Ashley Rhoades Week 9: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
(New page: ==Week 9 Journal== *Week 9 Assignment ===Part One=== These are the number of genes that fall into each significance level for each time period. T15 P<0.05 - 78...) |
(→Part 4: fixing format) |
||
| (4 intermediate revisions by the same user not shown) | |||
| Line 5: | Line 5: | ||
===Part One=== | ===Part One=== | ||
These are the number of genes that fall into each significance level for each time period. | These are the number of genes that fall into each significance level for each time period. | ||
T15 | *T15 | ||
P<0.05 - 781 | **P<0.05 - 781 | ||
P<0.01 - 218 | **P<0.01 - 218 | ||
P< 0.001 - 21 | **P< 0.001 - 21 | ||
P<0.0001 - 1 | **P<0.0001 - 1 | ||
T30 | *T30 | ||
P<0.05 - 1539 | **P<0.05 - 1539 | ||
P<0.01 - 456 | **P<0.01 - 456 | ||
P< 0.001 - 55 | **P< 0.001 - 55 | ||
P<0.0001 - 2 | **P<0.0001 - 2 | ||
T60 | *T60 | ||
P<0.05 - 1559 | **P<0.05 - 1559 | ||
P<0.01 - 384 | **P<0.01 - 384 | ||
P< 0.001 - 51 | **P< 0.001 - 51 | ||
P<0.0001 - 6 | **P<0.0001 - 6 | ||
T90 | *T90 | ||
P<0.05 - 538 | **P<0.05 - 538 | ||
P<0.01 - 129 | **P<0.01 - 129 | ||
P< 0.001 - 9 | **P< 0.001 - 9 | ||
P<0.0001 - 1 | **P<0.0001 - 1 | ||
T120 | *T120 | ||
P<0.05 - 564 | **P<0.05 - 564 | ||
P<0.01 - 114 | **P<0.01 - 114 | ||
P< 0.001 - 16 | **P< 0.001 - 16 | ||
P<0.0001 - 5 | **P<0.0001 - 5 | ||
===Part Two=== | ===Part Two=== | ||
| Line 39: | Line 39: | ||
These are the number of genes that fall under a p<0.05 significance threshold with the Bonferroni correction. | These are the number of genes that fall under a p<0.05 significance threshold with the Bonferroni correction. | ||
T15: 1 value | *T15: 1 value | ||
T30: 0 | *T30: 0 | ||
T60: 2 | *T60: 2 | ||
T90: 1 | *T90: 1 | ||
T120: 0 | *T120: 0 | ||
===Part 3=== | ===Part 3=== | ||
These are the average log folds with significance p<0.05. | These are the average log folds with significance p<0.05. | ||
T15 | *T15 | ||
Greater than zero: 437 | **Greater than zero: 437 | ||
Less than zero: 771 | **Less than zero: 771 | ||
Greater than .25: 402 | **Greater than .25: 402 | ||
Less than -.25: 256 | **Less than -.25: 256 | ||
T30 | *T30 | ||
Greater than zero: 713 | **Greater than zero: 713 | ||
Less than zero: 826 | **Less than zero: 826 | ||
Greater than .25: 673 | **Greater than .25: 673 | ||
Less than -.25: 770 | **Less than -.25: 770 | ||
T60 | *T60 | ||
Greater than zero: 760 | **Greater than zero: 760 | ||
Less than zero: 799 | **Less than zero: 799 | ||
Greater than .25: 727 | **Greater than .25: 727 | ||
Less than -.25 : 745 | **Less than -.25 : 745 | ||
T90 | *T90 | ||
Greater than zero: 319 | **Greater than zero: 319 | ||
Less than zero: 219 | **Less than zero: 219 | ||
Greater than .25: 277 | **Greater than .25: 277 | ||
Less than -.25: 194 | **Less than -.25: 194 | ||
T120 | *T120 | ||
Greater than zero: 332 | **Greater than zero: 332 | ||
Less than zero: 232 | **Less than zero: 232 | ||
Greater than .25: 245 | **Greater than .25: 245 | ||
Less than -.25: 170 | **Less than -.25: 170 | ||
===Part 4=== | ===Part 4=== | ||
This is the data for the gene NSR1. | This is the data for the gene NSR1. | ||
Average at time 15: 1.2 | *Average at time 15: 1.2 | ||
P value: 0.0046 | **P value: 0.0046 | ||
Average at time 30: 1.98 | *Average at time 30: 1.98 | ||
P value: 0.0180 | **P value: 0.0180 | ||
Average at time 60: 1.96 | *Average at time 60: 1.96 | ||
P value: 0.0151 | **P value: 0.0151 | ||
Average at time 90: -0.75 | *Average at time 90: -0.75 | ||
P value: 0.0676 | **P value: 0.0676 | ||
*Average at time 120: -0.63 | |||
*P value: 0.1601 | |||
There were significant changes at time 15,30, and 60 for a significance threshold of p<0.05. | There were significant changes at time 15,30, and 60 for a significance threshold of p<0.05. | ||
Latest revision as of 09:37, 9 April 2013
Week 9 Journal
Part One
These are the number of genes that fall into each significance level for each time period.
- T15
- P<0.05 - 781
- P<0.01 - 218
- P< 0.001 - 21
- P<0.0001 - 1
- T30
- P<0.05 - 1539
- P<0.01 - 456
- P< 0.001 - 55
- P<0.0001 - 2
- T60
- P<0.05 - 1559
- P<0.01 - 384
- P< 0.001 - 51
- P<0.0001 - 6
- T90
- P<0.05 - 538
- P<0.01 - 129
- P< 0.001 - 9
- P<0.0001 - 1
- T120
- P<0.05 - 564
- P<0.01 - 114
- P< 0.001 - 16
- P<0.0001 - 5
Part Two
These are the number of genes that fall under a p<0.05 significance threshold with the Bonferroni correction.
- T15: 1 value
- T30: 0
- T60: 2
- T90: 1
- T120: 0
Part 3
These are the average log folds with significance p<0.05.
- T15
- Greater than zero: 437
- Less than zero: 771
- Greater than .25: 402
- Less than -.25: 256
- T30
- Greater than zero: 713
- Less than zero: 826
- Greater than .25: 673
- Less than -.25: 770
- T60
- Greater than zero: 760
- Less than zero: 799
- Greater than .25: 727
- Less than -.25 : 745
- T90
- Greater than zero: 319
- Less than zero: 219
- Greater than .25: 277
- Less than -.25: 194
- T120
- Greater than zero: 332
- Less than zero: 232
- Greater than .25: 245
- Less than -.25: 170
Part 4
This is the data for the gene NSR1.
- Average at time 15: 1.2
- P value: 0.0046
- Average at time 30: 1.98
- P value: 0.0180
- Average at time 60: 1.96
- P value: 0.0151
- Average at time 90: -0.75
- P value: 0.0676
- Average at time 120: -0.63
- P value: 0.1601
There were significant changes at time 15,30, and 60 for a significance threshold of p<0.05.
Part 5
The gene with the smallest p value is YPR059C with p=4.73816675697583E-06. Unfortunately in the database little to nothing is known about this gene. The only information available was that it most likely does not code for a protein.
Survey of Biomathematics
- Ashley Rhoades
- Loyola Marymount University
- Email me through OpenWetWare
- BIOL398-03/S13
