RNAct Week 5

Icrespin User Page

Assignment Page	Individual Journal Entry	Shared Journal Entry
Week 1	Icrespin Journal Week 1	Class Journal Week 1
Week 2	Icrespin Journal Week 2	Class Journal Week 2
Week 3	ILT1/YDR090C Week 3	Class Journal Week 3
Week 4	Icrespin Journal Week 4	Class Journal Week 4
Week 5	RNAct Week 5	Class Journal Week 5
Week 6	Icrespin Journal Week 6	Class Journal Week 6
Week 7	Icrespin Journal Week 7	Class Journal Week 7
Week 8	Icrespin Journal Week 8	Class Journal Week 8
Week 9	Icrespin Journal Week 9	Class Journal Week 9
Week 10	Icrespin Journal Week 10	Class Journal Week 10
Week 11	Icrespin Journal Week 11	FunGals
Week 12/13	Icrespin Journal Week 12/13	FunGals
Week 15	Icrespin Journal Week 15	FunGals

General Information of the Database

1. What is the name of the database? (link to the home page)
2. What type (or types) of database is it?
   • What biological information (type of data) does it contain? (sequence, structure, model organism, or specialty [what?])
   • What type of data source does it have?
     • primary versus secondary ("meta")?
     • curated versus non-curated?
     • if curated, is it electronic versus human curation?
     • if human curation, is it in-house staff versus community curation?
3. What individual or organization maintains the database?
   • public versus private
   • large national or multinational entity or small lab group
4. What is their funding source(s)?

Scientific Quality of the Database

1. Does the content appear to completely cover its content domain?
   • How many records does the database contain?
   • What claims do the database owners make about coverage in the corresponding paper?
2. What species are covered in the database? (If it is a very long list, summarize.)
3. Is the database content useful? I.e., what biological questions can it be used to answer?
4. Is the database content timely?
   • Is there a need in the scientific community for such a database at this time?
   • Is the content covered by other databases already?
5. How current is the database?
   • When did the database first go online?
   • How often is the database updated?
   • When was the last update?

General Utility of the Database to the Scientific Community

1. Are there links to other databases? Which ones?
2. Is it convenient to browse the data?
3. Is it convenient to download the data?
   • In what file formats are the data provided?
     • What type of files, indicated by the file extension (e.g., .txt, .xml., etc.)?
     • Are they standard or non-standard formats? (i.e., are they following an approved standard for that type of data)?
4. Evaluate the “user-friendliness” of the database: can a naive user quickly navigate the website and gather useful information?
   • Is the website well-organized?
   • Does it have a help section or tutorial?
   • Are the search options sensible?
   • Run a sample query. Do the results make sense?
5. Access: Is there a license agreement or any restrictions on access to the database?

Summary Judgment

1. Would you direct a colleague unfamiliar with the field to use it?
2. Is this a professional or "hobby" database? The "hobby" analogy means that it was that person's hobby to make the database. It could mean that it is limited in scope, done by one or a few persons, and seems amateur.

Acknowledgements

• This week's journal was completed by Marcus Avila and Iliana Crespin