Závěrečná práce: Matěj Zábojník, učo 493105: Online repository for exploring Boolean networks
Bakalářská práce
Online repository for exploring Boolean networks
Anotace
V oblasti výpočetní biologie jsou vizualizace a interpretace booleovských sítí důležité pro pochopení složitých biologických procesů. V této práci je prezentován vývoj webové aplikace, jež výrazně usnadňuje interakci s Biodivine repozitářem booleovských modelů, a tím zlepšuje dostupnost a vizualizaci Booleovských sítí. Aplikace nabízí pokročilé možnosti vyhledávání, intuitivní design uživatelského …více
Abstract
In the field of computational biology, the visualization and interpretation of Boolean Networks (BNs) are important for understanding complex biological processes. This thesis presents the development of web application, that significantly improves interaction with Biodivine Boolean Models repository, thus enhancing the accessibility and visualization of BNs. The application features advanced search …více
Zadání práce
Boolean networks represent one of the main frameworks for modeling biochemical processes in systems biology. As such, there exist various repositories and datasets of known networks that can be used for testing and tool comparisons. One of such repositories is "Biodivine Boolean Models (BBM)" [1], which hosts more than 200 models at the time of writing
The BBM repository is currently available through git, such that each network is augmented with basic metadata (for example the source, including the publication DOI, number of variables and regulations, basic structural properties, ...). However, this format is mainly optimized for easy machine readability.
The goal of this thesis is to use (and possibly extend) the BBM repository to build a web application that can communicate these biological models more clearly:
- The application should support search and filtering based on various criteria (search by model name, variable names, authors, sorting, or filtering by the variable count, input count, etc.)
- The application should be able to visualize the regulatory network of the model or to open it directly in the AEON tool (it is expected that the visualization component will be adapted from AEON)
- Data in the application will be automatically synchronized with the git repository.
21. 12. 2023 15:53, RNDr. Samuel Pastva, Ph.D., učo 410286
Práce na příbuzné téma
Seznam prací, které mají shodná klíčová slova.
-
Design and Implementation of the AEON Tool Frontend
Bc. Vojtěch Veselý -
Frontend of the AEON Sketchbook application
Ing. Petr Ivičič -
Gene Ontology Enrichment Analysis of Boolean Networks
Bc. et Bc. Dominik Zeman -
Využitie LLM na extrakciu formálnych vlastností biologických modelov z literatúry
Ing. Richard Harman -
Mobile Attendance System
Bc. Katarína Borgulová -
Towards Practical Identification of Asynchronous Boolean Networks
Mgr. Ondřej Lošťák -
Konverzia interakčných sietí na čiastočne špecifikované Booleovské siete v nástroji CaSQ
Mgr. Bc. Ivan Frák -
Library for Boolean function manipulation in Rust and Python
Bc. Ondřej Hrdlička, učo 514205




