-
1
-
-
0042697343
-
The evolution of transcriptional regulation in eukaryotes
-
Wray GA, Hahn MW, Abouheif E, Balhoff JP, Pizer M, Rockman MV, Romano LA: The evolution of transcriptional regulation in eukaryotes. Mol Biol Evol 2003, 20(9):1377-1419.
-
(2003)
Mol Biol Evol
, vol.20
, Issue.9
, pp. 1377-1419
-
-
Wray, G.A.1
Hahn, M.W.2
Abouheif, E.3
Balhoff, J.P.4
Pizer, M.5
Rockman, M.V.6
Romano, L.A.7
-
2
-
-
0042622323
-
PromoSer: a large-scale mammalian promoter and transcription start site identification service
-
Halees AS: PromoSer: a large-scale mammalian promoter and transcription start site identification service. Nucleic Acids Res 2003, 31(13):3554-3559.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.13
, pp. 3554-3559
-
-
Halees, A.S.1
-
3
-
-
83855163414
-
Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence
-
Wittkopp PJ, Kalay G: Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence. Nat Rev Genet 2012, 13(1):59-69.
-
(2012)
Nat Rev Genet
, vol.13
, Issue.1
, pp. 59-69
-
-
Wittkopp, P.J.1
Kalay, G.2
-
4
-
-
78149432728
-
Variable tandem repeats accelerate evolution of coding and regulatory sequences
-
Gemayel R, Vinces MD, Legendre M, Verstrepen KJ: Variable tandem repeats accelerate evolution of coding and regulatory sequences. Annu Rev Genet 2010, 44:445-477.
-
(2010)
Annu Rev Genet
, vol.44
, pp. 445-477
-
-
Gemayel, R.1
Vinces, M.D.2
Legendre, M.3
Verstrepen, K.J.4
-
5
-
-
84893351508
-
Estrogen receptor alpha polymorphism in a species with alternative behavioral phenotypes
-
Horton BM, Hudson WH, Ortlund EA, Shirk S, Thomas JW, Young ER, Zinzow-Kramer WM, Maney DL: Estrogen receptor alpha polymorphism in a species with alternative behavioral phenotypes. Proc Natl Acad Sci U S A 2014, 111(4):1443-1448.
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, Issue.4
, pp. 1443-1448
-
-
Horton, B.M.1
Hudson, W.H.2
Ortlund, E.A.3
Shirk, S.4
Thomas, J.W.5
Young, E.R.6
Zinzow-Kramer, W.M.7
Maney, D.L.8
-
6
-
-
67349112823
-
Genome-wide association analysis in domestic animals: a powerful approach for genetic dissection of trait loci
-
Andersson L: Genome-wide association analysis in domestic animals: a powerful approach for genetic dissection of trait loci. Genetica 2009, 136(2):341-349.
-
(2009)
Genetica
, vol.136
, Issue.2
, pp. 341-349
-
-
Andersson, L.1
-
7
-
-
84897149151
-
Association of the polymorphisms in the Fas/FasL promoter regions with cancer susceptibility: a systematic review and meta-analysis of 52 studies
-
Xu Y, He B, Li R, Pan Y, Gao T, Deng Q, Sun H, Song G, Wang S: Association of the polymorphisms in the Fas/FasL promoter regions with cancer susceptibility: a systematic review and meta-analysis of 52 studies. PLoS One 2014, 9(3):e90090.
-
(2014)
PLoS One
, vol.9
, Issue.3
-
-
Xu, Y.1
He, B.2
Li, R.3
Pan, Y.4
Gao, T.5
Deng, Q.6
Sun, H.7
Song, G.8
Wang, S.9
-
8
-
-
66349113764
-
Unstable tandem repeats in promoters confer transcriptional evolvability
-
Vinces MD, Legendre M, Caldara M, Hagihara M, Verstrepen KJ: Unstable tandem repeats in promoters confer transcriptional evolvability. Science 2009, 324(5931):1213-1216.
-
(2009)
Science
, vol.324
, Issue.5931
, pp. 1213-1216
-
-
Vinces, M.D.1
Legendre, M.2
Caldara, M.3
Hagihara, M.4
Verstrepen, K.J.5
-
9
-
-
84887556413
-
STaRRRT: a table of short tandem repeats in regulatory regions of the human genome
-
Bolton KA, Ross JP, Grice DM, Bowden NA, Holliday EG, Avery-Kiejda KA, Scott RJ: STaRRRT: a table of short tandem repeats in regulatory regions of the human genome. BMC Genomics 2013, 14(1):795.
