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Drug resistance tools

Software tools and databases to predict drug resistance.

GR Calculator
Web

GR Calculator

Allows to calculate and mine drug-response data. GR Calculator permits to…

Allows to calculate and mine drug-response data. GR Calculator permits to proceed analysis, and visualization of growth rate (GR) inhibition metrics. It can quantify how drug sensitivity changes in…

ARDB
Dataset

ARDB Antibiotic Resistance Genes Database

Provides a centralized compendium of information on antibiotic resistance and…

Provides a centralized compendium of information on antibiotic resistance and facilitates the consistent annotation of resistance information in newly sequenced organisms.

MEGARes
Dataset

MEGARes

A hand-curated antimicrobial resistance (AMR) database and annotation…

A hand-curated antimicrobial resistance (AMR) database and annotation structure. MEGARes provides a foundation for the development of high throughput acyclical classifiers and hierarchical…

HIV Drug…
Dataset

HIV Drug Resistance Database

A curated public database designed to represent, store, and analyse the…

A curated public database designed to represent, store, and analyse the divergent forms of data underlying HIV drug resistance.

VRprofile
Web

VRprofile

Identifies and localizes virulence or antibiotic resistance genes and extended…

Identifies and localizes virulence or antibiotic resistance genes and extended mobilome-related gene clusters as well, in sequenced bacterial genomes. VRprofile is assisted by CDSeasy to quickly…

HBVdb
Dataset

HBVdb Hepatitis B Virus database

Allows the researchers to investigate the genetic variability of the virus and…

Allows the researchers to investigate the genetic variability of the virus and the viral resistance to treatment.

g2p-HCV
Web

g2p-HCV geno2pheno-hepatitis-c-virus

An interpretation system to analyse hepatitis C virus (HCV) sequence data with…

An interpretation system to analyse hepatitis C virus (HCV) sequence data with respect to viral subtype and to predict drug resistance. g2p-HCV aligns the input sequences, identifies the genomic…

ARTS
Web
Desktop

ARTS Antibiotic Resistant Target Seeker

Allows for specific and efficient genome mining for antibiotics with…

Allows for specific and efficient genome mining for antibiotics with interesting and novel targets. ARTS automates the screening of large amounts of sequence data. It aims to focus on the most…

ARIBA
Desktop

ARIBA Antimicrobial Resistance Identification By Assembly

Uses a combined mapping/alignment and targeted local assembly approach to…

Uses a combined mapping/alignment and targeted local assembly approach to identify antimicrobial resistance (AMR) genes and variants efficiently and accurately from Illumina paired sequencing reads.…

GEAR
Dataset

GEAR Genomic Elements Associated with drug Resistance

Provides comprehensive information about genomic elements that are responsible…

Provides comprehensive information about genomic elements that are responsible for drug resistance. GEAR contains 1631 associations between 201 human drugs and 758 genes, 106 associations between 29…

FARME DB
Dataset

FARME DB

Focuses on functional metagenomic Antibiotic Resistance (AR) gene elements and…

Focuses on functional metagenomic Antibiotic Resistance (AR) gene elements and provides a resource to better understand AR. FARME DB is a database of DNA and protein sequences derived exclusively…

MATEPred
Web

MATEPred Multidrug And Toxin Extrusion proteins PREDiction

Identifies Multidrug And Toxin Extrusion (MATE) proteins. MATEPred is based on…

Identifies Multidrug And Toxin Extrusion (MATE) proteins. MATEPred is based on Position Specific Scoring Matrix (PSSM) and uses Support Vector Machine (SVM). It returns sequence number, score and…

The Resistome
Desktop

The Resistome

Contains over 5,000 mutants of Escherichia coli genotypes-phenotypes that…

Contains over 5,000 mutants of Escherichia coli genotypes-phenotypes that resist hundreds of compounds and environmental conditions. The Resistome is composed of flat key-value records, where each…

positionalmi
Desktop

positionalmi

A code for calculation and analysis of positional mutual information.…

A code for calculation and analysis of positional mutual information. positionalmi is an information-theoretic metric to sensitively and robustly detect both local and distant residues that affect…

Tuberculosis…
Dataset

Tuberculosis drug resistance mutation database

Enables the development of sequence based tools for diagnosis and surveillance…

Enables the development of sequence based tools for diagnosis and surveillance of drug resistance in tuberculosis.

GWAMAR
Desktop

GWAMAR Genome-wide assessment of mutations associated with drug resistance in bacteria

Employs eCAMBer tool to identify homologous gene families, mutations among the…

Employs eCAMBer tool to identify homologous gene families, mutations among the strains of interest and which mutations are the most associated with drug-resistance. GWAMAR is a pipeline developed for…

MACE
Dataset

MACE

Provides interactive tools for a huge amount of chemical response and gene…

Provides interactive tools for a huge amount of chemical response and gene expression data on cancer cell lines. Individual GI50 data of chemicals against NCI60 cell lines were normalized and…

BacMet
Dataset

BacMet

An easy-to-use bioinformatics resource of antibacterial biocide- and…

An easy-to-use bioinformatics resource of antibacterial biocide- and metal-resistance genes.

