| Category | Assignment | Subject | Education |
|---|---|---|---|
| University | University of Guelph | Module Title | Bioinformatics Database and Software Resources |
| Assessment Title | Assignment 1 |
|---|
At the end of this CAL assignment, students should be able to:
Using a suitable database and knowledge base, students are expected to provide information from the perspective of genomic and proteomic, on the “SpoIVB peptidase”. Students should provide relevant evidence from the search (figures, downloadable data files, etc) too to support the results (Part 1 and Part 2). Students should compare the results from the different databases that were used and describe the difference between them. Students are encouraged to further reflect on the suitability of the databases in acquiring information.
Subsequently, students are expected to use suitable resources to explore the impact of somatic mutations in human cells. The questions were listed in CAL Tutorial 1 (Part 3). Answer all questions and attach relevant evidence from the search to support the results.
The deadline for submission is 28 Sep 2025, 11.59 pm MYT via the E-learn/ ODL portal.
| No. | Assessment Criteria | Does Not Meet Expectation (0-3) |
Meet Expectation (4-7) |
Exceed Expectation (8-10) |
| 1 | Search entry and acquire information in a relevant database (genomic perspective) | Lack of information | Complete information | Complete information with additional insights |
| 2 | Search entry and acquire information in a relevant database (proteomic perspective) | Lack of information | Complete information | Complete information with additional insights |
| 3 | Produce answers in the COSMIC database | Lack of information | Complete information | Complete information with additional insights |
Prepared by YWK
In this CAL tutorial, students will learn how to effectively utilise and evaluate Bioinformatics databases and resources to discover biological data in genomics, proteomics, and other related omics.
Learning Outcome:
At the end of this CAL tutorial, students are expected to:
1. Using “SpoIVB peptidase” as an example, search in the NCBI PubMed database to get this information
You may need to select the option to show 200 items per page and sort by publication date: Display Settings → Items per page set to “200” and Sort by “Pub Date
2. Using “SpoIVB peptidase” as an example, search in the NCBI Protein database to get this information:
a. Look for “SpoIVB peptidase [Caldibacillus thermoamylovorans]”
b. Identify the conserved region of this entry:
3Using “SpoIVB peptidase” as an example, search in the NCBI Nucleotide database to get this information:
4. Look for “Bacillus paralicheniformis strain BL-09, complete genome”
How many genes are found?
Look for a protein name “DNA polymerase III subunit beta”
Learning Outcome:
At the end of this CAL tutorial, students are expected to:
1. Using “SpoIVB peptidase” as an example, search in the NCBI database to get this information:
Look for “O35002 (CTPB_BACSU)”
Name 4 proteins that share similarity with this entry.
Download the FASTA file of this entry (upload)
Name each mutation incident found in this entry.
Learning Outcome:
At the end of this CAL tutorial, students are expected to:
COSMIC, the Catalogue of Somatic Mutations In Cancer, is the world’s largest and most comprehensive resource for exploring the impact of somatic mutations in human cancer.
Use the tutorial videos listed to help you understand and use COSMIC more effectively.
Using the “Cancer Browser”, perform and answer the following questions:
Select “Eye” at the Tissue Selection and “Conjunctiva” at Sub-Tissue, list the total results, and indicate which histology levels they are found in.
Select “Squamous cell carcinoma” at the sub-histology selection and show detailed information for this specific cancer. Which genes are found to be associated with this cancer
List the different types of mutations and their associated percentages found in the experimental samples for the genes in Question 2.
List the observed substitution mutations where the nucleotide change is known for the genes in Question 2.
Show how we could find out more about the genes listed in Question 2.
Show how we could see if there are drug(s) associated with the gene resistance mutations. Please provide screenshots showing how we can obtain this information.
Search “EGFR” using the Cancer Gene Census, and list other cancers associated with this gene.
Explain how the EGFR gene is involved in cancer progression using the information found in Hallmarks of Cancer.
Does EGFR promote or suppress a process related to cancer? How do you know?
Explain how the COSMIC database is useful in understanding somatic mutation in a particular cancer.
Do You Need a Bioinformatics Database and Software Assignment for This Question
Order Non-Plagiarized AssignmentDon’t let your Bioinformatics Database and Software Resources assignment stress you out! We are here for assignment help. Our expert writers are here to support you with affordable, AI-free, and plagiarism-free assignment help. Whether it’s Business Management or a complex project, we ensure well-researched, high-quality content. We offer free assignment samples and always deliver your work before the deadline. Reach out today and get the best support for your assignments—quick, easy, and reliable!
Let's Book Your Work with Our Expert and Get High-Quality Content
