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TranScout Classification

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TrSDB Analyses

TrSDB analyses for nine non-redundant eukaryotic proteomes are performed with TranScout and ProtLoc programs.
Different entries subgroups are generated according to prediction probabilty of TranScout matches, nuclear score of ProtLoc, and existing annotation references linked to InterPro (via InterPro2GO) and/or Gene Ontology Annotation.

Entries which have one of the following selected GO entries are considered to be formerly annotated as transcription factors.

All positive TranScout entries may be classified into:
Red Entries without any kind of InterPro or GOA reference. They might be entries that could be first annotated as putative transcription factors from TranScout prediction.
Green Entries with an InterPro or GOA reference not in selected GO entries.
Former annotation might have a somewhat ambigous reference, such as just referring to nuclear localization or zinc finger (some nuclear or zinc-finger proteins are not transcription factors); or references initially unrelated to transcription factors. So, TranScout might reinforce the considered entry as a transcription factor, or suggest a new functionality to be regarded apart from the previously annotated one/s (moonlighting).
Blue Entries with an InterPro or GOA reference present in selected GO entries. They are very likely transcription factors since TranScout and InterPro/GOA coincide in their assignment.

As well, those entries with words such as hypothetical, putative or unknown in annotation description text, or even with no annotation at all, are also included in 'Incognito' group.

Additionally, detailed statistics of TRS motifs are provided for each organism.

Transcription Factors per Organism Analysis

Arabidopsis thaliana
Drosophila melanogaster
Homo sapiens
Mus musculus
Rattus norvegicus
Schizosaccharomyces pombe
Guillardia theta
Caenorhadbitis elegans
Saccharomyces cerevisiae

TRS motifs numbers in different Eukaryote Proteomes

Predicted TranScout putative Transcription Factors supported by Homology within TrSDB proteomes.

List of proteome entries detected as positive by TranScout, which have high similarity (BLAST with default parameters and threshold up to e-20) to other protein entries detected by TranScout. (listed up to 5 putative homologues and paralogues per organism). In right column, analyses are restricted to entries wich have at least 1 DNA-binding predicted contribution.

Arabidopsis thaliana6084Download5448Download
Drosophila melanogaster4195Download3806Download
Homo sapiens11621Download10713Download
Mus musculus10249Download9516Download
Rattus norvegicus7509Download6933Download
Schizosaccharomyces pombe958Download856Download
Guillardia theta38Download36Download
Caenorhadbitis elegans4675Download4289Download
Saccharomyces cerevisiae1005Download864Download

TrSDB version: 1.1
Sequence Sources: Proteome@EBI April 2003
InterPro: InterPro@EBI April 2003
GOA: GOA@EBI June 2003

Centre Prote˛mica i BioinformÓtica Aplicada