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Volumn 12, Issue 6, 2017, Pages

SeqEnrich: A tool to predict transcription factor networks from co-expressed Arabidopsis and Brassica napus gene sets

Author keywords

[No Author keywords available]

Indexed keywords

DNA; TRANSCRIPTION FACTOR; ARABIDOPSIS PROTEIN; PLANT DNA; PLANT PROTEIN;

EID: 85020281528     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0178256     Document Type: Article
Times cited : (27)

References (48)
  • 1
    • 78651339097 scopus 로고    scopus 로고
    • AGRIS: The arabidopsis gene regulatory information server, an update
    • PMID: 21059685
    • Yilmaz A, Mejia-Guerra MK, Kurz K, Liang X, Welch L, Grotewold E. AGRIS: The arabidopsis gene regulatory information server, an update. Nucleic Acids Res. 2011; 39: 1118-1122. https://doi.org/10.1093/nar/gkq1120 PMID: 21059685
    • (2011) Nucleic Acids Res. , vol.39 , pp. 1118-1122
    • Yilmaz, A.1    Mejia-Guerra, M.K.2    Kurz, K.3    Liang, X.4    Welch, L.5    Grotewold, E.6
  • 2
    • 84964892288 scopus 로고    scopus 로고
    • HRGRN: A graph search-empowered integrative database of arabidopsis signaling transduction, metabolism and gene regulation networks
    • PMID: 26657893
    • Dai X, Li J, Liu T, Zhao PX. HRGRN: A graph search-empowered integrative database of arabidopsis signaling transduction, metabolism and gene regulation networks. Plant Cell Physiol. 2016; 57: e12. https://doi.org/10.1093/pcp/pcv200 PMID: 26657893
    • (2016) Plant Cell Physiol. , vol.57 , pp. e12
    • Dai, X.1    Li, J.2    Liu, T.3    Zhao, P.X.4
  • 3
    • 0037249498 scopus 로고    scopus 로고
    • The arabidopsis information resource (TAIR): A model organism database providing a centralized, curated gateway to arabidopsis biology, research materials and community
    • PMID: 12519987
    • Rhee SY. The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. Nucleic Acids Res. 2003; 31: 224-228. https://doi.org/10.1093/nar/gkg076 PMID: 12519987
    • (2003) Nucleic Acids Res. , vol.31 , pp. 224-228
    • Rhee, S.Y.1
  • 4
    • 84990817914 scopus 로고    scopus 로고
    • New BAR tools for mining expression data and exploring Cis-elements in arabidopsis thaliana
    • PMID: 27401965
    • Austin RS, Hiu S, Waese J, Ierullo M, Pasha A, Wang TT, et al. New BAR tools for mining expression data and exploring Cis-elements in Arabidopsis thaliana. Plant J. 2016; 88: 490-504. https://doi.org/10.1111/tpj.13261 PMID: 27401965
    • (2016) Plant J. , vol.88 , pp. 490-504
    • Austin, R.S.1    Hiu, S.2    Waese, J.3    Ierullo, M.4    Pasha, A.5    Wang, T.T.6
  • 5
    • 84956576343 scopus 로고    scopus 로고
    • Arabidopsis motif scanner
    • BMC Bioinformatics; PMID: 26817596
    • Mele G. Arabidopsis Motif Scanner. BMC Bioinformatics. BMC Bioinformatics; 2016; 17: 50. https://doi.org/10.1186/s12859-016-0896-x PMID: 26817596
    • (2016) BMC Bioinformatics , vol.17 , pp. 50
    • Mele, G.1
  • 7
    • 73949091601 scopus 로고    scopus 로고
    • Manipulating large-scale arabidopsis microarray expression data: Identifying dominant expression patterns and biological process enrichment
    • In: Belostotsky D, editor. Humana Press
    • Orlando DA, Brady SM, Koch JD, Dinneny R, Benfey PN. Manipulating Large-Scale Arabidopsis Microarray Expression Data: Identifying Dominant Expression Patterns and Biological Process Enrichment. In: Belostotsky D, editor. Plant Systems Biology. Humana Press; 2009. pp. 57-77.
