Dr Virendra Gomase | Dr. Babasaheb Ambedkar Marathwada University Aurangabad (original) (raw)

Papers by Dr Virendra Gomase

Research paper thumbnail of Artificial Neural Network Approach for Predicting Cation Exchange Capacity in Soil Based on Physico-Chemical Properties

Environmental Engineering Science, 2009

ABSTRACT

Research paper thumbnail of Metabolic Diversity in Plants

International Journal of Molecular Biology, 2010

Metabolic diversity in various plants of various kingdoms and species has successfully solved man... more Metabolic diversity in various plants of various kingdoms and species has successfully solved many fundamental questions arising due to different and varying growth conditions and parameters they are subjected to. It is important to study metabolic diversity to understand how science has evolved and succeeded to address the practical application of recombinant DNA technology for the benefit of plants themselves and also to know how these metabolic changes help them adapt to diverse conditions.

Research paper thumbnail of MHC binding peptide prediction models: New approach for vaccine development

Journal of Vaccines and Vaccination, Oct 28, 2014

Research paper thumbnail of Microarray: Gene Expression Analysis

Research paper thumbnail of Methods in Molecular Biotechnology

Methods in Molecular Biotechnology explore contemporary techniques and applications of Molecular ... more Methods in Molecular Biotechnology explore contemporary techniques and applications of Molecular Biotechnology, illustrating the tremendous potential this technology has to change our world by improving the food supply. As an introductory text, its focus is on basic science and processes. It guides students from Molecular biology and genetics to principles and applications of Molecular Biotechnology. Key features •Theoretical approaches, number of examples and references •Provides a broad, application-oriented overview •Real application scenarios, such as plant projects that require the use of a whole set of drug design tools •This appears to be an excellent series of textbooks for students, researchers and scientists •Provides a comprehensive, definitive, and up to date reference of the main areas of specialist and expert knowledge and skills used by those involved in all aspects of the new drug development research •Illustrations help readers understand the research methodology ea...

Research paper thumbnail of Machine Learning Techniques: Approach for Mapping of MHC Class Binding Nonamers

The machine learning techniques are playing a major role in the field of immunoinformatics for DN... more The machine learning techniques are playing a major role in the field of immunoinformatics for DNA-binding domain analysis. Functional analysis of the binding ability of DNA-binding domain protein antigen peptides to major histocompatibility complex (MHC) class molecules is important in vaccine development. The variable length of each binding peptide complicates this prediction. Such predictions can be used to select epitopes for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Antigenic epitopes of DNA-binding domain protein form Human papilloma virus-31 are important determinant for protection of many host form viral infection. This study shows active part in host immune reactions and involvement of MHC class-I and MHC II in response to almost all antigens. We used PSSM and SVM algorithms for antigen design, which represented predicted binders as MHCII-IAb, MHCII-IAd, MHCII-IAg7, and MHCII-RT1.B nonamers from viral DNA-binding domain crystal structure. These peptide nonamers are from a set of aligned peptides known to bind to a given MHC molecule as the predictor of MHC-peptide binding. Analysis shows potential drug targets to identify active sites against diseases.

Research paper thumbnail of Immunoproteomics approach for fragment based vaccine design from Coxsackie B virus

Coxsackieviruses are non-enveloped viruses with linear single-stranded RNA. Group B coxsackieviru... more Coxsackieviruses are non-enveloped viruses with linear single-stranded RNA. Group B coxsackieviruses were noted to cause a spastic paralysis due to focal muscle injury and degeneration of neuronal tissue. Peptide fragments of Coxsackievirus-B coat protein can be used to select nonamers for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Analysis shows MHC class II binding peptides of coat protein from Coxsackievirus-B are important determinant for protection of host form viral infection. In this assay we predicted the binding affinity of coat protein having 281 amino acids, which shows 273 nonamers. These peptides are from a set of aligned peptides known to bind to a given MHC molecule as the predictor of MHC-peptide binding. MHCII molecules bind peptides in similar yet different modes and alignments of MHCII-ligands were obtained to be consistent with the binding mode of the peptides to their MHC class, this means the increase in affinity of MHC binding peptides may result in enhancement of immunogenicity of coat protein nonamers. Binding ability prediction of antigen peptides to major histocompatibility complex (MHC) class I & II molecules is important in vaccine development from Coxsackievirus.

