# Ashley Rhoades Week 9

### From OpenWetWare

(→Part Two: fixing format) |
(→Part 3: fixing format) |
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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 |

## Revision as of 11:36, 9 April 2013

## Contents |

## 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