Spring 2020 ORFan Gene Project Post-Test
Thank you for participating in the ORFan Gene Project Assessment. Participation in this post-test is completely voluntary. Your individual score will be kept confidential, and will not be revealed to your instructor. Furthermore, your performance will not be used as part of your grade for the course in which this assessment is being administered. The ORFan Gene Project will use aggregate data from this assessment instrument in order to determine the effectiveness of our work as a whole, to make improvements going forward, and to publish our findings. Thus, your participation is incredibly important to our work, and we thank you again, in advance. If you have any questions or concerns, please contact Jill Keeney at Keeney@juniata.edu.

Please answer each question below to the best of your ability. Since we are assessing your knowledge, rather than your guessing ability, please do use answer (e) "I do not have the knowledge base to answer this question" if that is true.
Academic Institution *
Your answer
ID Number: Your unique identifier will be the following nine digits: Your birth month (xx) birth day (xx) and zip code (XXXXX). So, if you were born on June 19 and your zipcode is 16666, your ID would be 061916666. *
Your answer
Demographics (optional)
Please indicate your gender
Please indicate your Ethnicity origin (or Race): Please specify your ethnicity, checking as many as apply.
I Certify that I am at least 18 years old *
Column 1
Knowledge and Skills Questions
Which of the following is NOT a gene ontology domain? *
Which of the following best qualifies as a molecular function? *
A(n)_____ ORF is likely to encode an expressed protein, but there is a lack of specific experimental data demonstrating protein production. *
A gene of unknown function (ORFan) is best defined as a gene for which: *
Is this statement true? "The ORFs of unknown function in yeast are easily identified as such ORFs only have a systematic name (e.g. - YFL039C) and no standard name (e.g. – ACT1)" *
Which of the following is best suited to comparing protein sequences? *
Which of the following sequences is best suited for BLAST-N? *
Which of the following tools would you use to determine the transcription expression profile for an ORF? *
YLR042 is a verified ORF of interest. SGD description reads: "Cell wall protein of unknown function; localizes to the cytoplasm; deletion improves xylose fermentation in industrially engineered strains; YLR042C is not an essential gene" (Note: xylose is a sugar). Which of the following tools would be best to use to investigate the discrepancy in the description that states this protein is a cell wall protein and that it is located in the cytoplasm? *
After subjecting the sequence for your favorite protein to a database search, you are provided with several related proteins. With respect to the e-values for the related proteins, which of the following is most likely to be true? *
You have received the aligned sequences for two proteins. Which of the following would be evidence that they could share a similar function? *
Which of the following is the most general term used to describe evolutionarily related genes? *
If an ORF of unknown function has homology only to genes in other yeast species, is this gene of interest to scientists? *
Please rate how much learning you gained from each element you experienced in this course. The scale measuring your gain is from 1 (no or very small gain) to 5 (very large gain). Some elements may not have happened at all. If the item is not relevant or you prefer not to answer, please choose the 'not applicable' option. *
1 (no or very small gain
5 (very large gain)
Not Applicable
a lab or project where no one knows the outcome
a project in which they have some input into the research process and/or what is being studied
a project entirely of their own design
become responsible for part of the project
read primary scientific literature
collect data
analyze data
present results (orally, written papers or reports or posters)
computer modeling
Benefits. Below are some possible gains you may have made as a result of taking this course. The scale measuring your gain is from 1 (no or very small gain) to 5 (very large gain). Select the number that reflects your experience in this course. If the item is not relevant or you prefer not to answer, please choose the 'not applicable' option. *
1 = no gain or very small gain
5 = very large gain
Not Applicable
Understanding of the research process in this field
Readiness for more demanding research
Tolerance for obstacles faced in the research process
Skill in interpretation of results
Ability to analyze data and other information
Learning laboratory techniques
Overall Evaluation
Overall evaluation. For each item below please rate your own agreement with the item. (5 point scale: strongly agree, agree, neutral, disagree, strongly disagree) *
strongly agree
strongly disagree
This course was a good way of learning about the process of scientific research
This course had a positive effect on my interest in science
Did you collaborate with students or faculty from other institutions this semester or this year? Please answer "Yes" or "No". If no, skip to the essay. If yes, answer the following question. *
Your answer
What platform did you use to collaborate/communicate (select all that apply)?
The yeast ORF YER066W is an uncharacterized ORF encoding a protein of unknown function. In a BLAST search, it is discovered that the protein sequence of YER066W aligns to the Cdc4 protein sequence. In yeast, Cdc4p is required for both the G1/S and G2/M cell cycle phase transitions. Cdc4p mediates formation of a protein complex signaling degradation of cell cycle inhibitors. Using this information, write a short paragraph that includes the following: 1. State a hypothesis for a possible function of YER066W 2. Propose one experiment to test this hypothesis 3. Provide the expected outcome if your hypothesis is correct. Briefly explain the molecular rationale for the expected outcome. *
Your answer
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