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Volumn 3, Issue 6, 2010, Pages 183-190

Statistical analyses of next generation sequence data: A partial overview

Author keywords

ChIP seq; Deep sequencing; DNA; High throughput; Intensities; RNA; Sequence reads; Sequencing

Indexed keywords


EID: 77954353060     PISSN: None     EISSN: 0974276X     Source Type: Journal    
DOI: 10.4172/jpb.1000138     Document Type: Review
Times cited : (28)

References (73)
  • 1
    • 65549109397 scopus 로고    scopus 로고
    • Visualisation of genomic data with the Hilbert curve
    • Anders S (2009) Visualisation of genomic data with the Hilbert curve. Bioinformatics 25: 1231-1235.
    • (2009) Bioinformatics , vol.25 , pp. 1231-1235
    • Anders, S.1
  • 2
    • 54949147307 scopus 로고    scopus 로고
    • F-Seq: A feature density estimator for high-throughput sequence tags
    • Boyle AP, Guinney J, Crawford GE, Furey TS (2008) F-Seq: A feature density estimator for high-throughput sequence tags. Bioinformatics 24: 2537-2538.
    • (2008) Bioinformatics , vol.24 , pp. 2537-2538
    • Boyle, A.P.1    Guinney, J.2    Crawford, G.E.3    Furey, T.S.4
  • 4
    • 77954363385 scopus 로고    scopus 로고
    • Model-Based Quality Assessment and Base-Calling for Second-Generation Sequencing Data
    • [Epub ahead of print]
    • Bravo HC, Irizarry RA (2009) Model-Based Quality Assessment and Base-Calling for Second-Generation Sequencing Data. Biometrics [Epub ahead of print].
    • (2009) Biometrics
    • Bravo, H.C.1    Irizarry, R.A.2
  • 5
    • 77949481052 scopus 로고    scopus 로고
    • Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
    • Bullard JH, Purdom E, Hansen KD, Dudoit S (2010) Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments. BMC Bioinformatics 11: 94
    • (2010) BMC Bioinformatics , vol.11 , pp. 94
    • Bullard, J.H.1    Purdom, E.2    Hansen, K.D.3    Dudoit, S.4
  • 6
    • 67649866313 scopus 로고    scopus 로고
    • Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data
    • Choi H, Nesvizhskii A, Ghosh D, Qin ZS (2009) Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data. Bioinformatics 25:1715-1721.
    • (2009) Bioinformatics , vol.25 , pp. 1715-1721
    • Choi, H.1    Nesvizhskii, A.2    Ghosh, D.3    Qin, Z.S.4
  • 7
    • 65549102180 scopus 로고    scopus 로고
    • Statistical model for whole genome sequencing and its application to minimally invasive diagnosis of fetal genetic disease
    • Chu T, Bunce K, Hogge WA, Peters DG (2009) Statistical model for whole genome sequencing and its application to minimally invasive diagnosis of fetal genetic disease. Bioinformatics 25: 1244-1250.
    • (2009) Bioinformatics , vol.25 , pp. 1244-1250
    • Chu, T.1    Bunce, K.2    Hogge, W.A.3    Peters, D.G.4
  • 9
    • 40749109894 scopus 로고    scopus 로고
    • Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning
    • Cokus SJ, Feng S, Zhang X, Chen Z, Merriman B, et al. (2008) Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature 452: 215-219.
    • (2008) Nature , vol.452 , pp. 215-219
    • Cokus, S.J.1    Feng, S.2    Zhang, X.3    Chen, Z.4    Merriman, B.5
  • 11
    • 52649157765 scopus 로고    scopus 로고
    • Substantial biases in ultra-short read data sets from high-throughput DNA sequencing
    • Dohm JC, Lottaz C, Borodina T, Himmelbauer H (2008) Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Nucleic Acids Res 36: e105.
    • (2008) Nucleic Acids Res , vol.36
    • Dohm, J.C.1    Lottaz, C.2    Borodina, T.3    Himmelbauer, H.4
  • 12
    • 47149111640 scopus 로고    scopus 로고
    • TileQC: A system for tile-based quality control of the Solexa data
    • Dolan PC, Denver DR (2009) TileQC: A system for tile-based quality control of the Solexa data. BMC Bioinformatics 9: 250.