-
(2013)
BMC Genomics
, vol.14
, Issue.1
, pp. 795
-
-
Bolton, K.A.1
Ross, J.P.2
Grice, D.M.3
Bowden, N.A.4
Holliday, E.G.5
Avery-Kiejda, K.A.6
Scott, R.J.7
-
10
-
-
84885435285
-
Polymorphic core promoter GA-repeats alter gene expression of the early embryonic developmental genes
-
Valipour E, Kowsari A, Bayat H, Banan M, Kazeminasab S, Mohammadparast S, Ohadi M: Polymorphic core promoter GA-repeats alter gene expression of the early embryonic developmental genes. Gene 2013, 531(2):175-179.
-
(2013)
Gene
, vol.531
, Issue.2
, pp. 175-179
-
-
Valipour, E.1
Kowsari, A.2
Bayat, H.3
Banan, M.4
Kazeminasab, S.5
Mohammadparast, S.6
Ohadi, M.7
-
11
-
-
78349270572
-
A GA microsatellite in the Fli1 promoter modulates gene expression and is associated with systemic lupus erythematosus patients without nephritis
-
Morris EE, Amria MY, Kistner-Griffin E, Svenson JL, Kamen DL, Gilkeson GS, Nowling TK: A GA microsatellite in the Fli1 promoter modulates gene expression and is associated with systemic lupus erythematosus patients without nephritis. Arthritis Res Ther 2010, 12(6):R212.
-
(2010)
Arthritis Res Ther
, vol.12
, Issue.6
-
-
Morris, E.E.1
Amria, M.Y.2
Kistner-Griffin, E.3
Svenson, J.L.4
Kamen, D.L.5
Gilkeson, G.S.6
Nowling, T.K.7
-
12
-
-
70450184674
-
GSTM4 is a microsatellite-containing EWS/FLI target involved in Ewing's sarcoma oncogenesis and therapeutic resistance
-
Luo W, Gangwal K, Sankar S, Boucher KM, Thomas D, Lessnick SL: GSTM4 is a microsatellite-containing EWS/FLI target involved in Ewing's sarcoma oncogenesis and therapeutic resistance. Oncogene 2009, 28(46):4126-4132.
-
(2009)
Oncogene
, vol.28
, Issue.46
, pp. 4126-4132
-
-
Luo, W.1
Gangwal, K.2
Sankar, S.3
Boucher, K.M.4
Thomas, D.5
Lessnick, S.L.6
-
13
-
-
78650720634
-
Downstream EWS/FLI1 - upstream Ewing's sarcoma
-
Kovar H: Downstream EWS/FLI1 - upstream Ewing's sarcoma. Genome Med 2010, 2:8.
-
(2010)
Genome Med
, vol.2
, pp. 8
-
-
Kovar, H.1
-
14
-
-
63349090507
-
The oncogenic EWS-FLI1 protein binds in vivo GGAA microsatellite sequences with potential transcriptional activation function
-
Guillon N, Tirode F, Boeva V, Zynovyev A, Barillot E, Delattre O: The oncogenic EWS-FLI1 protein binds in vivo GGAA microsatellite sequences with potential transcriptional activation function. PLoS One 2009, 4(3):e4932.
-
(2009)
PLoS One
, vol.4
, Issue.3
-
-
Guillon, N.1
Tirode, F.2
Boeva, V.3
Zynovyev, A.4
Barillot, E.5
Delattre, O.6
-
15
-
-
84873559405
-
Microsatellite tandem repeats are abundant in human promoters and are associated with regulatory elements
-
Sawaya S, Bagshaw A, Buschiazzo E, Kumar P, Chowdhury S, Black MA, Gemmell N: Microsatellite tandem repeats are abundant in human promoters and are associated with regulatory elements. PLoS One 2013, 8(2):e54710.
-
(2013)
PLoS One
, vol.8
, Issue.2
-
-
Sawaya, S.1
Bagshaw, A.2
Buschiazzo, E.3
Kumar, P.4
Chowdhury, S.5
Black, M.A.6
Gemmell, N.7
-
16
-
-
68549136741
-
G-quadruplex structures: in vivo evidence and function
-
Lipps HJ, Rhodes D: G-quadruplex structures: in vivo evidence and function. Trends Cell Biol 2009, 19(8):414-422.
