ArticleNucleic acids research2012
GReEn: a tool for efficient compression of genome resequencing data.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers, 1 of them a synthesis that pooled it.
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Who cites it
34 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Vertical lossless genomic data compression tools for assembled genomes: A systematic literature review.PloS one · 2020Pooled it
- FastqCA: an effective FASTQ compressor through 2D spatial redundancy reduction.Frontiers in genetics · 2026Article
- Generating 2D Barcode for DNA Barcode Sequences.Methods in molecular biology (Clifton, N.J.) · 2024Article
- DDQR (dynamic DNA QR coding): An efficient algorithm to represent DNA barcode sequences.PloS one · 2023Article
- A Hybrid Data-Differencing and Compression Algorithm for the Automotive Industry.Entropy (Basel, Switzerland) · 2022Article
- Article
- Efficient DNA sequence compression with neural networks.GigaScience · 2020Article
- HRCM: An Efficient Hybrid Referential Compression Method for Genomic Big Data.BioMed research international · 2019Article
- Tackling the Challenges of FASTQ Referential Compression.Bioinformatics and biology insights · 2019Article
- Comparison of Compression-Based Measures with Application to the Evolution of Primate Genomes.Entropy (Basel, Switzerland) · 2018Article
- TRCMGene: A two-step referential compression method for the efficient storage of genetic data.PloS one · 2018Article
- GTZ: a fast compression and cloud transmission tool optimized for FASTQ files.BMC bioinformatics · 2017Article
- NRGC: a novel referential genome compression algorithm.Bioinformatics (Oxford, England) · 2016Article
- A new algorithm for "the LCS problem" with application in compressing genome resequencing data.BMC genomics · 2016Article
- smallWig: parallel compression of RNA-seq WIG files.Bioinformatics (Oxford, England) · 2016Article
- ERGC: an efficient referential genome compression algorithm.Bioinformatics (Oxford, England) · 2015Article
- LFQC: a lossless compression algorithm for FASTQ files.Bioinformatics (Oxford, England) · 2015Article
- Data-dependent bucketing improves reference-free compression of sequencing reads.Bioinformatics (Oxford, England) · 2015Article
- GDC 2: Compression of large collections of genomes.Scientific reports · 2015Article
- iDoComp: a compression scheme for assembled genomes.Bioinformatics (Oxford, England) · 2015Article
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3 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Research in the genomic sciences is confronted with the volume of sequencing and resequencing data increasing at a higher pace than that of data storage and communication resources, shifting a significant part of research budgets from the sequencing component of a project to the computational one. Hence, being able to efficiently store sequencing and resequencing data is a problem of paramount importance. In this article, we describe GReEn (Genome Resequencing Encoding), a tool for compressing genome resequencing data using a reference genome sequence. It overcomes some drawbacks of the recently proposed tool GRS, namely, the possibility of compressing sequences that cannot be handled by GRS, faster running times and compression gains of over 100-fold for some sequences. This tool is freely available for non-commercial use at ftp://ftp.ieeta.pt/~ap/codecs/GReEn1.tar.gz.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.