2015 Asian Journal of Women's Studies(AJWS) Vol.21 No.3

This article examines the coping strategies and help-seeking practices of women victims of domestic violence perpetrated by their husbands in rural Bangladesh. By drawing on 39 semi-structured in-depth interviews, conducted in eight rural settings in Netrokona and Mymensingh districts, it was found that the abused women tried to cope with domestic violence in many ways. Making their marriages work at any cost was their prime motivation in coping with violence. Moreover, they tolerated domestic violence because they were concerned about their own future and that of their children. At times, some women spoke back to their husbands. In extreme cases, some left the abusive relationships. With regard to helpseeking, they largely sought assistance from informal networks, such as parents, relatives, neighbors, community leaders and community-based NGOs and only a few sought formal support from legal and institutional agencies. It was noted that the dynamics of both the coping strategies and help-seeking practices were very complex. Women’s vulnerabilities were well-exposed in both cases. Neither informal nor formal support could ensure sufficient protection for women. Sometimes, seeking help aggravated women’s condition in many ways. It is, therefore, suggested that the existing drawbacks in both informal and formal support mechanisms must be eliminated in order to render appropriate services to the victims.

Comparing Satisfaction/Dissatisfaction and Public Confidence in the ITS Environment in Public and Private Transportation

( Anisur Rahman ),( Yoon C. Cho ) 서암순창장학회 2017 Journal of Marketing Thought Vol.4 No.2

Although Intelligent Transport Systems (ITS) is widely used both in public and private transportation, the factors that influence satisfaction and public confidence seem to differ between the two modes of transportation. The purpose of this study is to compare the justice dimensions that influence satisfaction and public confidence in the context of ITS in public and private transportation and to explore implications for Citizen/Customer Relationship Management (CRM) and public policy. This study finds that in public transportation, policy planners should focus on freedom to communicate views and opinions, ease of engaging commuting, adaptability of commuting to reflect individual circumstances, manner and behavior of service personnel, and provision of caring, individual attention towards passengers. In private transportation, policy planners should focus on manner and behavior of the service personnel, and provision of caring, individual attention towards passengers.