HOME
Antimicrobial peptides (AMPs) are being explored as substitutes to antibiotics. The broad range of activity of AMPs, multiple cellular targets and their ability to inhibit multi-drug resistant microbes make them ideal candidates as future drugs.
To explore AMPs as drugs it is essential to understand sequence-specificity relationship of AMPs. ClassAMP has been developed using Random Forests method to understand the role of sequence of AMPs in its specificity towards bacteria, fungii and viruses.
Two algorithms have been developed for prediction of antibacterial, antifungal and antiviral peptides based on their sequence features. The models were trained and tested on sequences from the CAMP database. The antibacterial, antifungal and antiviral models gave an MCC of 0.92, 0.83 and 0.96 respectively.
A Help option explaining the input format for prediction and the results has been provided.
This work has been funded by grants from Department of Science & Technology, India and Indian Council of Medical Research.
Citation:
-
Joseph S, Karnik S, Nilawe P, Valadi J, Idicula-Thomas S. (2012). ClassAMP: A Prediction Tool for Classification of Antimicrobial Peptides. IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM. 9. doi: 10.1109/TCBB.2012.89.
-
Collection of antimicrobial peptides database and its derivatives: Applications and beyond. Waghu FH, Idicula-Thomas S. Protein Sci. 2020 Jan;29(1):36-42. doi: 10.1002/pro.3714. Epub 2019 Sep 30.
People involved:
Ms. Shaini Joseph |
NIRRH, Mumbai |
Mr. Shreyas Karnik |
School of Informatics, Indiana University |
Mr. Ram Shankar Barai |
NIRRH, Mumbai |
Mr. Pravin Nilawe |
NIRRH, Mumbai |
Dr. V. K. Jayaraman |
CDAC, Pune |
Dr. Susan Idicula-Thomas |
NIRRH, Mumbai |
Contact us: camp@bicnirrh.res.in