BART: a transcription factor prediction tool with query gene sets or epigenomic profiles
نویسندگان
چکیده
منابع مشابه
SiTaR: a novel tool for transcription factor binding site prediction
MOTIVATION Prediction of transcription factor binding sites (TFBSs) is crucial for promoter modeling and network inference. Quality of the predictions is spoiled by numerous false positives, which persist as the main problem for all presently available TFBS search methods. RESULTS We suggest a novel approach, which is alternative to widely used position weight matrices (PWMs) and Hidden Marko...
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Identification of the higher-order genome organization has become a critical issue for better understanding of how one dimensional genomic information is being translated into biological functions. In this study, we present a supervised approach based on Random Forest classifier to predict genome-wide three-dimensional chromatin interactions in human cell lines using 1D epigenomics profiles. At...
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Multi-sample microarray experiments have become a standard experimental method for studying biological systems. A frequent goal in such studies is to unravel the regulatory relationships between genes. During the last few years, regression models have been proposed for the de novo discovery of cis-acting regulatory sequences using gene expression data. However, when applied to multi-sample expe...
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Towards the lofty goal of understanding the complex behavior of a cell, it has become common practice to divide a cell’s functionality into components, or layers, such as the metabolic layer, the genomic layer, and the proteomic layer. This reductionistic, divide-and-conquer approach facilitates learning about cells by restricting complexity and the scope of a given question, with the realizati...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2018
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/bty194