메뉴 건너뛰기




Volumn 25, Issue , 2014, Pages 77-85

Role of DNA sequence based structural features of promoters in transcription initiation and gene expression

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

EID: 84893517434     PISSN: 0959440X     EISSN: 1879033X     Source Type: Journal    
DOI: 10.1016/j.sbi.2014.01.007     Document Type: Review
Times cited : (78)

References (81)
  • 2
    • 0036107903 scopus 로고    scopus 로고
    • Discovery of regulatory elements by a computational method for phylogenetic footprinting
    • Blanchette M., Tompa M. Discovery of regulatory elements by a computational method for phylogenetic footprinting. Genome Res 2002, 12:739-748.
    • (2002) Genome Res , vol.12 , pp. 739-748
    • Blanchette, M.1    Tompa, M.2
  • 6
    • 84871114575 scopus 로고    scopus 로고
    • Prokaryotic genome regulation: a revolutionary paradigm
    • Ishihama A. Prokaryotic genome regulation: a revolutionary paradigm. Proc Jpn Acad Ser B Phys Biol Sci 2012, 88:485-508.
    • (2012) Proc Jpn Acad Ser B Phys Biol Sci , vol.88 , pp. 485-508
    • Ishihama, A.1
  • 7
    • 35548954661 scopus 로고    scopus 로고
    • Differentiation of core promoter architecture between plants and mammals revealed by LDSS analysis
    • Yamamoto Y.Y., Ichida H., Abe T., Suzuki Y., Sugano S., Obokata J. Differentiation of core promoter architecture between plants and mammals revealed by LDSS analysis. Nucleic Acids Res 2007, 35:6219-6226.
    • (2007) Nucleic Acids Res , vol.35 , pp. 6219-6226
    • Yamamoto, Y.Y.1    Ichida, H.2    Abe, T.3    Suzuki, Y.4    Sugano, S.5    Obokata, J.6
  • 9
    • 80054081798 scopus 로고    scopus 로고
    • Genomic and chromatin signals underlying transcription start-site selection
    • Valen E., Sandelin A. Genomic and chromatin signals underlying transcription start-site selection. Trends Genet 2011, 27:475-485.
    • (2011) Trends Genet , vol.27 , pp. 475-485
    • Valen, E.1    Sandelin, A.2
  • 10
    • 0035224747 scopus 로고    scopus 로고
    • Joint modeling of DNA sequence and physical properties to improve eukaryotic promoter recognition
    • Ohler U., Niemann H., Liao G., Rubin G.M. Joint modeling of DNA sequence and physical properties to improve eukaryotic promoter recognition. Bioinformatics 2001, 17(Suppl 1):S199-S206.
    • (2001) Bioinformatics , vol.17 , Issue.SUPPL 1
    • Ohler, U.1    Niemann, H.2    Liao, G.3    Rubin, G.M.4
  • 11
    • 0742333984 scopus 로고    scopus 로고
    • A motif co-occurrence approach for genome-wide prediction of transcription-factor-binding sites in Escherichia coli
    • Bulyk M.L., McGuire A.M., Masuda N., Church G.M. A motif co-occurrence approach for genome-wide prediction of transcription-factor-binding sites in Escherichia coli. Genome Res 2004, 14:201-208.
    • (2004) Genome Res , vol.14 , pp. 201-208
    • Bulyk, M.L.1    McGuire, A.M.2    Masuda, N.3    Church, G.M.4
  • 12
    • 15844412591 scopus 로고    scopus 로고
    • Improving promoter prediction for the NNPP2.2 algorithm: a case study using Escherichia coli DNA sequences
    • Burden S., Lin Y.X., Zhang R. Improving promoter prediction for the NNPP2.2 algorithm: a case study using Escherichia coli DNA sequences. Bioinformatics 2005, 21:601-607.
