Data Integration and Management in Bioinformatics

Xuan Zhang

doi:10.54097/dgqtc422

Authors

Xuan Zhang

DOI:

https://doi.org/10.54097/dgqtc422

Keywords:

Bioinformatics, Data Integration and Management, Biological Data, Methods and Tools for Collecting Biological Data

Abstract

Bioinformatics is an interdisciplinary field that combines biology, computer science, and information technology to understand and analyze biological data. With the development of high-throughput sequencing technology and other biotechnologies, the speed and scale of biological data generation are unprecedented. Effectively integrating and managing these data has become a significant challenge. This paper explores the current state of bioinformatics data integration and management, the challenges faced, commonly used methods and tools, and future development directions.

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References

[1] Chaudhari J K, Pant S, Jha R, et al. Biological big-data sources, problems of storage, computational issues, and applications: a comprehensive review[J]. Knowledge and Information Systems, 2024: 1-51.

[2] Khan N, Yaqoob I, Hashem I A T, et al. Big data: survey, technologies, opportunities, and challenges[J]. The scientific world journal, 2014, 2014(1): 712826.

[3] Wang L. Heterogeneous data and big data analytics[J]. Automatic Control and Information Sciences, 2017, 3(1): 8-15.

[4] Benson D A, Karsch-Mizrachi I, Lipman D J, et al. GenBank[J]. Nucleic acids research, 2000, 28(1): 15-18.

[5] Zerbino D R, Achuthan P, Akanni W, et al. Ensembl 2018[J]. Nucleic acids research, 2018, 46(D1): D754-D761.

[6] UniProt Consortium. The universal protein resource (UniProt) 2009[J]. Nucleic acids research, 2009, 37(suppl_1): D169-D174.

[7] The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update[J]. Nucleic Acids Research, 2022, 50(W1): W345-W351.

[8] Kasprzyk A. BioMart: driving a paradigm change in biological data management[J]. Database, 2011, 2011: bar049.

[9] Oinn T, Addis M, Ferris J, et al. Taverna: a tool for the composition and enactment of bioinformatics workflows[J]. Bioinformatics, 2004, 20(17): 3045-3054.

[10] Thorvaldsdóttir H, Robinson J T, Mesirov J P. Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration[J]. Briefings in bioinformatics, 2013, 14(2): 178-192.

[11] Lai K, Twine N, O’brien A, et al. Artificial intelligence and machine learning in bioinformatics[J]. Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, 2018, 1(3).

[12] Achard F, Vaysseix G, Barillot E. XML, bioinformatics and data integration[J]. Bioinformatics, 2001, 17(2): 115-125.