    • (2009) Plant Systems Biology , pp. 57-77
    • Orlando, D.A.1    Brady, S.M.2    Koch, J.D.3    Dinneny, R.4    Benfey, P.N.5
  • 8
    • 84873135198 scopus 로고    scopus 로고
    • Comprehensive developmental profiles of gene activity in regions and subregions of the arabidopsis seed
    • 2013/01/16. PMID: 23319655
    • Belmonte MF, Kirkbride RC, Stone SL, Pelletier JM, Bui AQ, Yeung EC, et al. Comprehensive developmental profiles of gene activity in regions and subregions of the Arabidopsis seed. Proc Natl Acad Sci U S A. 2013/01/16. 2013; 110: E435-44. https://doi.org/10.1073/pnas.1222061110 PMID: 23319655
    • (2013) Proc Natl Acad Sci U S A , vol.110 , pp. E435-E444
    • Belmonte, M.F.1    Kirkbride, R.C.2    Stone, S.L.3    Pelletier, J.M.4    Bui, A.Q.5    Yeung, E.C.6
  • 9
    • 84925678331 scopus 로고    scopus 로고
    • Transcriptome atlas of the arabidopsis funiculus-A study of maternal seed subregions
    • PMID: 25684030
    • Khan D, Millar JL, Girard IJ, Chan A, Kirkbride RC, Pelletier JM, et al. Transcriptome atlas of the Arabidopsis funiculus-a study of maternal seed subregions. Plant J. 2015; 82: 41-53. https://doi.org/10.1111/tpj.12790 PMID: 25684030
    • (2015) Plant J. , vol.82 , pp. 41-53
    • Khan, D.1    Millar, J.L.2    Girard, I.J.3    Chan, A.4    Kirkbride, R.C.5    Pelletier, J.M.6
  • 11
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant arabidopsis thaliana
    • PMID: 11130711
    • The Arabidopsis Genome Initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature. 2000; 408: 796-815. https://doi.org/10.1038/35048692 PMID: 11130711
    • (2000) Nature , vol.408 , pp. 796-815
  • 12
    • 84906689347 scopus 로고    scopus 로고
    • Early allopolyploid evolution in the post-neolithic brassica napus oilseed genome
    • (80-) PMID: 25146293
    • Chalhoub B, Denoeud F, Liu S, Parkin I a. P, Tang H, Wang X, et al. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science (80-). 2014; 345: 950-953. https://doi.org/10.1126/science.1253435 PMID: 25146293
    • (2014) Science , vol.345 , pp. 950-953
    • Chalhoub, B.1    Denoeud, F.2    Liu, S.3    Parkin, I.A.P.4    Tang, H.5    Wang, X.6
  • 13
    • 84964679957 scopus 로고    scopus 로고
    • Positional distribution of transcription factor binding sites in arabidopsis thaliana
    • Nature Publishing Group; PMID: 27117388
    • Yu C-P, Lin J-J, Li W-H. Positional distribution of transcription factor binding sites in Arabidopsis thaliana. Sci Rep. Nature Publishing Group; 2016; 6: 25164. https://doi.org/10.1038/srep25164 PMID: 27117388
    • (2016) Sci Rep. , vol.6 , pp. 25164
    • Yu, C.-P.1    Lin, J.-J.2    Li, W.-H.3
  • 14
    • 84893861206 scopus 로고    scopus 로고
    • DNA-binding specificities of plant transcription factors and their potential to define target genes
    • PMID: 24477691
    • Franco-Zorrilla JM, López-Vidriero I, Carrasco JL, Godoy M, Vera P, Solano R. DNA-binding specificities of plant transcription factors and their potential to define target genes. Proc Natl Acad Sci U S A. 2014; 111: 2367-72. https://doi.org/10.1073/pnas.1316278111 PMID: 24477691
    • (2014) Proc Natl Acad Sci U S A , vol.111 , pp. 2367-2372
    • Franco-Zorrilla, J.M.1    López-Vidriero, I.2    Carrasco, J.L.3    Godoy, M.4    Vera, P.5    Solano, R.6
  • 15
    • 84949023944 scopus 로고    scopus 로고
    • Analysis of the DNA-binding activities of the arabidopsis R2R3-MYB transcription factor family by one-hybrid experiments in yeast