-
(2009)
Trends Cell Biol
, vol.19
, Issue.8
, pp. 414-422
-
-
Lipps, H.J.1
Rhodes, D.2
-
17
-
-
84881504588
-
DNA G-quadruplex formation in response to remote downstream transcription activity: long-range sensing and signal transducing in DNA double helix
-
Zhang C, Liu HH, Zheng KW, Hao YH, Tan Z: DNA G-quadruplex formation in response to remote downstream transcription activity: long-range sensing and signal transducing in DNA double helix. Nucleic Acids Res 2013, 41(14):7144-7152.
-
(2013)
Nucleic Acids Res
, vol.41
, Issue.14
, pp. 7144-7152
-
-
Zhang, C.1
Liu, H.H.2
Zheng, K.W.3
Hao, Y.H.4
Tan, Z.5
-
18
-
-
0037015078
-
Direct evidence for a G-quadruplex in a promoter region and its targeting with a small molecule to repress c-MYC transcription
-
Siddiqui-Jain A, Grand CL, Bearss DJ, Hurley LH: Direct evidence for a G-quadruplex in a promoter region and its targeting with a small molecule to repress c-MYC transcription. Proc Natl Acad Sci U S A 2002, 99(18):11593-11598.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, Issue.18
, pp. 11593-11598
-
-
Siddiqui-Jain, A.1
Grand, C.L.2
Bearss, D.J.3
Hurley, L.H.4
-
19
-
-
13644267721
-
Solution structure of the biologically relevant G-quadruplex element in the human c-MYC promoter
-
Ambrus A, Chen D, Dai J, Jones RA, Yang D: Solution structure of the biologically relevant G-quadruplex element in the human c-MYC promoter. Implications for G-quadruplex stabilization. Biochemistry 2005, 44(6):2048-2058.
-
(2005)
Implications for G-quadruplex stabilization. Biochemistry
, vol.44
, Issue.6
, pp. 2048-2058
-
-
Ambrus, A.1
Chen, D.2
Dai, J.3
Jones, R.A.4
Yang, D.5
-
20
-
-
40649114197
-
DNA sequence and structural properties as predictors of human and mouse promoters
-
Akan P, Deloukas P: DNA sequence and structural properties as predictors of human and mouse promoters. Gene 2008, 410(1):165-176.
-
(2008)
Gene
, vol.410
, Issue.1
, pp. 165-176
-
-
Akan, P.1
Deloukas, P.2
-
21
-
-
79955453038
-
Functional relevance of CpG island length for regulation of gene expression
-
Elango N, Yi SV: Functional relevance of CpG island length for regulation of gene expression. Genetics 2011, 187(4):1077-1083.
-
(2011)
Genetics
, vol.187
, Issue.4
, pp. 1077-1083
-
-
Elango, N.1
Yi, S.V.2
-
22
-
-
77954926291
-
Divergence of CpG island promoters: a consequence or cause of evolution?
-
Sharif J, Endo TA, Toyoda T, Koseki H: Divergence of CpG island promoters: a consequence or cause of evolution? Dev Growth Differ 2010, 52(6):545-554.
-
(2010)
Dev Growth Differ
, vol.52
, Issue.6
, pp. 545-554
-
-
Sharif, J.1
Endo, T.A.2
Toyoda, T.3
Koseki, H.4
-
23
-
-
0037068372
-
DNA methylation and chromatin - unraveling the tangled web
-
Robertson KD: DNA methylation and chromatin - unraveling the tangled web. Oncogene 2002, 21(35):5361-5379.
-
(2002)
Oncogene
, vol.21
, Issue.35
, pp. 5361-5379
-
-
Robertson, K.D.1
-
24
-
-
79955874309
-
Genome-wide mapping of DNA methylation in chicken
-
Li Q, Li N, Hu X, Li J, Du Z, Chen L, Yin G, Duan J, Zhang H, Zhao Y, Wang J, Li N: Genome-wide mapping of DNA methylation in chicken. PLoS One 2011, 6(5):e19428.
