Haynes Lab:Notebook/Synthetic Biology and Bioinformatics for Predictable Control of Therapeutic Gene2/2012/06/18: Difference between revisions

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==Entry title==
==GO Term Categorizing==
* Insert content here...
* I made custom categorizers for GO Term Analysis. They are separated by biological process, molecular process, and cellular component. These are to be used anytime GO Term analysis needs to be done. Follow the directions on [http://www.animalgenome.org CATEGORIZER] and enter in the custom categorizers as .txt files.
* Note: In order for this analysis to work all Gene Name IDs need to be in the form of GO Accession. Go to [http://uswest.ensembl.org/biomart/martview/636d149aaa2e9bda66dcf2322dc354a1 BIOMART ENSEMBL] and follow these [http://www.biostars.org/post/show/16230/find-gene-symbolgene-name-according-to-orf-accession/ DIRECTIONS]. Make sure you check off "GO Term Accession" under the EXTERNAL category.
 
'''Biological Process''' <br>
GO:0022610 biological adhesion <br>
GO:0065007 biological regulation <br>
GO:0009758 carbohydrate utilization <br>
GO:0015976 carbon utilization <br>
GO:0001906 cell killing <br>
GO:0008283 cell proliferation <br>
GO:0071840 cellular component organization or biogenesis <br>
GO:0009987 cellular process <br>
GO:0016265 death <br>
GO:0032502 developmental process <br>
GO:0051234 establishment of localization <br>
GO:0040007 growth <br>
GO:0002376 immune system process <br>
GO:0051179 localization <br>
GO:0040011 locomotion <br>
GO:0008152 metabolic process <br>
GO:0051704 multi-organism process <br>
GO:0032501 multicellular organismal process <br>
GO:0048519 negative regulation of biological process <br>
GO:0019740 nitrogen utilization <br>
GO:0036166 phenotypic switching <br>
GO:0006794 phosphorus utilization <br>
GO:0043473 pigmentation <br>
GO:0048518 positive regulation of biological process <br>
GO:0050789 regulation of biological process <br>
GO:0000003 reproduction <br>
GO:0022414 reproductive process <br>
GO:0050896 response to stimulus <br>
GO:0048511 rhythmic process <br>
GO:0023052 signaling <br>
GO:0006791 sulfur utilization <br>
GO:0016032 viral reproduction <br>
 
'''Molecular Function''' <br>
GO:0016209 antioxidant activity <br>
GO:0005488 binding <br>
GO:0003824 catalytic activity <br>
GO:0016247 channel regulator activity <br>
GO:0042056 chemoattractant activity <br>
GO:0045499 chemorepellent activity <br>
GO:0009055 electron carrier activity <br>
GO:0030234 enzyme regulator activity <br>
GO:0016530 metallochaperone activity <br>
GO:0060089 molecular transducer activity <br>
GO:0016015 morphogen activity <br>
GO:0001071 nucleic acid binding transcription factor activity <br>
GO:0045735 nutrient reservoir activity <br>
GO:0000988 protein binding transcription factor activity <br>
GO:0031386 protein tag <br>
GO:0004872 receptor activity <br>
GO:0030545 receptor regulator activity <br>
GO:0005198 structural molecule activity <br>
GO:0045182 translation regulator activity <br>
GO:0005215 transporter activity <br>
 
'''Cellular Component''' <br>
GO:0016209 antioxidant activity <br>
GO:0005488 binding <br>
GO:0003824 catalytic activity <br>
GO:0016247 channel regulator activity <br>
GO:0042056 chemoattractant activity <br>
GO:0045499 chemorepellent activity <br>
GO:0009055 electron carrier activity <br>
GO:0030234 enzyme regulator activity <br>
GO:0016530 metallochaperone activity <br>
GO:0060089 molecular transducer activity <br>
GO:0016015 morphogen activity <br>
GO:0001071 nucleic acid binding transcription factor activity <br>
GO:0045735 nutrient reservoir activity <br>
GO:0000988 protein binding transcription factor activity <br>
GO:0031386 protein tag <br>
GO:0004872 receptor activity <br>
GO:0030545 receptor regulator activity <br>
GO:0005198 structural molecule activity <br>
GO:0045182 translation regulator activity <br>
GO:0005215 transporter activity <br>
 
 




Revision as of 14:18, 18 June 2012

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GO Term Categorizing

  • I made custom categorizers for GO Term Analysis. They are separated by biological process, molecular process, and cellular component. These are to be used anytime GO Term analysis needs to be done. Follow the directions on CATEGORIZER and enter in the custom categorizers as .txt files.
  • Note: In order for this analysis to work all Gene Name IDs need to be in the form of GO Accession. Go to BIOMART ENSEMBL and follow these DIRECTIONS. Make sure you check off "GO Term Accession" under the EXTERNAL category.

Biological Process
GO:0022610 biological adhesion
GO:0065007 biological regulation
GO:0009758 carbohydrate utilization
GO:0015976 carbon utilization
GO:0001906 cell killing
GO:0008283 cell proliferation
GO:0071840 cellular component organization or biogenesis
GO:0009987 cellular process
GO:0016265 death
GO:0032502 developmental process
GO:0051234 establishment of localization
GO:0040007 growth
GO:0002376 immune system process
GO:0051179 localization
GO:0040011 locomotion
GO:0008152 metabolic process
GO:0051704 multi-organism process
GO:0032501 multicellular organismal process
GO:0048519 negative regulation of biological process
GO:0019740 nitrogen utilization
GO:0036166 phenotypic switching
GO:0006794 phosphorus utilization
GO:0043473 pigmentation
GO:0048518 positive regulation of biological process
GO:0050789 regulation of biological process
GO:0000003 reproduction
GO:0022414 reproductive process
GO:0050896 response to stimulus
GO:0048511 rhythmic process
GO:0023052 signaling
GO:0006791 sulfur utilization
GO:0016032 viral reproduction

Molecular Function
GO:0016209 antioxidant activity
GO:0005488 binding
GO:0003824 catalytic activity
GO:0016247 channel regulator activity
GO:0042056 chemoattractant activity
GO:0045499 chemorepellent activity
GO:0009055 electron carrier activity
GO:0030234 enzyme regulator activity
GO:0016530 metallochaperone activity
GO:0060089 molecular transducer activity
GO:0016015 morphogen activity
GO:0001071 nucleic acid binding transcription factor activity
GO:0045735 nutrient reservoir activity
GO:0000988 protein binding transcription factor activity
GO:0031386 protein tag
GO:0004872 receptor activity
GO:0030545 receptor regulator activity
GO:0005198 structural molecule activity
GO:0045182 translation regulator activity
GO:0005215 transporter activity

Cellular Component
GO:0016209 antioxidant activity
GO:0005488 binding
GO:0003824 catalytic activity
GO:0016247 channel regulator activity
GO:0042056 chemoattractant activity
GO:0045499 chemorepellent activity
GO:0009055 electron carrier activity
GO:0030234 enzyme regulator activity
GO:0016530 metallochaperone activity
GO:0060089 molecular transducer activity
GO:0016015 morphogen activity
GO:0001071 nucleic acid binding transcription factor activity
GO:0045735 nutrient reservoir activity
GO:0000988 protein binding transcription factor activity
GO:0031386 protein tag
GO:0004872 receptor activity
GO:0030545 receptor regulator activity
GO:0005198 structural molecule activity
GO:0045182 translation regulator activity
GO:0005215 transporter activity



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