Computational Methods and Tools for Epitranscriptome

Dear Colleagues,

Over 100 types of chemical modifications (e.g., m6A) have been identified in non-coding RNAs (ncRNAs) and protein-coding genes. These RNA modifications are functionally significant and play important roles in developmental, physiological, and pathological processes. Recent advances in high-throughput next-generation epitranscriptome sequencing technologies have identified thousands of modification sites of RNA molecules at unprecedented sensitivity and depth and provided new biological insight into the complex gene regulatory mechanisms of epitranscriptomic codes. The availability of large epitranscriptome sequencing data for various RNA modification types has stimulated the need to develop novel computational methods and tools for exploring the prevalence, mechanism, and function of modifications, and finally to link these epitranscriptomic codes to a variety of diseases, such as cancer, metabolic disorders, and neurological diseases.

This Special Issue of Non-Coding RNA will be devoted to original papers and reviews on computational methods, tools, and databases for RNA epigenetics or ncRNA research. This Issue emphasizes various types of RNA modification types or ncRNAs. The scope of this Special Issue includes but is not limited to the following subjects:

(1) Novel computational methods, tools, or databases of RNA modifications or ncRNAs;

(2) New software or pipelines for identifying RNA modification sites or ncRNAs from RNA-seq data or genomic sequences;

(3) Predicting the interactions between RNA-Binding Proteins (RBPs) and modications/ncRNAs;

(4) Computational analysis of RNA modifications in ncRNAs;

(5) Predicting the targets and functions of RNA Modifying Proteins (RMPs);

(6) Decoding the relationships between RNA modification and RNA structurome;

(7) Computational identification of disease-related RNA modifications and ncRNAs;

(8) Computational methods or tools for discovering the writers, readers, and erasers of various types of RNA modification types;

(9) Predicting functions and signaling pathways influenced by RNA modifications or ncRNAs.

Prof. Dr. Jian-Hua Yang
Dr. Xiao-Qin Zhang
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Non-Coding RNA is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1800 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

• Epitranscriptome
• RNA modification
• ncRNA
• m6A
• lncRNA
• circRNA
• miRNA
• snoRNA
• database
• software
• pipeline
• tool
• RNA modifying protein
• writer
• reader
• eraser
• pathway analysis