-
(2011)
PLoS One
, vol.6
, Issue.5
-
-
Li, Q.1
Li, N.2
Hu, X.3
Li, J.4
Du, Z.5
Chen, L.6
Yin, G.7
Duan, J.8
Zhang, H.9
Zhao, Y.10
Wang, J.11
Li, N.12
-
25
-
-
84869880642
-
Human genes with CpG island promoters have a distinct transcription-associated chromatin organization
-
Vavouri T, Lehner B: Human genes with CpG island promoters have a distinct transcription-associated chromatin organization. Genome Biol 2012, 13(11):R110.
-
(2012)
Genome Biol
, vol.13
, Issue.11
-
-
Vavouri, T.1
Lehner, B.2
-
26
-
-
14844347278
-
Insights into vertebrate evolution from the chicken genome sequence
-
Furlong RF: Insights into vertebrate evolution from the chicken genome sequence. Genome Biol 2005, 6(2):207.
-
(2005)
Genome Biol
, vol.6
, Issue.2
, pp. 207
-
-
Furlong, R.F.1
-
27
-
-
84875687800
-
Impact of GC content on gene expression pattern in chicken
-
Rao YS, Chai XW, Wang ZF, Nie QH, Zhang XQ: Impact of GC content on gene expression pattern in chicken. Genet Sel Evol 2013, 45:9.
-
(2013)
Genet Sel Evol
, vol.45
, pp. 9
-
-
Rao, Y.S.1
Chai, X.W.2
Wang, Z.F.3
Nie, Q.H.4
Zhang, X.Q.5
-
28
-
-
43449123631
-
Genome analysis of the platypus reveals unique signatures of evolution
-
Warren WC, Hillier LW, Marshall Graves JA, Birney E, Ponting CP, Grutzner F, Belov K, Miller W, Clarke L, Chinwalla AT, Yang SP, Heger A, Locke DP, Miethke P, Waters PD, Veyrunes F, Fulton L, Fulton B, Graves T, Wallis J, Puente XS, Lopez-Otin C, Ordonez GR, Eichler EE, Chen L, Cheng Z, Deakin JE, Alsop A, Thompson K, Kirby P, et al: Genome analysis of the platypus reveals unique signatures of evolution. Nature 2008, 453(7192):175-183.
-
(2008)
Nature
, vol.453
, Issue.7192
, pp. 175-183
-
-
Warren, W.C.1
Hillier, L.W.2
Marshall Graves, J.A.3
Birney, E.4
Ponting, C.P.5
Grutzner, F.6
Belov, K.7
Miller, W.8
Clarke, L.9
Chinwalla, A.T.10
Yang, S.P.11
Heger, A.12
Locke, D.P.13
Miethke, P.14
Waters, P.D.15
Veyrunes, F.16
Fulton, L.17
Fulton, B.18
Graves, T.19
Wallis, J.20
Puente, X.S.21
Lopez-Otin, C.22
Ordonez, G.R.23
Eichler, E.E.24
Chen, L.25
Cheng, Z.26
Deakin, J.E.27
Alsop, A.28
Thompson, K.29
Kirby, P.30
more..
-
29
-
-
33846786859
-
Enrichment of G4 DNA motif in transcriptional regulatory region of chicken genome
-
Du Z, Kong P, Gao Y, Li N: Enrichment of G4 DNA motif in transcriptional regulatory region of chicken genome. Biochem Biophys Res Commun 2007, 354(4):1067-1070.
-
(2007)
Biochem Biophys Res Commun
, vol.354
, Issue.4
, pp. 1067-1070
-
-
Du, Z.1
Kong, P.2
Gao, Y.3
Li, N.4
-
30
-
-
67849122320
-
MEME SUITE: tools for motif discovery and searching
-
Web Server issue
-
Bailey TL, Boden M, Buske FA, Frith M, Grant CE, Clementi L, Ren J, Li WW, Noble WS: MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res 2009, 37(Web Server issue):W202-W208.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. W202-W208
-
-
Bailey, T.L.1
Boden, M.2
Buske, F.A.3
Frith, M.4
Grant, C.E.5
Clementi, L.6
Ren, J.7
Li, W.W.8
Noble, W.S.9
-
31
-
-
75549083247
-
JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles
-
Database issue
-
Portales-Casamar E, Thongjuea S, Kwon AT, Arenillas D, Zhao X, Valen E, Yusuf D, Lenhard B, Wasserman WW, Sandelin A: JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. Nucleic Acids Res 2010, 38(Database issue):D105-D110.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. D105-D110
-
-
Portales-Casamar, E.1
Thongjuea, S.2
Kwon, A.T.3
Arenillas, D.4
Zhao, X.5
Valen, E.6
Yusuf, D.7
Lenhard, B.8
Wasserman, W.W.9
Sandelin, A.10
-
32
-
-
58149200952
-
UniPROBE: an online database of protein binding microarray data on protein-DNA interactions
-
Database issue
-
Newburger DE, Bulyk ML: UniPROBE: an online database of protein binding microarray data on protein-DNA interactions. Nucleic Acids Res 2009, 37(Database issue):D77-D82.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D77-D82
-
-
Newburger, D.E.1
Bulyk, M.L.2
-
33
-
-
34447506667
-
Quantifying similarity between motifs
-
Gupta S, Stamatoyannopoulos JA, Bailey TL, Noble WS: Quantifying similarity between motifs. Genome Biol 2007, 8(2):R24.
