Biological Techniques

• Animal cell culture

• Bacterial cell culture

• DNA extraction

• Plasmid DNA extractions from bacterial cells

• DNA digestion using restriction enzyme

• Polymerase Chain Reaction

• Agarose gel electrophoresis

• Micro-pipetting

• Centrifugation

• UV-Vis spectroscopy

• Assay for heavy metal and antibiotic tolerance in bacteria

• Spread plate and disc diffusion method for bacteria

• Bacterial enzyme production and characterization

 

Bioinformatics Skills

• Assay for heavy metal and antibiotic tolerance in bacteria

• Retrieval of protein and DNA sequences (NCBI, Uniprot, RCS PDB)

• Multiple sequence alignment (MEGA X, Clustal Omega, T-Coffee, Muscle)

• Phylogenetic analysis (MEGA, Clustal Omega)

• Physicochemical parameters of protein (ExPasy ProtParam & Protscale server)

• Protein structural analysis (ExPasy ProtParam & SOPMA)

• Generation of protein tertiary (3D) structure (SWISS-MODEL & Phyre2) 

• Evaluation of protein 3D structure (Ramachandran Plot Server, PROCHECK & SWISS-MODEL)

• Protein functional analysis

• Protein-protein interaction (STRING)

• Prediction of protein localization in cell (CELLO, CELLO2GO)

• Polymorphism databases (NCBI SNPs & CinVar)

• Polymorphism analysis (SIFT, PANTHER, PROVEAN)

 

Computational Drug Discovery

• Retrieval of drug/natural compound structures (ZINC15 & PubChem)

• Retrieval of protein 3D structure (RCS PDB)

• Preparation of protein and compounds (BIOVIA Discovery Studio Visualizer, AutoDock MGL, PyRx)

• Molecular docking analysis (AutoDock Vina, PyRx & Molecular Operating Environment (MOE))

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Software Based Morphometrics

• Digital imaging of specimen

• Digitization of landmarks on specimen image using tpsUtil and tpsDig2

• Truss network and statistical analysis using PAST

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Statistical Software

• Digital imaging of specimen

• Digitization of landmarks on specimen image using tpsUtil and tpsDig2

• Truss network and statistical analysis using PAST

 

Referencing Tools

• Mendeley

• EndNote