asd:Expression: Difference between revisions

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===Overview===
===Overview===
{{Expression_overview_placeholder}}
{{Expression_overview_placeholder}}
==Cellular Levels==
{{BacktoTop}}
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!|Molecule!!Organism or Strain!!Value!!Units!!Experimental Conditions!!Assay used!!Notes!!Reference(s)
|-
|
Protein
|
''E. coli'' K-12 MC4100
|
5.34E+03
|
molecules/cell
|
*Medium:  median data from rich and minimal media
*Temperature (°C):  37
*Doubling time (min): Growth Rate(min): 
*Growth phase: other:
|
emPAI
|
|
PMID:18304323
|-
|
Protein
|
''E. coli'' K-12 [http://ecoliwiki.net/colipedia/index.php/Category:Strain:EMG2 EMG2]
|
900
|
molecules/cell
|
*Medium: MOPS glucose minimal
*Temperature (°C): 37
*Doubling time (min):
*Growth phase: Exponential
*OD: OD600 = 0.2 to 0.25 
*other: aerated
|
Quantitative protein sequencing
|
Spot ID: M64
|
PMID: 9298646
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
7060
|
molecules/cell/generation
|
*Medium: MOPS Complete 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
10592
|
molecules/cell/generation
|
*Medium: MOPS Minimal 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
|-
|
Protein
|
''E. coli'' K-12 MG1655
|
6893
|
molecules/cell/generation
|
*Medium: MOPS Complete without Methionine 
* Temperature (°C):  37
*Doubling time (min):
* *Growth phase: 
*OD:
*other:
|
Ribosome Profiling
|
|
PMID: 24766808
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===Notes===
==Transcription and Transcriptional Regulation==
==Transcription and Transcriptional Regulation==
{{BacktoTop}}
{{BacktoTop}}
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!|Transcription unit(s)
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[[:Category:Txn_unit:asd|asd]]  
[[:Category:Txn_unit:asd|asd]]  
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<!--Transcription_notes--></protect>
<!--Transcription_notes--></protect>
===Notes===
===Notes===
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==Translation and Regulation of Translation==
==Translation and Regulation of Translation==
{{BacktoTop}}
{{BacktoTop}}
<protect>{{GBrowseFigureByCoord|3572881|3572921|ecoli|MG1655|Genes_unlabeled+DNA_unlabeled+flip|400|{{Nterm_closeup}} }}
<protect><gbrowseImage>
name=NC_000913:3572881..3572921
source=MG1655
flip=1
type=Gene+DNA_+Protein
preset=Nterminus
</gbrowseImage>
{{Nterm_closeup}}
 
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===Notes===
===Notes===
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!|Allele Name!!Mutation!!Phenotype!!Reference
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<big>'''Expression Studies'''</big>
<big>'''Expression Studies'''</big>
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|- {{table heading style}}
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!|Type!!Reference!!Notes
!|Type!!Reference!!Notes
|-  
|-  
|
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microarray  
microarray
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3433 EcoliGenExpDB:b3433] ([[EcoliGenExpDB|EcoliWiki Page]])  
[[geoprofiles:b3433|GEO Profiles:b3433]] ([[Gene_Expression_Omnibus_%28GEO%29|EcoliWiki Page]])
|
|
Summary of data for asd from multiple microarray studies 
NCBI GEO profiles for ''asd''
|-  
|-  
|
|
microarray
microarray
|
|
[[geoprofiles:b3433|GEO Profiles:b3433]] ([[Gene_Expression_Omnibus_%28GEO%29|EcoliWiki Page]])
[http://genexpdb.ou.edu/index.php?query=b3433 GenExpDB:b3433] ([[EcoliGenExpDB|EcoliWiki Page]])  
|
|
NCBI GEO profiles for ''asd''
Summary of data for asd from multiple microarray studies 


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<big>'''Expression Resources'''</big>
<big>'''Expression Resources'''</big>
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|- {{table heading style}}
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!|Resource Name!!Resource Type!!Description!!Source!!Notes
!|Resource Name!!Resource Type!!Description!!Source!!Notes
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[http://www.openbiosystems.com/GeneExpression/Non-Mammalian/Bacteria/EcoliPromoters/ OpenBioSystems][[Category:Genes in OpenBioSystems with Promoter Fusions]]
[http://www.openbiosystems.com/GeneExpression/Non-Mammalian/Bacteria/EcoliPromoters/ OpenBioSystems][[Category:Genes in OpenBioSystems with Promoter Fusions]]
|
|
Raw protomer fusion data from Zaslaver, <i>et al.</i><br />Plate:109-AZ18; Well:C9<ref name="PMID:16862137" />  
GFP fusion described in Zaslaver, <i>et al.</i><br />Plate:109-AZ18; Well:C9<ref name="PMID: 16862137" />  


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<protect><!--Expression_experimental_notes--></protect>
<protect><!--Expression_experimental_notes--></protect>
===Notes===
===Notes===
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|- {{table_heading_style}}
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10088 EcoCyc:EG10088] 
EcoCyc:EG10088
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0086 EchoBASE:EB0086] 
EchoBASE:EB0086
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
|
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])  
|
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3433 EcoliGenExpDB:b3433]
[http://chase.ou.edu/macro/searchlink.php?bnum=b3433 EcoliGenExpDB:b3433]
|
|
   
   
|-
|-
|
[[EcoGene]]
|
EcoGene:EG10088
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[RegulonDB]]
|
RegulonDB:ECK120000084
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
[[ASAP]]
|
|
[http://ecogene.org/geneinfo.php?eg_id=EG10088 EcoGene:EG10088] 
ASAP:ABE-0011211
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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<protect><!--Accessions_notes--></protect>
<protect><!--Accessions_notes--></protect>
===Notes===
===Notes===
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<noinclude>
<noinclude>
==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
{{RefHelp}}
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Txn_unit:asd]]
[[Category:Txn_unit:asd]]

Latest revision as of 19:52, 21 July 2015

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Overview Transcription Translation Turnover Experimental Links References Suggestions

Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

[back to top]


See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

5.34E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323[1]

Protein

E. coli K-12 EMG2

900

molecules/cell

  • Medium: MOPS glucose minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • Growth phase: Exponential
  • OD: OD600 = 0.2 to 0.25
  • other: aerated

Quantitative protein sequencing

Spot ID: M64

PMID:9298646[2]

Protein

E. coli K-12 MG1655

7060

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[3]

Protein

E. coli K-12 MG1655

10592

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[3]

Protein

E. coli K-12 MG1655

6893

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID:24766808[3]

edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

asd

edit table
Figure courtesy of RegulonDB


Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

[back to top]


<gbrowseImage> name=NC_000913:3572881..3572921 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.


Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

</protect>

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

[back to top]


Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
edit table


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b3433 (EcoliWiki Page)

NCBI GEO profiles for asd

microarray

GenExpDB:b3433 (EcoliWiki Page)

Summary of data for asd from multiple microarray studies

edit table


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (3572434..3572744) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ18; Well:C9[4]

edit table

<protect>

Notes

Accessions Related to asd Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10088

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0086

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3433

EcoGene

EcoGene:EG10088

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000084

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011211

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

[back to top]


See Help:References for how to manage references in EcoliWiki.

  1. ↑ Ishihama, Y et al. (2008) Protein abundance profiling of the Escherichia coli cytosol. BMC Genomics 9 102 PubMed
  2. ↑ Link, AJ et al. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis 18 1259-313 PubMed
  3. ↑ 3.0 3.1 3.2 Li, GW et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157 624-35 PubMed
  4. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=asd:Expression&oldid=1501817"