    • PMID: 26484765
    • Kelemen Z, Sebastian A, Xu W, Grain D, Salsac F, Avon A, et al. Analysis of the DNA-binding activities of the arabidopsis R2R3-MYB transcription factor family by one-hybrid experiments in yeast. PLoS One. 2015; 10: 1-22. https://doi.org/10.1371/journal.pone.0141044 PMID: 26484765
    • (2015) PLoS One , vol.10 , pp. 1-22
    • Kelemen, Z.1    Sebastian, A.2    Xu, W.3    Grain, D.4    Salsac, F.5    Avon, A.6
  • 16
    • 84975134214 scopus 로고    scopus 로고
    • Cistrome and epicistrome features shape the regulatory DNA landscape
    • Elsevier Inc.; PMID: 27203113
    • O'Malley RC, Huang SC, Song L, Lewsey MG, Bartlett A, Nery JR, et al. Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape. Cell. Elsevier Inc.; 2016; 165: 1280-1292. https://doi.org/10.1016/j.cell.2016.04.038 PMID: 27203113
    • (2016) Cell , vol.165 , pp. 1280-1292
    • O'Malley, R.C.1    Huang, S.C.2    Song, L.3    Lewsey, M.G.4    Bartlett, A.5    Nery, J.R.6
  • 17
    • 84944474687 scopus 로고    scopus 로고
    • Subgroup-specific intrinsic disorder profiles of arabidopsis NAC transcription factors: Identification of functional hotspots
    • PMID: 26107850
    • Stender EG, O'Shea C, Skriver K. Subgroup-specific intrinsic disorder profiles of arabidopsis NAC transcription factors: Identification of functional hotspots. Plant Signal Behav. 2015; 10: e1010967. https://doi.org/10.1080/15592324.2015.1010967 PMID: 26107850
    • (2015) Plant Signal Behav. , vol.10 , pp. e1010967
    • Stender, E.G.1    O'Shea, C.2    Skriver, K.3
  • 18
    • 0041346459 scopus 로고    scopus 로고
    • Arabidopsis local resistance to botrytis cinerea involves salicylic acid and camalexin and requires EDS4 and PAD2, but not SID2, EDS5 or PAD4
    • PMID: 12848825
    • Ferrari S, Plotnikova JM, De Lorenzo G, Ausubel FM. Arabidopsis local resistance to Botrytis cinerea involves salicylic acid and camalexin and requires EDS4 and PAD2, but not SID2, EDS5 or PAD4. Plant J. 2003; 35: 193-205. https://doi.org/10.1046/j.1365-313X.2003.01794.x PMID: 12848825
    • (2003) Plant J. , vol.35 , pp. 193-205
    • Ferrari, S.1    Plotnikova, J.M.2    De Lorenzo, G.3    Ausubel, F.M.4
  • 19
    • 9144228236 scopus 로고    scopus 로고
    • Conservation, diversification and expansion of C2H2 zinc finger proteins in the arabidopsis thaliana genome
    • PMID: 15236668
    • Englbrecht CC, Schoof H, Böhm S. Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome. BMC Genomics. 2004; 5: 39. https://doi.org/10.1186/1471-2164-5-39 PMID: 15236668
    • (2004) BMC Genomics , vol.5 , pp. 39
    • Englbrecht, C.C.1    Schoof, H.2    Böhm, S.3
  • 20
    • 1942501774 scopus 로고    scopus 로고
    • The GATA family of transcription factors in arabidopsis and rice
    • PMID: 15084732
    • Reyes JC, Muro-Pastor MI, Florencio FJ. The GATA family of transcription factors in Arabidopsis and rice. Plant Physiol. 2004; 134: 1718-1732. https://doi.org/10.1104/pp.103.037788 PMID: 15084732
    • (2004) Plant Physiol. , vol.134 , pp. 1718-1732
    • Reyes, J.C.1    Muro-Pastor, M.I.2    Florencio, F.J.3
  • 21
    • 33646832415 scopus 로고    scopus 로고
    • Genome-wide analysis of the ERF gene family
    • PMID: 16407444
    • Nakano T, Suzuki K, Fujimura T, Shinshi H. Genome-Wide Analysis of the ERF Gene Family. Plant Physiol. 2006; 140: 411-432. https://doi.org/10.1104/pp.105.073783 PMID: 16407444
    • (2006) Plant Physiol. , vol.140 , pp. 411-432
