Difference between revisions of "PMID:19425146"

From omp dev
Jump to: navigation, search
(New PMID: Page!)
 
(→‎References)
 
(One intermediate revision by the same user not shown)
Line 1: Line 1:
 +
{{RightTOC}}
  
 +
<!--box uid=d41d8cd98f00b204e9800998ecf8427e.3424.G505747f41154f-->
 +
<!--
 +
******************************************************************************************
 +
*
 +
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
 +
*
 +
****************************************************************************************** -->
 +
{|  id="G505747f41154f"  class=" tableEdit PMID_info_table" 
 +
 +
|-
 +
!align=left  |Citation
 +
||
 +
'''Tohsato, Y  and Mori, H '''  (2008) Phenotype profiling of single gene deletion mutants of E. coli using Biolog technology. ''Genome Inform'' '''21''':42-52
 +
|-
 +
!align=left  |Abstract
 +
||
 +
Phenotype MicroArray (PM) technology is high-throughput phenotyping system and is directly applicable to assay the effects of genetic changes in cells. In this study, we performed comprehensive PM analysis using single gene deletion mutants of central metabolic pathway and related genes. To elucidate the structure of central metabolic networks in Escherichia coli K-12, we focused 288 different PM conditions of carbon and nitrogen sources and performed bioinformatic analysis. For data processing, we employed noise reduction procedures. The distance between each of the mutants was defined by Manhattan distance and agglomerative Ward's hierarchical method was applied for clustering analysis. As a result, five clusters were revealed which represented to activate or repress cellular respiratory activities. Furthermore, the results might suggest that Glyceraldehyde-3P plays a key role as a molecular switch of central metabolic network.
 +
|-
 +
!align=left  |Links
 +
||
 +
[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=19425146 PubMed]
 +
 +
|-
 +
!align=left  |Keywords
 +
||
 +
Base Sequence; Citric Acid Cycle/genetics; Computational Biology/methods; Enzymes/genetics; Escherichia coli K12/genetics; Escherichia coli K12/metabolism; Escherichia coli Proteins/genetics; Gene Deletion; Gene Expression Profiling; Genetic Engineering/methods; Mutation; Oligonucleotide Array Sequence Analysis/methods; Pentose Phosphate Pathway/genetics; Phenotype; Sensitivity and Specificity; Transcription, Genetic
 +
 +
|- class="tableEdit_footer"
 +
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=d41d8cd98f00b204e9800998ecf8427e.3424.G505747f41154f&page=3424&pagename={{FULLPAGENAMEE}}&type=1&template=PMID_info_table edit table]</span> ||
 +
|}
 +
<!--box uid=d41d8cd98f00b204e9800998ecf8427e.3424.G505747f41154f-->
 +
 +
==Main Points of the Paper ==
 +
{{LitSignificance}}
 +
 +
== Materials and Methods Used ==
 +
{{LitMaterials}}
 +
 +
==Phenotype Annotations==
 +
{{AnnotationTableHelp}}
 +
<protect><!--box uid=d41d8cd98f00b204e9800998ecf8427e.3424.W505747f423aa2-->
 +
<!--
 +
******************************************************************************************
 +
*
 +
*  ** PLEASE DON'T EDIT THIS TABLE DIRECTLY.  Use the edit table link under the table. **
 +
*
 +
****************************************************************************************** -->
 +
{|  id="W505747f423aa2"  class=" tableEdit Phenotype_Table_2" 
 +
|-
 +
!|Phenotype of!!Taxon Information!!Genotype Information (if known)!!Condition Information!!OMP ID!!OMP Term Name!!ECO ID!!ECO Term Name!!Notes!!Status
 +
 +
|- class="tableEdit_footer"
 +
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=d41d8cd98f00b204e9800998ecf8427e.3424.W505747f423aa2&page=3424&pagename={{FULLPAGENAMEE}}&type=0&template=Phenotype_Table_2 edit table]</span> || || || || || || || || ||
 +
|}
 +
<!--box uid=d41d8cd98f00b204e9800998ecf8427e.3424.W505747f423aa2--></protect>
 +
 +
==Notes==
 +
 +
==References==
 +
{{RefHelp}}
 +
<references/>
 +
 +
 +
[[Category:Publication]]
 +
[[Category:Phenotype Microarray (PM), Biolog]]

Latest revision as of 10:56, 17 September 2012

Citation

Tohsato, Y and Mori, H (2008) Phenotype profiling of single gene deletion mutants of E. coli using Biolog technology. Genome Inform 21:42-52

Abstract

Phenotype MicroArray (PM) technology is high-throughput phenotyping system and is directly applicable to assay the effects of genetic changes in cells. In this study, we performed comprehensive PM analysis using single gene deletion mutants of central metabolic pathway and related genes. To elucidate the structure of central metabolic networks in Escherichia coli K-12, we focused 288 different PM conditions of carbon and nitrogen sources and performed bioinformatic analysis. For data processing, we employed noise reduction procedures. The distance between each of the mutants was defined by Manhattan distance and agglomerative Ward's hierarchical method was applied for clustering analysis. As a result, five clusters were revealed which represented to activate or repress cellular respiratory activities. Furthermore, the results might suggest that Glyceraldehyde-3P plays a key role as a molecular switch of central metabolic network.

Links

PubMed

Keywords

Base Sequence; Citric Acid Cycle/genetics; Computational Biology/methods; Enzymes/genetics; Escherichia coli K12/genetics; Escherichia coli K12/metabolism; Escherichia coli Proteins/genetics; Gene Deletion; Gene Expression Profiling; Genetic Engineering/methods; Mutation; Oligonucleotide Array Sequence Analysis/methods; Pentose Phosphate Pathway/genetics; Phenotype; Sensitivity and Specificity; Transcription, Genetic

edit table

Main Points of the Paper

Please summarize the main points of the paper.

Materials and Methods Used

Please list the materials and methods used in this paper (strains, plasmids, antibodies, etc).

Phenotype Annotations

See Help:AnnotationTable for details on how to edit this table.
<protect>

Phenotype of Taxon Information Genotype Information (if known) Condition Information OMP ID OMP Term Name ECO ID ECO Term Name Notes Status
edit table

</protect>

Notes

References

See Help:References for how to manage references in omp dev.

Retrieved from "http://bcbp-ftq4xm2.biobio.tamu.edu/omp/dev/index.php?title=PMID:19425146&oldid=8271"