Tag: Drug

DGIdb v2.22 – Rails Frontend to The Genome Institute’s Drug Gene Interaction Database

DGIdb v2.22

:: DESCRIPTION

The DGIdb (Drug-Gene Interaction database) mines existing resources that generate hypotheses about how mutated genes might be targeted therapeutically or prioritized for drug development.

::DEVELOPER

The Genome Institute at Washington University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/MacOsX

:: DOWNLOAD

 DGIdb

:: MORE INFORMATION

Citation:

Nat Methods. 2013 Dec;10(12):1209-10. doi: 10.1038/nmeth.2689. Epub 2013 Oct 13.
DGIdb: mining the druggable genome.
Griffith M1, Griffith OL, Coffman AC, Weible JV, McMichael JF, Spies NC, Koval J, Das I, Callaway MB, Eldred JM, Miller CA, Subramanian J, Govindan R, Kumar RD, Bose R, Ding L, Walker JR, Larson DE, Dooling DJ, Smith SM, Ley TJ, Mardis ER, Wilson RK.

iMolview 1.9.5 – iPhone, iPad and Android App for Browsing Protein, DNA & Drug Molecules in 3D

iMolview 1.9.5

:: DESCRIPTION

iMolview is an app for the iPhone , iPad and Android that lets you browse protein, DNA, and drug molecules in 3D. The app has a direct link to the Protein Data Bank (PDB) and DrugBank and has a fast and easy to use interface. Touching the molecules via the screen allows you to interact immediately with the 3D structures in a unique way. You can zoom in and out, rotate, spin, pan, and clip the 3D molecules with your finger tips in ways that are impossible using a traditional mouse and desktop computer.

::DEVELOPER

Molsoft LLC.

:: SCREENSHOTS

:: REQUIREMENTS

  • IPhone / IPad / Android

:: DOWNLOAD

iMolview

:: MORE INFORMATION

PrePPItar 0.0.1 – Machine Learning Framework to Predict PPI Target for Drug

PrePPItar 0.0.1

:: DESCRIPTION

PrePPItar is a computational method to Predict PPIs as drug targets by uncovering the potential associations between drugs and PPIs.

::DEVELOPER

Optimization and Computational Systems Biology Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows
  • MatLab

:: DOWNLOAD

 PrePPItar

:: MORE INFORMATION

Citation:

Computational probing protein-protein interactions targeting small molecules.
Wang YC, Chen SL, Deng NY, Wang Y.
Bioinformatics. 2015 Sep 28. pii: btv528.

multiMiR 1.0.1 – Integration of microRNA-target Interactions along with their Disease and Drug Associations

multiMiR 1.0.1

:: DESCRIPTION

The R package multiMiR is a comprehensive collection of predicted and validated miRNA-target interactions and their associations with diseases and drugs.

::DEVELOPER

Yuanbin Ru at Windber Research Institute & Katerina Kechris at the University of Colorado Denver.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux
  • R

:: DOWNLOAD

 multiMiR

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2014;42(17):e133. doi: 10.1093/nar/gku631. Epub 2014 Jul 24.
The multiMiR R package and database: integration of microRNA-target interactions along with their disease and drug associations.
Ru Y, Kechris KJ, Tabakoff B, Hoffman P, Radcliffe RA, Bowler R, Mahaffey S, Rossi S, Calin GA, Bemis L, Theodorescu D.

Drug Gene Budger 1.0 – Identify Drugs and Small Molecules to Regulate Expression of Target Genes

Drug Gene Budger 1.0

:: DESCRIPTION

DGB (Drug Gene Budger) is a web-based and mobile application developed to assist investigators in order to prioritize small molecules that are predicted to maximally influence the expression of their target gene of interest.

::DEVELOPER

Ma’ayan Laboratory

:: SCREENSHOTS

:: REQUIREMENTS

  • iOS/ Android

:: DOWNLOAD

for iOS / for Androd.

:: MORE INFORMATION

Citation

Bioinformatics. 2019 Apr 1;35(7):1247-1248. doi: 10.1093/bioinformatics/bty763.
Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures.
Wang Z, He E, Sani K, Jagodnik KM, Silverstein MC, Ma’ayan A

iNR-Drug – Predicting drug-NR interaction in Cellular Networking

iNR-Drug

:: DESCRIPTION

The webserver iNR-Drug was developed for predicting interaction between NRs (Nuclear receptors) and drugs in the cellular networks.

::DEVELOPER

Xiao Lab

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

iNR-Drug: predicting the interaction of drugs with nuclear receptors in cellular networking.
Fan YN, Xiao X, Min JL, Chou KC.
Int J Mol Sci. 2014 Mar 19;15(3):4915-37. doi: 10.3390/ijms15034915.

iGPCR-Drug – Predicting Drug-GPCR Interaction in Cellular Networking

iGPCR-Drug

:: DESCRIPTION

The webserver iGPCR-Drug was developed for predicting interaction between GPCRs and drugs in the cellular networks.

::DEVELOPER

Xiao Lab

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PLoS One. 2013 Aug 27;8(8):e72234. doi: 10.1371/journal.pone.0072234. eCollection 2013.
iGPCR-drug: a web server for predicting interaction between GPCRs and drugs in cellular networking.
Xiao X1, Min JL, Wang P, Chou KC.

CancerDP – Prioritization of Anticancer Drugs

CancerDP

:: DESCRIPTION

CancerDP is a web server for predicting priority/potency of an anticancer drug against a cancer cell line using its genomic features

::DEVELOPER

CancerDP team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Prioritization of anticancer drugs against a cancer using genomic features of cancer cells: A step towards personalized medicine.
Gupta S, Chaudhary K, Kumar R, Gautam A, Nanda JS, Dhanda SK, Brahmachari SK, Raghava GP.
Sci Rep. 2016 Mar 31;6:23857. doi: 10.1038/srep23857.