    • (2005) Bioinformatics , vol.21 , pp. 601-607
    • Burden, S.1    Lin, Y.X.2    Zhang, R.3
  • 13
    • 33750200659 scopus 로고    scopus 로고
    • Detection of prokaryotic promoters from the genomic distribution of hexanucleotide pairs
    • Jacques P.E., Rodrigue S., Gaudreau L., Goulet J., Brzezinski R. Detection of prokaryotic promoters from the genomic distribution of hexanucleotide pairs. BMC Bioinform 2006, 7:423.
    • (2006) BMC Bioinform , vol.7 , pp. 423
    • Jacques, P.E.1    Rodrigue, S.2    Gaudreau, L.3    Goulet, J.4    Brzezinski, R.5
  • 14
    • 38549144819 scopus 로고    scopus 로고
    • A survey of DNA motif finding algorithms
    • Das M.K., Dai H.K. A survey of DNA motif finding algorithms. BMC Bioinform 2007, 8(Suppl 7):S21.
    • (2007) BMC Bioinform , vol.8 , Issue.SUPPL 7
    • Das, M.K.1    Dai, H.K.2
  • 16
    • 8344288229 scopus 로고    scopus 로고
    • Promoter prediction analysis on the whole human genome
    • Bajic V.B., Tan S.L., Suzuki Y., Sugano S. Promoter prediction analysis on the whole human genome. Nat Biotechnol 2004, 22:1467-1473.
    • (2004) Nat Biotechnol , vol.22 , pp. 1467-1473
    • Bajic, V.B.1    Tan, S.L.2    Suzuki, Y.3    Sugano, S.4
  • 18
    • 20344396385 scopus 로고    scopus 로고
    • Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes
    • Kanhere A., Bansal M. Structural properties of promoters: similarities and differences between prokaryotes and eukaryotes. Nucleic Acids Res 2005, 33:3165-3175.
    • (2005) Nucleic Acids Res , vol.33 , pp. 3165-3175
    • Kanhere, A.1    Bansal, M.2
  • 19
    • 79959928088 scopus 로고    scopus 로고
    • DNA free energy-based promoter prediction and comparative analysis of Arabidopsis and rice genomes
    • Morey C., Mookherjee S., Rajasekaran G., Bansal M. DNA free energy-based promoter prediction and comparative analysis of Arabidopsis and rice genomes. Plant Physiol 2011, 156:1300-1315.
    • (2011) Plant Physiol , vol.156 , pp. 1300-1315
    • Morey, C.1    Mookherjee, S.2    Rajasekaran, G.3    Bansal, M.4
  • 21
    • 0035393302 scopus 로고    scopus 로고
    • Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level
    • Luscombe N.M., Laskowski R.A., Thornton J.M. Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level. Nucleic Acids Res 2001, 29:2860-2874.
    • (2001) Nucleic Acids Res , vol.29 , pp. 2860-2874
    • Luscombe, N.M.1    Laskowski, R.A.2    Thornton, J.M.3
  • 25
    • 34250362736 scopus 로고    scopus 로고
    • Detection of DNA structural motifs in functional genomic elements
    • Greenbaum J.A., Parker S.C., Tullius T.D. Detection of DNA structural motifs in functional genomic elements. Genome Res 2007, 17:940-946.
    • (2007) Genome Res , vol.17 , pp. 940-946
    • Greenbaum, J.A.1    Parker, S.C.2    Tullius, T.D.3
  • 26
    • 65249089637 scopus 로고    scopus 로고
    • Local DNA topography correlates with functional noncoding regions of the human genome
    • Parker S.C., Hansen L., Abaan H.O., Tullius T.D., Margulies E.H. Local DNA topography correlates with functional noncoding regions of the human genome. Science 2009, 324:389-392.
    • (2009) Science , vol.324 , pp. 389-392
    • Parker, S.C.1    Hansen, L.2    Abaan, H.O.3    Tullius, T.D.4    Margulies, E.H.5
  • 27
    • 60349115060 scopus 로고    scopus 로고
    • Poly(dA:dT) tracts: major determinants of nucleosome organization
    • Segal E., Widom J. Poly(dA:dT) tracts: major determinants of nucleosome organization. Curr Opin Struct Biol 2009, 19:65-71.