Research paper thumbnail of Machine Intelligence approach for prediction of MHC binder from Human papilloma virus- 16

Prediction of the binding ability of antigen peptides to major histocompatibility complex (MHC) c... more Prediction of the binding ability of antigen peptides to major histocompatibility complex (MHC) class molecules is important in vaccine development from Human papilloma virus-16. The variable length of each binding peptide complicates this prediction. Such predictions can be used to select epitopes for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Antigenic epitopes of capsid protein L1 form Human papilloma virus-16 are important determinant for protection of many disorders form viral infection. This study shows active part in host immune reactions and involvement of MHC class-I and MHC II in response to almost all antigens. We also found the SVM based MHCII-IAb, MHCII-IAd, MHCII-IAg7 and MHCII-RT1.B peptide regions, which represented predicted binders from viral capsid protein (Table-1). These peptide nonamers are from a set of aligned peptides known to bind to a given MHC molecule as the predictor of MHC-peptide binding. Analysis shows potential drug targets to identify active sites against diseases.

Research paper thumbnail of Machine intelligence approach for optimization of cranial tumor image

High-throughput image analysis is very important aspect of modern post-genomics and proteomics re... more High-throughput image analysis is very important aspect of modern post-genomics and proteomics research. Image optimization technology is the driving force of this revolution and technology, which allows the simultaneous monitoring of expression for thousands of images. The need for accurate and reproducible research has driven the development of robust analysis frameworks for maximizing the information content of cancer pathological data. Image optimization is a powerful tool has multiple applications both in clinical and cellular and molecular biology arenas. Image analysis technology has shown new advancements in the field of biomedical research and diagnosis, it allows studying and understanding tumor activities and interactions in malignancies or diseases; therefore, it has great potential for clinical diagnostics in the future.

Research paper thumbnail of Role of MHC restriction in allogeneic immune responses to cancer

Research paper thumbnail of Study of Protein Metabolism of Gallus Gallus Domesticus (Linn, 1758) Infected by Raillietina (Eucestoda)

International Journal of Parasitology Research, 2010

The values and dynamics of some indices of protein metabolism were studied in domestic bird Gallu... more The values and dynamics of some indices of protein metabolism were studied in domestic bird Gallus gallus domesticus infected with cestodes Railletina echinobothrida, (Magnin, 1881) in natural population and in experiment. These indices were compared in infected and non-infected birds. Cestode infection considerably affected hosts protein metabolism irrespective of the age; however the chances were more pronounced in younger ones. Increased concentration of γ-globulin, modified albumin and circulating immune complexes was observed in plasma of infected host. The experiment demonstrated the most significant changes in the protein metabolism of Gallus gallus domesticus 4-8 days after infestation with cestodes Railletina echinobothrida (Magnin, 1881).

Research paper thumbnail of Immunoproteomics approach for prediction of antigenic epitope of Tertiapin from Apis mellifera

The bee venom is used for treating a wide variety of disease conditions. It has also beenfound to... more The bee venom is used for treating a wide variety of disease conditions. It has also beenfound to be a strong immunological agent, stimulating the body's protective mechanisms againstdisease. The major treatment is gene therapy or recombinant DNA vaccines involved targeting multipleantigenic components to direct and empower the immune system to protect the host from infection.Limitation of therapy to the treatment of patients suffering from various adverse reaction andcontraindications are always experienced. Tertiapin is a neurotoxin from the honeybee venom. Itinteracts specifically with calmodulin in the presence of Ca2+. Antigenic epitopes on Tertiapin protein ofApis mellifera (honey bee) is important determinants sites for protection against disorders. As ourknowledge of the immune responses to a protein antigen progressed, it became clear that the wholeprotein is not necessary for raising the immune response, but small segments (NCNRIIIPHMCWK, 4-16)of tertiapin protein cal...

Research paper thumbnail of Proteins bioassay: recent scenario for new target validations

This article reviews different aspects of protein engineering technologies such as proteinscreeni... more This article reviews different aspects of protein engineering technologies such as proteinscreening, NMR, EM & x-ray crystallography, In silico protein structure, protein cell free technologies, proteinchips and arrays, custom peptide synthesis as well as nanoscale / microscale separation or purificationmethods briefly and where they are being used to solve protein queries.

