Tasks and Visual Abstractions for 3D Chromatin Representation

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14330%2F25%3A00141654" target="_blank" >RIV/00216224:14330/25:00141654 - isvavai.cz</a>

Výsledek na webu

<a href="https://onlinelibrary.wiley.com/doi/10.1111/cgf.70142?af=R" target="_blank" >https://onlinelibrary.wiley.com/doi/10.1111/cgf.70142?af=R</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1111/cgf.70142" target="_blank" >10.1111/cgf.70142</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Tasks and Visual Abstractions for 3D Chromatin Representation

Popis výsledku v původním jazyce

The spatial organization of chromatin fiber directly influences its function. However, the high visual complexity of chromatin spatial models makes the understanding of the structure extremely challenging. Therefore, genomic researchers still primarily rely on indirect analysis of chromatin through 2D views, missing the advantages that 3D visualization can offer. In this paper, we first analyze the task space of genomic research and identify biological domain tasks that can benefit from dedicated spatial representations. We organize these tasks into four categories: tasks related to structural features, additional meta-data, structural relationships, and comparative tasks. We analyze these tasks in terms of their complexity, co-dependence, and potential benefits of 3D-based solutions. Secondly, we present four newly designed visual representations of chromatin 3D structure, focused on enhancing the understanding of structural features and solving relationships tasks. These include the hierarchical nature of spatial chromatin sub-units, their visual abstractions, spatial interactions, and a cumulative representation of chromatin dynamic behavior. We also include feedback from four domain researchers and discuss future steps necessary to make spatial representations valid and valuable part of genomic research.

Název v anglickém jazyce

Tasks and Visual Abstractions for 3D Chromatin Representation

Popis výsledku anglicky

The spatial organization of chromatin fiber directly influences its function. However, the high visual complexity of chromatin spatial models makes the understanding of the structure extremely challenging. Therefore, genomic researchers still primarily rely on indirect analysis of chromatin through 2D views, missing the advantages that 3D visualization can offer. In this paper, we first analyze the task space of genomic research and identify biological domain tasks that can benefit from dedicated spatial representations. We organize these tasks into four categories: tasks related to structural features, additional meta-data, structural relationships, and comparative tasks. We analyze these tasks in terms of their complexity, co-dependence, and potential benefits of 3D-based solutions. Secondly, we present four newly designed visual representations of chromatin 3D structure, focused on enhancing the understanding of structural features and solving relationships tasks. These include the hierarchical nature of spatial chromatin sub-units, their visual abstractions, spatial interactions, and a cumulative representation of chromatin dynamic behavior. We also include feedback from four domain researchers and discuss future steps necessary to make spatial representations valid and valuable part of genomic research.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)

Projekt

<a href="/cs/project/GA23-05651S" target="_blank" >GA23-05651S: ChromeXplore: interaktivní vizuální prozkoumávání chromatinu</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>S - Specificky vyzkum na vysokych skolach

Rok uplatnění

2025

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

COMPUTER GRAPHICS FORUM

ISSN

0167-7055

e-ISSN

1467-8659

Svazek periodika

44

Číslo periodika v rámci svazku

3

Stát vydavatele periodika

GB - Spojené království Velké Británie a Severního Irska

Počet stran výsledku

12

Strana od-do

1-12

Kód UT WoS článku

001493195800001

EID výsledku v databázi Scopus

2-s2.0-105005799251