Target Explorer – Identification of new Target Genes for a specified set of Transcription Factors

Target Explorer

:: DESCRIPTION

Target Explorer automates the entire process from the creation of a customized library of binding sites for known transcription factors through the prediction and annotation of putative target genes that are potentially regulated by these factors

::DEVELOPER

Barry Honig’s group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2003 Jul 1;31(13):3589-92.
Target Explorer: An automated tool for the identification of new target genes for a specified set of transcription factors.
Sosinsky A, Bonin CP, Mann RS, Honig B.

miRSystem 20160511 – miRNA integrated System for Target Genes Prediction

miRSystem 20160511

:: DESCRIPTION

MiRSystem is a user-friendly tool for predicting the target genes and their associated pathways for many miRNAs simultaneously. miRSystem integrates seven well known miRNA target gene prediction programs: DIANA, miRanda, miRBridge, PicTar, PITA, rna22, and TargetScan.

::DEVELOPER

Bioinformatics and Biostatistics Core,NTU Center of Genomic Medicine,National Taiwan University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

PLoS One. 2012;7(8):e42390. doi: 10.1371/journal.pone.0042390. Epub 2012 Aug 1.
miRSystem: an integrated system for characterizing enriched functions and pathways of microRNA targets.
Lu TP1, Lee CY, Tsai MH, Chiu YC, Hsiao CK, Lai LC, Chuang EY.

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

RIP 1.1 – Predicting Target Genes of Transcription Factors

RIP 1.1

:: DESCRIPTION

RIP (regulatory interaction predictor) is a machine learning approach that inferred 73,923 RIs for 301 human TFs and 11,263 target genes with considerably good quality and 4,516 RIs with very high quality. The inference of RIs is independent of any specific condition.

::DEVELOPER

EILSLABS

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux/Windows
R package

:: DOWNLOAD

RIP

:: MORE INFORMATION

Citation

Bioinformatics. 2011 Aug 15;27(16):2239-47. doi: 10.1093/bioinformatics/btr366. Epub 2011 Jun 20.
RIP: the regulatory interaction predictor–a machine learning-based approach for predicting target genes of transcription factors.
Bauer T, Eils R, König R.