Difference between revisions of "Knguye66 Eyoung20 Week 12/13"
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== Methods and Results: Progress == | == Methods and Results: Progress == | ||
==== Progress 11/21/19 ==== | ==== Progress 11/21/19 ==== | ||
| − | Our group decided to have the ANOVA, sanity check, and STEM set-up done before class on Thursday, 11/21/19 | + | |
| − | + | * Our group decided to have the ANOVA, sanity check, and STEM set-up done before class on Thursday, 11/21/19 | |
| + | * First created a worksheet and labeled accordingly based on the format the Coder's Guild decided | ||
| + | * Finished the steps on [[Week 8]] for Statistical Analysis Part I: ANOVA on Microsoft Excel for the new MicroArray Data found on the [[Data_Analysis]] page | ||
| + | ** For questions asked on the p-value (use: "out of 4468" genes instead of "out of 6189" to adjust for this data) | ||
| + | * Following the ANOVA: Part I, Bonferroni, Benjamini & Hochberg, and p-value correction, a quick sanity check was performed for the p-value dataset. | ||
--------------------------- | --------------------------- | ||
| Line 13: | Line 17: | ||
-Unadjusted p-value- | -Unadjusted p-value- | ||
| − | # How many genes have p<0.05? and what is the percentage (out of | + | # How many genes have p<0.05? and what is the percentage (out of 4468)? |
| − | #* | + | #* |
| − | # How many genes have p<0.01? and what is the percentage (out of | + | # How many genes have p<0.01? and what is the percentage (out of 4468)? |
| − | #* | + | #* |
| − | # How any genes have p<0.001? and what is the percentage (out of | + | # How any genes have p<0.001? and what is the percentage (out of 4468)? |
| − | #* | + | #* |
| − | # How many genes have p<0.0001? and what is the percentage (out of | + | # How many genes have p<0.0001? and what is the percentage (out of 4468)? |
| − | #* | + | #* |
-Bonferroni & Benjamini and Hochberg p-value- | -Bonferroni & Benjamini and Hochberg p-value- | ||
| − | # How any genes are p<0.05 for the Bonferroni-corrected p-value? and what is the percentage (out of | + | # How any genes are p<0.05 for the Bonferroni-corrected p-value? and what is the percentage (out of 4468)? |
| − | #* | + | #* |
| − | # How any genes are p <0.05 for the Benjamini and Hochberg-corrected p-value? and what is the percentage (out of | + | # How any genes are p <0.05 for the Benjamini and Hochberg-corrected p-value? and what is the percentage (out of 4468)? |
| − | #* | + | #* |
-NSR1- | -NSR1- | ||
# What is its unadjusted, Bonferroni-corrected, and B-H-corrected p-values? | # What is its unadjusted, Bonferroni-corrected, and B-H-corrected p-values? | ||
| − | #* Unadjusted: | + | #* Unadjusted: |
| − | #* Bonferroni: | + | #* Bonferroni: |
| − | #* B-H: | + | #* B-H: |
#* Average Log fold: | #* Average Log fold: | ||
| − | #** t15: | + | #** t15: |
| − | #** t30: | + | #** t30: |
| − | #** t60: | + | #** t60: |
| − | #** t90: | + | #** t90: |
| − | #** t120: | + | #** t120: |
-Favorite Gene (YDR090C)- | -Favorite Gene (YDR090C)- | ||
| − | #* Unadjusted: | + | #* Unadjusted: |
| − | #* Bonferroni: | + | #* Bonferroni: |
| − | #* B-H: | + | #* B-H: |
#* Average Log fold: | #* Average Log fold: | ||
| − | #** t15: | + | #** t15: |
| − | #** t30: | + | #** t30: |
| − | #** t60: | + | #** t60: |
| − | #** t90: | + | #** t90: |
| − | #** t120: | + | #** t120: |
== Conclusion == | == Conclusion == | ||
Revision as of 16:46, 19 November 2019
Combined Individual Journals for Kaitlyn Nguyen and Emma Young (Data Analysts).
Contents
Purpose
Methods and Results: Progress
Progress 11/21/19
- Our group decided to have the ANOVA, sanity check, and STEM set-up done before class on Thursday, 11/21/19
- First created a worksheet and labeled accordingly based on the format the Coder's Guild decided
- Finished the steps on Week 8 for Statistical Analysis Part I: ANOVA on Microsoft Excel for the new MicroArray Data found on the Data_Analysis page
- For questions asked on the p-value (use: "out of 4468" genes instead of "out of 6189" to adjust for this data)
- Following the ANOVA: Part I, Bonferroni, Benjamini & Hochberg, and p-value correction, a quick sanity check was performed for the p-value dataset.
Sanity Check Questions:
-Unadjusted p-value-
- How many genes have p<0.05? and what is the percentage (out of 4468)?
- How many genes have p<0.01? and what is the percentage (out of 4468)?
- How any genes have p<0.001? and what is the percentage (out of 4468)?
- How many genes have p<0.0001? and what is the percentage (out of 4468)?
-Bonferroni & Benjamini and Hochberg p-value-
- How any genes are p<0.05 for the Bonferroni-corrected p-value? and what is the percentage (out of 4468)?
- How any genes are p <0.05 for the Benjamini and Hochberg-corrected p-value? and what is the percentage (out of 4468)?
-NSR1-
- What is its unadjusted, Bonferroni-corrected, and B-H-corrected p-values?
- Unadjusted:
- Bonferroni:
- B-H:
- Average Log fold:
- t15:
- t30:
- t60:
- t90:
- t120:
-Favorite Gene (YDR090C)-
- Unadjusted:
- Bonferroni:
- B-H:
- Average Log fold:
- t15:
- t30:
- t60:
- t90:
- t120:
Conclusion
Acknowledgements
This section is in acknowledgement to partner Kaitlyn Nguyen (User:knguye66), Michael Armas (User:Marmas), as well as, Iliana Crespin (User:Icrespin), and Emma Young (User:eyoung20). We would also like to acknowledge Dr. Dahlquist (User:KDahlquist) for introducing and teaching the topic and direction of this assignment.
"Except for what is noted above, this individual journal entry was completed by me and not copied from another source."
