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Data Compression Strategy for Reference-Free Sequencing FASTQ Data

http://hdl.handle.net/20.500.12678/0000006268
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ceacec72-8ae3-4135-9385-9a08603cc75f
None
Name / File License Actions
Data Data Compression Strategy for Reference-Free Sequencing FASTQ Data.pdf (1.6 Mb)
© 2017 ICAIT
Publication type
Conference paper
Upload type
Publication
Title
Title Data Compression Strategy for Reference-Free Sequencing FASTQ Data
Language en
Publication date 2017-11-02
Authors
Hsu Mon Lei Aung
Swe Zin Hlaing
Description
Today, Next Generation Sequencing (NGS) technologies play a vital role for many research fields such as medicine, microbiology and agriculture, etc. The huge amount of these genomic sequencing data produced is growing exponentially. These data storages, processing and transmission becomes the most important challenges. Data compression seems to be a suitable solution to overcome these challenges. This paper proposes a lossless data compression strategy to process reference-free raw sequencing data in FASTQ format. The proposed system splits the input file into block files and creates a dynamic dictionary for reads. Afterwards, the transformed read sequences and dictionary are compressed by using appropriate lossless compression method. The performance of the proposed system was compared with existing state-of-art compression algorithms for three sample data sets. The proposed system provides up to 3% compression ratio of other compression algorithms.
Keywords
Genomic Sequencing data, lossless compression, reference-free sequence, reference-based sequence
Conference papers
ICAIT-2017
1-2 November, 2017
1st International Conference on Advanced Information Technologies
Yangon, Myanmar
Data Science
https://www.uit.edu.mm/icait-2017/
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