Transcript Powerpoint slides and homework

CS177 week 3
scavenger hunt
•team mini-project
•start in class
•finish as part of homework
•this will include a mixture of things we have and have not
covered in class
•short answers - lower grades for long answers
•give references documenting where you got it from
•ok to copy and paste, but you need to actually know what it
says, and you need to indicate if it is your words or copy and
paste
•due next Monday
•submit electronic document to TA (one per team)
•this will be graded
items in scavenger hunt
1. statement of difference between transcription
and translation
2. two different ways of tabulating the genetic code
3. one database that specializes in proteins
4. two places where you can get 3D structures of
proteins
5. URL that has a tutorial in perl programming
6. two URLs for web servers that perform multiple
alignment of DNA or RNA sequences
more items in scavenger hunt
7. database of post-translational modifications
8. reference to the earliest gene expression
microarray study you can find
9. references to two microarray studies that
examine human diseases
10. a database that groups genes in different species
by similarity in DNA or RNA sequence
11. explanation of the Bonferroni correction
12. URL of a web server that predicts protein
secondary structure using a hidden markov
model
almost finished with scavenger hunt
12. URL or downloading a complete list of official
names for human genes (should be around
15,000 - 20,000)
13. retrieve a RefSeq for a human mRNA (GenBank
accession should look like: NM_XXXXX)
14. find or write a perl script that takes the sequence
in #13 and chops off everything to the left of the
first codon for methionine AND chops off
everything to the right of the first stop codon
that follows that methionine (hint: the
methionine and the stop codon need to be in the
same reading frame)