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Associative knowledge graphs for efficient sequence storage and retrieval

delete2025-05-30
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OA
AI
P
Przemysław Stokłosa
J
Janusz A. Starzyk
P
Paweł Raif
A
Adrian Horzyk
M
M. Kowalik
DOI:10.1016/j.cmpb.2025.108865delete
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Abstract

Abstract

En 中文
• This paper presents a new method for building associative knowledge graphs (AKG). • The AKGs excel at storing and identifying sequential information. • Presented AKGs are highly effective for storing and recognizing sequences. • To recover sequences, we utilize contextual information. • Providing a portion of the sequence triggers the retrieval of the complete sequence. • We confirmed these relationships with various sequence experiments. • The method efficiently identifies miRNA sequences, as an example demonstrates. • We provide access to the SSAKG package for Python. • It allows to test the presented concept and use it in other projects. • We provide application examples on GitHub (user-friendly Jupyter notebooks).

Journal

Computer Methods and Programs in Biomedicine cover
Computer Methods and Programs in Biomedicine
IF:
4.8
Papers:
7.0K
Citations:
2.1W

Organization

No organization information available
Cited Papers

Cited Papers

DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows
err2013-05-16
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errParaskevopoulou, Maria D.; Georgakilas, Georgios; Kostoulas, Nikos; Vlachos, Ioannis S.; Vergoulis, Thanasis; Reczko, Martin; Filippidis, Christos; Dalamagas, Theodore; Hatzigeorgiou, A. G.
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Stopwords in technical language processing
err2021-08-05
err0
errOAAI
errSerhad Sarica; Jianxi Luo
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Suicide and Changes in Expression of Neuronal miRNA Predicted by an Algorithm Search through miRNA Databases
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IF0
err2022-03-23
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PREAI
errAlja Videtič Paska; Urban Alič; Tomaž Zupanc; Katarina Kouter
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Graph neural networks: A review of methods and applications
err2020-01-01
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errOAAI
errJie Zhou; Ganqu Cui; Shengding Hu; Zhengyan Zhang; Cheng Yang; Zhiyuan Liu; Lifeng Wang; Changcheng Li; Maosong Sun
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Knowledge Graphs
err2021-07-02
err449
errOAAI
errHogan, Aidan; Blomqvist, Eva; Cochez, Michael; D'Amato, Claudia; de Melo, Gerard; Gutierrez, Claudio; Kirrane, Sabrina; Labra Gayo, Jose Emilio; Navigli, Roberto; Neumaier, Sebastian; Ngomo, Axel-Cyrille Ngonga; Polleres, Axel; Rashid, Sabbir M.; Rula, Anisa; Schmelzeisen, Lukas; Sequeda, Juan; Staab, Steffen; Zimmermann, Antoine
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miRBase: integrating microRNA annotation and deep-sequencing data
err2010-10-30
err3.4K
errOAAI
errKozomara, Ana; Griffiths-Jones, Sam
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Integration of Semantic and Episodic Memories
err2017-12-01
err24
PREAI
errHorzyk, Adrian; Starzyk, Janusz A.; Graham, James
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