    • (2009) BMC Bioinformatics , vol.9 , pp. 250
    • Dolan, P.C.1    Denver, D.R.2
  • 13
    • 0042307371 scopus 로고    scopus 로고
    • Transforming single DNA molecules into fluorescent magnetic particles for detection and enumeration of genetic variations
    • Dressman D, Yan H, Traverso G, Kinzler KW, Vogelstein B (2003) Transforming single DNA molecules into fluorescent magnetic particles for detection and enumeration of genetic variations. Proc Natl Acad Sci USA 100: 8817-8822.
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 8817-8822
    • Dressman, D.1    Yan, H.2    Traverso, G.3    Kinzler, K.W.4    Vogelstein, B.5
  • 16
    • 24044522270 scopus 로고    scopus 로고
    • BioMart and Bioconductor: A powerful link between biological databases and microarray data analysis
    • Durinck S, Moreau Y, Kasprzyk A, Davis S, De Moor B, et al. (2006) BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis. Bioinformatics 21: 3439-3440.
    • (2006) Bioinformatics , vol.21 , pp. 3439-3440
    • Durinck, S.1    Moreau, Y.2    Kasprzyk, A.3    Davis, S.4    de Moor, B.5
  • 17
    • 58149234737 scopus 로고    scopus 로고
    • Real-time DNA sequencing from single polymerase molecules
    • Eid J, Fehr A, Gray J, Luong K, Lyle J, et al. (2009) Real-time DNA sequencing from single polymerase molecules. Science 323: 133-138.
    • (2009) Science , vol.323 , pp. 133-138
    • Eid, J.1    Fehr, A.2    Gray, J.3    Luong, K.4    Lyle, J.5
  • 19
    • 48249140621 scopus 로고    scopus 로고
    • FindPeaks 3.1: A tool for identifying areas of enrichment from massively parallel short-read sequencing technology
    • Fejes AP, Robertson G, Bilenky M, Varhol R, Bainbridge M, et al. (2008) FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology. Bioinformatics 24: 1729-1730.
    • (2008) Bioinformatics , vol.24 , pp. 1729-1730
    • Fejes, A.P.1    Robertson, G.2    Bilenky, M.3    Varhol, R.4    Bainbridge, M.5
  • 20
    • 73949090104 scopus 로고    scopus 로고
    • Applications of ultra-high-throughput sequencing
    • Fox S, Filichkin S, Mockler TC (2009) Applications of ultra-high-throughput sequencing. Methods Mol Biol 553: 79-108.
    • (2009) Methods Mol Biol , vol.553 , pp. 79-108
    • Fox, S.1    Filichkin, S.2    Mockler, T.C.3
  • 22
    • 65649083411 scopus 로고    scopus 로고
    • Estimating accuracy of RNA-Sequencing and microarray with proteomics
    • Fu X, Fu N, Guo S, Yan Z, Xu Y, et al. (2009) Estimating accuracy of RNA-Sequencing and microarray with proteomics. BMC Genomics 10: 161.
    • (2009) BMC Genomics , vol.10 , pp. 161
    • Fu, X.1    Fu, N.2    Guo, S.3    Yan, Z.4    Xu, Y.5
  • 23
    • 77951957381 scopus 로고    scopus 로고
    • SNVMix: Predicting single nucleotide variants from next-generation sequencing of tumors
    • Goya R, Sun MG, Morin RD, Leung G, Ha G, et al. (2010) SNVMix: predicting single nucleotide variants from next-generation sequencing of tumors. Bioinformatics 26: 730-736.
    • (2010) Bioinformatics , vol.26 , pp. 730-736
    • Goya, R.1    Sun, M.G.2    Morin, R.D.3    Leung, G.4    Ha, G.5
  • 25
    • 52049119933 scopus 로고    scopus 로고
    • Parameter estimation for robust HMM analysis of ChIP-chip data
    • Humburg P, Bulger D, Stone G (2008) Parameter estimation for robust HMM analysis of ChIP-chip data. BMC Bioinformatics 9: 343.
    • (2008) BMC Bioinformatics , vol.9 , pp. 343
    • Humburg, P.1    Bulger, D.2    Stone, G.3
  • 26
    • 55749094855 scopus 로고    scopus 로고
    • An integrated software system for analyzing ChIP-chip and ChIP-seq data
    • Ji H, Jiang H, Ma W, Johnson DS, Myers RM, et al. (2008) An integrated software system for analyzing ChIP-chip and ChIP-seq data. Nat Biotechnol 26: 1293-1300.
