Malkolak Centre for Bioinformatics (M-CBI)

The Malkolak Centre for Bioinformatics (M-CBI) provides research support and opportunities for students, post doctoral fellows, and faculty interested in the use of computational approaches in solving biological problems. Some of the research areas include nucleic acid structure and function, molecular evolution, computational phylogenetics, proteomics, drug design, and regulatory & developmental pathway inference.
We are involved in different areas within Bioinformatics including Gene prediction, Protein-DNA interactions, studying biological networks, homology predictions, modeling & simulation studies and in silico cloning. However, the centre is currently focused in developing novel diagnostic procedures in identifying genetic & hereditary diseases in Man. Our current motive is to grow in area of Bioinformatics to support healthcare.
Research Projects at M-CBI:
Development of Biomarker Database
Synthesis of Silver Nano Particles – Bioinformatics Approach
Non Invasive Pre Natal Diagnosis
We provide hands on training on topics which are listed below but are not limited to:
Databases/Tools/Soft wares
The highly efficient, fast and productive technologies of biological studies enable the collection of overwhelming amounts of data. Through the use of databases and bioinformatics tools, it is possible to perform experiments in silico and begin to understand all the complex relationships among genes and how they work together to determine adaptive phenotype.
Sequence Analysis
The sequence information is analyzed to determine genes that encode polypeptides (proteins), RNA genes, regulatory sequences, structural motifs, and repetitive sequences.
Similarity Searches
A comparison of genes within a species or between different species can show similarities between protein functions, or relations between species. With the growing amount of data, it long ago became impractical to analyze DNA sequences manually. Today, computer programs such as BLAST are used daily to search sequences. These programs can compensate for mutations (exchanged, deleted or inserted bases) in the DNA sequence, to identify sequences that are related or identical.
Homology Prediction
Homologous traits of organisms are due to descent from a common ancestor. It is important to distinguish between different hierarchical levels of homology in order to make informative biological comparisons. Homology can also be described at the level of the gene. As with anatomical structures, homology between protein or DNA sequences is defined in terms of shared ancestry.
Phylogenetic Analysis
Phylogenetic analyses have become essential in researching the evolutionary tree of life. It is the use of molecular systematic to construct phylogenetic trees which gives insights on homology, evolutionary biology etc.
Proteomics
Proteomics entails the in depth analysis of individual proteins encoded by the genes in cells. In studying proteins and their changes, bioinformatics enables researchers to take an integrated -omics approach for discovering protein networks which may also provide insights on proteins involved in diseases.
Genomics
Genomics is a discipline in genetics that applies recombinant DNA, DNA sequencing methods, and bioinformatics to sequence, assemble, and analyze the function and structure of genomes (the complete set of DNA within a single cell of an organism). The field includes efforts to determine the entire DNA sequence of organisms and fine-scale genetic mapping.
SNP Analysis
It is estimated that >99% of human genome sequences are the same across the population; however, variations in the rest of the genome are responsible for the diversity of human beings. Single Nucleotide Polymorphisms (SNPs) are one of the most common sequence variations; a single nucleotide (or a small number of them) in a subpopulation is different than the rest of the population. SNPs occur about every 200 bases along the 3 billion- base human genome. They can affect how individuals develop diseases, respond to pathogens and drugs, and are key enablers in realizing the concept of personalized medicine. Methods to detect SNPs (SNP genotyping) are hybridization or enzyme-based. More recently, the next generation of sequencing technologies has been used to identify SNPs, which are suited to identifying multiple SNPs in a small region.
Molecular Biology Primer Designing
In silico PCR refers to computational tools used to calculate theoretical polymerase chain reaction (PCR) results using a given set of primers (probes) to amplify DNA sequences from a sequenced genome or transcriptome.
These tools are used to optimize the design of primers for target DNA or cDNA sequences. Primer optimization has two goals: efficiency and selectivity. Efficiency involves taking into account such factors as GC-content, efficiency of binding, secondary structure, and annealing and melting point (Tm). Primer selectivity requires that the primer pairs not fortuitously bind to random sites other than the target of interest, nor should the primer pairs bind to conserved regions of a gene family. If the selectivity is poor, a set of primers will amplify multiple products besides the target of interest.
In Silico Cloning
Cloning is simpler when you can see exactly what you are doing. Now every DNA construct made in your lab can be documented in a rich electronic format using molecular biology software that is easier to use than pen and paper
Pharmacogenomics
Pharmacogenomics is the application of genomic approaches and technologies to the identification of drug targets. Examples include trawling entire genomes for potential receptors by bioinformatics means, or by investigating patterns of gene expression in both pathogens and hosts during infection, or by examining the characteristic expression patterns found in tumours or patients samples for diagnostic purposes (possibly in the pursuit of potential cancer therapy targets).
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  ADVISORY BOARD
Professor Vinod Prakash Saxena
(Ex-Vice-Chancellor, Jiwaji University, Gwalior)
Advisor ,Sagar Institute of Research Technology & Science, Near ISRO, Ayodhya Bye Pass Road, Bhopal – 462041, India
Hands on Training in Bioinformatics
Malkolak Centre for Bioinformatics (M-CBI) calls for applications from students/freshers/research scholars for Bioinformatics Hands on Training for a duration of 30 days.
Eligibility:
The department offers training to
Students pursuing B.Sc /B.Tech /M.Sc / M.Tech and having desire to undergo hands on experience in advanced technology
Freshers with B.Sc / B.Tech /M. Sc / M.Tech and desired to have career in research
Research Scholars inclined towards Bioinformatics
Academic Projects:
We also offer academic projects to students. Currently, we have students working on the following project topics:
In silico cloning of a fragment of PSI vector into PCI mammalian expression vector to construct a hybrid vector capable of expression of two genes
Structural Bioinformatics of BglII restriction enzyme
Comparative analysis of Cytochrome B gene in various mammals
Analysis of 22,246bp region of chromosome 11 in Man
In silico Analysis of Nitrate Reductases – the enzyme involved in synthesis of silver Nanoparticles
We also customize workshops to various colleges & industries. Pl contact divya@malkolak.in for the details.
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