    • (2009) Curr Opin Struct Biol , vol.19 , pp. 65-71
    • Segal, E.1    Widom, J.2
  • 28
    • 84880207699 scopus 로고    scopus 로고
    • The genome-wide distribution of non-B DNA motifs is shaped by operon structure and suggests the transcriptional importance of non-B DNA structures in Escherichia coli
    • Du X., Wojtowicz D., Bowers A.A., Levens D., Benham C.J., Przytycka T.M. The genome-wide distribution of non-B DNA motifs is shaped by operon structure and suggests the transcriptional importance of non-B DNA structures in Escherichia coli. Nucleic Acids Res 2013, 41:5965-5977.
    • (2013) Nucleic Acids Res , vol.41 , pp. 5965-5977
    • Du, X.1    Wojtowicz, D.2    Bowers, A.A.3    Levens, D.4    Benham, C.J.5    Przytycka, T.M.6
  • 29
    • 0037803571 scopus 로고    scopus 로고
    • Timeline: Z-DNA: the long road to biological function
    • Rich A., Zhang S. Timeline: Z-DNA: the long road to biological function. Nat Rev Genet 2003, 4:566-572.
    • (2003) Nat Rev Genet , vol.4 , pp. 566-572
    • Rich, A.1    Zhang, S.2
  • 30
    • 36749066725 scopus 로고    scopus 로고
    • Phylogenomic analysis of the emergence of GC-rich transcription elements
    • Khuu P., Sandor M., DeYoung J., Ho P.S. Phylogenomic analysis of the emergence of GC-rich transcription elements. Proc Natl Acad Sci U S A 2007, 104:16528-16533.
    • (2007) Proc Natl Acad Sci U S A , vol.104 , pp. 16528-16533
    • Khuu, P.1    Sandor, M.2    DeYoung, J.3    Ho, P.S.4
  • 31
    • 0024787884 scopus 로고
    • Monovalent cation-induced structure of telomeric DNA: the G-quartet model
    • Williamson J.R., Raghuraman M.K., Cech T.R. Monovalent cation-induced structure of telomeric DNA: the G-quartet model. Cell 1989, 59:871-880.
    • (1989) Cell , vol.59 , pp. 871-880
    • Williamson, J.R.1    Raghuraman, M.K.2    Cech, T.R.3
  • 32
    • 33846928449 scopus 로고    scopus 로고
    • G-quadruplexes in promoters throughout the human genome
    • Huppert J.L., Balasubramanian S. G-quadruplexes in promoters throughout the human genome. Nucleic Acids Res 2007, 35:406-413.
    • (2007) Nucleic Acids Res , vol.35 , pp. 406-413
    • Huppert, J.L.1    Balasubramanian, S.2
  • 33
    • 47849105417 scopus 로고    scopus 로고
    • Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions
    • Qin Y., Hurley L.H. Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions. Biochimie 2008, 90:1149-1171.
    • (2008) Biochimie , vol.90 , pp. 1149-1171
    • Qin, Y.1    Hurley, L.H.2
  • 34
    • 79953313413 scopus 로고    scopus 로고
    • Targeting G-quadruplexes in gene promoters: a novel anticancer strategy?
    • Balasubramanian S., Hurley L.H., Neidle S. Targeting G-quadruplexes in gene promoters: a novel anticancer strategy?. Nat Rev Drug Discov 2011, 10:261-275.
    • (2011) Nat Rev Drug Discov , vol.10 , pp. 261-275
    • Balasubramanian, S.1    Hurley, L.H.2    Neidle, S.3
  • 35
    • 0028140665 scopus 로고
    • Unusual DNA structures, chromatin and transcription
    • van Holde K., Zlatanova J. Unusual DNA structures, chromatin and transcription. Bioessays 1994, 16:59-68.
    • (1994) Bioessays , vol.16 , pp. 59-68
    • van Holde, K.1    Zlatanova, J.2
  • 36
    • 84863557177 scopus 로고    scopus 로고
    • Triplexator: detecting nucleic acid triple helices in genomic and transcriptomic data
    • Buske F.A., Bauer D.C., Mattick J.S., Bailey T.L. Triplexator: detecting nucleic acid triple helices in genomic and transcriptomic data. Genome Res 2012, 22:1372-1381.