    • (2008) Nat Biotechnol , vol.26 , pp. 1293-1300
    • Ji, H.1    Jiang, H.2    Ma, W.3    Johnson, D.S.4    Myers, R.M.5
  • 27
    • 64549119707 scopus 로고    scopus 로고
    • Statistical inferences for isoform expression in RNA-Seq
    • Jiang H, Wong W (2009) Statistical inferences for isoform expression in RNA-Seq. Bioinformatics 25: 1026-1032.
    • (2009) Bioinformatics , vol.25 , pp. 1026-1032
    • Jiang, H.1    Wong, W.2
  • 28
    • 34250159524 scopus 로고    scopus 로고
    • Genome-wide mapping of in vivo protein-DNA interactions
    • Johnson DS, Mortazavi A, Myers RM, Wold B (2007) Genome-wide mapping of in vivo protein-DNA interactions. Science 316: 1497-1502.
    • (2007) Science , vol.316 , pp. 1497-1502
    • Johnson, D.S.1    Mortazavi, A.2    Myers, R.M.3    Wold, B.4
  • 29
    • 33845940688 scopus 로고    scopus 로고
    • Four-color DNA sequencing by synthesis using cleavable fluorescent nucleotide reversible terminators
    • Ju J, Kim DH, Bi L, Meng Q, Bai X, et al. (2006) Four-color DNA sequencing by synthesis using cleavable fluorescent nucleotide reversible terminators. Proc Natl Acad Sci USA 103: 19635-19640.
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 19635-19640
    • Ju, J.1    Kim, D.H.2    Bi, L.3    Meng, Q.4    Bai, X.5
  • 30
    • 70349646530 scopus 로고    scopus 로고
    • Bayes Call: A model-based basecalling algorithm for high-throughput short-read sequencing
    • Kao W, Stevens C, Song Y (2009) Bayes Call: A model-based basecalling algorithm for high-throughput short-read sequencing. Genome Res 19: 1884-1895.
    • (2009) Genome Res , vol.19 , pp. 1884-1895
    • Kao, W.1    Stevens, C.2    Song, Y.3
  • 31
    • 57449100870 scopus 로고    scopus 로고
    • Design and analysis of ChIP-seq experiments for DNA-binding proteins
    • Kharchenko PV, Tolstorukov MY, Park PJ (2008) Design and analysis of ChIP-seq experiments for DNA-binding proteins. Nat Biotechnol 26: 1351-1359.
    • (2008) Nat Biotechnol , vol.26 , pp. 1351-1359
    • Kharchenko, P.V.1    Tolstorukov, M.Y.2    Park, P.J.3
  • 32
    • 70350023532 scopus 로고    scopus 로고
    • Improved base calling for the Illumina Genome Analyzer using machine learning strategies
    • Kircher M, Stenzel U, Kelso J (2009) Improved base calling for the Illumina Genome Analyzer using machine learning strategies. Genome Biol 10: R83.
    • (2009) Genome Biol , vol.10
    • Kircher, M.1    Stenzel, U.2    Kelso, J.3
  • 34
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 35
    • 67649837030 scopus 로고    scopus 로고
    • Rtracklayer: An R package for interfacing with genome browsers
    • Lawrence M, Gentleman R, Carey V (2009) rtracklayer: an R package for interfacing with genome browsers. Bioinformatics 25: 1841-1842.
    • (2009) Bioinformatics , vol.25 , pp. 1841-1842
    • Lawrence, M.1    Gentleman, R.2    Carey, V.3
  • 36
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li H, Durbin R (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25: 1754-1760.
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 37
    • 55549097836 scopus 로고    scopus 로고
    • Mapping short DNA sequencing reads and calling variants using mapping quality scores
    • Li H, Ruan J, Durbin R (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res 18: 1851-1858.
    • (2008) Genome Res , vol.18 , pp. 1851-1858
    • Li, H.1    Ruan, J.2    Durbin, R.3
  • 38
    • 52949096084 scopus 로고    scopus 로고
    • Next generation DNA sequencing methods
    • Mardis ER (2008) Next generation DNA sequencing methods. Annu Rev Genomics Hum Genet 9: 387-402.
    • (2008) Annu Rev Genomics Hum Genet , vol.9 , pp. 387-402
    • Mardis, E.R.1
  • 39
    • 24044455869 scopus 로고    scopus 로고
    • Genome sequencing in microfabricated high-density picolitre reactors
    • Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, et al. (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437: 376-380.
