메뉴 건너뛰기




Volumn 28, Issue 4, 2012, Pages 464-469

Artemis: An integrated platform for visualization and analysis of high-throughput sequence-based experimental data

Author keywords

[No Author keywords available]

Indexed keywords

TRANSCRIPTOME;

EID: 84857188863     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btr703     Document Type: Article
Times cited : (916)

References (40)
  • 1
    • 84975742565 scopus 로고    scopus 로고
    • A map of human genome variation from population-scale sequencing
    • Altshuler, D. et al. (2010) A map of human genome variation from population-scale sequencing. Nature, 467, 1061-1073.
    • (2010) Nature , vol.467 , pp. 1061-1073
    • Altshuler, D.1
  • 2
    • 77958471357 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders, S. and Huber, W. (2010) Differential expression analysis for sequence count data. Genome Biol., 11, R106.
    • (2010) Genome Biol , vol.11
    • Anders, S.1    Huber, W.2
  • 3
    • 67650789618 scopus 로고    scopus 로고
    • The genome of the blood fluke Schistosoma mansoni
    • Berriman, M. et al. (2009) The genome of the blood fluke Schistosoma mansoni. Nature, 460, 352-358.
    • (2009) Nature , vol.460 , pp. 352-358
    • Berriman, M.1
  • 4
    • 78649240033 scopus 로고    scopus 로고
    • Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq
    • Bruno, V.M. et al. (2010) Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq. Genome Res., 20, 1451-1458.
    • (2010) Genome Res , vol.20 , pp. 1451-1458
    • Bruno, V.M.1
  • 5
    • 24044433279 scopus 로고    scopus 로고
    • ACT: the Artemis comparison tool
    • Carver, T.J. et al. (2005) ACT: the Artemis comparison tool. Bioinformatics, 21, 3422-3423.
    • (2005) Bioinformatics , vol.21 , pp. 3422-3423
    • Carver, T.J.1
  • 6
    • 77949646852 scopus 로고    scopus 로고
    • BamView: viewing mapped read alignment data in the context of the reference sequence
    • Carver, T. et al. (2010) BamView: viewing mapped read alignment data in the context of the reference sequence. Bioinformatics, 26, 676-677.
    • (2010) Bioinformatics , vol.26 , pp. 676-677
    • Carver, T.1
  • 7
    • 77957802374 scopus 로고    scopus 로고
    • Studying bacterial transcriptomes using RNAseq
    • Croucher, N.J. and Thomson, N.R. (2010) Studying bacterial transcriptomes using RNAseq. Curr. Opin. Microbiol, 13, 619-624.
    • (2010) Curr. Opin. Microbiol , vol.13 , pp. 619-624
    • Croucher, N.J.1    Thomson, N.R.2
  • 8
    • 79251544864 scopus 로고    scopus 로고
    • Rapid pneumococcal evolution in response to clinical interventions
    • Croucher, N.J. et al. (2011) Rapid pneumococcal evolution in response to clinical interventions. Science, 331, 430-434.
    • (2011) Science , vol.331 , pp. 430-434
    • Croucher, N.J.1
  • 9
    • 79551593972 scopus 로고    scopus 로고
    • The Drosophila melanogaster transcriptome by paired-end RNA sequencing
    • Daines, B. et al. (2011) The Drosophila melanogaster transcriptome by paired-end RNA sequencing. Genome Res., 21, 315-324.
    • (2011) Genome Res , vol.21 , pp. 315-324
    • Daines, B.1
  • 10
    • 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
  • 11
    • 79955483667 scopus 로고    scopus 로고
    • A framework for variation discovery and genotyping using next-generation DNA sequencing data
    • DePristo, M.A. et al. (2011) A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nat. Genet., 43, 491-498.
    • (2011) Nat. Genet. , vol.43 , pp. 491-498
    • DePristo, M.A.1
  • 12
    • 77955433415 scopus 로고    scopus 로고
    • Savant: genome browser for high-throughput sequencing data
    • Fiume, M. et al. (2010) Savant: genome browser for high-throughput sequencing data.Bioinformatics, 26, 1938-1944.
    • (2010) Bioinformatics , vol.26 , pp. 1938-1944
    • Fiume, M.1
  • 13
    • 75649084906 scopus 로고    scopus 로고
    • Evolution of MRSA during hospital transmission and intercontinental spread
