BNFO 301 
Introduction to Bioinformatics
Course at a Glance: Summaries
Spring 2010 

Impetus: You will be asked to submit along with your second exam a summary of one experiment from a research article

What article? What experiment?

  • You are seeking a research article (not news, not review) that addresses a subject within the focus of your group.
  • A research article can be recognized by its presentation of actual experimental results and a description of the methods used to obtain them.
  • There are many ways to find a pertinent research article. Here are some:
    • Use previously described search strategies
    • Find a good review article in your area of interest and plunder the reference list
    • Avail yourself of the reference list at the back of the article given to your focus group
  • You can use the same article as other members in your group but not the same experiment
  • Your life will be easier if you choose an experiment that is relatively self-contained, that can be described without needing to slog through other experiments in the article.

What if I don't understand half of the experiment?

Do not panic! Focus on the other half, and ask what, if anything is missing from the story you are trying to tell. If you are stumped by a technique used in the article (and this may be a common experience), first ask yourself if you need to understand this technique in order to tell your story. If not, then forget about it. But if you judge the technique to be essential for your understanding (and your reader's understanding) of the experiment you've chosen, then do whatever is necessary to gain the insight you need. Hit the web. Read another article. Talk with your colleagues. Talk with the TA or with me. Whatever it takes.

How do I write a summary of a research article?

Your summary should be written aimed at an audience of your peers, students like yourself except without the benefit of having experienced BNFO 301. It should consist of a few well organized short paragraphs that address the following:

  • Introduction of problem
    What is the big picture surrounding the experiment? How is that area of general interest logically connected to the question addressed by experiment? What hole existed in our knowledge before the experiment was performed?
     
  • Description of experiment
    Describe how one experiment was performed in sufficient detail that the reader will thoroughly understand the principle. There is no value, however, in providing detail that is useful only in replicating the experiment (e.g. the composition of a buffer, etc). Avoid terms that will be unfamiliar to the reader, or if they're useful, then define them.
     
  • Result of experiment
    Describe what was observed, not the authors' conclusion based on that observation. A figure from the article may be helpful. If you use one, don't be afraid to relabel it to be more easily understood by the reader.
     
  • Observations and connections
    What insight can be drawn from the experimental result? Does it answer the question? Does it have higher implications? It may or may not be useful to briefly relate other results from the paper, but do this only to the extent they illuminate the experiment you've chosen to present.

What NOT to do?

  • Don't succumb to the temptation to just paraphrase or quote the authors' words. "After all," you might say, "the authors know what they are talking about and I do not." That may be true at the moment, but confusion is a temporary condition and only you can tell your story to your audience. The authors have a much larger story to a much different audience. It's just as likely that you can piece together a coherent and pertinent story from theirs as you could piece together a hummingbird from an F16.
  • Don't forget your audience. Always ask yourself whether you would have understood last year what you are writing.
  • Don't pass your ignorance on to your reader. If you don't understand what you're talking about, neither will we. Find a way to avoid a topic you're confused by, or if there's no way around it, do whatever is necessary to gain insight.
  • Don't be satisfied with mere conclusions. What was the actual data?

Examples

  • Here is an example of a good summary.
  • Here is an example of a bad summary.
  • And here's one in between (though not just right).