CARD
Dataset

CARD Comprehensive Antibiotic Resistance Database

Integrates disparate molecular and sequence data and provides a unique…

Integrates disparate molecular and sequence data and provides a unique organizing principle in the form of the Antibiotic. CARD is a manually curated resource containing high quality reference data…

ResistoMap
Dataset

ResistoMap

Displays the data on more than 1500 published gut metagenomes of world…

Displays the data on more than 1500 published gut metagenomes of world populations including both healthy subjects and patients. ResistoMap is a Web-based interactive visualization of the presence of…

MetaCherchant
Desktop

MetaCherchant

Extracts the genomic environment of antibiotic resistance genes from…

Extracts the genomic environment of antibiotic resistance genes from metagenomic data in the form of a graph. The MetaCherchant algorithm was validated on simulated datasets and applied to new…

Prediction of…
Web

Prediction of Drug Resistant HIV-1

Guides the selection of drugs to treat people with resistant infections. The…

Guides the selection of drugs to treat people with resistant infections. The tool applies the unified sequence/structure encoding and the machine learning algorithms, k-nearest neighbor (KNN) and…

SHIVA
Web

SHIVA

A web service for drug resistance prediction of commonly used drugs in…

A web service for drug resistance prediction of commonly used drugs in antiretroviral therapy, i.e., protease inhibitors (PIs), reverse transcriptase inhibitors (NRTIs and NNRTIs), and integrase…

Qnr-search
Desktop

Qnr-search

A method to detect and annotate novel classes of qnr antibiotic resistance…

A method to detect and annotate novel classes of qnr antibiotic resistance genes in nucleotide sequence data. Qnr-search uses a hidden Markov model with a fragment length-dependent classification…

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CREAM
Dataset

CREAM Chemotherapy ResistancE-Associated MiRSNP Database

A free online database depositing the functional miRSNP associated with…

A free online database depositing the functional miRSNP associated with chemotherapy resistance. CREAM can constitute an authoritative resource for the chemotherapy research and clinical practice…

GRmetrics
Desktop

GRmetrics

Allows to calculate and visualize growth-rate inhibition (GR) metrics.…

Allows to calculate and visualize growth-rate inhibition (GR) metrics. GRmetrics is able to create boxplots of a given GR metric or traditional metric for values of the grouping variable.

BLAD
Dataset

BLAD Beta-Lactamase Database

A comprehensive database of widely circulated B-Lactamases.

A comprehensive database of widely circulated B-Lactamases.

Biozyne P-gp…
Web

Biozyne P-gp Predictor

Uses a Support Vector Machine classifier to predict, with high accuracy,…

Uses a Support Vector Machine classifier to predict, with high accuracy, whether a compound is likely to be a substrate of the P-gp drug efflux pump. Moreover, The BioZyne P-gp server outputs the…

MUBII-TB-DB
Dataset

MUBII-TB-DB

A structured database of the mutations occurring at seven loci of major…

A structured database of the mutations occurring at seven loci of major therapeutic value in tuberculosis management.

LacED
Dataset

LacED Lactamase Engineering Database

Enables a systematic analysis of TEM beta-lactamase sequence and annotation…

Enables a systematic analysis of TEM beta-lactamase sequence and annotation data from different data sources.

SHVED
Dataset

SHVED SHV beta-Lactamase Engineering Database

Developed to collect the SHV beta-lactamase sequences from the NCBI protein…

Developed to collect the SHV beta-lactamase sequences from the NCBI protein database and the SHV mutation table.

HerceptinR
Dataset

HerceptinR

A database of assays performed to test sensitivity or resistance of Herceptin…

A database of assays performed to test sensitivity or resistance of Herceptin Antibodies towards breast cancer cell lines.

ARGO
Dataset

ARGO Antibiotic Resistance Genes Online

A database for storing genetic information on β-lactam and vancomycin…

A database for storing genetic information on β-lactam and vancomycin resistance genes. ARGO is designed as a resource to enhance research on the prevalence and spread of antibiotic resistance…

The Lahey…
Dataset

The Lahey clinic database

ß-Lactamase classification and amino acid sequences for TEM, SHV and OXA…

ß-Lactamase classification and amino acid sequences for TEM, SHV and OXA extended-spectrum and inhibitor resistant enzymes. These tables grew out of an attempt to standardize the nomenclature for…

ResistanceMap
Web

ResistanceMap

A collection of tools summarizing national and subnational data on…

A collection of tools summarizing national and subnational data on antimicrobial use and resistance in North America and Europe.

EARS-Net
Dataset
HCMV drug…
Dataset

HCMV drug resistance mutations

A tool linking human cytomegalovirus drug resistance mutations to resistance…

A tool linking human cytomegalovirus drug resistance mutations to resistance phenotypes.

TAMI
Dataset

TAMI The AntiMicrobial Index

Contains both susceptibility and potency data for thousands of microorganisms…

Contains both susceptibility and potency data for thousands of microorganisms and antimicrobial agents.

CancerDR
Web

CancerDR Cancer Drug Resistance database

Provides information of 148 anti-cancer drugs, and their pharmacological…

Provides information of 148 anti-cancer drugs, and their pharmacological profiling across 952 cancer cell lines. CancerDR provides comprehensive information about each drug target that includes; (i)…

HIV databases
Dataset

HIV databases

Contains comprehensive data on HIV genetic sequences and immunological…

Contains comprehensive data on HIV genetic sequences and immunological epitopes. HIV databases gives access to a large number of tools that can be used to analyze and visualize these data. The HIV…

CBMAR
Dataset

CBMAR

beta-Lactam antibiotics are among the most widely used antibiotics against…

beta-Lactam antibiotics are among the most widely used antibiotics against microbial pathogens. CBMAR facilitates comprehensive molecular annotation and discovery of novel beta-lactamases. As against…

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