-
(2007)
Genome Biol
, vol.8
, Issue.2
-
-
Gupta, S.1
Stamatoyannopoulos, J.A.2
Bailey, T.L.3
Noble, W.S.4
-
34
-
-
33744805985
-
Genome-wide analysis of mammalian promoter architecture and evolution
-
Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CA, Taylor MS, Engstrom PG, Frith MC, Forrest AR, Alkema WB, Tan SL, Plessy C, Kodzius R, Ravasi T, Kasukawa T, Fukuda S, Kanamori-Katayama M, Kitazume Y, Kawaji H, Kai C, Nakamura M, Konno H, Nakano K, Mottagui-Tabar S, Arner P, Chesi A, Gustincich S, Persichetti F, et al: Genome-wide analysis of mammalian promoter architecture and evolution. Nat Genet 2006, 38(6):626-635.
-
(2006)
Nat Genet
, vol.38
, Issue.6
, pp. 626-635
-
-
Carninci, P.1
Sandelin, A.2
Lenhard, B.3
Katayama, S.4
Shimokawa, K.5
Ponjavic, J.6
Semple, C.A.7
Taylor, M.S.8
Engstrom, P.G.9
Frith, M.C.10
Forrest, A.R.11
Alkema, W.B.12
Tan, S.L.13
Plessy, C.14
Kodzius, R.15
Ravasi, T.16
Kasukawa, T.17
Fukuda, S.18
Kanamori-Katayama, M.19
Kitazume, Y.20
Kawaji, H.21
Kai, C.22
Nakamura, M.23
Konno, H.24
Nakano, K.25
Mottagui-Tabar, S.26
Arner, P.27
Chesi, A.28
Gustincich, S.29
Persichetti, F.30
more..
-
35
-
-
58549112996
-
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
-
da Huang W, Sherman BT, Lempicki RA: Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res 2009, 37(1):1-13.
-
(2009)
Nucleic Acids Res
, vol.37
, Issue.1
, pp. 1-13
-
-
da Huang, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
36
-
-
37049010696
-
Housekeeping and tissue-specific genes differ in simple sequence repeats in the 5'-UTR region
-
Lawson MJ, Zhang L: Housekeeping and tissue-specific genes differ in simple sequence repeats in the 5'-UTR region. Gene 2008, 407(1-2):54-62.
-
(2008)
Gene
, vol.407
, Issue.1-2
, pp. 54-62
-
-
Lawson, M.J.1
Zhang, L.2
-
37
-
-
84934435193
-
Promoter microsatellites as modulators of human gene expression
-
Edited by Hannan AJ. Austin/New York: Landes Bioscience and Springer Science + Business Media
-
Sawaya SM, Bagshaw AT, Buschiazzo E, Gemmell NJ: Promoter microsatellites as modulators of human gene expression. In Tandem Repeat Polymorphisms: Genetic Plasticity, Neural Diversity and Disease. Edited by Hannan AJ. Austin/New York: Landes Bioscience and Springer Science + Business Media; 2012:41-54.
