Screening of protein sequences databanks by Automat for search of host sequences integration and/or autoimmune disorders induction by retroviruses.
We have designed an efficient algorithm in order to detect systematically all the oligopeptides shared by a given protein with all the protein sequences in a databank. This software, Automat, also makes statistics on the number of shared oligopeptides. In the present study, we apply Automat on HIV-1 proteins to detect putative critical sites and to identify candidate viral antigens that may trigger autoimmune disorders. A list of pertinent similarities between HIV-1 proteins and human proteins, as detected by Automat, is reported.
Cantalloube
H M
HM
ONERA, Châtillon, France.
Nahum
C E
CE
Zagury
J F
JF
D000595:Amino Acid Sequence; D001327:Autoimmune Diseases / Q000378:metabolism* / Q000382:microbiology; D016208:Databases, Factual / Q000706:statistics & numerical data*; D015497:HIV-1 / Q000254:growth & development*; D006801:Humans; D012191:Retroviridae Proteins / Q000737:chemistry*; D017386:Sequence Homology, Amino Acid; D012984:Software; D014775:Virus Activation; D016662:Virus Integration
D012191:Retroviridae Proteins