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Associated diseases

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iTAR specifications

Information


Unique identifier OMICS_13463
Name iTAR
Interface Application programming interface
Restrictions to use None
Input data The iTAR web server takes as input a ChIP-seq/ChIPchip signal track file and optionally a binding peak file for a TF.
Output data The main output consists of five panels that include (i) a table summarizing the parameter and input settings, (ii) a characteristic binding profile of the TF, (iii) the distribution of normalized regulatory scores for all genes, (iv) a list of significant genes and (optionally) their associated TF peak binding sites, and (v) a list of significantly enriched GO terms.
Programming languages Java
Computer skills Advanced
Stability Stable
Requirements
R, segmented, nor1mix, mixtools
Maintained Yes

Maintainer


  • person_outline Chao Cheng <>

Information


Unique identifier OMICS_13463
Name iTAR
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data The iTAR web server takes as input a ChIP-seq/ChIPchip signal track file and optionally a binding peak file for a TF.
Output data The main output consists of five panels that include (i) a table summarizing the parameter and input settings, (ii) a characteristic binding profile of the TF, (iii) the distribution of normalized regulatory scores for all genes, (iv) a list of significant genes and (optionally) their associated TF peak binding sites, and (v) a list of significantly enriched GO terms.
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Requirements
R, segmented, nor1mix, mixtools
Maintained Yes

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Maintainer


  • person_outline Chao Cheng <>

Publication for iTAR

iTAR institution(s)
Institute of Molecular Biology, National Chung Hsing University, Taichung, Taiwan; Institute of Genomics and Bioinformatics, National Chung Hsing University, Taichung, Taiwan; Institute of Biomedical Sciences, National Chung Hsing University, Taichung, Taiwan; Agricultural Biotechnology Center, National Chung Hsing University, Taichung, Taiwan; Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA; Department of Genetics, Geisel School of Medicine at Dartmouth, Hanover, NH, USA; Geisel School of Medicine at Dartmouth, Institute for Quantitative Biomedical Sciences, Lebanon, NH, USA; Norris Cotton Cancer Center, Geisel School of Medicine at Dartmouth, Lebanon, NH, USA
iTAR funding source(s)
This work is supported by the American Cancer Society Research grant IRG-82-003-27, the Centers of Biomedical Research Excellence (COBRE) grant GM103534, the start-up funding package from the Geisel School of Medicine at Dartmouth College, and the Taiwan Ministry of Science and Technology [MOST 104-2621-M-005-005-MY3 and MOST 104-2320-B-005-005].

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