-
(2012)
Tandem Repeat Polymorphisms: Genetic Plasticity, Neural Diversity and Disease
, pp. 41-54
-
-
Sawaya, S.M.1
Bagshaw, A.T.2
Buschiazzo, E.3
Gemmell, N.J.4
-
39
-
-
35548949429
-
HIF-1 regulates heritable variation and allele expression phenotypes of the macrophage immune response gene SLC11A1 from a Z-DNA forming microsatellite
-
Bayele HK, Peyssonnaux C, Giatromanolaki A, Arrais-Silva WW, Mohamed HS, Collins H, Giorgio S, Koukourakis M, Johnson RS, Blackwell JM, Nizet V, Srai SK: HIF-1 regulates heritable variation and allele expression phenotypes of the macrophage immune response gene SLC11A1 from a Z-DNA forming microsatellite. Blood 2007, 110(8):3039-3048.
-
(2007)
Blood
, vol.110
, Issue.8
, pp. 3039-3048
-
-
Bayele, H.K.1
Peyssonnaux, C.2
Giatromanolaki, A.3
Arrais-Silva, W.W.4
Mohamed, H.S.5
Collins, H.6
Giorgio, S.7
Koukourakis, M.8
Johnson, R.S.9
Blackwell, J.M.10
Nizet, V.11
Srai, S.K.12
-
40
-
-
53549094135
-
Abundance and length of simple repeats in vertebrate genomes are determined by their structural properties
-
Bacolla A, Larson JE, Collins JR, Li J, Milosavljevic A, Stenson PD, Cooper DN, Wells RD: Abundance and length of simple repeats in vertebrate genomes are determined by their structural properties. Genome Res 2008, 18(10):1545-1553.
-
(2008)
Genome Res
, vol.18
, Issue.10
, pp. 1545-1553
-
-
Bacolla, A.1
Larson, J.E.2
Collins, J.R.3
Li, J.4
Milosavljevic, A.5
Stenson, P.D.6
Cooper, D.N.7
Wells, R.D.8
-
41
-
-
14844345314
-
Microsatellite instability regulates transcription factor binding and gene expression
-
Martin P, Makepeace K, Hill SA, Hood DW, Moxon ER: Microsatellite instability regulates transcription factor binding and gene expression. Proc Natl Acad Sci U S A 2005, 102(10):3800-3804.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, Issue.10
, pp. 3800-3804
-
-
Martin, P.1
Makepeace, K.2
Hill, S.A.3
Hood, D.W.4
Moxon, E.R.5
-
42
-
-
79957812413
-
Association of short tandem repeat polymorphism in the promoter of prostate cancer antigen 3 gene with the risk of prostate cancer
-
Zhou W, Chen Z, Hu W, Shen M, Zhang X, Li C, Wen Z, Wu X, Hu Y, Zhang X, Duan X, Han X, Tao Z: Association of short tandem repeat polymorphism in the promoter of prostate cancer antigen 3 gene with the risk of prostate cancer. PLoS One 2011, 6(5):e20378.
-
(2011)
PLoS One
, vol.6
, Issue.5
-
-
Zhou, W.1
Chen, Z.2
Hu, W.3
Shen, M.4
Zhang, X.5
Li, C.6
Wen, Z.7
Wu, X.8
Hu, Y.9
Zhang, X.10
Duan, X.11
Han, X.12
Tao, Z.13
-
43
-
-
0030972828
-
Low frequency of microsatellites in the avian genome
-
Primmer CR, Raudsepp T, Chowdhary BP, Moller AP, Ellegren H: Low frequency of microsatellites in the avian genome. Genome Res 1997, 7(5):471-482.
-
(1997)
Genome Res
, vol.7
, Issue.5
, pp. 471-482
-
-
Primmer, C.R.1
Raudsepp, T.2
Chowdhary, B.P.3
Moller, A.P.4
Ellegren, H.5
-
44
-
-
77951586434
-
Genome-wide analysis of tandem repeats in daphnia pulex-a comparative approach
-
Mayer C, Leese F, Tollrian R: Genome-wide analysis of tandem repeats in daphnia pulex-a comparative approach. BMC Genomics 2010, 11:277.
-
(2010)
BMC Genomics
, vol.11
, pp. 277
-
-
Mayer, C.1
Leese, F.2
Tollrian, R.3
-
45
-
-
0032168989
-
Equilibrium distributions of microsatellite repeat length resulting from a balance between slippage events and point mutations
-
Kruglyak S, Durrett RT, Schug MD, Aquadro CF: Equilibrium distributions of microsatellite repeat length resulting from a balance between slippage events and point mutations. Proc Natl Acad Sci U S A 1998, 95(18):10774-10778.
