Technology

Question 1

similarities of DNA and RNA microarrays

Answer 1

both end with DNA microarray

Question 2

DNA microarray

Answer 2

do for entire genome

Question 3

RNA microarray

Answer 3

only target those genes
purify RNA
make cDNA

Question 4

aCGH (array comparative genomic hybridization)

Answer 4

saw huge differences and compared reference to genome to another genome

Question 5

Genome wide technologies

Answer 5

DNA/RNA microarrays
aCGH
NGS (next generation sequencing)

Question 6

applications of DNA microarrays

Answer 6

• gene transcription measurement
• SNP/CNV
• chromatin immune precipitation
• clinical diagnostics

Question 7

uses glass surface with probes with a specific nucleotide sequence to anneal to DNA

Answer 7

DNA microarrays

Question 8

hybridization based technology

Answer 8

denature so cDNA can find probe and bid firm

wash DNA not attached

Question 9

how many unique features do DNA microarrays have?

Answer 9

2.1-3 million

Question 10

uses DNA with chromophore

Answer 10

DNA microarrays

Question 11

how many different probes are there for each gene in DNA microarrays?

Answer 11

22

Question 12

southern blot

Answer 12

dna

Question 13

northern blot

Answer 13

rna

Question 14

western blot

Answer 14

protein

most common

Question 15

two microarray platforms

Answer 15

spotted arrays

affymetrix

Question 16

uses 2 colors and glass

Answer 16

spotted arrays

Question 17

1 or more color to compare 2 samples against each other

Answer 17

affymetrix

Question 18

which is more common?

spotted array or affymetrix

Answer 18

affymetrix

Question 19

what do spotted arrays contain?

Answer 19

oligonucleotides 50-70mer

Question 20

What are samples labeled with in spotted arrays?

Answer 20

CY5 (red)

CY3 (green)

Question 21

samples loaded and mixed and hybridized simultaneously to a single slide

Answer 21

spotted array

Question 22

oligonucleotides to detect genes

Answer 22

anneal to certain area of gene

multiple areas

Question 23

what percent of genome is expressed in oligonucleotides?

Answer 23

2%

Question 24

what is RNA used to measure?

Answer 24

gene transcription

Question 25

what is DNA used to measure?

Answer 25

CNV or SNP difference between genomes

Question 26

what do aCGH measure?

Answer 26

congenital abnormalities | cancer

Question 27

how many oligonucleotides are used in aCGH?

Answer 27

>1 probe per kb genome wide in human

Question 28

what is the length of oligonucleotides used in aCGH?

Answer 28

25-100 bp

Question 29

t/s arrays function well for high copy number sequences

Answer 29

false

Question 30

is the control or cancer labeled green?

Answer 30

control

Question 31

is the control or cancer labeled red?

Answer 31

cancer

Question 32

what color is shown if cancer and control are expressed in both?

Answer 32

yellow

Question 33

what length do affymetrix use of oligo?

Answer 33

25 mer length

Question 34

how many different olives are there for each gene in affymetrix?

Answer 34

22

Question 35

single sample goes on a single array located in cartridge

Answer 35

affymetrix

Question 36

illumina SNP genotyping

Answer 36

know difference between normal or WT allele | SNP extension

Question 37

what is exon sequencing?

Answer 37

next generation sequencing

Question 38

sanger sequencing

Answer 38

DNA sequencing

Question 39

capillary dna sequencers

Answer 39

whole genome project

Question 40

next generation DNA sequencing

Answer 40

multiple applications | the reality of whole genome sequencing at a reasonable cost

Question 41

have a piece of DNA you want to sequence and need multiple copies of this part of DNA

Answer 41

sanger sequencing

Question 42

separation b electrophoresis, fluorescent tags

Answer 42

sanger sequencing

Question 43

what terminate the reaction in sanger sequencing

Answer 43

dNTPs | ddNTPs

Question 44

sanger sequencing outcome

Answer 44

dozens of gels | label with p52

Question 45

deep sequencing outcome

Answer 45

one run | 5 days

Question 46

How how does it take to analyze the DNA in whole genome sequencing?

Answer 46

2 months/2 days

Question 47

what company was formed for NGS?

Answer 47

454

Question 48

sequencing in 454 company

Answer 48

emulsion PCR | pyrosequencing

Question 49

single molecule PCR in microsphere compartments

Answer 49

emulsion PCR

Question 50

chemiluminescent detection of pyrophosphate

Answer 50

pyrosequencing

Question 51

use sedimentation and fragmentation with oil in water emulsion

Answer 51

emulsion pcr

Question 52

what do you add in emulsion pcr

Answer 52

micro beads