    • Nakano, T.1    Suzuki, K.2    Fujimura, T.3    Shinshi, H.4
  • 22
    • 41749085508 scopus 로고    scopus 로고
    • Genome-wide analysis of heat shock transcription factor families in rice and arabidopsis
    • PMID: 18407058
    • Guo J, Wu J, Ji Q, Wang C, Luo L, Yuan Y, et al. Genome-wide analysis of heat shock transcription factor families in rice and Arabidopsis. J Genet Genomics. 2008; 35: 105-118. https://doi.org/10.1016/S1673-8527(08)60016-8 PMID: 18407058
    • (2008) J Genet Genomics , vol.35 , pp. 105-118
    • Guo, J.1    Wu, J.2    Ji, Q.3    Wang, C.4    Luo, L.5    Yuan, Y.6
  • 23
    • 40549134512 scopus 로고    scopus 로고
    • Genome-wide analysis of CCCH zinc finger family in arabidopsis and rice
    • PMID: 18221561
    • Wang D, Guo Y, Wu C, Yang G, Li Y, Zheng C. Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice. BMC Genomics. 2008; 9: 44. https://doi.org/10.1186/1471-2164-9-44 PMID: 18221561
    • (2008) BMC Genomics , vol.9 , pp. 44
    • Wang, D.1    Guo, Y.2    Wu, C.3    Yang, G.4    Li, Y.5    Zheng, C.6
  • 24
    • 84858072869 scopus 로고    scopus 로고
    • The trihelix family of transcription factors-light, stress and development
    • Elsevier Ltd; PMID: 22236699
    • Kaplan-Levy RN, Brewer PB, Quon T, Smyth DR. The trihelix family of transcription factors-light, stress and development. Trends Plant Sci. Elsevier Ltd; 2012; 17: 163-171. https://doi.org/10.1016/j. tplants.2011.12.002 PMID: 22236699
    • (2012) Trends Plant Sci. , vol.17 , pp. 163-171
    • Kaplan-Levy, R.N.1    Brewer, P.B.2    Quon, T.3    Smyth, D.R.4
  • 25
    • 85020240856 scopus 로고    scopus 로고
    • Genome-wide identification and evolutionary and expression analyses of MYB-related genes in land plants
    • Du HAI, Wang YONGIN, Xie YI, Liang ZHE, Jiang SANIE, Zhang SHH, et al. Genome-Wide Identification and Evolutionary and Expression Analyses of MYB-Related Genes in Land Plants. DNA Res. 2013; 1: 1-12.
    • (2013) DNA Res. , vol.1 , pp. 1-12
    • Du, H.A.I.1    Yongin, W.2    Xie, Y.I.3    Liang, Z.H.E.4    Sanie, J.5    Zhang, S.H.H.6
  • 26
    • 19244384030 scopus 로고    scopus 로고
    • Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in arabidopsis: New openings to the MADS world
    • PMID: 12837945
    • Parenicova L. Molecular and Phylogenetic Analyses of the Complete MADS-Box Transcription Factor Family in Arabidopsis: New Openings to the MADS World. Plant Cell Online. 2003; 15: 1538-1551. https://doi.org/10.1105/tpc.011544 PMID: 12837945
    • (2003) Plant Cell Online , vol.15 , pp. 1538-1551
    • Parenicova, L.1
  • 27
    • 0037094360 scopus 로고    scopus 로고
    • A gene trap dissociation insertion line, associated with a RING-H2 finger gene, shows tissue specific and developmental regulated expression of the gene in arabidopsis
    • PMID: 12062802
    • Lechner E, Goloubinoff P, Genschik P, Shen WH. A gene trap Dissociation insertion line, associated with a RING-H2 finger gene, shows tissue specific and developmental regulated expression of the gene in Arabidopsis. Gene. 2002; 290: 63-71. https://doi.org/10.1016/S0378-1119(02)00556-5 PMID: 12062802
    • (2002) Gene , vol.290 , pp. 63-71
    • Lechner, E.1    Goloubinoff, P.2    Genschik, P.3    Shen, W.H.4
  • 28
    • 84995598436 scopus 로고    scopus 로고
    • E3 ubiquitin ligase SP1 regulates peroxisome biogenesis in arabidopsis