    • (2005) Nature , vol.437 , pp. 376-380
    • Margulies, M.1    Egholm, M.2    Altman, W.E.3    Attiya, S.4    Bader, J.S.5
  • 40
    • 50649089207 scopus 로고    scopus 로고
    • RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
    • Marioni JC, Mason CE, Mane SM, Stephens M, Gilad Y (2008) RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays. Genom Res 18: 1509-1517.
    • (2008) Genom Res , vol.18 , pp. 1509-1517
    • Marioni, J.C.1    Mason, C.E.2    Mane, S.M.3    Stephens, M.4    Gilad, Y.5
  • 41
    • 34548682537 scopus 로고    scopus 로고
    • Pyrosequencing applications
    • Marsh S (2007) Pyrosequencing applications. Methods Mol Biol 373: 15-24.
    • (2007) Methods Mol Biol , vol.373 , pp. 15-24
    • Marsh, S.1
  • 42
    • 70449704529 scopus 로고    scopus 로고
    • Computational methods for discovering structural variation with next-generation sequencing
    • Medvedev P, Stanciu M, Brudno M (2009) Computational methods for discovering structural variation with next-generation sequencing. Nat Methods 6: S13-S20.
    • (2009) Nat Methods , vol.6
    • Medvedev, P.1    Stanciu, M.2    Brudno, M.3
  • 43
    • 44949162060 scopus 로고    scopus 로고
    • Targeted gene inactivation in zebrafish using engineered zinc-finger nucleases
    • Meng X, Noyes MB, Zhu LJ, Lawson ND, Wolfe SA (2008) Targeted gene inactivation in zebrafish using engineered zinc-finger nucleases. Nat Biotechnol 26: 695-701.
    • (2008) Nat Biotechnol , vol.26 , pp. 695-701
    • Meng, X.1    Noyes, M.B.2    Zhu, L.J.3    Lawson, N.D.4    Wolfe, S.A.5
  • 44
    • 0000251971 scopus 로고
    • Maximum likelihood estimation via the ECM algorithm: A general framework
    • Meng XL, Rubin DB (1993) Maximum likelihood estimation via the ECM algorithm: A general framework. Biometrika 80: 267-278.
    • (1993) Biometrika , vol.80 , pp. 267-278
    • Meng, X.L.1    Rubin, D.B.2
  • 45
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies - the next generation
    • Metzker ML (2010) Sequencing technologies - the next generation. Nat Rev Genet 11: 31-46.
    • (2010) Nat Rev Genet , vol.11 , pp. 31-46
    • Metzker, M.L.1
  • 46
    • 70349866687 scopus 로고    scopus 로고
    • Shortread: A Bioconductor package for input, quality assessment and exploration of high throughput sequence data
    • Morgan M, Anders S, Lawrence M, Aboyoun P, Pagès H, et al. (2009) Shortread: a Bioconductor package for input, quality assessment and exploration of high throughput sequence data. Bioinformatics 25: 2607-2608.
    • (2009) Bioinformatics , vol.25 , pp. 2607-2608
    • Morgan, M.1    Anders, S.2    Lawrence, M.3    Aboyoun, P.4    Pagès, H.5
  • 47
    • 41649106136 scopus 로고    scopus 로고
    • Application of massively parallel sequencing to micro RNA profiling and discovery in human embryonic stem cells
    • Morin RD, O'Connor MD, Griffith M, Kuchenbauer F, Delaney A, et al. (2008) Application of massively parallel sequencing to micro RNA profiling and discovery in human embryonic stem cells. Genome Res 18: 610-621.
    • (2008) Genome Res , vol.18 , pp. 610-621
    • Morin, R.D.1    O'Connor, M.D.2    Griffith, M.3    Kuchenbauer, F.4    Delaney, A.5
  • 49
    • 45549088326 scopus 로고    scopus 로고
    • The transcriptional landscape of the yeast genome defined by RNA sequencing
    • Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, et al. (2008) The transcriptional landscape of the yeast genome defined by RNA sequencing. Science 320: 1344-1349.
