Deck 25: Genomics II: Functional Genomics,proteomics and Bioinformatics

Question 1

The best tool available for the separation of many proteins at once is called ________.

Answer 1

2-D gel electrophoresis

Question 2

High density whole chromosome transcriptional mapping studies have shown that the majority of sequences in cytoplasmic polyadenylated RNAs derive from non-____________ regions of ten human chromosomes.

Answer 2

exon

Question 3

DNA microarrays can be used to study

A)the clustering of expression of genes in time and space.
B)the DNA sequence of multiple chromosomes.
C)the DNA sequence of multiple genomes.
D)chromosomal rearrangements.
E)chromosomal abnormalities.

Answer 3

A

Question 4

Which of the following is not a finding from analysis of the complete DNA sequence of human chromosome 22?

A)It contains 679 annotated genes.
B)It contains local and long range duplications.
C)It contains orthologs to the mouse chromosome.
D)It contains very little noncoding DNA.
E)It contains "poison regions" or gaps that may never get sequenced.

Question 5

A _____________ is the sum total of all the RNA transcripts in an organism at one time.

Question 6

The NCBI website contains a vast store of biological information.If you have a sequence that you would like to compare to other known sequences,what is the name of the NCBI database that would allow such a search? ________.

Question 7

One place to find useful databases for bioinformatics is the _________ website.

Question 8

Which of the following processes allows scientists to determine which genes are expressed in a given tissue and the extent of that expression?

A)shot-gun cloning
B)positional cloning
C)genome sequencing
D)SAGE
E)proteomics

Question 9

Computational biology techniques allowed scientists to discover highly conserved sequence motifs in the promoter regions and ___________ of four mammalian species.

Question 10

Which of the following processes allows scientists to identify the 5'-ends of transcripts?

A)SAGE
B)CAGE
C)RNAi analysis
D)oligonucleotide array
E)PCR

Question 11

"Knocking out" genes is laborious.A simpler alternative to 'knock down' gene expression is called _____ ____________.

Question 12

The sum total of all proteins produced by an organism is called its____________.

Question 13

In one kind of mutation analysis called,__________ __________,mutants are created by replacing genes one at a time with antibiotic resistance genes flanked by oligomers that serve as a barcode to identify each mutant.

Question 14

Genomic sequence information can be applied to study which of the following?

A)evolution of genomes
B)function of genomes
C)structure of genomes
D)proteomics
E)all of the choices are correct.

Question 15

The underlying strategy of the technique _________ is to synthesize short cDNAs,or tags,from all the mRNAs in a cell,and then to link these tags together in clones that can be sequences to learn the nature of the tags,and therefore the nature of the genes expressed in the cell.

Question 16

Which of the following is not a technique that can be used to study protein-protein interactions?

A)2-D gel electrophoresis
B)protein microarrays
C)immunoaffinity chromatography
D)phage display
E)yeast two-hybrid analysis

Question 17

Which of the following prcoesses allows scientists to determine the expression patterns (temporal and spatial)of many genes at once?

A)DNA microarray
B)SAGE
C)CAGE
D)genome sequencing
E)RNAi analysis

Question 18

Which of the following techniques was developed by Velculescu and colleagues to determine which genes are expressed in a given tissue?

A)DNA microarray
B)DNA microchips
C)SAGE
D)RFLP
E)deletion analysis

Question 19

Tissue-specific expression profiling can be done by examining the spectrum of mRNAs whose levels are decreased by an exogenous _________ and comparing that to the spectrum of expression of genes at the mRNA level in various tissues.

Question 20

Which of the following processes allows scientists to 'knock-down' genes?

A)SAGE
B)CAGE
C)RNAi analysis
D)CHIP-chip
E)DNA microchip

Question 21

Mass spectrometry is not a quantitative method,so it has been difficult to use it to analyze the expression levels of proteins.

Question 22

To find enhancers whose protein partners are unknown,one can look for non-coding sequences that are highly conserved between moderately related species or absolutely conserved between closely related species.

Question 23

ChIP-chip analysis can be used to identify DNA-binding sites for activators and other proteins.

Question 24

Class II promoters can be identified using ChIP-chip analysis with an anti-TAF1 antibody.

Question 25

Whole chromosome transcriptional mapping revealed that there are more poly(A)⁺ RNA transcripts than poly(A)^- RNA transcripts in human cells.

Question 26

Yeast two-hybrid is a traditional technique used to probe protein-DNA interactions.

Question 27

Tag sequencing or ChIPSeq,in which the chromatin pieces precipitated by ChIP are repeatedly sequenced can be used to identify transcription-factor binding sites.

Question 28

The level of transcription of a gene gives an exact idea of the real level of the expression of that gene.

Question 29

SNPs or single nucleotide polymorphisms may help physicians design patient specific drug treatment programs.

Question 30

Most proteins do not function in isolation,but collaborate with other proteins.