Research paper thumbnail of Isolation, structure elucidation and biotransformation studies on secondary metabolites from Asparagus racemosus

International Journal of Microbiology Research, 2010

Asparagus racemosus is important medicinal plant of tropical and subtropical India, is a potent p... more Asparagus racemosus is important medicinal plant of tropical and subtropical India, is a potent phytoestrogen, which is used extensively in the treatment of menopausal symptoms, diarrhea, dyspepsia, and neurodegenerative disorders. The multiple uses of this species have increased its commercial demand resulting in over-exploitation. Consequently, the plant is recognized as being "critically endangered" in its natural habitat. Development of an efficient Isolation, structure elucidation and biotransformation studies protocol will not only play a significant role in meeting the requirement of planting material for commercial cultivation, but also in aiding the conservation process.

Research paper thumbnail of Proteomics based prediction of antigenicity of iberiotoxin from eastern Indian scorpion

International Journal of Drug Discovery, 2009

Scorpion venom is an antigenic, water-soluble, heterogenous mixture. The Na +-channel specific to... more Scorpion venom is an antigenic, water-soluble, heterogenous mixture. The Na +-channel specific toxins from scorpions are modifiers of the channel gating mechanism. The recombinant DNA vaccines involved targeting multiple antigenic components to direct and empower the immune system to protect the host from infection. Limitation of therapy to the treatment of patients suffering from various adverse reaction and contraindications are always experienced. Antigenic epitope on iberiotoxineastern Indian scorpion are important determinant of protection against spider venom. As our knowledge of the immune responses to a protein antigen progressed, it became clear that the whole protein is not necessary for raising the immune response, but small segments (DVDCSVSKECWSVCKDLFG; 4-22) of protein called the antigenic determinant or the epitope is sufficient for eliciting the desired immune response. In analysis predicted antigenic epitope iberiotoxin protein is seen. Antigenic epitope from iberiotoxin is a predicted immunization strategy against various diseases.

Research paper thumbnail of Prediction of Antigenic Peptides of LASIOTOXIN-2 (LPTX2) from Lasiodora Parahybana

International Journal of Parasitology Research, 2009

The toxin Lasiotoxin-2 (LpTX2) is a 49aa

Research paper thumbnail of RNAI: GENE SILENCING APPROACH IN C. elegans and H. sapiens

International Journal of Molecular Biology, 2010

siRNAs (Short interfering RNAs) and miRNAs (microRNAs), which are mediate silencing via distinct ... more siRNAs (Short interfering RNAs) and miRNAs (microRNAs), which are mediate silencing via distinct mechanisms C. elegans and Homo sapiens. The breaking of a doublestranded RNA (dsRNA) matching a specific gene sequence into short pieces called short interfering RNA, which trigger the degradation of mRNA that matches its sequence. In this review, we discussed the RNA interference with its principle and application in recent biological research areas. Principal The phenomenon of RNAi, originally described in the nematode worm C. elegans by Fire and colleagues in 1998, has been recognized as a general mechanism in many organisms. Basically, RNAi is induced within the cytoplasm when long, double-stranded RNA (dsRNA) is recognized by Dicer, a multidomain RNase III enzyme. Dicer processes dsRNA into short (21-25 nucleotides) duplexes that are termed siRNAs. Like products of other RNase III enzymes, siRNA duplexes contain 5′ phosphate and 3′ hydroxyl termini, and two single-stranded nucleotide overhangs on their 3′ ends. These structural features are important for the entry of siRNAs into the RNAi pathway because blunt-ended siRNAs or those that lack a 5′ phosphate group are ineffective in triggering gene silencing [41]. It is processed by the RNase-III enzyme Dicer into 21-28nucleotide double-stranded siRNA duplexes. The RISC associated enzyme Slicer (Argonaute-2) degrades the target mRNA.