    • (2012) Genome Res , vol.22 , pp. 1372-1381
    • Buske, F.A.1    Bauer, D.C.2    Mattick, J.S.3    Bailey, T.L.4
  • 37
    • 39049168212 scopus 로고    scopus 로고
    • Generic eukaryotic core promoter prediction using structural features of DNA
    • Abeel T., Saeys Y., Bonnet E., Rouze P., Van de Peer Y. Generic eukaryotic core promoter prediction using structural features of DNA. Genome Res 2008, 18:310-323.
    • (2008) Genome Res , vol.18 , pp. 310-323
    • Abeel, T.1    Saeys, Y.2    Bonnet, E.3    Rouze, P.4    Van de Peer, Y.5
  • 38
    • 59949101979 scopus 로고    scopus 로고
    • Core promoters are predicted by their distinct physicochemical properties in the genome of Plasmodium falciparum
    • Brick K., Watanabe J., Pizzi E. Core promoters are predicted by their distinct physicochemical properties in the genome of Plasmodium falciparum. Genome Biol 2008, 9:R178.
    • (2008) Genome Biol , vol.9
    • Brick, K.1    Watanabe, J.2    Pizzi, E.3
  • 39
    • 84855419721 scopus 로고    scopus 로고
    • A comparison study on feature selection of DNA structural properties for promoter prediction
    • Gan Y., Guan J., Zhou S. A comparison study on feature selection of DNA structural properties for promoter prediction. BMC Bioinform 2012, 13:4.
    • (2012) BMC Bioinform , vol.13 , pp. 4
    • Gan, Y.1    Guan, J.2    Zhou, S.3
  • 40
    • 4444337094 scopus 로고    scopus 로고
    • Stress-induced DNA duplex destabilization (SIDD) in the E. coli genome: SIDD sites are closely associated with promoters
    • Wang H., Noordewier M., Benham C.J. Stress-induced DNA duplex destabilization (SIDD) in the E. coli genome: SIDD sites are closely associated with promoters. Genome Res 2004, 14:1575-1584.
    • (2004) Genome Res , vol.14 , pp. 1575-1584
    • Wang, H.1    Noordewier, M.2    Benham, C.J.3
  • 41
    • 13244287791 scopus 로고    scopus 로고
    • A novel method for prokaryotic promoter prediction based on DNA stability
    • Kanhere A., Bansal M. A novel method for prokaryotic promoter prediction based on DNA stability. BMC Bioinform 2005, 6:1.
    • (2005) BMC Bioinform , vol.6 , pp. 1
    • Kanhere, A.1    Bansal, M.2
  • 42
    • 0029039118 scopus 로고
    • Sequence-dependent bending propensity of DNA as revealed by DNase I: parameters for trinucleotides
    • Brukner I., Sanchez R., Suck D., Pongor S. Sequence-dependent bending propensity of DNA as revealed by DNase I: parameters for trinucleotides. EMBO J 1995, 14:1812-1818.
    • (1995) EMBO J , vol.14 , pp. 1812-1818
    • Brukner, I.1    Sanchez, R.2    Suck, D.3    Pongor, S.4
  • 43
    • 0023001414 scopus 로고
    • Sequence periodicities in chicken nucleosome core DNA
    • Satchwell S.C., Drew H.R., Travers A.A. Sequence periodicities in chicken nucleosome core DNA. J Mol Biol 1986, 191:659-675.
    • (1986) J Mol Biol , vol.191 , pp. 659-675
    • Satchwell, S.C.1    Drew, H.R.2    Travers, A.A.3
  • 44
    • 0011202428 scopus 로고    scopus 로고
    • Structural variations observed in DNA crystal structures and their implications for protein-DNA interaction
    • Adenine Press
    • Bansal M. Structural variations observed in DNA crystal structures and their implications for protein-DNA interaction. Biological Structure and Dynamics 1996, vol 1. Adenine Press.
