Case study: Comparison between  thermophilic and mesophilic organisms

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computable sequence properties, visualisations (built in and generic), comparison of numeric distributions

Initial situation:

Complete genomes for mesophilic and thermophilic organism are available and allow one to run large-scale comparisons.



We used the proteome sequences of the organisms used by Thompson & Eisenberg (1999) and merged the amino acid sequences to 2 FASTA files.

File Content
meso_prots.fasta All proteins of the used mesophilic organisms
thermo_prots.fasta All proteins of the used thermophilic organisms


Step 1: Data import

Simply import the 2 protein sets to PROMPT by using the FASTA import feature. Choose “Import -> FASTA -> File” and choose “protein” as sequence type in the following dialog.

Step 2: Analysis & Results

Select both input entries and choose from the menu:

"Analyze -> Generic Annotations -> Compare annotations between 2 sets -> Numeric feature comparison"

Then select in both sets the same numerical features that should be compared (here length and HydrophobicityAvg)




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