Paul Magnano: Week 14 Individual Journal: Difference between revisions
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[[BIOL398-03/S13:Week 14]] | [[BIOL398-03/S13:Week 14]] | ||
{{Template: Paul Magnano}} | {{Template: Paul Magnano}} | ||
#Download sample file data input file change file to my name and input my data from Week 12 Assignment. | |||
#Copy matrix and paste into network, network_weights and network_thresholds worksheet. | |||
#Go to degradation_rate worksheet and paste list of transcription factors | |||
#*Look up systematicname of genes through YEASTRACT. | |||
#Look up degradation rates and if transcription factor does not appear in file, put value "0.027182242." | |||
#For production_rate sheet, paste systemicname and standardname from degradation_rate sheet into production_rate sheet. | |||
#*Calculate degradation rate X two and put into production rate column. | |||
#For log2_concentrations sheet, paste systematicname and standard name. | |||
#*Column headings should be 15, 30 and 60. Put in average log fold change from week 9 spreadsheet. | |||
#For concentration_sigmas sheet, cal standard deviation for 15, 30 , and 60 timepoints | |||
#Leave optimization_parameters worksheet alone. | |||
#For simulation_times worksheet, simulate in five minute increments from 0 to 60 minutes. | |||
#Paste in standard names for next worksheet. | |||
#Upload to LionShare |
Revision as of 23:19, 25 April 2013
BIOL398-03/S13:Week 14 Paul Magnano BIOL398-03/S13 User: Paul Magnano
Class Journals
- BIOL398-03/S13:Class Journal Week 1
- Paul N. Magnano Week 2 Shared Journal
- BIOL398-03/S13:Class Journal Week 3
- BIOL398-03/S13:Class Journal Week 4
- BIOL398-03/S13:Class Journal Week 5
- BIOL398-03/S13:Class Journal Week 8
- BIOL398-03/S13:Class Journal Week 9
- BIOL398-03/S13:Class Journal Week 11
- BIOL398-03/S13:Class Journal Week 12
- BIOL398-03/S13:Class Journal Week 13
- BIOL398-03/S13:Class Journal Week 14
Assignments/Individul Journals
- Paul Magnano:Assignment Week 2
- Paul Magnano:Week 3 Individual Journal
- Paul Magnano: Week 4 Individual Journal
- Paul Magnano: Week 5 Individual Journal
- Paul Magnano: Week 6 Indiviual Journal
- Paul/Jim Project #1
- Paul Magnano: Week 8 Individual Journal
- Paul Magnano: Week 9 Individual Journal
- Paul Magnano: Week 11 Individual Journal
- Paul Magnano: Week 12 Individual Journal
- Paul Magnano: Week 13 Individual Journal
- Paul Magnano: Week 14 Individual Journal
- Download sample file data input file change file to my name and input my data from Week 12 Assignment.
- Copy matrix and paste into network, network_weights and network_thresholds worksheet.
- Go to degradation_rate worksheet and paste list of transcription factors
- Look up systematicname of genes through YEASTRACT.
- Look up degradation rates and if transcription factor does not appear in file, put value "0.027182242."
- For production_rate sheet, paste systemicname and standardname from degradation_rate sheet into production_rate sheet.
- Calculate degradation rate X two and put into production rate column.
- For log2_concentrations sheet, paste systematicname and standard name.
- Column headings should be 15, 30 and 60. Put in average log fold change from week 9 spreadsheet.
- For concentration_sigmas sheet, cal standard deviation for 15, 30 , and 60 timepoints
- Leave optimization_parameters worksheet alone.
- For simulation_times worksheet, simulate in five minute increments from 0 to 60 minutes.
- Paste in standard names for next worksheet.
- Upload to LionShare