Transcriptome-wide analysis of natural antisense transcripts shows their potential role in breast cancer.

[en] Non-coding RNAs (ncRNA) represent 1/5 of the mammalian transcript number, and 90% of the genome length is transcribed. Many ncRNAs play a role in cancer. Among them, non-coding natural antisense transcripts (ncNAT) are RNA sequences that are complementary and overlapping to those of either protein-coding (PCT) or non-coding transcripts. Several ncNATs were described as regulating protein coding gene expression on the same loci, and they are expected to act more frequently in cis compared to other ncRNAs that commonly function in trans. In this work, 22 breast cancers expressing estrogen receptors and their paired adjacent non-malignant tissues were analyzed by strand-specific RNA sequencing. To highlight ncNATs potentially playing a role in protein coding gene regulations that occur in breast cancer, three different data analysis methods were used: differential expression analysis of ncNATs between tumor and non-malignant tissues, differential correlation analysis of paired ncNAT/PCT between tumor and non-malignant tissues, and ncNAT/PCT read count ratio variation between tumor and non-malignant tissues. Each of these methods yielded lists of ncNAT/PCT pairs that were enriched in survival-associated genes. This work highlights ncNAT lists that display potential to affect the expression of protein-coding genes involved in breast cancer pathology.

Disciplines :

Genetics & genetic processes

Author, co-author :

Wenric, Stéphane ; Université de Liège - ULiège > Département des sciences biomédicales et précliniques > GIGA-R : Génétique humaine

ElGuendi, Sonia

CABERG, Jean-Hubert ; Centre Hospitalier Universitaire de Liège - CHU > Service de génétique

Bezzaou, Warda

Fasquelle, Corinne ; Université de Liège - ULiège > Département des sciences biomédicales et précliniques > GIGA-R : Génétique humaine

Charloteaux, Benoît ; Université de Liège - ULiège > GIGA-Research

Karim, Latifa ; Université de Liège - ULiège > Département des sciences de la vie > GIGA-R : Biologie et génétique moléculaire

Hennuy, Benoît

FRERES, Pierre ; Centre Hospitalier Universitaire de Liège - CHU > Service d'oncologie médicale

COLLIGNON, Joëlle ; Centre Hospitalier Universitaire de Liège - CHU > Service d'oncologie médicale

More authors (7 more)

Language :

English

Title :

Transcriptome-wide analysis of natural antisense transcripts shows their potential role in breast cancer.

Publication date :

2017

Journal title :

Scientific Reports

eISSN :

2045-2322

Publisher :

Nature Publishing Group, London, United Kingdom

Volume :

Issue :

Pages :

17452

Peer reviewed :

Peer Reviewed verified by ORBi

Available on ORBi :

since 19 January 2018

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