    • (2008) Science , vol.320 , pp. 1344-1349
    • Nagalakshmi, U.1    Wang, Z.2    Waern, K.3    Shou, C.4    Raha, D.5
  • 50
    • 65649126066 scopus 로고    scopus 로고
    • Transcript length bias in RNA-sequencing data confounds systems biology
    • Oshlack A, Wakefield M (2009) Transcript length bias in RNA-sequencing data confounds systems biology. Biol Direct 4: 14.
    • (2009) Biol Direct , vol.4 , pp. 14
    • Oshlack, A.1    Wakefield, M.2
  • 53
    • 84879462012 scopus 로고    scopus 로고
    • String objects representing biological sequences, and matching algorithms
    • available at
    • Pages H, Aboyoun P, Gentleman R, DebRoy S (2009) String objects representing biological sequences, and matching algorithms. Biostrings available at: http://www.bioconductor.org/packages/bioc/html/Biostrings.html
    • (2009) Biostrings
    • Pages, H.1    Aboyoun, P.2    Gentleman, R.3    Debroy, S.4
  • 54
    • 70449711243 scopus 로고    scopus 로고
    • Computation for ChIP-seq and RNA-seq studies
    • Pepke S, Wold B, Mortazavi A (2009) Computation for ChIP-seq and RNA-seq studies. Nat Methods 6: S22-S32.
    • (2009) Nat Methods , vol.6
    • Pepke, S.1    Wold, B.2    Mortazavi, A.3
  • 55
    • 38749091304 scopus 로고    scopus 로고
    • Pyrobayes: An improved base caller for SNP discovery in pyrosequences
    • Quinlan AR, Stewart DA, Strömberg MP, Marth GT (2008) Pyrobayes: An improved base caller for SNP discovery in pyrosequences. Nat Methods 5: 179-181.
    • (2008) Nat Methods , vol.5 , pp. 179-181
    • Quinlan, A.R.1    Stewart, D.A.2    Strömberg, M.P.3    Marth, G.T.4
  • 56
    • 70350697843 scopus 로고    scopus 로고
    • ISOLATE: A computational strategy for identifying the primary origin of cancers using high throughput sequencing
    • Quon G, Morris Q (2009) ISOLATE: A computational strategy for identifying the primary origin of cancers using high throughput sequencing. Bioinformatics 25: 2882-2889.
    • (2009) Bioinformatics , vol.25 , pp. 2882-2889
    • Quon, G.1    Morris, Q.2
  • 58
    • 60149112271 scopus 로고    scopus 로고
    • Peakseq enables systematic scoring of ChIP-seq experiments relative to controls
    • Rozowsky J, Euskirchen G, Auerbach RK, Zhang ZD, Gibson T, et al. (2009) Peakseq enables systematic scoring of ChIP-seq experiments relative to controls. Nat Biotechnol 27: 66-75.
    • (2009) Nat Biotechnol , vol.27 , pp. 66-75
    • Rozowsky, J.1    Euskirchen, G.2    Auerbach, R.K.3    Zhang, Z.D.4    Gibson, T.5
  • 60
    • 39449088572 scopus 로고    scopus 로고
    • Genome wide approaches to studying chromatin modifications
    • Schones DE, Zhao K (2008) Genome wide approaches to studying chromatin modifications. Nat Rev Genet 9: 179-191.
    • (2008) Nat Rev Genet , vol.9 , pp. 179-191
    • Schones, D.E.1    Zhao, K.2
  • 61
    • 50949097456 scopus 로고    scopus 로고
    • A feature-based approach to modeling protein-DNA interactions
    • e1000154
    • Sharon E, Lubliner S, Segal E (2008) A feature-based approach to modeling protein-DNA interactions. PLoS Comput Biol 4: e1000154.
    • (2008) PLoS Comput Biol , vol.4
    • Sharon, E.1    Lubliner, S.2    Segal, E.3
  • 62
    • 53649106195 scopus 로고    scopus 로고
    • Next-generation DNA sequencing
    • Shendure J, Ji H (2008) Next-generation DNA sequencing. Nature Biotechnology 26: 1135-1145.
    • (2008) Nature Biotechnology , vol.26 , pp. 1135-1145
    • Shendure, J.1    Ji, H.2
  • 63
    • 24644462173 scopus 로고    scopus 로고
    • Accurate multiplex polony sequencing of an evolved bacterial genome
    • Shendure J, Porreca GJ, Reppas NB, Lin X, McCutcheon JP, et al. (2005) Accurate multiplex polony sequencing of an evolved bacterial genome. Science 309: 1728-1732.