    • Harris, S.R. et al. (2010) Evolution of MRSA during hospital transmission and intercontinental spread. Science, 327, 469-474.
    • (2010) Science , vol.327 , pp. 469-474
    • Harris, S.R.1
  • 14
    • 58149507650 scopus 로고    scopus 로고
    • The Genome of Burkholderia cenocepacia J2315, an epidemic pathogen of cystic fibrosis patients
    • Holden, M.T.G. et al. (2009) The Genome of Burkholderia cenocepacia J2315, an epidemic pathogen of cystic fibrosis patients. J. Bacteriol., 191, 261-277.
    • (2009) J. Bacteriol. , vol.191 , pp. 261-277
    • Holden, M.T.G.1
  • 15
    • 77954253347 scopus 로고    scopus 로고
    • MagicViewer: integrated solution for next-generation sequencing data visualization and genetic variation detection and annotation
    • Hou, H. et al. (2010) MagicViewer: integrated solution for next-generation sequencing data visualization and genetic variation detection and annotation. Nucleic Acids Res., 38, W732-W736.
    • (2010) Nucleic Acids Res , vol.38
    • Hou, H.1
  • 16
    • 50649122770 scopus 로고    scopus 로고
    • EagleView: a genome assembly viewer for nextgeneration sequencing technologies
    • Huang, W. and Marth, G.T. (2008) EagleView: a genome assembly viewer for nextgeneration sequencing technologies. Genome Res., 18, 1538-1543.
    • (2008) Genome Res. , vol.18 , pp. 1538-1543
    • Huang, W.1    Marth, G.T.2
  • 17
    • 80052851950 scopus 로고    scopus 로고
    • Mouse genomic variation and its effect on phenotypes and gene regulation
    • Keane, T.M. et al. (2011) Mouse genomic variation and its effect on phenotypes and gene regulation. Nature, 477, 289-294.
    • (2011) Nature , vol.477 , pp. 289-294
    • Keane, T.M.1
  • 18
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B. et al. (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
  • 19
    • 79951993896 scopus 로고    scopus 로고
    • Tabix: fast retrieval of sequence features from generic TAB-delimited files
    • Li, H. (2011) Tabix: fast retrieval of sequence features from generic TAB-delimited files. Bioinformatics, 27, 718-719.
    • (2011) Bioinformatics , vol.27 , pp. 718-719
    • Li, H.1
  • 20
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H. and 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
  • 21
    • 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
  • 22
    • 77956277181 scopus 로고    scopus 로고
    • Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq
    • Lu, T. et al. (2010) Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq. Genome Res., 20, 1238-1249.
    • (2010) Genome Res. , vol.20 , pp. 1238-1249
    • Lu, T.1
  • 23
    • 70350726343 scopus 로고    scopus 로고
    • LookSeq: a browser-based viewer for deep sequencing data
    • Manske, H.M. and Kwiatkowski, D.P. (2009) LookSeq: a browser-based viewer for deep sequencing data. Genome Res., 19, 2125-2132.
    • (2009) Genome Res. , vol.19 , pp. 2125-2132
    • Manske, H.M.1    Kwiatkowski, D.P.2
  • 24
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies - the next generation
    • Metzker, M.L. (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
  • 25
    • 77949512406 scopus 로고    scopus 로고
    • Tablet-next generation sequence assembly visualization
    • Milne, I. et al. (2010) Tablet-next generation sequence assembly visualization. Bioinformatics, 26, 401-402.
    • (2010) Bioinformatics , vol.26 , pp. 401-402
    • Milne, I.1
  • 26
    • 46249106990 scopus 로고    scopus 로고
    • Mapping and quantifying mammalian transcriptomes by RNA-Seq
    • Mortazavi, A. et al. (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat. Methods., 5, 621-628.
    • (2008) Nat. Methods. , vol.5 , pp. 621-628
    • Mortazavi, A.1
  • 27
    • 70349739736 scopus 로고    scopus 로고
    • The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets
    • Nicol, J.W. et al. (2009) The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets. Bioinformatics, 25, 2730-2731.