    • (1996) Biological Structure and Dynamics , vol.1
    • Bansal, M.1
  • 45
    • 68749086115 scopus 로고    scopus 로고
    • Upstream curved sequences in E. coli are related to the regulation of transcription initiation
    • Nov Klaiman T., Hosid S., Bolshoy A. Upstream curved sequences in E. coli are related to the regulation of transcription initiation. Comput Biol Chem 2009, 33:275-282.
    • (2009) Comput Biol Chem , vol.33 , pp. 275-282
    • Nov Klaiman, T.1    Hosid, S.2    Bolshoy, A.3
  • 47
    • 72949097205 scopus 로고    scopus 로고
    • Relative stability of DNA as a generic criterion for promoter prediction: whole genome annotation of microbial genomes with varying nucleotide base composition
    • Rangannan V., Bansal M. Relative stability of DNA as a generic criterion for promoter prediction: whole genome annotation of microbial genomes with varying nucleotide base composition. Mol Biosyst 2009, 5:1758-1769.
    • (2009) Mol Biosyst , vol.5 , pp. 1758-1769
    • Rangannan, V.1    Bansal, M.2
  • 48
    • 79951736762 scopus 로고    scopus 로고
    • High-quality annotation of promoter regions for 913 bacterial genomes
    • Rangannan V., Bansal M. High-quality annotation of promoter regions for 913 bacterial genomes. Bioinformatics 2010, 26:3043-3050.
    • (2010) Bioinformatics , vol.26 , pp. 3043-3050
    • Rangannan, V.1    Bansal, M.2
  • 49
    • 22844445585 scopus 로고    scopus 로고
    • Large-scale structural analysis of the core promoter in mammalian and plant genomes
    • Florquin K., Saeys Y., Degroeve S., Rouze P., Van de Peer Y. Large-scale structural analysis of the core promoter in mammalian and plant genomes. Nucleic Acids Res 2005, 33:4255-4264.
    • (2005) Nucleic Acids Res , vol.33 , pp. 4255-4264
    • Florquin, K.1    Saeys, Y.2    Degroeve, S.3    Rouze, P.4    Van de Peer, Y.5
  • 50
    • 66349129975 scopus 로고    scopus 로고
    • Toward a gold standard for promoter prediction evaluation
    • Abeel T., Van de Peer Y., Saeys Y. Toward a gold standard for promoter prediction evaluation. Bioinformatics 2009, 25:i313-i320.
    • (2009) Bioinformatics , vol.25
    • Abeel, T.1    Van de Peer, Y.2    Saeys, Y.3
  • 51
    • 75649113769 scopus 로고    scopus 로고
    • High DNA melting temperature predicts transcription start site location in human and mouse
    • Dineen D.G., Wilm A., Cunningham P., Higgins D.G. High DNA melting temperature predicts transcription start site location in human and mouse. Nucleic Acids Res 2009, 37:7360-7367.
    • (2009) Nucleic Acids Res , vol.37 , pp. 7360-7367
    • Dineen, D.G.1    Wilm, A.2    Cunningham, P.3    Higgins, D.G.4
  • 52
    • 0028073817 scopus 로고
    • Sequence elements responsible for DNA curvature
    • Haran T.E., Kahn J.D., Crothers D.M. Sequence elements responsible for DNA curvature. J Mol Biol 1994, 244:135-143.
    • (1994) J Mol Biol , vol.244 , pp. 135-143
    • Haran, T.E.1    Kahn, J.D.2    Crothers, D.M.3
  • 53
    • 32244446794 scopus 로고    scopus 로고
    • Genome analysis of Escherichia coli promoter sequences evidences that DNA static curvature plays a more important role in gene transcription than has previously been anticipated
    • Olivares-Zavaleta N., Jauregui R., Merino E. Genome analysis of Escherichia coli promoter sequences evidences that DNA static curvature plays a more important role in gene transcription than has previously been anticipated. Genomics 2006, 87:329-337.
