Informatics Publishing Limited

Gurmit Singh

Abstract

Three of the four species of otters occurring in Asia are reported in Punjab State. One of these, the Smooth Indian Otter is found in Harike Lake in Punjab. The lake habitat is threatened by a number of factors like excessive fishing, human encroachment and proliferation of water hyacinth. The author points to the need for further research on Indian otters to evolve an integrated programme.

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Gurmit Singh , K. L. Handa

Abstract

No abstract

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Madhu Yadav ¹, Gurmit Singh ²

Affiliations
1 Department of Computational Biology & Bioinformatics, Sam Higginbottom Institute of Agriculture, Technology & Sciences, (Formerly Allahabad Agricultural Institute), Allahabad – 211007, Uttar Pradesh, IN
2 Department of Computer Science, Sam Higginbottom Institute of Agriculture, Technology & Sciences, (Formerly Allahabad Agricultural Institute), Allahabad – 211007, Uttar Pradesh, IN

Abstract

The Human Genome is fundamentally about information, and computers were essential both for the determination of the sequence and for the sequence and for the applications to biology and medicine that are already flowing from it. For the researchers focused on developing bioinformatics methods, use computer programs to make inferences from the archives of modern molecular biology, to make connection among them, and to derive useful and interesting prediction. Bioinformatics technology is used to solve complex biological questions related to metabolic pathways, genes, protein function and pharmacological/ developmental aspects of drugs and medicines.Companies invest millions of money and decades of time to develop a new drug. Bioinformatics helps to accelerate this process and make the drug more efficient and specific at the same time. It has significant advantages over traditionally expensive and time consuming "wet lab" research methods, because computational tools give the most predictive and accurate information about genes and proteins with regards to mediating aspects of drug action.

Keywords

Human Genome, Drug Designing, Homology Modeling, Cheminformatics, SBDD

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Upasna Srivastava ¹, Gurmit Singh ², George Thomas ²

Affiliations
1 Department of Computational Biology & Bioinformatics, Sam Higginbottom Institute of Agriculture, Technology & Sciences Deemed to be University, Allahabad - 211007, IN
2 Department of Computer Science & Information Technology, Jacob School of Biotechnology and Bioengineering, SHIATS, Allahabad - 211007, IN

Abstract

The aim of In-silico structural analysis and Protein disorder prediction for HPV type 16 E7 virus proteins is to solve the problem of designing vaccine against cervical cancer. The simultaneous structural analysis of E7 proteins out of 50 different HPV strains was carried out for prediction and validation, by using different bioinformatics tools such as CPH Model,TMHMM Server,DisEMBL and GlobPlot. In this CPH Model gives the template recognition, which is based on profile-profile alignment and it also create a model for HPV type 16 E7 protein sequence. The TMHMM Server gives prediction of transmembrane helices and discriminate between soluble and membrane proteins with high degree of accuracy show as graphical form. DisEMBL gives prediction of disordered/unstructured regions within a protein sequence of HPV 16 E7 protein andGlobPlot also predict theorder/globularity and disordered domain for protein sequence.

Keywords

Human Papillomavirus, E6 and E7 Oncoproteins, CPH MODEL, TMHMM Server, Glob-plot, DisEMBL, Disordered Prediction Definition, Loop-Coils, Hot Loops

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Upasna Srivastava ¹, Gurmit Singh ²

Affiliations
1 Department of Computational Biology & Bioinformatics, Sam Higginbottom Institute of Agriculture, Technology & Sciences Deemed to be University, Allahabad - 211007, IN
2 Department of Computer Science & Information Technology, SHIATS, Allahabad - 211007, IN

