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Scientific Essay - Resit

BIO206 Practical Bioinformatics

-  Evolutionary & Comparative genomics

You are expected to be capable of answering your biological question by applying bioinformatics. This project should mainly apply evolutionary genomics and comparative genomics. The essay should include a biological question (with or without a hypothesis), materials and methods, results, discussion, and conclusion.  Your report is limited to 1000 words. Justify your choices on the dataset, software, and parameters briefly.

· An effective biological question

· Proper results proving successful bioinformatics analysis

· Reasonable choices for dataset, software, and parameters

· Proper interpretation of data readout and conclusion

are required, and here are some suggestions for the key analyses as follows:

A biological question & Data preparation

· Think about a question with possible answers in genomic information and propose one.

· Acquire the dataset necessary to answer your question. NOTE that genome data can only be derived from microbes (bacterium or virus) with genome sizes smaller than 10 Mb, so our server can handle the computation. The suggested data would be two distinct groups, and each group would include adequate genomes for statistical comparison.

Ortholog prediction & further phylogeny

· Choose a proper organism as the outgroup.

· Predict the Orthologs and further construct a phylogenetic tree to learn the relationship between two groups to check whether and how they will help answer the question you propose.

Gene prediction & functional annotation

· Conduct gene prediction, summarize, and compare two groups.

· Conduct suitable functional annotation according to your question.

Function comparison

· Use the statistical method for function comparison to answer your question.

· Visualize the comparison result and interpret it properly.