NDLI: A Novel Sequence-Structure Approach for Accurate Prediction of Resistance to HIV-1 Protease Inhibitors

Content Provider	IEEE Xplore Digital Library
Author	Masso, M. Vaisman, I.I.
Copyright Year	2007
Description	Author affiliation: George Mason Univ., Manassas (Masso, M.; Vaisman, I.I.)
Abstract	Phenotypic tests are useful for measuring the degree of resistance of HIV-1 protease mutants to commercially available inhibitors. However, these tests are expensive and time-consuming, and phenotyping has been performed on only a fraction of the nearly 400 distinct patient-derived protease mutants. We employed a computational mutagenesis methodology, incorporating both sequence and structure information, to generate a feature vector representation for each of the isolated protease mutants. Training sets were prepared for seven protease inhibitors, each consisting of protease mutants with known phenotypes. Four machine-learning algorithms were implemented, and random forest performed best at distinguishing between sensitive/resistant mutants based on area under the ROC curve (0.81 -0.92). Trained models were used to make predictions about recently assayed protease mutants and displayed 83% agreement with the experimental data. The results suggest that susceptibility of unassayed protease mutants to each inhibitor can be reliably predicted.
Starting Page	952
Ending Page	958
File Size	2756195
Page Count	7
File Format	PDF
ISBN	9781424415090
DOI	10.1109/BIBE.2007.4375673
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2007-10-14
Publisher Place	USA
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Inhibitors Genetic mutations Immune system Predictive models Proteins Machine learning Amino acids Testing Electrical resistance measurement Drugs machine learning HIV-1 drug resistance HIV-1 protease inhibitors resistance mutations statistical geometry
Content Type	Text
Resource Type	Article

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in