메뉴 건너뛰기




Volumn 9, Issue 1, 2013, Pages 53-70

Comparison of methods for identifying periodically varying genes

Author keywords

Autocovariance; Cell cycle; Gene expression; Microarray; Periodic genes; Periodically varying genes; Simulated cell cycle; Time series

Indexed keywords


EID: 84870694714     PISSN: 17445485     EISSN: 17445493     Source Type: Journal    
DOI: 10.1504/IJBRA.2013.050653     Document Type: Conference Paper
Times cited : (1)

References (24)
  • 1
    • 84858091383 scopus 로고    scopus 로고
    • Robust regression for periodicity detection in non-uniformly sampled time-course gene expression data
    • Ahdesmaki, M., Lahdesmaki, H., Gracey, A., Shmulevich, L. and Yli-Harja, O. (2007) 'Robust regression for periodicity detection in non-uniformly sampled time-course gene expression data', BMC Bioinformatics, Vol. 8, p.233.
    • (2007) BMC Bioinformatics , vol.8 , pp. 233
    • Ahdesmaki, M.1    Lahdesmaki, H.2    Gracey, A.3    Shmulevich, L.4    Yli-Harja, O.5
  • 3
    • 33745615412 scopus 로고    scopus 로고
    • Unbiased pattern detection in microarray data series
    • DOI 10.1093/bioinformatics/btl121
    • Ahnert, S.E., Willbrand, K., Brown, F.C. and Fink, T.M. (2006) 'Unbiased pattern detection in microarray data series', Bioinformatics, Vol. 22, No. 12, pp.1471-1476. (Pubitemid 43985318)
    • (2006) Bioinformatics , vol.22 , Issue.12 , pp. 1471-1476
    • Ahnert, S.E.1    Willbrand, K.2    Brown, F.C.S.3    Fink, T.M.A.4
  • 4
    • 33645241609 scopus 로고    scopus 로고
    • Bayesian detection of periodic mRNA time profiles without use of training examples
    • Andersson, C.R., Isaksson, A. and Gustafsson, M.G. (2006) 'Bayesian detection of periodic mRNA time profiles without use of training examples', BMC Bioinformatics, Vol. 7, p.63.
    • (2006) BMC Bioinformatics , vol.7 , pp. 63
    • Andersson, C.R.1    Isaksson, A.2    Gustafsson, M.G.3
  • 5
    • 29144484744 scopus 로고    scopus 로고
    • Identification of significant periodic genes in microarray gene expression data
    • Chen, J. (2005) 'Identification of significant periodic genes in microarray gene expression data', BMC Bioinformatics, Vol. 6, p.286.
    • (2005) BMC Bioinformatics , vol.6 , pp. 286
    • Chen, J.1
  • 7
    • 33744792286 scopus 로고    scopus 로고
    • Analysis of a generic model of eukaryotic cell-cycle regulation
    • DOI 10.1529/biophysj.106.081240
    • Csikasz-Nagy, A., Battogtokh, D., Chen, K.C., Novak, B. and Tyson, J.J. (2006) 'Analysis of a generic model of eukaryotic cell-cycle regulation', Biophys J., Vol. 90, No. 12, p.4361-4379. (Pubitemid 43830884)
    • (2006) Biophysical Journal , vol.90 , Issue.12 , pp. 4361-4379
    • Csikasz-Nagy, A.1    Battogtokh, D.2    Chen, K.C.3    Novak, B.4    Tyson, J.J.5
  • 8
    • 14844285655 scopus 로고    scopus 로고
    • Comparison of computational methods for the identification of cell cycle-regulated genes
    • DOI 10.1093/bioinformatics/bti093
    • de Lichtenberg, U., Jensen, L.J., Fausboll, A., Jensen, T.S., Bork, P. and Brunak, S. (2005) 'Comparison of computational methods for the identification of cell cycle-regulated genes', Bioinformatics, Vol. 21, No. 7, pp.1164-1171. (Pubitemid 40467941)
    • (2005) Bioinformatics , vol.21 , Issue.7 , pp. 1164-1171
    • De Lichtenberg, U.1    Jensen, L.J.2    Fausboll, A.3    Jensen, T.S.4    Bork, P.5    Brunak, S.6
  • 10
    • 32144464541 scopus 로고    scopus 로고
    • Detecting periodic patterns in unevenly spaced gene expression time series using Lomb-Scargle periodograms
    • DOI 10.1093/bioinformatics/bti789
    • Glynn, E.F., Chen, J. and Mushegian, A.R. (2006) 'Detecting periodic patterns in unevenly spaced gene expression time series using Lomb-Scargle periodograms', Bioinformatics, Vol. 22, No. 3, pp.310-316. (Pubitemid 43205377)
    • (2006) Bioinformatics , vol.22 , Issue.3 , pp. 310-316
    • Glynn, E.F.1    Chen, J.2    Mushegian, A.R.3
  • 11
    • 0037343132 scopus 로고    scopus 로고
    • A multivariate approach applied to microarray data for identification of genes with cell cycle-coupled transcription
    • DOI 10.1093/bioinformatics/btg017
    • Johansson, D., Lindgren, P. and Berglund, A. (2003) 'A multivariate approach applied to microarray data for identification of genes with cell cycle-coupled transcription', Bioinformatics, Vol. 19, No. 4, pp.467-473. (Pubitemid 36336512)
    • (2003) Bioinformatics , vol.19 , Issue.4 , pp. 467-473
    • Johansson, D.1    Lindgren, P.2    Berglund, A.3
  • 12
    • 0034334515 scopus 로고    scopus 로고
    • Dynamic architecture of the yeast cell cycle uncovered by wavelet decomposition of expression microarray data
