Comprehensive comparison of cloud-based NGS data analysis and alignment tools
Next-Generation Sequencing (NGS) is very helpful for conducting DeoxyriboNucleic Acid (DNA) Sequencing. DNA sequencing is the process for determining the order (sequence) of the main chemical bases in the DNA. Analyzing human DNA sequencing is important for determining the possibility that a person...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2020-01-01
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| Series: | Informatics in Medicine Unlocked |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352914819303673 |
| _version_ | 1818508526897594368 |
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| author | Qanita Bani Baker Mahmoud Hammad Wesam Al-Rashdan Yaser Jararweh Mohammad AL-Smadi Mohammad Al-Zinati |
| author_facet | Qanita Bani Baker Mahmoud Hammad Wesam Al-Rashdan Yaser Jararweh Mohammad AL-Smadi Mohammad Al-Zinati |
| author_sort | Qanita Bani Baker |
| collection | DOAJ |
| description | Next-Generation Sequencing (NGS) is very helpful for conducting DeoxyriboNucleic Acid (DNA) Sequencing. DNA sequencing is the process for determining the order (sequence) of the main chemical bases in the DNA. Analyzing human DNA sequencing is important for determining the possibility that a person will develop certain diseases, and/or the ability to respond to medication. However, the NGS process is a complicated and resource-hungry technical process. To solve this dilemma, the majority of NGS software systems are deployed as cloud-based services distributed over cloud-based platforms. Cloud-based platforms provide promising solutions for the computationally intensive tasks required by the NGS data analysis. This work provides a comprehensive investigation of cloud-based NGS data analysis and alignment tools, both the commercial and the open-source tools. We also discuss in detail the main features and setup requirements for each tool, and then compare and contrast between them. Moreover, we extensively analyze and classify the studied NGS data analysis and alignment tools to help NGS biomedical researchers and clinicians in finding appropriate tools for their work, while understanding the similarities and the differences between them. Keywords: Next-generation sequencing (NGS), Sequence alignment, Cloud computing, Big data, Bioinformatics |
| first_indexed | 2024-12-10T22:33:08Z |
| format | Article |
| id | doaj.art-4d24beba0f134c96805d754852e910f4 |
| institution | Directory Open Access Journal |
| issn | 2352-9148 |
| language | English |
| last_indexed | 2024-12-10T22:33:08Z |
| publishDate | 2020-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Informatics in Medicine Unlocked |
| spelling | doaj.art-4d24beba0f134c96805d754852e910f42022-12-22T01:30:59ZengElsevierInformatics in Medicine Unlocked2352-91482020-01-0118Comprehensive comparison of cloud-based NGS data analysis and alignment toolsQanita Bani Baker0Mahmoud Hammad1Wesam Al-Rashdan2Yaser Jararweh3Mohammad AL-Smadi4Mohammad Al-Zinati5College of Computer and Information Technology Jordan University of Science and Technology, Irbid, 22110, Jordan; Corresponding author.College of Computer and Information Technology Jordan University of Science and Technology, Irbid, 22110, JordanCollege of Computer and Information Technology Jordan University of Science and Technology, Irbid, 22110, JordanCollege of Computer and Information Technology Jordan University of Science and Technology, Irbid, 22110, Jordan; Duquesne University, Pittsburgh, PA, USACollege of Computer and Information Technology Jordan University of Science and Technology, Irbid, 22110, JordanCollege of Computer and Information Technology Jordan University of Science and Technology, Irbid, 22110, JordanNext-Generation Sequencing (NGS) is very helpful for conducting DeoxyriboNucleic Acid (DNA) Sequencing. DNA sequencing is the process for determining the order (sequence) of the main chemical bases in the DNA. Analyzing human DNA sequencing is important for determining the possibility that a person will develop certain diseases, and/or the ability to respond to medication. However, the NGS process is a complicated and resource-hungry technical process. To solve this dilemma, the majority of NGS software systems are deployed as cloud-based services distributed over cloud-based platforms. Cloud-based platforms provide promising solutions for the computationally intensive tasks required by the NGS data analysis. This work provides a comprehensive investigation of cloud-based NGS data analysis and alignment tools, both the commercial and the open-source tools. We also discuss in detail the main features and setup requirements for each tool, and then compare and contrast between them. Moreover, we extensively analyze and classify the studied NGS data analysis and alignment tools to help NGS biomedical researchers and clinicians in finding appropriate tools for their work, while understanding the similarities and the differences between them. Keywords: Next-generation sequencing (NGS), Sequence alignment, Cloud computing, Big data, Bioinformaticshttp://www.sciencedirect.com/science/article/pii/S2352914819303673 |
| spellingShingle | Qanita Bani Baker Mahmoud Hammad Wesam Al-Rashdan Yaser Jararweh Mohammad AL-Smadi Mohammad Al-Zinati Comprehensive comparison of cloud-based NGS data analysis and alignment tools Informatics in Medicine Unlocked |
| title | Comprehensive comparison of cloud-based NGS data analysis and alignment tools |
| title_full | Comprehensive comparison of cloud-based NGS data analysis and alignment tools |
| title_fullStr | Comprehensive comparison of cloud-based NGS data analysis and alignment tools |
| title_full_unstemmed | Comprehensive comparison of cloud-based NGS data analysis and alignment tools |
| title_short | Comprehensive comparison of cloud-based NGS data analysis and alignment tools |
| title_sort | comprehensive comparison of cloud based ngs data analysis and alignment tools |
| url | http://www.sciencedirect.com/science/article/pii/S2352914819303673 |
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