RT Journal
A1 Louis, Alexandra
A1 Ollivier, Emmanuelle
A1 Aude, Jean-Christophe
A1 Risler, Jean-Loup
T1 Massive Sequence Comparisons as a Help in Annotating Genomic Sequences
JF Genome Research 
JO Genome Research 
YR 2001 
FD July 01 
VO 11 
IS 7 
SP 1296 
OP 1303 
DO 10.1101/gr.177601 
UL http://genome.cshlp.org/content/11/7/1296.abstract 
AB An all-by-all comparison of all the publicly available protein sequences from plants has been performed, followed by a clusterization process. Within each of the 1064 resulting clusters—containing sequences that are orthologous as well as paralogous—the sequences have been submitted to a pyramidal classification and their domains delineated by an automated procedure à la PRODOM. This process provides a means for easily checking for any apparent inconsistency in a cluster, for example, whether one sequence is shorter or longer than the others, one domain is missing, etc. In such cases, the alignment of the DNA sequence of the gene with that of a close homologous protein often reveals (in 10% of the clusters) probable sequencing errors (leading to frameshifts) or probable wrong intron/exon predictions. The composition of the clusters, their pyramidal classifications, and domain decomposition, as well as our comments when appropriate, are available fromhttp://chlora.infobiogen.fr:1234/PHYTOPROT.