    • (2006) Genomics , vol.87 , pp. 329-337
    • Olivares-Zavaleta, N.1    Jauregui, R.2    Merino, E.3
  • 54
    • 77950934795 scopus 로고    scopus 로고
    • The shape of the DNA minor groove directs binding by the DNA-bending protein Fis
    • Stella S., Cascio D., Johnson R.C. The shape of the DNA minor groove directs binding by the DNA-bending protein Fis. Genes Dev 2010, 24:814-826.
    • (2010) Genes Dev , vol.24 , pp. 814-826
    • Stella, S.1    Cascio, D.2    Johnson, R.C.3
  • 55
    • 33750954891 scopus 로고    scopus 로고
    • Mechanism of chromosome compaction and looping by the Escherichia coli nucleoid protein Fis
    • Skoko D., Yoo D., Bai H., Schnurr B., Yan J., McLeod S.M., Marko J.F., Johnson R.C. Mechanism of chromosome compaction and looping by the Escherichia coli nucleoid protein Fis. J Mol Biol 2006, 364:777-798.
    • (2006) J Mol Biol , vol.364 , pp. 777-798
    • Skoko, D.1    Yoo, D.2    Bai, H.3    Schnurr, B.4    Yan, J.5    McLeod, S.M.6    Marko, J.F.7    Johnson, R.C.8
  • 56
    • 84878702319 scopus 로고    scopus 로고
    • DNA thermodynamic stability and supercoil dynamics determine the gene expression program during the bacterial growth cycle
    • Sobetzko P., Glinkowska M., Travers A., Muskhelishvili G. DNA thermodynamic stability and supercoil dynamics determine the gene expression program during the bacterial growth cycle. Mol Biosyst 2013, 9:1643-1651.
    • (2013) Mol Biosyst , vol.9 , pp. 1643-1651
    • Sobetzko, P.1    Glinkowska, M.2    Travers, A.3    Muskhelishvili, G.4
  • 59
    • 33646867391 scopus 로고    scopus 로고
    • Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress
    • Wang H., Benham C.J. Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress. BMC Bioinform 2006, 7:248.
    • (2006) BMC Bioinform , vol.7 , pp. 248
    • Wang, H.1    Benham, C.J.2
  • 60
    • 40449135396 scopus 로고    scopus 로고
    • Determining promoter location based on DNA structure first-principles calculations
    • Goni J.R., Perez A., Torrents D., Orozco M. Determining promoter location based on DNA structure first-principles calculations. Genome Biol 2007, 8:R263.
    • (2007) Genome Biol , vol.8
    • Goni, J.R.1    Perez, A.2    Torrents, D.3    Orozco, M.4
  • 61
    • 84863896062 scopus 로고    scopus 로고
    • DNA structural properties in the classification of genomic transcription regulation elements
    • Meysman P., Marchal K., Engelen K. DNA structural properties in the classification of genomic transcription regulation elements. Bioinform Biol Insights 2012, 6:155-168.
    • (2012) Bioinform Biol Insights , vol.6 , pp. 155-168
    • Meysman, P.1    Marchal, K.2    Engelen, K.3
  • 62
    • 63449105244 scopus 로고    scopus 로고
    • Intrinsic variability of gene expression encoded in nucleosome positioning sequences
    • Choi J.K., Kim Y.J. Intrinsic variability of gene expression encoded in nucleosome positioning sequences. Nat Genet 2009, 41:498-503.
    • (2009) Nat Genet , vol.41 , pp. 498-503
    • Choi, J.K.1    Kim, Y.J.2
  • 63
    • 79955550445 scopus 로고    scopus 로고
    • A user's guide to the encyclopedia of DNA elements (ENCODE)
    • A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol 2011, 9:e1001046.
    • (2011) PLoS Biol , vol.9
  • 64
    • 60349089645 scopus 로고    scopus 로고
    • Nucleosome positioning and gene regulation: advances through genomics
    • Jiang C., Pugh B.F. Nucleosome positioning and gene regulation: advances through genomics. Nat Rev Genet 2009, 10:161-172.