Research paper thumbnail of Toxicogenomics and Its Application in Cancer Pathogenesis

International Journal of Medical and Clinical Research, 2010

Toxicology, the study of poisons, focuses on substances and treatments that cause adverse effects... more Toxicology, the study of poisons, focuses on substances and treatments that cause adverse effects in living things. A critical part of this study is the characterization of the adverse effects at the level of the organism, the tissue, the cell, and the molecular makeup of the cell. Thus, Toxicology traditionally has focused on phenotypic changes in an organism that result from exposure to chemical, physical, or biologic agents. Such changes range from reversible effects, such as transient skin reactions, to chronic diseases, such as cancer, to the extreme end point of death. Typical whole-animal toxicology studies may range from single-dose acute to chronic lifetime exposures, and they include assessments of end points such as clinical signs of toxicity, body and organ weight changes, clinical chemistry, and histopathologic responses.

Research paper thumbnail of Eimeria acervulina ANALYSIS FOR BINDING PEPTIDES USING PROTEIN PROFILING FOR TARGET VALIDATION

International Journal of Machine Intelligence, 2010

Eimeria acervulina is a species of Eimeria that causes coccidiosis in older poultry. Lesions are ... more Eimeria acervulina is a species of Eimeria that causes coccidiosis in older poultry. Lesions are limited to anterior or first third of the small intestine. Peptide fragments of antigen protein can be used to select nonamers for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Analysis shows MHC class II binding peptides of antigen protein from Eimeria acervulina are important determinant for protection of host form parasitic infection. In this assay, we used PSSM and SVM algorithms for antigen design and predicted the binding affinity of antigen protein having 299 amino acids, which shows 291 nonamers. Binding ability prediction of antigen peptides to major histocompatibility complex (MHC) class I & II molecules is important in vaccine development from Eimeria acervulina.

Research paper thumbnail of MALDI-TOF based Metabolomic approach

International Journal of Genetics, 2009

Metabolomics is the study of metabolite profiles in biological and pathological samples (urine, p... more Metabolomics is the study of metabolite profiles in biological and pathological samples (urine, plasma, saliva, blood fat biopsies, plant cells, bacteria viruses and fungi. The metabolome is the most predictive phenotype: consequently, the comprehensive and quantitative research study of metabolites is a desirable tool for diagnosing disease, Identifying new therapeutic targets and enabling appropriate treatments. In addition to other Mass Spectrometry (MS) methodologies used for determining the localization of small molecules in tissue, MALDI-TOF/TOF can also be used to detect drugs and their metabolites in tissue without the burden of matrix interference.

Research paper thumbnail of Artificial Neural Network Approach for Predicting Cation Exchange Capacity in Soil Based on Physico-Chemical Properties

Environmental Engineering Science, 2009

ABSTRACT

Research paper thumbnail of Metabolic Diversity in Plants

International Journal of Molecular Biology, 2010

Metabolic diversity in various plants of various kingdoms and species has successfully solved man... more Metabolic diversity in various plants of various kingdoms and species has successfully solved many fundamental questions arising due to different and varying growth conditions and parameters they are subjected to. It is important to study metabolic diversity to understand how science has evolved and succeeded to address the practical application of recombinant DNA technology for the benefit of plants themselves and also to know how these metabolic changes help them adapt to diverse conditions.

Research paper thumbnail of MHC binding peptide prediction models: New approach for vaccine development

Journal of Vaccines and Vaccination, Oct 28, 2014

Research paper thumbnail of Microarray: Gene Expression Analysis

Research paper thumbnail of Methods in Molecular Biotechnology

Methods in Molecular Biotechnology explore contemporary techniques and applications of Molecular ... more Methods in Molecular Biotechnology explore contemporary techniques and applications of Molecular Biotechnology, illustrating the tremendous potential this technology has to change our world by improving the food supply. As an introductory text, its focus is on basic science and processes. It guides students from Molecular biology and genetics to principles and applications of Molecular Biotechnology. Key features •Theoretical approaches, number of examples and references •Provides a broad, application-oriented overview •Real application scenarios, such as plant projects that require the use of a whole set of drug design tools •This appears to be an excellent series of textbooks for students, researchers and scientists •Provides a comprehensive, definitive, and up to date reference of the main areas of specialist and expert knowledge and skills used by those involved in all aspects of the new drug development research •Illustrations help readers understand the research methodology ea...

