Enhanced Graph Representations of Chromatin Interaction Networks

Edgars Celms, Lelde Lace, Gatis Melkus, Peteris Rucevskis, Sandra Silina, Andrejs Sizovs, Juris Viksna

2025

Abstract

We present a novel extension of graph representations of chromatin interaction networks incorporating edge directionality and vertex label assignments and focus on patterns defined by different types of 3-cliques that can occur under such assignments. 3-cliques are chosen for their simplicity and comparative ubiquity in chromatin interaction graphs; also, our previous work indicates a certain level of biological significance that can be assigned to them. Here we explore statistical distributions of different types of directionality- and strand-based 3-cliques patterns in two well-curated promoter capture Hi-C data sets and observe that the pattern distributions strongly deviate from random, if they are considered in the context of a number of additional features. These observations provide a good justification for further exploration of chromatin interaction data sets using network representations that include edge directionality and node label assignments and indicate a possibility that these annotation features could be related to some specific underlying biological mechanisms.

Paper Citation

in Harvard Style

Celms E., Lace L., Melkus G., Rucevskis P., Silina S., Sizovs A. and Viksna J. (2025). Enhanced Graph Representations of Chromatin Interaction Networks. In Proceedings of the 18th International Joint Conference on Biomedical Engineering Systems and Technologies - Volume 1: BIOINFORMATICS; ISBN 978-989-758-731-3, SciTePress, pages 579-585. DOI: 10.5220/0013173100003911

in Bibtex Style

@conference{bioinformatics25,
author={Edgars Celms and Lelde Lace and Gatis Melkus and Peteris Rucevskis and Sandra Silina and Andrejs Sizovs and Juris Viksna},
title={Enhanced Graph Representations of Chromatin Interaction Networks},
booktitle={Proceedings of the 18th International Joint Conference on Biomedical Engineering Systems and Technologies - Volume 1: BIOINFORMATICS},
year={2025},
pages={579-585},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0013173100003911},
isbn={978-989-758-731-3},
}

in EndNote Style

TY - CONF

JO - Proceedings of the 18th International Joint Conference on Biomedical Engineering Systems and Technologies - Volume 1: BIOINFORMATICS
TI - Enhanced Graph Representations of Chromatin Interaction Networks
SN - 978-989-758-731-3
AU - Celms E.
AU - Lace L.
AU - Melkus G.
AU - Rucevskis P.
AU - Silina S.
AU - Sizovs A.
AU - Viksna J.
PY - 2025
SP - 579
EP - 585
DO - 10.5220/0013173100003911
PB - SciTePress