메뉴 건너뛰기




Volumn 30, Issue 15, 2014, Pages 2130-2136

Lossy compression of quality scores in genomic data

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; GENETICS; GENOME; GENOMICS; HIGH THROUGHPUT SEQUENCING; INFORMATION PROCESSING; METHODOLOGY; NUCLEOTIDE SEQUENCE; QUALITY CONTROL; SINGLE NUCLEOTIDE POLYMORPHISM; STANDARD;

EID: 84905027735     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btu183     Document Type: Article
Times cited : (52)

References (23)
  • 1
    • 67349209853 scopus 로고    scopus 로고
    • Next-generation DNA sequencing techniques
    • Ansorge, W. (2009) Next-generation DNA sequencing techniques. N. Biotechnol., 25, 195-203.
    • (2009) N. Biotechnol. , vol.25 , pp. 195-203
    • Ansorge, W.1
  • 4
    • 70349266356 scopus 로고    scopus 로고
    • Comprehensive survey on distance/similarity measures between probability density functions
    • Cha, S. (2007) Comprehensive survey on distance/similarity measures between probability density functions. Int. J. Math. Models Methods Appl. Sci., 1, 300-307.
    • (2007) Int. J. Math. Models Methods Appl. Sci. , vol.1 , pp. 300-307
    • Cha, S.1
  • 5
    • 47249146817 scopus 로고    scopus 로고
    • Genomes for all
    • Church, G.M. (2006) Genomes for all. Sci. Am., 294, 46-54.
    • (2006) Sci. Am. , vol.294 , pp. 46-54
    • Church, G.M.1
  • 6
    • 77951226627 scopus 로고    scopus 로고
    • The sanger fastq file format for sequences with quality scores, and the solexa/illumina fastq variants
    • Cock, P.A. et al. (2010) The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic Acids Res., 38, 1767-1771.
    • (2010) Nucleic Acids Res. , vol.38 , pp. 1767-1771
    • Cock, P.A.1
  • 7
    • 79960405019 scopus 로고    scopus 로고
    • The variant call format and VCFtools
    • Danecek, P. et al. (2011) The variant call format and VCFtools. Bioinformatics, 27, 2156-2158.
    • (2011) Bioinformatics , vol.27 , pp. 2156-2158
    • Danecek, P.1
  • 8
    • 79952580139 scopus 로고    scopus 로고
    • Compression of DNA sequence reads in FASTQ format
    • Deorowicz, S. and Grabowski, S. (2011) Compression of DNA sequence reads in FASTQ format. Bioinformatics, 27, 860-862.
    • (2011) Bioinformatics , vol.27 , pp. 860-862
    • Deorowicz, S.1    Grabowski, S.2
  • 9
    • 0016486577 scopus 로고
    • Universal codeword sets and representations of the integers
    • Elias, P. (1975) Universal codeword sets and representations of the integers. IEEE Trans. Inf. Theory, 21, 194-203.
    • (1975) IEEE Trans. Inf. Theory , vol.21 , pp. 194-203
    • Elias, P.1
  • 10
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using Phred.II Error probabilities
    • Ewing, B. and Green, P. (1998) Base-calling of automated sequencer traces using Phred.II. Error probabilities. Genome Res., 8, 186-194.
    • (1998) Genome Res. , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 11
    • 79955554401 scopus 로고    scopus 로고
    • Efficient storage of high throughput DNA sequencing data using reference-based compression
    • Fritz, M.H. et al. (2011) Efficient storage of high throughput DNA sequencing data using reference-based compression. Genome Res., 21, 734-740.
    • (2011) Genome Res. , vol.21 , pp. 734-740
    • Fritz, M.H.1
  • 12
    • 67649170975 scopus 로고    scopus 로고
    • Textual data compression in computational biology: A synopsis
    • Giancarlo, R. et al. (2009) Textual data compression in computational biology: A synopsis. Bioinformatics, 25, 1575-1586.
    • (2009) Bioinformatics , vol.25 , pp. 1575-1586
    • Giancarlo, R.1
  • 13
    • 84891350227 scopus 로고    scopus 로고
    • Adaptive reference-free compression of sequence quality scores
    • Janin, L. et al. (2014) Adaptive reference-free compression of sequence quality scores. Bioinformatics, 30, 24-30.
    • (2014) Bioinformatics , vol.30 , pp. 24-30
    • Janin, L.1
  • 15
    • 0030737449 scopus 로고    scopus 로고
    • On the role of mismatch in rate distortion theory
    • Lapidoth, A. (1997) On the role of mismatch in rate distortion theory. IEEE Tran. Inf. Theory, 43, 38-47.
    • (1997) IEEE Tran. Inf. Theory , vol.43 , pp. 38-47
    • Lapidoth, A.1
  • 16
    • 68549104404 scopus 로고    scopus 로고
    • The sequence alignment/map format and SAMtools
    • Li, H. et al. (2009) The sequence alignment/map format and SAMtools. Bioinformatics, 25, 2078-2079.
    • (2009) Bioinformatics , vol.25 , pp. 2078-2079
    • Li, H.1
  • 17
    • 52949096084 scopus 로고    scopus 로고
    • Next-generation DNA sequencing methods
    • Mardis, E.R. (2008) Next-generation DNA sequencing methods. Ann. Rev. Genomics Hum. Genet., 9, 387-402.
    • (2008) Ann. Rev. Genomics Hum. Genet. , vol.9 , pp. 387-402
    • Mardis, E.R.1
  • 19
    • 84955152565 scopus 로고    scopus 로고
    • Overview of sequencing technology platforms
    • Springer, New York, NY
    • Myllykangas, S et al. (2012) Overview of sequencing technology platforms. In: Rodriguez-Ezpeleta, N. et al. (eds Bioinformatics for High Throughput Sequencing. Springer, New York, NY 11-25.
    • (2012) Bioinformatics for High Throughput Sequencing. , pp. 11-25
    • Myllykangas, S.1
  • 20
    • 79956314887 scopus 로고    scopus 로고
    • Genotype and SNP calling from next-generation sequencing data
    • Nielsen, R. et al. (2011) Genotype and SNP calling from next-generation sequencing data. Nat. Rev. Genet., 12, 443-451.
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 443-451
    • Nielsen, R.1
  • 21
    • 84878634014 scopus 로고    scopus 로고
    • QualComp: A new lossy compressor for quality scores based on rate distortion theory
    • Ochoa, I. et al. (2013) QualComp: A new lossy compressor for quality scores based on rate distortion theory. BMC Bioinformatics, 14, 187.
    • (2013) BMC Bioinformatics , vol.14 , pp. 187
    • Ochoa, I.1
  • 22
    • 77955886068 scopus 로고    scopus 로고
    • G-SQZ: Compact encoding of genomic sequence and quality data
    • Tembe, W. et al. (2010) G-SQZ: Compact encoding of genomic sequence and quality data. Bioinformatics, 26, 2192-2194.
    • (2010) Bioinformatics , vol.26 , pp. 2192-2194
    • Tembe, W.1
  • 23
    • 84857848401 scopus 로고    scopus 로고
    • Transformations for the compression of FASTQ quality scores of next-generation sequencing data
    • Wan, R. et al. (2012) Transformations for the compression of FASTQ quality scores of next-generation sequencing data. Bioinformatics, 28, 628-635.
    • (2012) Bioinformatics , vol.28 , pp. 628-635
    • Wan, R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.