-
(1998)
Proc Natl Acad Sci U S A
, vol.95
, Issue.18
, pp. 10774-10778
-
-
Kruglyak, S.1
Durrett, R.T.2
Schug, M.D.3
Aquadro, C.F.4
-
46
-
-
0030005944
-
CpG islands of chicken are concentrated on microchromosomes
-
McQueen HA, Fantes J, Cross SH, Clark VH, Archibald AL, Bird AP: CpG islands of chicken are concentrated on microchromosomes. Nat Genet 1996, 12(3):321-324.
-
(1996)
Nat Genet
, vol.12
, Issue.3
, pp. 321-324
-
-
McQueen, H.A.1
Fantes, J.2
Cross, S.H.3
Clark, V.H.4
Archibald, A.L.5
Bird, A.P.6
-
47
-
-
0029100668
-
Small genomes for better flyers
-
Hughes AL, Hughes MK: Small genomes for better flyers. Nature 1995, 377(6548):391.
-
(1995)
Nature
, vol.377
, Issue.6548
, pp. 391
-
-
Hughes, A.L.1
Hughes, M.K.2
-
48
-
-
34250896139
-
Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation
-
Vardhanabhuti S, Wang J, Hannenhalli S: Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation. Nucleic Acids Res 2007, 35(10):3203-3213.
-
(2007)
Nucleic Acids Res
, vol.35
, Issue.10
, pp. 3203-3213
-
-
Vardhanabhuti, S.1
Wang, J.2
Hannenhalli, S.3
-
49
-
-
0642368358
-
Position specific variation in the rate of evolution in transcription factor binding sites
-
Moses AM, Chiang DY, Kellis M, Lander ES, Eisen MB: Position specific variation in the rate of evolution in transcription factor binding sites. BMC Evol Biol 2003, 3:19.
-
(2003)
BMC Evol Biol
, vol.3
, pp. 19
-
-
Moses, A.M.1
Chiang, D.Y.2
Kellis, M.3
Lander, E.S.4
Eisen, M.B.5
-
50
-
-
44849095421
-
Genome-wide analysis of microsatellite polymorphism in chicken circumventing the ascertainment bias
-
Brandström M, Ellegren H: Genome-wide analysis of microsatellite polymorphism in chicken circumventing the ascertainment bias. Genome Res 2008, 18(6):881-887.
-
(2008)
Genome Res
, vol.18
, Issue.6
, pp. 881-887
-
-
Brandström, M.1
Ellegren, H.2
-
51
-
-
1542359463
-
Redistribution of transcription start sites within the FMR1 promoter region with expansion of the downstream CGG-repeat element
-
Beilina A, Tassone F, Schwartz PH, Sahota P, Hagerman PJ: Redistribution of transcription start sites within the FMR1 promoter region with expansion of the downstream CGG-repeat element. Hum Mol Genet 2004, 13(5):543-549.
-
(2004)
Hum Mol Genet
, vol.13
, Issue.5
, pp. 543-549
-
-
Beilina, A.1
Tassone, F.2
Schwartz, P.H.3
Sahota, P.4
Hagerman, P.J.5
-
52
-
-
0042318736
-
Effects of triplet repeat sequences on nucleosome positioning and gene expression in yeast minichromosomes
-
Tomita N, Fujita R, Kurihara D, Shindo H, Wells RD, Shimizu M: Effects of triplet repeat sequences on nucleosome positioning and gene expression in yeast minichromosomes. Nucleic Acids Res Suppl 2002, 2:231-232.
-
(2002)
Nucleic Acids Res Suppl
, vol.2
, pp. 231-232
-
-
Tomita, N.1
Fujita, R.2
Kurihara, D.3
Shindo, H.4
Wells, R.D.5
Shimizu, M.6
-
53
-
-
84893517434
-
Role of DNA sequence based structural features of promoters in transcription initiation and gene expression
-
Bansal M, Kumar A, Yella VR: Role of DNA sequence based structural features of promoters in transcription initiation and gene expression. Curr Opin Struct Biol 2014, 25C:77-85.
-
(2014)
Curr Opin Struct Biol
, vol.25 C
, pp. 77-85
-
-
Bansal, M.1
Kumar, A.2
Yella, V.R.3
-
54
-
-
0029039118
-
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(8):1812-1818.