    • Pan R, Satkovich J, Hu J. E3 ubiquitin ligase SP1 regulates peroxisome biogenesis in Arabidopsis. Proc Natl Acad Sci U S A. 2016; https://doi.org/10.1073/pnas.1613530113
    • (2016) Proc Natl Acad Sci U S A
    • Pan, R.1    Satkovich, J.2    Hu, J.3
  • 29
    • 21444443478 scopus 로고    scopus 로고
    • MatInspector and beyond: Promoter analysis based on transcription factor binding sites
    • PMID: 15860560
    • Cartharius K, Frech K, Grote K, Klocke B, Haltmeier M, Klingenhoff A, et al. MatInspector and beyond: Promoter analysis based on transcription factor binding sites. Bioinformatics. 2005; 21: 2933-2942. https://doi.org/10.1093/bioinformatics/bti473 PMID: 15860560
    • (2005) Bioinformatics , vol.21 , pp. 2933-2942
    • Cartharius, K.1    Frech, K.2    Grote, K.3    Klocke, B.4    Haltmeier, M.5    Klingenhoff, A.6
  • 30
    • 80052461299 scopus 로고    scopus 로고
    • Conservation of transcription factor binding events predicts gene expression across species
    • PMID: 21622661
    • Hemberg M, Kreiman G. Conservation of transcription factor binding events predicts gene expression across species. Nucleic Acids Res. 2011; 39: 7092-7102. https://doi.org/10.1093/nar/gkr404 PMID: 21622661
    • (2011) Nucleic Acids Res. , vol.39 , pp. 7092-7102
    • Hemberg, M.1    Kreiman, G.2
  • 31
    • 32044469882 scopus 로고    scopus 로고
    • The MYB transcription factor superfamily of arabidopsis: Expression analysis and phylogenetic comparison with the rice MYB family
    • PMID: 16463103
    • Yanhui C, Xiaoyuan Y, Kun H, Meihua L, Jigang L, Zhaofeng G, et al. The MYB transcription factor superfamily of Arabidopsis: Expression analysis and phylogenetic comparison with the rice MYB family. Plant Mol Biol. 2006; 60: 107-124. https://doi.org/10.1007/s11103-005-2910-y PMID: 16463103
    • (2006) Plant Mol Biol. , vol.60 , pp. 107-124
    • Yanhui, C.1    Xiaoyuan, Y.2    Kun, H.3    Meihua, L.4    Jigang, L.5    Zhaofeng, G.6
  • 32
    • 84925491555 scopus 로고    scopus 로고
    • An arabidopsis gene regulatory network for secondary cell wall synthesis
    • PMID: 25533953
    • Taylor-Teeples M, Lin L, de Lucas M, Turco G, Toal TW, Gaudinier A, et al. An Arabidopsis gene regulatory network for secondary cell wall synthesis. Nature; 2014; 517: 571-575. https://doi.org/10.1038/nature14099 PMID: 25533953
    • (2014) Nature; , vol.517 , pp. 571-575
    • Taylor-Teeples, M.1    Lin, L.2    De Lucas, M.3    Turco, G.4    Toal, T.W.5    Gaudinier, A.6
  • 33
    • 84952979955 scopus 로고    scopus 로고
    • BZR1 interacts with HY5 to mediate brassinosteroid- and light-regulated cotyledon opening in arabidopsis in darkness
    • Elsevier; PMID: 26363272
    • Li QF, He JX. BZR1 Interacts with HY5 to Mediate Brassinosteroid- and Light-Regulated Cotyledon Opening in Arabidopsis in Darkness. Mol Plant. Elsevier; 2016; 9: 113-125. https://doi.org/10.1016/j. molp.2015.08.014 PMID: 26363272
    • (2016) Mol Plant , vol.9 , pp. 113-125
    • Li, Q.F.1    He, J.X.2
  • 34
    • 84879509741 scopus 로고    scopus 로고
    • Differential control of seed primary dormancy in arabidopsis ecotypes by the transcription factor SPATULA
    • PMID: 23754415
    • Vaistij FE, Gan Y, Penfield S, Gilday AD, Dave A, He Z, et al. Differential control of seed primary dormancy in Arabidopsis ecotypes by the transcription factor SPATULA. Proc Natl Acad Sci U S A. 2013; 110: 10866-71. https://doi.org/10.1073/pnas.1301647110 PMID: 23754415
    • (2013) Proc Natl Acad Sci U S A , vol.110 , pp. 10866-10871