Research paper thumbnail of Machine Learning Techniques: Approach for Mapping of MHC Class Binding Nonamers

The machine learning techniques are playing a major role in the field of immunoinformatics for DN... more The machine learning techniques are playing a major role in the field of immunoinformatics for DNA-binding domain analysis. Functional analysis of the binding ability of DNA-binding domain protein antigen peptides to major histocompatibility complex (MHC) class molecules is important in vaccine development. The variable length of each binding peptide complicates this prediction. Such predictions can be used to select epitopes for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Antigenic epitopes of DNA-binding domain protein form Human papilloma virus-31 are important determinant for protection of many host form viral infection. This study shows active part in host immune reactions and involvement of MHC class-I and MHC II in response to almost all antigens. We used PSSM and SVM algorithms for antigen design, which represented predicted binders as MHCII-IAb, MHCII-IAd, MHCII-IAg7, and MHCII-RT1.B nonamers from viral DNA-binding domain crystal structure. These peptide nonamers are from a set of aligned peptides known to bind to a given MHC molecule as the predictor of MHC-peptide binding. Analysis shows potential drug targets to identify active sites against diseases.

Research paper thumbnail of Immunoproteomics approach for fragment based vaccine design from Coxsackie B virus

Coxsackieviruses are non-enveloped viruses with linear single-stranded RNA. Group B coxsackieviru... more Coxsackieviruses are non-enveloped viruses with linear single-stranded RNA. Group B coxsackieviruses were noted to cause a spastic paralysis due to focal muscle injury and degeneration of neuronal tissue. Peptide fragments of Coxsackievirus-B coat protein can be used to select nonamers for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Analysis shows MHC class II binding peptides of coat protein from Coxsackievirus-B are important determinant for protection of host form viral infection. In this assay we predicted the binding affinity of coat protein having 281 amino acids, which shows 273 nonamers. These peptides are from a set of aligned peptides known to bind to a given MHC molecule as the predictor of MHC-peptide binding. MHCII molecules bind peptides in similar yet different modes and alignments of MHCII-ligands were obtained to be consistent with the binding mode of the peptides to their MHC class, this means the increase in affinity of MHC binding peptides may result in enhancement of immunogenicity of coat protein nonamers. Binding ability prediction of antigen peptides to major histocompatibility complex (MHC) class I & II molecules is important in vaccine development from Coxsackievirus.

Research paper thumbnail of Machine Intelligence approach for prediction of MHC binder from Human papilloma virus- 16

Prediction of the binding ability of antigen peptides to major histocompatibility complex (MHC) c... more Prediction of the binding ability of antigen peptides to major histocompatibility complex (MHC) class molecules is important in vaccine development from Human papilloma virus-16. The variable length of each binding peptide complicates this prediction. Such predictions can be used to select epitopes for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Antigenic epitopes of capsid protein L1 form Human papilloma virus-16 are important determinant for protection of many disorders form viral infection. This study shows active part in host immune reactions and involvement of MHC class-I and MHC II in response to almost all antigens. We also found the SVM based MHCII-IAb, MHCII-IAd, MHCII-IAg7 and MHCII-RT1.B peptide regions, which represented predicted binders from viral capsid protein (Table-1). These peptide nonamers are from a set of aligned peptides known to bind to a given MHC molecule as the predictor of MHC-peptide binding. Analysis shows potential drug targets to identify active sites against diseases.

Research paper thumbnail of Machine intelligence approach for optimization of cranial tumor image

High-throughput image analysis is very important aspect of modern post-genomics and proteomics re... more High-throughput image analysis is very important aspect of modern post-genomics and proteomics research. Image optimization technology is the driving force of this revolution and technology, which allows the simultaneous monitoring of expression for thousands of images. The need for accurate and reproducible research has driven the development of robust analysis frameworks for maximizing the information content of cancer pathological data. Image optimization is a powerful tool has multiple applications both in clinical and cellular and molecular biology arenas. Image analysis technology has shown new advancements in the field of biomedical research and diagnosis, it allows studying and understanding tumor activities and interactions in malignancies or diseases; therefore, it has great potential for clinical diagnostics in the future.

Research paper thumbnail of Role of MHC restriction in allogeneic immune responses to cancer

Research paper thumbnail of Study of Protein Metabolism of Gallus Gallus Domesticus (Linn, 1758) Infected by Raillietina (Eucestoda)

International Journal of Parasitology Research, 2010

The values and dynamics of some indices of protein metabolism were studied in domestic bird Gallu... more The values and dynamics of some indices of protein metabolism were studied in domestic bird Gallus gallus domesticus infected with cestodes Railletina echinobothrida, (Magnin, 1881) in natural population and in experiment. These indices were compared in infected and non-infected birds. Cestode infection considerably affected hosts protein metabolism irrespective of the age; however the chances were more pronounced in younger ones. Increased concentration of γ-globulin, modified albumin and circulating immune complexes was observed in plasma of infected host. The experiment demonstrated the most significant changes in the protein metabolism of Gallus gallus domesticus 4-8 days after infestation with cestodes Railletina echinobothrida (Magnin, 1881).

Research paper thumbnail of Immunoproteomics approach for prediction of antigenic epitope of Tertiapin from Apis mellifera

The bee venom is used for treating a wide variety of disease conditions. It has also beenfound to... more The bee venom is used for treating a wide variety of disease conditions. It has also beenfound to be a strong immunological agent, stimulating the body's protective mechanisms againstdisease. The major treatment is gene therapy or recombinant DNA vaccines involved targeting multipleantigenic components to direct and empower the immune system to protect the host from infection.Limitation of therapy to the treatment of patients suffering from various adverse reaction andcontraindications are always experienced. Tertiapin is a neurotoxin from the honeybee venom. Itinteracts specifically with calmodulin in the presence of Ca2+. Antigenic epitopes on Tertiapin protein ofApis mellifera (honey bee) is important determinants sites for protection against disorders. As ourknowledge of the immune responses to a protein antigen progressed, it became clear that the wholeprotein is not necessary for raising the immune response, but small segments (NCNRIIIPHMCWK, 4-16)of tertiapin protein cal...

Research paper thumbnail of Proteins bioassay: recent scenario for new target validations

This article reviews different aspects of protein engineering technologies such as proteinscreeni... more This article reviews different aspects of protein engineering technologies such as proteinscreening, NMR, EM & x-ray crystallography, In silico protein structure, protein cell free technologies, proteinchips and arrays, custom peptide synthesis as well as nanoscale / microscale separation or purificationmethods briefly and where they are being used to solve protein queries.

Research paper thumbnail of Isolation, structure elucidation and biotransformation studies on secondary metabolites from Asparagus racemosus

International Journal of Microbiology Research, 2010

Asparagus racemosus is important medicinal plant of tropical and subtropical India, is a potent p... more Asparagus racemosus is important medicinal plant of tropical and subtropical India, is a potent phytoestrogen, which is used extensively in the treatment of menopausal symptoms, diarrhea, dyspepsia, and neurodegenerative disorders. The multiple uses of this species have increased its commercial demand resulting in over-exploitation. Consequently, the plant is recognized as being "critically endangered" in its natural habitat. Development of an efficient Isolation, structure elucidation and biotransformation studies protocol will not only play a significant role in meeting the requirement of planting material for commercial cultivation, but also in aiding the conservation process.

Research paper thumbnail of Proteomics based prediction of antigenicity of iberiotoxin from eastern Indian scorpion

International Journal of Drug Discovery, 2009

Scorpion venom is an antigenic, water-soluble, heterogenous mixture. The Na +-channel specific to... more Scorpion venom is an antigenic, water-soluble, heterogenous mixture. The Na +-channel specific toxins from scorpions are modifiers of the channel gating mechanism. The recombinant DNA vaccines involved targeting multiple antigenic components to direct and empower the immune system to protect the host from infection. Limitation of therapy to the treatment of patients suffering from various adverse reaction and contraindications are always experienced. Antigenic epitope on iberiotoxineastern Indian scorpion are important determinant of protection against spider venom. As our knowledge of the immune responses to a protein antigen progressed, it became clear that the whole protein is not necessary for raising the immune response, but small segments (DVDCSVSKECWSVCKDLFG; 4-22) of protein called the antigenic determinant or the epitope is sufficient for eliciting the desired immune response. In analysis predicted antigenic epitope iberiotoxin protein is seen. Antigenic epitope from iberiotoxin is a predicted immunization strategy against various diseases.

Research paper thumbnail of Prediction of Antigenic Peptides of LASIOTOXIN-2 (LPTX2) from Lasiodora Parahybana

International Journal of Parasitology Research, 2009

The toxin Lasiotoxin-2 (LpTX2) is a 49aa

Research paper thumbnail of RNAI: GENE SILENCING APPROACH IN C. elegans and H. sapiens

International Journal of Molecular Biology, 2010

siRNAs (Short interfering RNAs) and miRNAs (microRNAs), which are mediate silencing via distinct ... more siRNAs (Short interfering RNAs) and miRNAs (microRNAs), which are mediate silencing via distinct mechanisms C. elegans and Homo sapiens. The breaking of a doublestranded RNA (dsRNA) matching a specific gene sequence into short pieces called short interfering RNA, which trigger the degradation of mRNA that matches its sequence. In this review, we discussed the RNA interference with its principle and application in recent biological research areas. Principal The phenomenon of RNAi, originally described in the nematode worm C. elegans by Fire and colleagues in 1998, has been recognized as a general mechanism in many organisms. Basically, RNAi is induced within the cytoplasm when long, double-stranded RNA (dsRNA) is recognized by Dicer, a multidomain RNase III enzyme. Dicer processes dsRNA into short (21-25 nucleotides) duplexes that are termed siRNAs. Like products of other RNase III enzymes, siRNA duplexes contain 5′ phosphate and 3′ hydroxyl termini, and two single-stranded nucleotide overhangs on their 3′ ends. These structural features are important for the entry of siRNAs into the RNAi pathway because blunt-ended siRNAs or those that lack a 5′ phosphate group are ineffective in triggering gene silencing [41]. It is processed by the RNase-III enzyme Dicer into 21-28nucleotide double-stranded siRNA duplexes. The RISC associated enzyme Slicer (Argonaute-2) degrades the target mRNA.

Research paper thumbnail of Toxicogenomics and Its Application in Cancer Pathogenesis

International Journal of Medical and Clinical Research, 2010

Toxicology, the study of poisons, focuses on substances and treatments that cause adverse effects... more Toxicology, the study of poisons, focuses on substances and treatments that cause adverse effects in living things. A critical part of this study is the characterization of the adverse effects at the level of the organism, the tissue, the cell, and the molecular makeup of the cell. Thus, Toxicology traditionally has focused on phenotypic changes in an organism that result from exposure to chemical, physical, or biologic agents. Such changes range from reversible effects, such as transient skin reactions, to chronic diseases, such as cancer, to the extreme end point of death. Typical whole-animal toxicology studies may range from single-dose acute to chronic lifetime exposures, and they include assessments of end points such as clinical signs of toxicity, body and organ weight changes, clinical chemistry, and histopathologic responses.

Research paper thumbnail of Eimeria acervulina ANALYSIS FOR BINDING PEPTIDES USING PROTEIN PROFILING FOR TARGET VALIDATION

International Journal of Machine Intelligence, 2010

Eimeria acervulina is a species of Eimeria that causes coccidiosis in older poultry. Lesions are ... more Eimeria acervulina is a species of Eimeria that causes coccidiosis in older poultry. Lesions are limited to anterior or first third of the small intestine. Peptide fragments of antigen protein can be used to select nonamers for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases. Analysis shows MHC class II binding peptides of antigen protein from Eimeria acervulina are important determinant for protection of host form parasitic infection. In this assay, we used PSSM and SVM algorithms for antigen design and predicted the binding affinity of antigen protein having 299 amino acids, which shows 291 nonamers. Binding ability prediction of antigen peptides to major histocompatibility complex (MHC) class I & II molecules is important in vaccine development from Eimeria acervulina.

Research paper thumbnail of MALDI-TOF based Metabolomic approach

International Journal of Genetics, 2009

Metabolomics is the study of metabolite profiles in biological and pathological samples (urine, p... more Metabolomics is the study of metabolite profiles in biological and pathological samples (urine, plasma, saliva, blood fat biopsies, plant cells, bacteria viruses and fungi. The metabolome is the most predictive phenotype: consequently, the comprehensive and quantitative research study of metabolites is a desirable tool for diagnosing disease, Identifying new therapeutic targets and enabling appropriate treatments. In addition to other Mass Spectrometry (MS) methodologies used for determining the localization of small molecules in tissue, MALDI-TOF/TOF can also be used to detect drugs and their metabolites in tissue without the burden of matrix interference.