Caffeine Disk Replication Results Analysis

Morgan Spencer

MWSU Results• Plate 4

• Plate 5

• Plate 6

 Copy Number

Chap 1 Chap 2 Chap 3 Chap 4 Chap 5 None

High-High1A2 0 2 0 0 0 2J310 0 29 2 0 0 47

Low-Low1A2 0 1 0 0 0 0J310 0 4 0 0 0 6

 Copy Number

Chap 1 Chap 2 Chap 3 Chap 4 Chap 5 None

High-High1A2 0 0 0 0 0 4J310 0 22 1 2 0 50

Low-Low1A2 0 0 0 0 0 1J310 0 4 0 0 0 5

 Copy Number

Chap 1 Chap 2 Chap 3 Chap 4 Chap 5 None

High-High1A2 0 2 0 0 0 8J310 0 19 1 1 0 47

Low-Low1A2 0 1 1 0 0 1J310 0 2 0 0 0 3

Total 

Copy Number

Chap 1 Chap 2 Chap 3 Chap 4 Chap 5 None

High-High1A2 0 4 0 0 0 14J310 0 70 4 3 0 144

Low-Low1A2 0 2 1 0 0 2J310 0 10 0 0 0 14

• Total Sample: 268

• High-High = 239 Low-Low = 29

• 1A2 = 23 J310 = 245

• Chap 1 = 0 Chap 2 = 86• Chap 3 = 5 Chap 4 = 3• Chap 5 = 0 None = 174

Percentages

(H, 1A2, pG-Tf2)

(H, 1A2, pTf16)

(H, 1A2, pG-KJE8)

(H, 1A2, pGro7)

(H, 1A2, PKJE7)

(H, 1A2, None)

(H, J310, pG-Tf2)

(H, J310, pTf16)

(H, J310, pG-KJE8)

(H, J310, pGro7)

(H, J310, PKJE7)

(H, J310, None)

(L, 1A2, pG-Tf2)

(L, 1A2, pTf16)

(L, 1A2, pG-KJE8)

(L, 1A2, pGro7)

(L, 1A2, PKJE7)

(L, 1A2, None)

(L, J310, pG-Tf2)

(L, J310, pTf16)

(L, J310, pG-KJE8)

(L, J310, pGro7)

(L, J310, PKJE7)

(L, J310, None) Totals

Plate 4 0.00 2.15 0.00 0.00 0.00 2.15 0.00 31.18 2.15 0.00 0.00 50.54 0.00 1.08 0.00 0.00 0.00 0.00 0.00 4.30 0.00 0.00 0.00 6.45 100Plate 5 0.00 0.00 0.00 0.00 0.00 4.49 0.00 24.72 1.12 2.25 0.00 56.18 0.00 0.00 0.00 0.00 0.00 1.12 0.00 4.49 0.00 0.00 0.00 5.62 100Plate 6 0.00 2.33 0.00 0.00 0.00 9.30 0.00 22.09 1.16 1.16 0.00 54.65 0.00 1.16 1.16 0.00 0.00 1.16 0.00 2.33 0.00 0.00 0.00 3.49 100Totals 0.00 1.49 0.00 0.00 0.00 5.22 0.00 26.12 1.49 1.12 0.00 53.73 0.00 0.75 0.37 0.00 0.00 0.75 0.00 3.73 0.00 0.00 0.00 5.22 100

• (H-H, J310, None): 53.73% of total sample• (H-H, J310, pTf16): 26.21% of total sample

• Promoter:• 89.18% are High-High• 10.82% are Low-Low

• Copy Number:• 8.58% are 1A2• 91.42% are J310

• Chaperone:• pG-Tf2 = 0% pGro7 = 1.119%• pTf16 = 32.09% pKJE7 = 0%• pG-KJE8 = 1.87% No Chaperone = 64.93%

Fisher’s Exact Test

• Fisher's Exact Test for Count Data• p-value = 0.6581• alternative hypothesis: two.sided

• Fisher's Exact Test for Count Data with simulated p-value (based on 2000 replicates)• p-value = 0.6792• alternative hypothesis: two.sided

• Fail to reject the null at a .05 significance level.• The plates are replications of each other.

Chi-Square Test

• Compare the total distribution of the plates to a uniform distribution (1/24) for each genotype.• 268/24 = 11.166667

• X^2 = 334.9683948 • P-Value = 3.68699E-57

• Reject the null at a .001 significance level (d.f. = 23).• The sampled distribution is not uniform.

Chi-Square Test• Compare the distribution by promoter and copy number to a

uniform distribution (1/2).• Using percent of sample

• Promoter:• X^2: 36.26704387 • P-Value: 1.72049E-09

• Copy Number:• X^2: 41.413038 • P-Value: 1.23233E-10

• Reject the null for both at the .001 significance level (d.f. = 1)• The distributions are not uniform.

Genotype Relationship• Are the promoter and the copy number independent of one

another? Check with a Chi-Square test.

• X^2: 3.107957728 • P-Value: 0.077910596 • Fail to reject at the .05 signficance level.

• Does not consider influence of chaperone (if any).• Need further research to properly test this question.

Further Questions for Analysis

• Which of the genotype categories – promoter, copy number, and chaperone – have the largest affect on a clone’s survival?

• Does the genotype as a whole influence the clone more, or do the parts of the genotype work independently?