    • Vaistij, F.E.1    Gan, Y.2    Penfield, S.3    Gilday, A.D.4    Dave, A.5    He, Z.6
  • 35
    • 84973558166 scopus 로고    scopus 로고
    • Tissue-specific laser microdissection of the brassica napus funiculus improves gene discovery and spatial identification of biological processes
    • PMID: 27194740
    • Chan AC, Khan D, Girard IJ, Becker MG, Millar JL, Sytnik D, et al. Tissue-specific laser microdissection of the Brassica napus funiculus improves gene discovery and spatial identification of biological processes. J Exp Bot. 2016; 67: erw179. https://doi.org/10.1093/jxb/erw179 PMID: 27194740
    • (2016) J Exp Bot. , vol.67 , pp. erw179
    • Chan, A.C.1    Khan, D.2    Girard, I.J.3    Becker, M.G.4    Millar, J.L.5    Sytnik, D.6
  • 36
    • 85016635481 scopus 로고    scopus 로고
    • Transcriptome analysis of the brassica napus-leptosphaeria maculans pathosystem identifies receptor, signalling and structural genes underlying plant resistance
    • PMID: 28222234
    • Becker MG, Zhang X, Walker PL, Wan JC, Millar JL, Khan D, et al. Transcriptome analysis of the Brassica napus-Leptosphaeria maculans pathosystem identifies receptor, signalling and structural genes underlying plant resistance. Plant J. 2017; https://doi.org/10.1111/tpj.13514 PMID: 28222234
    • (2017) Plant J.
    • Becker, M.G.1    Zhang, X.2    Walker, P.L.3    Wan, J.C.4    Millar, J.L.5    Khan, D.6
  • 37
    • 84904556122 scopus 로고    scopus 로고
    • Identification of direct targets of transcription factor MYB46 provides insights into the transcriptional regulation of secondary wall biosynthesis
    • PMID: 24879533
    • Kim WC, Kim JY, Ko JH, Kang H, Han KH. Identification of direct targets of transcription factor MYB46 provides insights into the transcriptional regulation of secondary wall biosynthesis. Plant Mol Biol. 2014; 85: 589-599. https://doi.org/10.1007/s11103-014-0205-x PMID: 24879533
    • (2014) Plant Mol Biol. , vol.85 , pp. 589-599
    • Kim, W.C.1    Kim, J.Y.2    Ko, J.H.3    Kang, H.4    Han, K.H.5
  • 38
    • 48949120154 scopus 로고    scopus 로고
    • An AGAMOUS-related MADS-box gene, XAL1 (AGL12), regulates root meristem cell proliferation and flowering transition in arabidopsis
    • PMID: 18203871
    • Tapia-López R, García-Ponce B, Dubrovsky JG, Garay-Arroyo A, Pérez-Ruíz R V, Kim S-H, et al. An AGAMOUS-related MADS-box gene, XAL1 (AGL12), regulates root meristem cell proliferation and flowering transition in Arabidopsis. Plant Physiol. 2008; 146: 1182-1192. https://doi.org/10.1104/pp. 107.108647 PMID: 18203871
    • (2008) Plant Physiol. , vol.146 , pp. 1182-1192
    • Tapia-López, R.1    García-Ponce, B.2    Dubrovsky, J.G.3    Garay-Arroyo, A.4    Pérez-Ruíz, R.V.5    Kim, S.-H.6
  • 39
    • 84885164457 scopus 로고    scopus 로고
    • Histological and ultrastructural changes in canola (Brassica napus) funicular anatomy during the seed lifecycle
    • Chan A, Belmonte M. Histological and ultrastructural changes in canola (Brassica napus) funicular anatomy during the seed lifecycle. Botany. 2013; 91: 671-679. https://doi.org/10.1139/cjb-2013-0141
    • (2013) Botany , vol.91 , pp. 671-679
    • Chan, A.1    Belmonte, M.2
  • 40
    • 70350441252 scopus 로고    scopus 로고
    • Loss of calmodulin binding to bax inhibitor-1 affects pseudomonas-mediated hypersensitive response-associated cell death in arabidopsis thaliana
    • PMID: 19674971
