ArticleBMC bioinformatics2017
GTZ: a fast compression and cloud transmission tool optimized for FASTQ files.
Article in BMC bioinformatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers, 1 of them a synthesis that pooled it.
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Who cites it
17 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Multi-ancestry genome-wide association meta-analysis identifies candidate genes for computed tomography-based carcass composition traits in pigs.Genetics, selection, evolution : GSE · 2025Pooled it
- Multi-Omics Integration Identifies ABCD4 as a Key Regulator of Backfat Thickness and Lipid Deposition in Pietrain Pigs.Animal genetics · 2026Article
- Integrating GWAS and eQTL analysis to decipher genetic mechanisms of feed efficiency and feeding behaviors in pigs.Genetics, selection, evolution : GSE · 2026Article
- zDUR: reference-free FASTQ compressor with high compression ratio and speed.BMC bioinformatics · 2026Article
- The impact of haplotypes derived from Chinese pigs on genetic variation and economic traits in the Duroc breed.Genetics, selection, evolution : GSE · 2025Article
- Statistical Analysis of Reproductive Traits in Jinwu Pig and Identification of Genome-Wide Association Loci.Genes · 2025Article
- Integrative genomic analysis reveals shared loci for reproduction and production traits in Yorkshire pigs.BMC genomics · 2025Article
- OReO: optimizing read order for practical compression.Bioinformatics advances · 2025Article
- PQSDC: a parallel lossless compressor for quality scores data via sequences partition and run-length prediction mapping.Bioinformatics (Oxford, England) · 2024Article
- Computational Approaches and Challenges in Spatial Transcriptomics.Genomics, proteomics & bioinformatics · 2023Review
- Efficient compression of SARS-CoV-2 genome data using Nucleotide Archival Format.Patterns (New York, N.Y.) · 2022Review
- ACO:lossless quality score compression based on adaptive coding order.BMC bioinformatics · 2022Article
- Hi-C deconvolution of a textile dye-related microbiome reveals novel taxonomic landscapes and links phenotypic potential to individual genomes.International microbiology : the official journal of the Spanish Society for Microbiology · 2022Article
- Accelerated deciphering of the genetic architecture of agricultural economic traits in pigs using a low-coverage whole-genome sequencing strategy.GigaScience · 2021Article
- Sequence Compression Benchmark (SCB) database-A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences.GigaScience · 2020Article
- A bioinformatics potpourri.BMC genomics · 2018Article
- SCA-NGS: Secure compression algorithm for next generation sequencing data using genetic operators and block sorting.Science progressArticle
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe dramatic development of DNA sequencing technology is generating real big data, craving for more storage and bandwidth. To speed up data sharing and bring data to computing resource faster and cheaper, it is necessary to develop a compression tool than can support efficient compression and transmission of sequencing data onto the cloud storage.
resultsThis paper presents GTZ, a compression and transmission tool, optimized for FASTQ files. As a reference-free lossless FASTQ compressor, GTZ treats different lines of FASTQ separately, utilizes adaptive context modelling to estimate their characteristic probabilities, and compresses data blocks with arithmetic coding. GTZ can also be used to compress multiple files or directories at once. Furthermore, as a tool to be used in the cloud computing era, it is capable of saving compressed data locally or transmitting data directly into cloud by choice. We evaluated the performance of GTZ on some diverse FASTQ benchmarks. Results show that in most cases, it outperforms many other tools in terms of the compression ratio, speed and stability.
conclusionsGTZ is a tool that enables efficient lossless FASTQ data compression and simultaneous data transmission onto to cloud. It emerges as a useful tool for NGS data storage and transmission in the cloud environment. GTZ is freely available online at: https://github.com/Genetalks/gtz .
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