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Volumn 3, Issue APR, 2012, Pages

Improving rna-Seq precision with mapal

Author keywords

Gene expression profiling; Measurement precision; Read mapping; Reliability; RNA seq; Splice form discrimination; Transcriptomics

Indexed keywords


EID: 84876049033     PISSN: None     EISSN: 16648021     Source Type: Journal    
DOI: 10.3389/fgene.2012.00028     Document Type: Article
Times cited : (3)

References (22)
  • 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
    • 0028895417 scopus 로고
    • Exon recognition in vertebrate splicing
    • Berget, S. M. (1995). Exon recognition in vertebrate splicing. J. Biol. Chem. 270,2411-2414.
    • (1995) J. Biol. Chem. , vol.270 , pp. 2411-2414
    • Berget, S.M.1
  • 4
    • 62249203564 scopus 로고    scopus 로고
    • Transcriptomics: the digital generation
    • Blow, N. (2009). Transcriptomics: the digital generation. Nature 458, 239-242.
    • (2009) Nature , vol.458 , pp. 239-242
    • Blow, N.1
  • 7
    • 64549119707 scopus 로고    scopus 로고
    • Statistical inferences for isoform expression in RNA-seq
    • Jiang, H., and Wong, W. H. (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.H.2
  • 9
    • 79959473093 scopus 로고    scopus 로고
    • Characterization and improvement of RNA-seq precision in quantitative transcript expression profiling
    • Łabaj, P. P., Linggi, B. E., Markillie, L. M., Wiley, H. S., and Kreil, D. P. (2011). Characterization and improvement of RNA-seq precision in quantitative transcript expression profiling. Bioinformatics 27, i383-i391.
    • (2011) Bioinformatics , vol.27
    • Łabaj, P.P.1    Linggi, B.E.2    Markillie, L.M.3    Wiley, H.S.4    Kreil, D.P.5
  • 10
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead, B., Trapnell, C., Pop, M., and Salzberg, S. (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.4
  • 12
    • 79961123152 scopus 로고    scopus 로고
    • RSEM: accurate transcript quantification from RNA-seq data with or without a reference genome
    • doi:10.1186/1471-2105-12-323
    • Li, B., and Dewey, C. (2011). RSEM: accurate transcript quantification from RNA-seq data with or without a reference genome. BMC Bioinformatics 12, 323. doi:10.1186/1471-2105-12-323
    • (2011) BMC Bioinformatics , vol.12 , pp. 323
    • Li, B.1    Dewey, C.2
  • 13
    • 77949507153 scopus 로고    scopus 로고
    • RNA-Seq gene expression estimation with read mapping uncertainty
    • Li, B., Ruotti, V., Stewart, R. M., Thomson, J. A., and Dewey, C. N. (2010). RNA-Seq gene expression estimation with read mapping uncertainty. Bioinformatics 26,493-500.
    • (2010) Bioinformatics , vol.26 , pp. 493-500
    • Li, B.1    Ruotti, V.2    Stewart, R.M.3    Thomson, J.A.4    Dewey, C.N.5
  • 14
    • 77957272611 scopus 로고    scopus 로고
    • A survey of sequence alignment algorithms for next-generation sequencing
    • Li, H., and Homer, N. (2010). A survey of sequence alignment algorithms for next-generation sequencing. Brief. Bioinform. 11, 473-483.
    • (2010) Brief. Bioinform. , vol.11 , pp. 473-483
    • Li, H.1    Homer, N.2
  • 17
    • 74549125753 scopus 로고    scopus 로고
    • An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data
    • doi:10.1371/journal.pcbi. 1000598
    • Ramsköld, D., Wang, E. T., Burge, C. B., and Sandberg, R. (2009). An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data. PLoS Comput. Biol. 5, e1000598. doi:10.1371/jour-nal.pcbi. 1000598
    • (2009) PLoS Comput. Biol. , vol.5
    • Ramsköld, D.1    Wang, E.T.2    Burge, C.B.3    Sandberg, R.4
  • 20
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: discovering splice junctions with RNA-Seq
    • Trapnell, C., Pachter, L., and Salzberg, S. L. (2009). TopHat: discovering splice junctions with RNA-Seq. Bioinfor-matics 25, 1105-1111.
    • (2009) Bioinfor-matics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.