Category | Assignment | Subject | Biology |
---|---|---|---|
University | Singapore University of Social Science (SUSS) | Module Title | BME355: Genomic Sequence Analysis |
Assessment Type | ECA |
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Academic Year | 2025 |
You have been assigned the task of determining the functional importance of the human CDK1 gene. Investigate the gene and answer the following questions.
Determine the full name and ID of the gene.
Assess the chromosome it is found on and the tissue which shows the highest expression.
Discuss the function of this gene.
Using Reactome pathway database as the source, list any FIVE (5) pathways which this gene is involved in.
Examine the given sequence using bioinformatics tools and answer the following questions:
Solve the identity of the sequence and the organism it belongs to. Create screenshots to record the steps used to determine its identity.
Determine the function of the sequence and the conserved domains present in it.
Identify the pathways which the corresponding gene is involved in.
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Order Non Plagiarized AssignmentUsing the sequence mentioned in Question 2, obtain its homologs (one each) from other organisms such as Pan troglodytes, Pan paniscus, Canis lupis familiaris, Mus musculus and Rattus norvegicus.
Assemble the sequences in FASTA format.
Create a multiple sequence alignment from your answer in Question 3a. Show the alignment results and the corresponding phylogenetic tree.
Evaluate the alignment and the phylogenetic tree.
Using the OMIM database information for Lung Cancer (https://omim.org/entry/211980), solve the following tasks:
Identify the genes associated with Lung Cancer and use them as input data in the online tool DAVID (Database for Annotation, Visualization and Integrated Discovery). Show your working.
Perform a functional annotation clustering of the gene list and include screenshots of the results from GOTERM_BP/CC/MF_DIRECT and KEGG_PATHWAY.
Appraise the results obtained and discuss how the findings are relevant to the gene list.
Demonstrate your understanding in molecular genetics and critically appraise the following statements.
Protein alignments are often more informative than DNA alignments.
When comparing two sequences, it may be necessary to repeat the search using different scoring matrices.
Position specific iterated BLAST (PSI-Blast) is often less sensitive than a regular Blast search in finding distantly related protein sequences
The statistical significance of a BLAST result cannot be assessed through Evalues.
Benchmarking is an important approach to compare different software and determine their accuracy.
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