    • Klevecz, R.R. (2000) 'Dynamic architecture of the yeast cell cycle uncovered by wavelet decomposition of expression microarray data', Functional & Integrative Genomics, Vol. 1, No.3, pp.186-192.
    • (2000) Functional & Integrative Genomics , vol.1 , Issue.3 , pp. 186-192
    • Klevecz, R.R.1
  • 13
    • 61849128289 scopus 로고    scopus 로고
    • Robust discovery of periodically expressed genes using the laplace periodogram
    • Liang, K.C., Wang, X. and Li, T.H. (2009) 'Robust discovery of periodically expressed genes using the laplace periodogram', BMC Bioinformatics, Vol. 10, p.15.
    • (2009) BMC Bioinformatics , vol.10 , pp. 15
    • Liang, K.C.1    Wang, X.2    Li, T.H.3
  • 14
    • 34248331790 scopus 로고    scopus 로고
    • Spectral estimation in unevenly sampled space of periodically expressed microarray time series data
    • Liew, A.W., Xian, J., Wu, S., Smith, D. and Yan, H. (2007) 'Spectral estimation in unevenly sampled space of periodically expressed microarray time series data', BMC Bioinformatics, Vol. 8, p.137.
    • (2007) BMC Bioinformatics , vol.8 , pp. 137
    • Liew, A.W.1    Xian, J.2    Wu, S.3    Smith, D.4    Yan, H.5
  • 16
    • 1342328547 scopus 로고    scopus 로고
    • Statistical resynchronization and Bayesian detection of periodically expressed genes
    • DOI 10.1093/nar/gkh205
    • Lu, X., Zhang, W., Qin, Z.S., Kwast, K.E. and Liu, J.S. (2004) 'Statistical resynchronization and Bayesian detection of periodically expressed genes', Nucleic Acids Res., Vol. 32, No. 2, pp.447-455. (Pubitemid 38263035)
    • (2004) Nucleic Acids Research , vol.32 , Issue.2 , pp. 447-455
    • Lu, X.1    Zhang, W.2    Qin, Z.S.3    Kwast, K.E.4    Liu, J.S.5
  • 17
    • 1342288029 scopus 로고    scopus 로고
    • Model-based methods for identifying periodically expressed genes based on time course microarray gene expression data
    • DOI 10.1093/bioinformatics/btg413
    • Luan, Y. and Li, H. (2004) 'Model-based methods for identifying periodically expressed genes based on time course microarray gene expression data', Bioinformatics, Vol. 20, No. 3, pp.332-339. (Pubitemid 38262764)
    • (2004) Bioinformatics , vol.20 , Issue.3 , pp. 332-339
    • Luan, Y.1    Li, H.2
  • 18
    • 33947329293 scopus 로고    scopus 로고
    • Permutation test for periodicity in short time series data
    • Ptitsyn, A.A., Zvonic, S. and Gimble, J.M. (2006) 'Permutation test for periodicity in short time series data', BMC Bioinformatics, Vol. 7, Suppl 2, p.S10.
    • (2006) BMC Bioinformatics , vol.7 , Issue.SUPPL. 2
    • Ptitsyn, A.A.1    Zvonic, S.2    Gimble, J.M.3
  • 20
    • 1642464802 scopus 로고    scopus 로고
    • DNA Microarray Time Series Analysis: Automated Statistical Assessment of Circadian Rhythms in Gene Expression Patterning
    • DOI 10.1016/S0076-6879(04)83007-6
    • Straume, M. (2004) 'DNA microarray time series analysis: automated statistical assessment of circadian rhythms in gene expression patterning', Methods in Enzymology, Vol. 383, pp.149-166. (Pubitemid 38401790)
    • (2004) Methods in Enzymology , vol.383 , pp. 149-166
    • Straume, M.1
  • 21
    • 84865350443 scopus 로고    scopus 로고
    • Biochemical oscillations in computational cell biology
    • (Eds.), Marland, E., Fall, C., Wagner, J., Tyson, J. Springer-Verlag, New York
    • Tyson, J. (2002) 'Biochemical oscillations in computational cell biology', An Introductory Text on Computer Modeling in Molecular and Cell Biology, in (Eds.) Marland, E., Fall, C., Wagner, J., Tyson, J. Springer-Verlag, New York.
    • (2002) An Introductory Text on Computer Modeling in Molecular and Cell Biology
    • Tyson, J.1
  • 22
    • 0347093600 scopus 로고    scopus 로고
    • Identifying periodically expressed trascripts in microarry time series data
    • DOI 10.1093/bioinformatics/btg364
    • Wichert, S., Fokianos, K. and Strimmer, K. (2004) 'Identifying periodically expressed transcripts in microarray time series data', Bioinformatics, Vol. 20, No. 1, pp.5-20. (Pubitemid 38088335)
    • (2004) Bioinformatics , vol.20 , Issue.1 , pp. 5-20
    • Wichert, S.1    Fonkianos, K.2    Strimmer, K.3
  • 23
    • 27544456906 scopus 로고    scopus 로고
    • Identifying genes from up-down properties of microarray expression series
    • DOI 10.1093/bioinformatics/bti549
    • Willbrand, K., Radvanyi, F., Nadal, J-P., Thiery, J-P. and Fink, T.M.A. (2005) 'Identifying genes from up-down properties of microarray expression series', Bioinformatics, Vol. 21, No. 20, pp.3859-3864. (Pubitemid 41535500)
    • (2005) Bioinformatics , vol.21 , Issue.20 , pp. 3859-3864
    • Willbrand, K.1    Radvanyi, F.2    Nadal, J.-P.3    Thiery, J.-P.4    Fink, T.M.A.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.