    • (2009) Bioinformatics , vol.25 , pp. 2730-2731
    • Nicol, J.W.1
  • 28
    • 77954523593 scopus 로고    scopus 로고
    • Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology
    • Otto, T.D. et al. (2010a) Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology. Bioinformatics, 26, 1704-1707.
    • (2010) Bioinformatics , vol.26 , pp. 1704-1707
    • Otto, T.D.1
  • 29
    • 77950265905 scopus 로고    scopus 로고
    • New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq
    • Otto, T.D. et al. (2010b) New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq. Mol. Microbiol., 76, 12-24.
    • (2010) Mol. Microbiol. , vol.76 , pp. 12-24
    • Otto, T.D.1
  • 30
    • 53649110550 scopus 로고    scopus 로고
    • The genome of the simian and human malaria parasite Plasmodium knowlesi
    • Pain, A. et al. (2008) The genome of the simian and human malaria parasite Plasmodium knowlesi. Nature, 455, 799-803.
    • (2008) Nature , vol.455 , pp. 799-803
    • Pain, A.1
  • 31
    • 0035950154 scopus 로고    scopus 로고
    • Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18
    • Parkhill, J. et al. (2001) Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18. Nature, 413, 848-852.
    • (2001) Nature , vol.413 , pp. 848-852
    • Parkhill, J.1
  • 32
    • 34347339518 scopus 로고    scopus 로고
    • Comparative genomic analysis of three Leishmania species that cause diverse human disease
    • Peacock, C.S. et al. (2007) Comparative genomic analysis of three Leishmania species that cause diverse human disease. Nat. Genet., 39, 839-847.
    • (2007) Nat. Genet. , vol.39 , pp. 839-847
    • Peacock, C.S.1
  • 33
    • 78651271733 scopus 로고    scopus 로고
    • Integrative genomics viewer
    • Robinson, J.T. et al. (2011) Integrative genomics viewer. Nat. Biotechnol., 29, 24-26.
    • (2011) Nat. Biotechnol. , vol.29 , pp. 24-26
    • Robinson, J.T.1
  • 34
    • 0033635022 scopus 로고    scopus 로고
    • Artemis: sequence visualization and annotation
    • Rutherford, K. et al. (2000) Artemis: sequence visualization and annotation. Bioinformatics, 16, 944-945.
    • (2000) Bioinformatics , vol.16 , pp. 944-945
    • Rutherford, K.1
  • 35
    • 53649106195 scopus 로고    scopus 로고
    • Next-generation DNA sequencing
    • Shendure, J. and Ji, H. (2008) Next-generation DNA sequencing. Nat. Biotechnol., 26, 1135-1145.
    • (2008) Nat. Biotechnol. , vol.26 , pp. 1135-1145
    • Shendure, J.1    Ji, H.2
  • 36
    • 66449136667 scopus 로고    scopus 로고
    • ABySS: a parallel assembler for short read sequence data
    • Simpson, J.T. et al. (2009) ABySS: a parallel assembler for short read sequence data. Genome Res., 19, 1117-1123.
    • (2009) Genome Res. , vol.19 , pp. 1117-1123
    • Simpson, J.T.1
  • 37
    • 34250210806 scopus 로고    scopus 로고
    • Hawkeye: an interactive visual analytics tool for genome assemblies
    • Schatz, M.C. et al. (2007) Hawkeye: an interactive visual analytics tool for genome assemblies. Genome Biol., 8, R34.
    • (2007) Genome Biol. , vol.8
    • Schatz, M.C.1
  • 38
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: discovering splice junctions with RNA-Seq
    • Trapnell, C. et al. (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics, 25, 1105-1111.
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1
  • 39
    • 76249116215 scopus 로고    scopus 로고
    • A new highly penetrant form of obesity due to deletions on chromosome 16p11.2
    • Walters, R.G. et al. (2010) A new highly penetrant form of obesity due to deletions on chromosome 16p11.2. Nature, 463, 671-675.
    • (2010) Nature , vol.463 , pp. 671-675
    • Walters, R.G.1
  • 40
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: algorithms for de novo short read assembly using de Bruijn graphs
    • Zerbino, D.R. and Birney, E. (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res., 18, 821-829.
    • (2008) Genome Res. , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.