Old Exams

Question 1

What is primer walking

Answer 1

1. Start with a known sequenced and designed primer
2. Sequence a little
3. Make new primer
4. Sequence a little
5. Make a new primer
   So on

Question 2

What are the advantages and disadvantages of primer walking?

Answer 2

Good: pick location
Bad: only small sequences

Question 3

What are adaptors?

Answer 3

Short oligonucleotides that are ligated to fragments enabling them to hybridize to flow cell

Question 4

What are the 3 parts of gene ontology?

Answer 4

1. Molecular function
2. Cellular components
3. Biological process

Question 5

What is BUSCO?

Answer 5

Gene annotation

Question 6

What is ENCODE?

Answer 6

Regulatory elements

Question 7

What program identifies protein domains?

Answer 7

HMMER

Question 8

What are junction reads?

Answer 8

Reads that span into exon/intron regions

Question 9

What is ATAC-seq?

Answer 9

Used to identify regions that are transcriptionally active

Question 10

What is homologous?

Answer 10

Shared ancestors

Question 11

What are syntenic genes?

Answer 11

Colinear (sets of genes are present in the same order in different genomes)

Question 12

What are the 3 functionalizations?

Answer 12

Pseduo: one normal; one non functional
Neo: one normal; one new function
Sub: split function

Question 13

What is BUSCO analysis?

Answer 13

Single copy orthologs that are highly conserved

Question 14

———- Gene, ————- organism = ortholog

Answer 14

Same
Different

Question 15

———- Gene, ————- organism = Paralog

Answer 15

Different
Same

Question 16

Speciation event = ?

Answer 16

Ortholog

Question 17

Duplication event = ?

Answer 17

Paralog