Difference between revisions of "PSEAE CF.2010"

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(Gzipped TXT files)
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* Table S9. Functional enrichment data for Table S6
 
* Table S9. Functional enrichment data for Table S6
  
== Microarray Data ==
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== Microarray data ==
 
=== CEL files ===
 
=== CEL files ===
 
* http://www.marcottelab.org/users/taejoon/PSEAE_CF/microarray/GSE21966_CEL.zip
 
* http://www.marcottelab.org/users/taejoon/PSEAE_CF/microarray/GSE21966_CEL.zip
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* [http://www.marcottelab.org/users/taejoon/PSEAE_CF/microarray/Huse2010_GSE21966.eset_mas5.txt.gz MAS5 pre-processing, ExpressSet]
 
* [http://www.marcottelab.org/users/taejoon/PSEAE_CF/microarray/Huse2010_GSE21966.eset_mas5.txt.gz MAS5 pre-processing, ExpressSet]
 
* [http://www.marcottelab.org/users/taejoon/PSEAE_CF/microarray/Huse2010_GSE21966.calls_mas5.txt.gz MAS5 pre-processing, P/M/A calls]
 
* [http://www.marcottelab.org/users/taejoon/PSEAE_CF/microarray/Huse2010_GSE21966.calls_mas5.txt.gz MAS5 pre-processing, P/M/A calls]
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=== Probe mapping to PAO1 ===
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 +
== Genome/Annotation data ==
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All data were downloaded from http://www.pseudomonas.com on November, 23, 2009.
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* ''P. aeruginosa'' PAO1
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PAO1.NC_002516.fna.gz Genomic DNA]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PAO1.PCAP20091123.dna.fasta.gz Transcripts]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PAO1.PCAP20091123.prot.fasta.gz Proteins]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PAO1.PCAP20091123.tsv.gz Annotation(TSV)]
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* ''P. aeruginosa'' PA14
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA14.NC_008563.fna.gz Genomic DNA]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA14.PCAP20091014.dna.fasta.gz Transcripts]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA14.PCAP20091014.prot.fasta.gz Proteins]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA14.PCAP20091014.tsv.gz Annotation(TSV)]
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 +
* ''P. aeruginosa'' PA7
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA7.NC_009656.fna.gz Genomic DNA]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA7.PCAP20091123.dna.fasta.gz Transcripts]
 +
** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA7.PCAP20091123.prot.fasta.gz Proteins]
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_PA7.PCAP20091123.tsv.gz Annotation(TSV)]
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 +
* ''P. aeruginosa'' LESB58
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** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_LESB58.NC_011770.fna.gz Genomic DNA]
 +
** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_LESB58.PCAP20091123.dna.fasta.gz Transcripts]
 +
** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_LESB58.PCAP20091123.prot.fasta.gz Proteins]
 +
** [http://www.marcottelab.org/users/taejoon/PSEAE_CF/PseudoCAP/PSEAE_LESB58.PCAP20091123.tsv.gz Annotation(TSV)]
 +
  
 
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[[Category:Publication]]
 
[[Category:Publication]]

Revision as of 13:06, 8 September 2010

Web supplement for 'Huse HK, Kwon T, Zlosnik JEA, Speert DP, Marcotte EM, Whiteley M, Parallel evolution in Pseudomonas aeruginosa over 39,000 generations in vivo, mBIO, :in press (2010) PubMed '

Contents

Supplement Tables

  • Table S1. Strains
  • Table S2. P. aeruginosa orthologs
  • Table S3. Affymetrix microarray annotation
  • Table S4. P. aeruginosa annotation
  • Table S5. Differentially expressed genes between progenitors
  • Table S6. Differentially expressed genes within isogenic groups (compared to each progenitor/first strain).
  • Table S7. Differentially expressed genes between isogenic groups.
  • Table S8. Functional enrichment data for Table S7
  • Table S9. Functional enrichment data for Table S6

Microarray data

CEL files

Gzipped TXT files

Probe mapping to PAO1

Genome/Annotation data

All data were downloaded from http://www.pseudomonas.com on November, 23, 2009.