    • (2005) Science , vol.309 , pp. 1728-1732
    • Shendure, J.1    Porreca, G.J.2    Reppas, N.B.3    Lin, X.4    McCutcheon, J.P.5
  • 64
    • 41149167170 scopus 로고    scopus 로고
    • Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing
    • Vera JC, Wheat CW, Fescemyer HW, Frilander MJ, Crawford DL, et al. (2008) Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing. Mol Ecol 17: 1636-1647.
    • (2008) Mol Ecol , vol.17 , pp. 1636-1647
    • Vera, J.C.1    Wheat, C.W.2    Fescemyer, H.W.3    Frilander, M.J.4    Crawford, D.L.5
  • 65
    • 69449099392 scopus 로고    scopus 로고
    • Comparison of next generation sequencing technologies for transcriptome characterization
    • Wall PK, Leebens-Mack J, Chanderbali AS, Barakat A, Wolcott E, et al. (2009) Comparison of next generation sequencing technologies for transcriptome characterization. BMC Genomics 10: 347.
    • (2009) BMC Genomics , vol.10 , pp. 347
    • Wall, P.K.1    Leebens-Mack, J.2    Chanderbali, A.S.3    Barakat, A.4    Wolcott, E.5
  • 66
    • 84950432017 scopus 로고
    • A Monte Carlo Implementation of the EM Algorithm and the Poor Man's Data Augmentation Algorithms
    • Wei GCG, Tanner MA (1990) A Monte Carlo Implementation of the EM Algorithm and the Poor Man's Data Augmentation Algorithms. J Am Stat Assoc 85: 699-704.
    • (1990) J Am Stat Assoc , vol.85 , pp. 699-704
    • Wei, G.C.G.1    Tanner, M.A.2
  • 67
    • 69949135779 scopus 로고    scopus 로고
    • Swift: Primary data analysis for the Illumina Solexa sequencing platform
    • Whiteford N, Skelly T, Curtis C, Ritchie ME, Löhr A, et al. (2009) Swift: primary data analysis for the Illumina Solexa sequencing platform. Bioinformatics 25: 2194-2199.
    • (2009) Bioinformatics , vol.25 , pp. 2194-2199
    • Whiteford, N.1    Skelly, T.2    Curtis, C.3    Ritchie, M.E.4    Löhr, A.5
  • 68
    • 64849083125 scopus 로고    scopus 로고
    • CNV-seq, a new method to detect copy number variation using high-throughput sequencing
    • Xie C, Tammi MT (2009) CNV-seq, a new method to detect copy number variation using high-throughput sequencing. BMC Bioinformatics 10: 80.
    • (2009) BMC Bioinformatics , vol.10 , pp. 80
    • Xie, C.1    Tammi, M.T.2
  • 69
    • 67650711619 scopus 로고    scopus 로고
    • A clustering approach for identification of enriched domains from histone modification ChIP-Seq data
    • Zang C, Schones DE, Zeng C, Cui K, Zhao K, et al. (2009) A clustering approach for identification of enriched domains from histone modification ChIP-Seq data. Bioinformatics 25: 1952-1958.
    • (2009) Bioinformatics , vol.25 , pp. 1952-1958
    • Zang, C.1    Schones, D.E.2    Zeng, C.3    Cui, K.4    Zhao, K.5
  • 70
    • 77954382010 scopus 로고    scopus 로고
    • Probabilistic inference of ChIP-seq
    • available at
    • Zhang X, Gottardo R, Droit A (2010) Probabilistic inference of ChIP-seq. PICS available at: http://www.bioconductor.org/packages/2.6/bioc/html/PICS.html
    • (2010) PICS
    • Zhang, X.1    Gottardo, R.2    Droit, A.3
  • 73
    • 84922353363 scopus 로고    scopus 로고
    • Batch annotation of the peaks identified from either ChIP-seq or ChIP-chip experiments
    • available at
    • Zhu LJ, Pages H, Gazin C, Lawson N, Lin S, et al. (2009) Batch annotation of the peaks identified from either ChIP-seq or ChIP-chip experiments. Chippeak Anno available at: http://www.bioconductor.org/packages/2.5/bioc/html/ChIPpeakAnno.html
    • (2009) Chippeak Anno
    • Zhu, L.J.1    Pages, H.2    Gazin, C.3    Lawson, N.4    Lin, S.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.