Auflistung Nach Schlagwort "transcription initiation site"

DeepTSS: multi-branch convolutional neural network for transcription start site identification from CAGE data

Grigoriadis D., Perdikopanis N., Georgakilas G.K., Hatzigeorgiou A.G. (2022)

Background: The widespread usage of Cap Analysis of Gene Expression (CAGE) has led to numerous breakthroughs in understanding the transcription mechanisms. Recent evidence in the literature, however, suggests that CAGE ...

DIANA-mirExTra v2.0: Uncovering microRNAs and transcription factors with crucial roles in NGS expression data

Vlachos I.S., Vergoulis T., Paraskevopoulou M.D., Lykokanellos F., Georgakilas G., Georgiou P., Chatzopoulos S., Karagkouni D., Christodoulou F., Dalamagas T., Hatzigeorgiou A.G. (2016)

Differential expression analysis (DEA) is one of the main instruments utilized for revealing molecular mechanisms in pathological and physiological conditions. DIANA-mirExTra v2.0 (http://www.microrna. gr/mirextrav2) ...

DIANA-miRGen v3.0: Accurate characterization of microRNA promoters and their regulators

Georgakilas G., Vlachos I.S., Zagganas K., Vergoulis T., Paraskevopoulou M.D., Kanellos I., Tsanakas P., Dellis D., Fevgas A., Dalamagas T., Hatzigeorgiou A.G. (2016)

MicroRNAs (miRNAs) are small non-coding RNAs that actively fine-tune gene expression. The accurate characterization of the mechanisms underlying miRNA transcription regulation will further expand our knowledge regarding ...

DIANA-miRGen v4: Indexing promoters and regulators for more than 1500 microRNAs

Perdikopanis N., Georgakilas G.K., Grigoriadis D., Pierros V., Kavakiotis I., Alexiou P., Hatzigeorgiou A. (2021)

Deregulation of microRNA (miRNA) expression plays a critical role in the transition from a physiological to a pathological state. The accurate miRNA promoter identification in multiple cell types is a fundamental endeavor ...

Identifying pri-miRNA transcription start sites

Georgakilas G., Perdikopanis N., Hatzigeorgiou A.G. (2018)

MicroRNAs (miRNAs) are small non-coding RNAs that can regulate gene expression playing vital role in nearly all biological pathways. Even though miRNAs have been intensely studied for more than two decades, information ...

microTSS: Accurate microRNA transcription start site identification reveals a significant number of divergent pri-miRNAs

Georgakilas, G.; Vlachos, I. S.; Paraskevopoulou, M. D.; Yang, P.; Zhang, Y.; Economides, A. N.; Hatzigeorgiou, A. G. (2014)

A large fraction of microRNAs (miRNAs) are derived from intergenic non-coding loci and the identification of their promoters remains 'elusive'. Here, we present microTSS, a machine-learning algorithm that provides highly ...

A Positive Regulatory Loop between a Wnt-Regulated Non-coding RNA and ASCL2 Controls Intestinal Stem Cell Fate

Giakountis A., Moulos P., Zarkou V., Oikonomou C., Harokopos V., Hatzigeorgiou A.G., Reczko M., Hatzis P. (2016)

The canonical Wnt pathway plays a central role in stem cell maintenance, differentiation, and proliferation in the intestinal epithelium. Constitutive, aberrant activity of the TCF4/β-catenin transcriptional complex is the ...

Solving the transcription start site identification problem with ADAPT-CAGE: a Machine Learning algorithm for the analysis of CAGE data

Georgakilas G.K., Perdikopanis N., Hatzigeorgiou A. (2020)

Cap Analysis of Gene Expression (CAGE) has emerged as a powerful experimental technique for assisting in the identification of transcription start sites (TSSs). There is strong evidence that CAGE also identifies capping ...