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Connectivity mapping software tools | Drug discovery

Here, we surveyed bioinformatics software tools for exploring gene expression connectivity mapping. Interaction of a drug or chemical with a biological system can result in a gene-expression profile or signature characteristic of the event.…
iATC-mISF
Web

iATC-mISF

A web-server used to identify Anatomical Therapeutic Chemical (ATC) class.…

A web-server used to identify Anatomical Therapeutic Chemical (ATC) class. iATC-mISF was developed by incorporating the information of chemical-chemical interaction, the information of the structural…

TLA
Desktop

TLA tiered learning for prediction of ATC codes

Predicts the Anatomical Therapeutic Chemical (ATC) code of a compound. TLA is a…

Predicts the Anatomical Therapeutic Chemical (ATC) code of a compound. TLA is a learning architecture that can be utilized by any prediction method (classifier) to obtain highly accurate ATC…

Cogena
Desktop

Cogena Co-expressed gene-set enrichment analysis

A fully configurable framework for co-expressed gene set enrichment analysis.…

A fully configurable framework for co-expressed gene set enrichment analysis. By combining pathway analysis and drug repositioning analysis, Cogena provides a unique approach to imply the drug mode…

QUADrATiC
Desktop

QUADrATiC QUB Accelerated Drug And Transcriptomic Connectivity

A user-friendly tool for the exploration of gene expression connectivity on the…

A user-friendly tool for the exploration of gene expression connectivity on the subset of the library of integrated cellular signatures data set corresponding to FDA-approved small molecule…

cudaMap
Desktop

cudaMap

Allows detection of candidate therapeutics. cudaMap is a program containing…

Allows detection of candidate therapeutics. cudaMap is a program containing capability of gene expression connectivity mapping for robust candidate therapeutics selection. It can serve as a useful…

DIGEP-Pred
Web

DIGEP-Pred

Provides in silico prediction of drug-induced changes of gene expression…

Provides in silico prediction of drug-induced changes of gene expression profiles based on structural formula. DIGEP-Pred is a web application where predictions are based on Prediction of Activity…

ProbCMap
Desktop

ProbCMap Probabilistic connectivity mapping

A probabilistic drug connectivity mapping method that can be used to infer drug…

A probabilistic drug connectivity mapping method that can be used to infer drug similarities based on drug treatment gene expression measurements from multiple cell lines, such as the Connectivity…

sscMap
Desktop

sscMap statistically significant connections' map

A Java application designed to undertake connectivity mapping tasks. sscMap is…

A Java application designed to undertake connectivity mapping tasks. sscMap is bundled with a default collection of reference gene-expression profiles based on the publicly available dataset from the…

CMC
Web

CMC Connection Map for Compounds

Combines toxicity and efficacy of candidate drugs, expansibility of data and…

Combines toxicity and efficacy of candidate drugs, expansibility of data and algorithms, and customizes reference gene profiles. It is able to connect query gene expression profile signatures with a…

GSLHC
Web

GSLHC Gene-Set Local Hierarchical Clustering

A platform which is based on a GSA-based version of CMap, Gene-Set Connectivity…

A platform which is based on a GSA-based version of CMap, Gene-Set Connectivity Map (GSCMap), in which all the genomic profiles in CMap are converted, using gene-sets from the Molecular Signatures…

DMAP
Dataset

DMAP Drug directionality Map

An in silico drug-protein connectivity map, which contains directed…

An in silico drug-protein connectivity map, which contains directed drug-to-protein effects and effect scores. DMAP that can help drug development researchers evaluate what effects a drug may have on…

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