    • Kawai-Yamada M, Hori Z, Ogawa T, Ihara-Ohori Y, Tamura K, Nagano M, et al. Loss of calmodulin binding to bax inhibitor-1 affects pseudomonas-mediated hypersensitive response-associated cell death in Arabidopsis thaliana. J Biol Chem. 2009; 284: 27998-28003. https://doi.org/10.1074/jbc.M109. 037234 PMID: 19674971
    • (2009) J Biol Chem. , vol.284 , pp. 27998-28003
    • Kawai-Yamada, M.1    Hori, Z.2    Ogawa, T.3    Ihara-Ohori, Y.4    Tamura, K.5    Nagano, M.6
  • 41
    • 77954299992 scopus 로고    scopus 로고
    • AgriGO: A GO analysis toolkit for the agricultural community
    • PMID: 20435677
    • Du Z, Zhou X, Ling Y, Zhang Z, Su Z. agriGO: A GO analysis toolkit for the agricultural community. Nucleic Acids Res. 2010; 38: 64-70. https://doi.org/10.1093/nar/gkq310 PMID: 20435677
    • (2010) Nucleic Acids Res. , vol.38 , pp. 64-70
    • Du, Z.1    Zhou, X.2    Ling, Y.3    Zhang, Z.4    Su, Z.5
  • 43
    • 23144439384 scopus 로고    scopus 로고
    • PatMatch: A program for finding patterns in peptide and nucleotide sequences
    • PMID: 15980466
    • Yan T, Yoo D, Berardini TZ, Mueller LA, Weems DC, Weng S, et al. PatMatch: A program for finding patterns in peptide and nucleotide sequences. Nucleic Acids Res. 2005; 33: 262-266. https://doi.org/10.1093/nar/gki368 PMID: 15980466
    • (2005) Nucleic Acids Res. , vol.33 , pp. 262-266
    • Yan, T.1    Yoo, D.2    Berardini, T.Z.3    Mueller, L.A.4    Weems, D.C.5    Weng, S.6
  • 45
    • 84883191963 scopus 로고    scopus 로고
    • OPOSSUM-3: Advanced analysis of regulatory motif over-representation across genes or ChIP-seq datasets
    • PMID: 22973536
    • Kwon AT, Arenillas DJ, Worsley Hunt R, Wasserman WW. oPOSSUM-3: advanced analysis of regulatory motif over-representation across genes or ChIP-Seq datasets. G3 (Bethesda). 2012; 2: 987-1002. https://doi.org/10.1534/g3.112.003202 PMID: 22973536
    • (2012) G3 (Bethesda) , vol.2 , pp. 987-1002
    • Kwon, A.T.1    Arenillas, D.J.2    Worsley Hunt, R.3    Wasserman, W.W.4
  • 46
    • 84905828039 scopus 로고    scopus 로고
    • Integrating biological pathways and genomic profiles with ChiBE 2
    • PMID: 25086704
    • Babur O, Dogrusoz U, Cakõr M, Aksoy BA, Schultz N, Sander C, et al. Integrating biological pathways and genomic profiles with ChiBE 2. BMC Genomics. 2014; 15: 642. https://doi.org/10.1186/1471-2164-15-642 PMID: 25086704
    • (2014) BMC Genomics. , vol.15 , pp. 642
    • Babur, O.1    Dogrusoz, U.2    Cakõr, M.3    Aksoy, B.A.4    Schultz, N.5    Sander, C.6
  • 47
    • 84881183309 scopus 로고    scopus 로고
    • Mapping functional transcription factor networks from gene expression data
    • PMID: 23636944
    • Haynes B, Maier E, Kramer M. Mapping Functional Transcription Factor Networks from Gene Expression Data. Genome Res. 2013; 23: 1319-1328. https://doi.org/10.1101/gr.150904.112 PMID: 23636944
    • (2013) Genome Res. , vol.23 , pp. 1319-1328
    • Haynes, B.1    Maier, E.2    Kramer, M.3
  • 48
    • 33846700587 scopus 로고    scopus 로고
    • Predicting transcription factor affinities to DNA from a biophysical model
    • PMID: 17098775
    • Roider HG, Kanhere A, Manke T, Vingron M. Predicting transcription factor affinities to DNA from a biophysical model. Bioinformatics. 2007; 23: 134-141. https://doi.org/10.1093/bioinformatics/btl565 PMID: 17098775
    • (2007) Bioinformatics , vol.23 , pp. 134-141
    • Roider, H.G.1    Kanhere, A.2    Manke, T.3    Vingron, M.4


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