    • (2009) Nat Rev Genet , vol.10 , pp. 161-172
    • Jiang, C.1    Pugh, B.F.2
  • 66
    • 77955045449 scopus 로고    scopus 로고
    • The role of nucleosome positioning in the evolution of gene regulation
    • Tsankov A.M., Thompson D.A., Socha A., Regev A., Rando O.J. The role of nucleosome positioning in the evolution of gene regulation. PLoS Biol 2010, 8:e1000414.
    • (2010) PLoS Biol , vol.8
    • Tsankov, A.M.1    Thompson, D.A.2    Socha, A.3    Regev, A.4    Rando, O.J.5
  • 67
    • 84891585966 scopus 로고    scopus 로고
    • DNA structural features and architecture of promoter regions play a role in gene responsiveness of S. cerevisiae
    • Yella V.R., Bansal M. DNA structural features and architecture of promoter regions play a role in gene responsiveness of S. cerevisiae. J Bioinform Comput Biol 2013, 11:1343001.
    • (2013) J Bioinform Comput Biol , vol.11 , pp. 1343001
    • Yella, V.R.1    Bansal, M.2
  • 70
    • 84858165145 scopus 로고    scopus 로고
    • Genome-wide structure and organization of eukaryotic pre-initiation complexes
    • Rhee H.S., Pugh B.F. Genome-wide structure and organization of eukaryotic pre-initiation complexes. Nature 2012, 483:295-301.
    • (2012) Nature , vol.483 , pp. 295-301
    • Rhee, H.S.1    Pugh, B.F.2
  • 71
    • 84875196326 scopus 로고    scopus 로고
    • Determinants of nucleosome positioning
    • Struhl K., Segal E. Determinants of nucleosome positioning. Nat Struct Mol Biol 2013, 20:267-273.
    • (2013) Nat Struct Mol Biol , vol.20 , pp. 267-273
    • Struhl, K.1    Segal, E.2
  • 72
    • 84878869936 scopus 로고    scopus 로고
    • Sequence features of yeast and human core promoters that are predictive of maximal promoter activity
    • Lubliner S., Keren L., Segal E. Sequence features of yeast and human core promoters that are predictive of maximal promoter activity. Nucleic Acids Res 2013, 41:5569-5581.
    • (2013) Nucleic Acids Res , vol.41 , pp. 5569-5581
    • Lubliner, S.1    Keren, L.2    Segal, E.3
  • 73
    • 69949159297 scopus 로고    scopus 로고
    • Pervasive transcription constitutes a new level of eukaryotic genome regulation
    • Berretta J., Morillon A. Pervasive transcription constitutes a new level of eukaryotic genome regulation. EMBO Rep 2009, 10:973-982.
    • (2009) EMBO Rep , vol.10 , pp. 973-982
    • Berretta, J.1    Morillon, A.2
  • 74
    • 70449953975 scopus 로고    scopus 로고
    • The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs
    • Jacquier A. The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs. Nat Rev Genet 2009, 10:833-844.
    • (2009) Nat Rev Genet , vol.10 , pp. 833-844
    • Jacquier, A.1
  • 75
    • 0032539693 scopus 로고    scopus 로고
    • A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics
    • SantaLucia J. A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics. Proc Natl Acad Sci U S A 1998, 95:1460-1465.
    • (1998) Proc Natl Acad Sci U S A , vol.95 , pp. 1460-1465
    • SantaLucia, J.1
  • 78
    • 84866160409 scopus 로고    scopus 로고
    • Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling
    • Kim D., Hong J.S., Qiu Y., Nagarajan H., Seo J.H., Cho B.K., Tsai S.F., Palsson B.O. Comparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling. PLoS Genet 2012, 8:e1002867.
    • (2012) PLoS Genet , vol.8
    • Kim, D.1    Hong, J.S.2    Qiu, Y.3    Nagarajan, H.4    Seo, J.H.5    Cho, B.K.6    Tsai, S.F.7    Palsson, B.O.8


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.