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Publication for ProTISA
A Novel Quality Measure and Correction Procedure for the Annotation of Microbial Translation Initiation Sites
[…] . For instance, TICO  was developed to improve the accuracy of TIS annotation by performing an unsupervised classification of strong-TIS and weak-TIS sequences. Similarly, various resources such as ProTISA  and SupTISA  have accumulated (post-processed) predictions from different sources. In ORFcor, orthologous sequences are used to identify and correct inconsistencies in the gene and TIS an […]
Leaderless genes in bacteria: clue to the evolution of translation initiation mechanisms in prokaryotes
[…] his study were downloaded from RefSeq in 2010 . List of the genomes is available at our webpage . To perform analyses of TIS upstream regions, annotations of TISs were collected from the database ProTISA  or predicted by TriTISA . ProTISA collects TIS confirmed through a variety of available evidences for prokaryotic genomes, including Swiss-Prot experiments record, literature (IPT), conse […]
Genome reannotation of Escherichia coli CFT073 with new insights into virulence
[…] FT073. In fact, with an alignment of N-terminal sequences (21 amino acids, 100% identity), this has been implemented as a part of a TIS annotation pipeline previously developed for any genome, namely ProTISA . To have high quality of gene start annotation, herein we applied the ProTISA pipeline for gene start relocation of the CFT073 genome .Briefly, TISs of genes are collected from 1) experim […]
Computational evaluation of TIS annotation for prokaryotic genomes
[…] et needs to be as reliable as possible, and should not be biased towards any database/predictor to be evaluated. We have chosen to use the six most recent TIS databases/predictors, namely, RefSeq , ProTISA , EasyGene [,], GeneMarkS , Glimmer 3  and TiCo , to derive the reference set. For any genome, we obtained the reference TIS set by intersecting the annotations of all six databases/pr […]
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