-
(1995)
EMBO J
, vol.14
, Issue.8
, pp. 1812-1818
-
-
Brukner, I.1
Sanchez, R.2
Suck, D.3
Pongor, S.4
-
55
-
-
0034999881
-
Poly(dA-dT) promoter elements increase the equilibrium accessibility of nucleosomal DNA target sites
-
Anderson JD, Widom J: Poly(dA-dT) promoter elements increase the equilibrium accessibility of nucleosomal DNA target sites. Mol Cell Biol 2001, 21(11):3830-3839.
-
(2001)
Mol Cell Biol
, vol.21
, Issue.11
, pp. 3830-3839
-
-
Anderson, J.D.1
Widom, J.2
-
56
-
-
0034600950
-
Destabilization of nucleosomes by an unusual DNA conformation adopted by poly(dA) small middle dotpoly(dT) tracts in vivo
-
Shimizu M, Mori T, Sakurai T, Shindo H: Destabilization of nucleosomes by an unusual DNA conformation adopted by poly(dA) small middle dotpoly(dT) tracts in vivo. EMBO J 2000, 19(13):3358-3365.
-
(2000)
EMBO J
, vol.19
, Issue.13
, pp. 3358-3365
-
-
Shimizu, M.1
Mori, T.2
Sakurai, T.3
Shindo, H.4
-
57
-
-
0030753430
-
Sp1 recognition sites in the proximal promoter of the human vascular endothelial growth factor gene are essential for platelet-derived growth factor-induced gene expression
-
Finkenzeller G, Sparacio A, Technau A, Marme D, Siemeister G: Sp1 recognition sites in the proximal promoter of the human vascular endothelial growth factor gene are essential for platelet-derived growth factor-induced gene expression. Oncogene 1997, 15(6):669-676.
-
(1997)
Oncogene
, vol.15
, Issue.6
, pp. 669-676
-
-
Finkenzeller, G.1
Sparacio, A.2
Technau, A.3
Marme, D.4
Siemeister, G.5
-
58
-
-
30044451918
-
Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome
-
Cooper SJ, Trinklein ND, Anton ED, Nguyen L, Myers RM: Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome. Genome Res 2006, 16(1):1-10.
-
(2006)
Genome Res
, vol.16
, Issue.1
, pp. 1-10
-
-
Cooper, S.J.1
Trinklein, N.D.2
Anton, E.D.3
Nguyen, L.4
Myers, R.M.5
-
59
-
-
79956330964
-
CpG islands and the regulation of transcription
-
Deaton AM, Bird A: CpG islands and the regulation of transcription. Genes Dev 2011, 25(10):1010-1022.
-
(2011)
Genes Dev
, vol.25
, Issue.10
, pp. 1010-1022
-
-
Deaton, A.M.1
Bird, A.2
-
60
-
-
65349162170
-
Conservation of core gene expression in vertebrate tissues
-
Chan ET, Quon GT, Chua G, Babak T, Trochesset M, Zirngibl RA, Aubin J, Ratcliffe MJ, Wilde A, Brudno M, Morris QD, Hughes TR: Conservation of core gene expression in vertebrate tissues. J Biol 2009, 8(3):33.
-
(2009)
J Biol
, vol.8
, Issue.3
, pp. 33
-
-
Chan, E.T.1
Quon, G.T.2
Chua, G.3
Babak, T.4
Trochesset, M.5
Zirngibl, R.A.6
Aubin, J.7
Ratcliffe, M.J.8
Wilde, A.9
Brudno, M.10
Morris, Q.D.11
Hughes, T.R.12
-
61
-
-
80054056280
-
Zinc-finger transcription factors are associated with guanine quadruplex motifs in human, chimpanzee, mouse and rat promoters genome-wide
-
Kumar P, Yadav VK, Baral A, Kumar P, Saha D, Chowdhury S: Zinc-finger transcription factors are associated with guanine quadruplex motifs in human, chimpanzee, mouse and rat promoters genome-wide. Nucleic Acids Res 2011, 39(18):8005-8016.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.18
, pp. 8005-8016
-
-
Kumar, P.1
Yadav, V.K.2
Baral, A.3
Kumar, P.4
Saha, D.5
Chowdhury, S.6
-
62
-
-
77951943748
-
Ensembl variation resources
-
Chen Y, Cunningham F, Rios D, McLaren WM, