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Volumn 9, Issue , 2008, Pages

Statistical modelling of transcript profiles of differentially regulated genes

Author keywords

[No Author keywords available]

Indexed keywords

1,6 BETA GLUCAN SYNTHASE; CRUCIFORM DNA BINDING PROTEIN; CYTOCHROME P450; CYTOCHROME P450 2; DNA BINDING PROTEIN; FUNGAL ENZYME; GLUCAN SYNTHASE; GLUCURONYL HYDROLASE; HYDROLASE; RIBOFLAVIN ALDEHYDE FORMING ENZYME; RNA 18S; MESSENGER RNA;

EID: 50549101054     PISSN: None     EISSN: 14712199     Source Type: Journal    
DOI: 10.1186/1471-2199-9-66     Document Type: Article
Times cited : (13)

References (39)
  • 1
    • 0035313785 scopus 로고    scopus 로고
    • Methods and approaches in the analysis of gene expression data
    • 10.1016/S0022-1759(01)00307-6 11251224
    • Dopazo J Zanders E Dragoni I Amphlett G Falciani F Methods and approaches in the analysis of gene expression data J Immunol Methods 2001, 250(1-2):93-112. 10.1016/S0022-1759(01)00307-6 11251224
    • (2001) J Immunol Methods , vol.250 , Issue.1-2 , pp. 93-112
    • Dopazo, J.1    Zanders, E.2    Dragoni, I.3    Amphlett, G.4    Falciani, F.5
  • 2
    • 0037174288 scopus 로고    scopus 로고
    • Bioinformatics methods for the analysis of expression arrays: Data clustering and information extraction
    • 10.1016/S0168-1656(02)00137-2 12141992
    • Tamames J Clark D Herrero J Dopazo J Blaschke C Fernandez JM Oliveros JC Valencia A Bioinformatics methods for the analysis of expression arrays: data clustering and information extraction J Biotechnol 2002, 98:269-283. 10.1016/S0168-1656(02)00137-2 12141992
    • (2002) J Biotechnol , vol.98 , pp. 269-283
    • Tamames, J.1    Clark, D.2    Herrero, J.3    Dopazo, J.4    Blaschke, C.5    Fernandez, J.M.6    Oliveros, J.C.7    Valencia, A.8
  • 3
    • 12444263223 scopus 로고    scopus 로고
    • Statistical analysis of microarray data
    • 10.1080/13556210412331327795 15849016
    • Reimers M Statistical analysis of microarray data Addict Biol 2005, 10:23-35. 10.1080/13556210412331327795 15849016
    • (2005) Addict Biol , vol.10 , pp. 23-35
    • Reimers, M.1
  • 4
    • 33750414249 scopus 로고    scopus 로고
    • A multivariate empirical Bayes statistic for replicated microarray time course data
    • 10.1214/009053606000000759
    • Tai YC Speed TP A multivariate empirical Bayes statistic for replicated microarray time course data Ann Stat 2006, 34(6):2387-2412. 10.1214/ 009053606000000759
    • (2006) Ann Stat , vol.34 , Issue.6 , pp. 2387-2412
    • Tai, Y.C.1    Speed, T.P.2
  • 6
    • 20844445318 scopus 로고    scopus 로고
    • Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets
    • 1142401 15932943 10.1073/pnas.0503392102
    • Persson S Wei H Milne J Page GR Somerville CR Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets Proc Natl Acad Sci USA 2005, 102(24):8633-8638. 1142401 15932943 10.1073/pnas.0503392102
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.24 , pp. 8633-8638
    • Persson, S.1    Wei, H.2    Milne, J.3    Page, G.R.4    Somerville, C.R.5
  • 7
    • 33646147811 scopus 로고    scopus 로고
    • maSigPro: A method to identify significantly differential expression profiles in time-course microarray experiments
    • 10.1093/bioinformatics/btl056 16481333
    • Conesa A Neuda MJ Ferrer A Talön M maSigPro: A method to identify significantly differential expression profiles in time-course microarray experiments Bioinformatics 2006, 22(9):1096-1102. 10.1093/bioinformatics/ btl056 16481333
    • (2006) Bioinformatics , vol.22 , Issue.9 , pp. 1096-1102
    • Conesa, A.1    Neuda, M.J.2    Ferrer, A.3    Talön, M.4
  • 8
    • 33645507298 scopus 로고    scopus 로고
    • A quantitative study of gene regulation involved in the immune response of Anopheline mosquitoes: An application of Bayesian hierarchical clustering of curves
    • 10.1198/016214505000000187
    • Heard NA Holmes CC Stephens DA A quantitative study of gene regulation involved in the immune response of Anopheline mosquitoes: An application of Bayesian hierarchical clustering of curves J Am Stat Assoc 2006, 101(473):18-29. 10.1198/016214505000000187
    • (2006) J Am Stat Assoc , vol.101 , Issue.473 , pp. 18-29
    • Heard, N.A.1    Holmes, C.C.2    Stephens, D.A.3
  • 9
    • 34548390720 scopus 로고    scopus 로고
    • Statistical reconstruction of transcription factor activity using Michaelis-Menten kinetics
    • 10.1111/j.1541-0420.2007.00757.x 17825013
    • Kahnin R Vinciotti V Mersinias V Smith CP Wit P Statistical reconstruction of transcription factor activity using Michaelis-Menten kinetics Biometrics 2007, 63(3):816-823. 10.1111/ j.1541-0420.2007.00757.x 17825013
    • (2007) Biometrics , vol.63 , Issue.3 , pp. 816-823
    • Kahnin, R.1    Vinciotti, V.2    Mersinias, V.3    Smith, C.P.4    Wit, P.5
  • 10
    • 14844307159 scopus 로고    scopus 로고
    • Inferring quantitative models of regulatory networks from expression data
    • 10.1093/bioinformatics/bth941 15262806
    • Nachman I Regev A Friedman N Inferring quantitative models of regulatory networks from expression data Bioinformatics 2004, 20(suppl 1):i248-i256. 10.1093/bioinformatics/bth941 15262806
    • (2004) Bioinformatics , vol.20 , Issue.SUPPL. 1
    • Nachman, I.1    Regev, A.2    Friedman, N.3
  • 11
    • 0036724945 scopus 로고    scopus 로고
    • Improved quantitative real-time RT-PCR for expression profiling of individual cells
    • 10.1093/nar/gnf088
    • Liss B Improved quantitative real-time RT-PCR for expression profiling of individual cells Nucleic Acids Res 2002, 30(17):89-98. 10.1093/nar/ gnf088
    • (2002) Nucleic Acids Res , vol.30 , Issue.17 , pp. 89-98
    • Liss, B.1
  • 12
    • 0035198829 scopus 로고    scopus 로고
    • Genes with increased transcript levels following harvest of the sporophore of Agaricus bisporus have multiple physiological roles
    • 10.1016/S0953-7562(08)61993-0
    • Eastwood DC Kingsnorth CS Jones HJ Burton KS Genes with increased transcript levels following harvest of the sporophore of Agaricus bisporus have multiple physiological roles Mycol Res 2001,105(10):1223-123. 10.1016/S0953-7562(08)61993-0
    • (2001) Mycol Res , vol.105 , Issue.10 , pp. 123-1223
    • Eastwood, D.C.1    Kingsnorth, C.S.2    Jones, H.J.3    Burton, K.S.4
  • 13
    • 0035571462 scopus 로고    scopus 로고
    • Cloning and post-harvest expression of serine proteinase transcripts in the cultivated mushroom Agaricus bisporus
    • 10.1006/fgbi.2001.1257
    • Kingsnorth CS Eastwood DC Burton KS Cloning and post-harvest expression of serine proteinase transcripts in the cultivated mushroom Agaricus bisporus Fungal Gen Biol 2001, 32:135-144. 10.1006/fgbi.2001.1257
    • (2001) Fungal Gen Biol , vol.32 , pp. 135-144
    • Kingsnorth, C.S.1    Eastwood, D.C.2    Burton, K.S.3
  • 15
    • 18844431604 scopus 로고    scopus 로고
    • Molecular cloning of developmentally specific genes by representational difference analysis during fruiting body formation in the basidiomycete Lentinula edodes
    • 10.1016/j.fgb.2005.03.003
    • Miyazaki Y Nakamura M Babasaki K Molecular cloning of developmentally specific genes by representational difference analysis during fruiting body formation in the basidiomycete Lentinula edodes Fungal Gen Biol 2005, 42:493-505. 10.1016/j.fgb.2005.03.003
    • (2005) Fungal Gen Biol , vol.42 , pp. 493-505
    • Miyazaki, Y.1    Nakamura, M.2    Babasaki, K.3
  • 17
    • 33645088404 scopus 로고    scopus 로고
    • Isolation and analysis of genes specifically expressed during fruiting body development in the basidiomycete Flammulina velutipes by fluorescence differential display
    • 10.1111/j.1574-6968.2005.00023.x 16451195
    • Yamada M Sakuraba S Shibata K Taguchi G Inatomi S Okazaki M Shimosaka M Isolation and analysis of genes specifically expressed during fruiting body development in the basidiomycete Flammulina velutipes by fluorescence differential display FEMS Microbiol Lett 2006, 254:165-172. 10.1111/j.1574-6968.2005.00023.x 16451195
    • (2006) FEMS Microbiol Lett , vol.254 , pp. 165-172
    • Yamada, M.1    Sakuraba, S.2    Shibata, K.3    Taguchi, G.4    Inatomi, S.5    Okazaki, M.6    Shimosaka, M.7
  • 18
    • 18844476379 scopus 로고    scopus 로고
    • Life history and developmental processes in the basidiomycete Coprinus cinereus
    • 98996 10839819 10.1128/MMBR.64.2.316-353.2000
    • Kues U Life history and developmental processes in the basidiomycete Coprinus cinereus Microbiol Mol Biol Rev 2000, 64(2):316-353. 98996 10839819 10.1128/MMBR.64.2.316-353.2000
    • (2000) Microbiol Mol Biol Rev , vol.64 , Issue.2 , pp. 316-353
    • Kues, U.1
  • 19
    • 0036013779 scopus 로고    scopus 로고
    • Molecular genetics of sexual development in the mushroom Coprinus cinereus
    • 10.1002/bies.10083 12001268
    • Kamada T Molecular genetics of sexual development in the mushroom Coprinus cinereus BioEssays 2002, 24:449-459. 10.1002/bies.10083 12001268
    • (2002) BioEssays , vol.24 , pp. 449-459
    • Kamada, T.1
  • 20
    • 33645229284 scopus 로고    scopus 로고
    • Differential expression of a putative riboflavin-aldehyde-forming enzyme (raf) gene during development and post-harvest storage and in different tissue of the sporophore in Agaricus bisporus
    • 10.1007/s00253-005-0084-9 16059685
    • Sreenivasaprasad S Eastwood DC Browning N Lewis SMJ Burton KS Differential expression of a putative riboflavin-aldehyde-forming enzyme (raf) gene during development and post-harvest storage and in different tissue of the sporophore in Agaricus bisporus Appl Microbiol Biotechnol 2006, 70:470-476. 10.1007/s00253-005-0084-9 16059685
    • (2006) Appl Microbiol Biotechnol , vol.70 , pp. 470-476
    • Sreenivasaprasad, S.1    Eastwood, D.C.2    Browning, N.3    Lewis, S.M.J.4    Burton, K.S.5
  • 21
    • 43149105201 scopus 로고    scopus 로고
    • Rapid changes in gene expression dynamics in response to superoxide reveal SoxRS-dependent and independent transcriptional networks
    • 2064960 18000553 10.1371/journal.pone.0001186
    • Blanchard JL Wholey W-Y Conlon EM Pomposiello PJ Rapid changes in gene expression dynamics in response to superoxide reveal SoxRS-dependent and independent transcriptional networks PLoS ONE 2007, 2(11):e1186. 2064960 18000553 10.1371/journal.pone.0001186
    • (2007) PLoS ONE , vol.2 , Issue.11
    • Blanchard, J.L.1    Wholey, W.-Y.2    Conlon, E.M.3    Pomposiello, P.J.4
  • 22
    • 0141742369 scopus 로고    scopus 로고
    • Modelling of corticosteroid pharmacogenomics in rat liver using gene microarrays
    • 10.1124/jpet.103.053256 12808002
    • Jin JY Almon RR Dubois DC Jusko J Modelling of corticosteroid pharmacogenomics in rat liver using gene microarrays J Pharmacol Exp Ther 2003, 307:93-109. 10.1124/jpet.103.053256 12808002
    • (2003) J Pharmacol Exp Ther , vol.307 , pp. 93-109
    • Jin, J.Y.1    Almon, R.R.2    Dubois, D.C.3    Jusko, J.4
  • 23
    • 0034760964 scopus 로고    scopus 로고
    • Habitat patchiness and plant species richness
    • 10.1046/j.1461-0248.2001.00242.x
    • Bascampte J Rodriguez MA Habitat patchiness and plant species richness Ecol Lett 2001, 4:417-420. 10.1046/j.1461-0248.2001.00242.x
    • (2001) Ecol Lett , vol.4 , pp. 417-420
    • Bascampte, J.1    Rodriguez, M.A.2
  • 24
    • 0042424788 scopus 로고    scopus 로고
    • Effects of humidity on the development of grapevine powdery mildew
    • 10.1094/PHYTO.2003.93.9.1137
    • Carroll JE Wilcox WF Effects of humidity on the development of grapevine powdery mildew Phytopathology 2003, 93:1137-1144. 10.1094/ PHYTO.2003.93.9.1137
    • (2003) Phytopathology , vol.93 , pp. 1137-1144
    • Carroll, J.E.1    Wilcox, W.F.2
  • 26
    • 10444257943 scopus 로고    scopus 로고
    • Yeast signalling pathways in oxidative stress response
    • 10.1016/j.mrfmmm.2004.09.006
    • Ikner A Shiozaki K Yeast signalling pathways in oxidative stress response Mutat Res-Fund Mol Mech Mutagen 2005, 569(1-2):13-27. 10.1016/ j.mrfmmm.2004.09.006
    • (2005) Mutat Res-Fund Mol Mech Mutagen , vol.569 , Issue.1-2 , pp. 13-27
    • Ikner, A.1    Shiozaki, K.2
  • 27
    • 0031407151 scopus 로고    scopus 로고
    • Morphological studies on the life span, development stages, senescence and death of fruiting bodies of Agaricus bisporus
    • 10.1017/S0953756297005212
    • Umar MH van Griensven LJLD Morphological studies on the life span, development stages, senescence and death of fruiting bodies of Agaricus bisporus Mycol Res 1997, 101:1409-1422. 10.1017/S0953756297005212
    • (1997) Mycol Res , vol.101 , pp. 1409-1422
    • Umar, M.H.1    van Griensven, L.J.L.D.2
  • 28
    • 0031960058 scopus 로고    scopus 로고
    • Morphometric analysis of ageing mushrooms (Agaricus bisporus) during post-harvest development
    • 10.1016/S0925-5214(97)00069-0
    • Braaksma A van Doorn AA Kieft H van Aelist AC Morphometric analysis of ageing mushrooms (Agaricus bisporus) during post-harvest development Postharvest Biol Technol 1998, 13:71-79. 10.1016/S0925-5214(97)00069-0
    • (1998) Postharvest Biol Technol , vol.13 , pp. 71-79
    • Braaksma, A.1    van Doorn, A.A.2    Kieft, H.3    van Aelist, A.C.4
  • 29
    • 0028303884 scopus 로고
    • The high-mobility group protein HMG1 can reversibly inhibit class-II gene-transcription by interaction with the TATA-binding protein
    • 8006019
    • Ge H Roeder RG The high-mobility group protein HMG1 can reversibly inhibit class-II gene-transcription by interaction with the TATA-binding protein J Biol Chem 1994, 269(25):17136-17140. 8006019
    • (1994) J Biol Chem , vol.269 , Issue.25 , pp. 17136-17140
    • Ge, H.1    Roeder, R.G.2
  • 30
    • 0036510750 scopus 로고    scopus 로고
    • HMGB1 and HMGB2 cell-specifically down-regulate the p53-and p-73-dependant sequence-specific transactivation from the human Bax gene promoter
    • 10.1074/jbc.M110233200 11748232
    • Stros M Ozaki T Bacikova A Kageyama H Nakagawara A HMGB1 and HMGB2 cell-specifically down-regulate the p53-and p-73-dependant sequence-specific transactivation from the human Bax gene promoter J Biol Chem 2002, 277(9):7157-7164. 10.1074/jbc.M110233200 11748232
    • (2002) J Biol Chem , vol.277 , Issue.9 , pp. 7157-7164
    • Stros, M.1    Ozaki, T.2    Bacikova, A.3    Kageyama, H.4    Nakagawara, A.5
  • 31
    • 84986841637 scopus 로고
    • Changes in respiration and carbohydrates during the post-harvest storage of mushrooms (Agaricus bisporus)
    • 10.1002/jsfa.2740260615