Abstract

Human papillomaviruses (HPV) are a group of viruses which are associated with various proliferative diseases in the infected epithelium. HPV types 6, 11, 16, and 18 are the most common, are associated with lesions in the anogenital tract. The "benign" types 6 and 11 are mainly associated with condylomata acuminate of the oncogenic HPV types, HPV-16 is most frequently found in cervical carcinomas. The 3-dimentional structure of the protein was not yet available in Protein Data Bank; hence the present paper of predicting the 3D model of the HPV Type 16 E7 proteins. Template based homology modelling predicts the three-dimensional structure of hpv type 16 E 7 protein sequence (target) based primarily on its alignment to one or more proteins of known structure as template generated by MODELLER. The prediction process consists of target-template alignment, model building, and model evaluation. The model was checked for stereo chemical quality by PROCHECK, VERIFY 3D, WHAT IF, ERRAT AND ProSA servers were also used for the display of Z-scores and energy plots. Finally the protein was visualized with Swiss-PDB viewer.

Keywords

Homology Modelling, SAVS, ProSA Servers, Human Papilloma Virus

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Umesh Prasad ¹, Gurmit Singh ²

Affiliations
1 Isabella Thoburn College, Lucknow, U.P., IN
2 Department of Computer Science and Information Technology, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Allahabad, U.P., IN

Abstract

The new paradigm envisioned for epidemiological studies in 21^st century advocates shifting from the current survey based protocols to combination of evidence based laboratory/ clinical studies coupled with in silico approaches. One among the key strategies is to adopt an integrated approach, which can acquire, analyze, and interpret the data both qualitative and quantitatively in one go. But, this challenging task has highly hampered due to complexity of human physiological systems, ethical dubious, etc. Thus, the present investigations were aimed to develop an interactive online tool for prediction and management of human health for Indian population engaged in different occupation. At first step, a comprehensive questionnaire on human health risk assessment and management was developed and used for offline data collection. Simultaneously, a database management system (DBMS) was developed using software and programming languages mainly including MySQL, MS Office 2007, Hypertext Preprocessor (PHP), Cascading Style Sheets (CSS), Macromedia Dreamweaver, SPSS, java script, C++ language, Microsoft DOT NET, etc. For the purpose, the DBMS was developed and is being used through website "www.healthriskindia.in" for online survey. Upon the analysis of data collected from 2000 individuals of Jhansi and Lucknow districts of Uttar Pradesh, the socioeconomic status, education, hygiene status, occupation type, etc. were found to be associated with proneness to the diseases. Further, the relation between health status and day to day activities of the individuals engaged in different occupations of different groups in the society was analyzed successfully using DBMS. The analysis made in different combination of permutation using the data of 2000 volunteers show significant simulation with epidemiological data generated through conventional means for the mimicking population residing in the study area.

Keywords

In silico, DBMS, Health, Risk.

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Umesh Prasad ¹, Gurmit Singh ², A. B. Pant ³

Affiliations
1 Central Library, Isabella Thoburn College, Lucknow, IN
2 Department of Computer Science and Information Technology, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Allahabad, IN
3 In Vitro Toxicology, Indian Institute of Toxicology Research, Post Box 80, Lucknow, Uttar Pradesh, IN

Abstract

An online human health risk assessment system (OHHRAS) has been designed and developed in the form of a prototype database-driven system and made available for the population of India through a website – www. healthriskindia.in. OHHRAS provide the three utilities, that is, health survey, health status, and bio-calculators. The first utility health survey is functional on the basis of database being developed dynamically and gives the desired output to the user on the basis of input criteria entered into the system; the second utility health status is providing the output on the basis of dynamic questionnaire and ticked (selected) answers and generates the health status reports based on multiple matches set as per advise of medical experts and the third utility biocalculators are very useful for the scientists/researchers as online statistical analysis tool that gives more accuracy and save the time of user. The whole system and database-driven website has been designed and developed by using the software (mainly are PHP, My-SQL, Deamweaver, C++ etc.) and made available publically through a database-driven website (www.healthriskindia.in), which are very useful for researchers, academia, students, and general masses of all sectors.

Keywords

Database, dynamically, health, OHHRAS, utility, www.healthriskindia.in

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