    • Hammond JBW Nichols R Changes in respiration and carbohydrates during the post-harvest storage of mushrooms (Agaricus bisporus) J Sci Food Agric 1975, 26:835-842. 10.1002/jsfa.2740260615
    • (1975) J Sci Food Agric , vol.26 , pp. 835-842
    • Hammond, J.B.W.1    Nichols, R.2
  • 32
  • 33
    • 3142744689 scopus 로고    scopus 로고
    • Modelling T-cell activation using gene expression profiling and state-space models
    • 10.1093/bioinformatics/bth093 14962938
    • Rangel C Angus J Ghahramani Z Lioumi M Sotheran E Gaiba A Wild DL Falciani F Modelling T-cell activation using gene expression profiling and state-space models Bioinformatics 2004, 20(9):1361-1372. 10.1093/ bioinformatics/bth093 14962938
    • (2004) Bioinformatics , vol.20 , Issue.9 , pp. 1361-1372
    • Rangel, C.1    Angus, J.2    Ghahramani, Z.3    Lioumi, M.4    Sotheran, E.5    Gaiba, A.6    Wild, D.L.7    Falciani, F.8
  • 34
    • 13844253637 scopus 로고    scopus 로고
    • A Bayesian approach to reconstructing genetic regulatory networks with hiddenfactors
    • 10.1093/bioinformatics/bti014 15353451
    • Beal MJ Falciani F Ghahramani Z Rangel C Wild DL A Bayesian approach to reconstructing genetic regulatory networks with hiddenfactors Bioinformatics 2005, 21(3):349-356. 10.1093/bioinformatics/bti014 15353451
    • (2005) Bioinformatics , vol.21 , Issue.3 , pp. 349-356
    • Beal, M.J.1    Falciani, F.2    Ghahramani, Z.3    Rangel, C.4    Wild, D.L.5
  • 36
    • 0002916893 scopus 로고
    • An alternative method for the visualization of RNA in formaldehyde agarose gels
    • Rosen KM Villa-Komaroff L An alternative method for the visualization of RNA in formaldehyde agarose gels Focus 1993, 12(2):23-24.
    • (1993) Focus , vol.12 , pp. 23-24
    • Rosen, K.M.1    Villa-Komaroff, L.2
  • 37
    • 0035423813 scopus 로고    scopus 로고
    • Ribosomal 18S RNA prevails over Glyceraldehyde-3-phosphate dehydrogenase and β-actin genes as internal standards for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations
    • 10.1006/abio.2001.5171
    • Goidin D Mamessier A Statquet M.-J Schmitt D Berthier-Vergnes O Ribosomal 18S RNA prevails over Glyceraldehyde-3-phosphate dehydrogenase and β-actin genes as internal standards for quantitative comparison of mRNA levels in invasive and noninvasive human melanoma cell subpopulations Anal Biochem 2000, 295(1):17-21. 10.1006/abio.2001.5171
    • (2000) Anal Biochem , vol.295 , Issue.1 , pp. 17-21
    • Goidin, D.1    Mamessier, A.2    Statquet, M.-J.3    Schmitt, D.4    Berthier-Vergnes, O.5
  • 38
    • 0036667911 scopus 로고    scopus 로고
    • Sensitivity and accuracy of quantitative real-time polymerase chain reaction using SYBR green I depends on cDNA synthesis conditions
    • 10.1016/S0003-2697(02)00021-0 12137780
    • Lekanne Deprez RH Fijnvandraat AC Ruijter JM Moorman AFM Sensitivity and accuracy of quantitative real-time polymerase chain reaction using SYBR green I depends on cDNA synthesis conditions Anal Biochem 2002, 307(1):63-69. 10.1016/S0003-2697(02)00021-0 12137780
    • (2002) Anal Biochem , vol.307 , Issue.1 , pp. 63-69
    • Lekanne Deprez, R.H.1    Fijnvandraat, A.C.2    Ruijter, J.M.3    Moorman, A.F.M.4
  • 39
    • 0030794554 scopus 로고    scopus 로고
    • Isolation of developmentally regulated genes from the edible mushroom Agaricus bisporus
    • 9202475
    • de Groot PWJ Schaap PJ van Griensven LJLD Visser J Isolation of developmentally regulated genes from the edible mushroom Agaricus bisporus Microbiology 1997, 143:1993-2001. 9202475
    • (1997) Microbiology , vol.143 , pp. 1993-2001
    • de Groot, P.W.J.1    Schaap, P.J.2    van Griensven, L.J.L.D.3    Visser, J.4


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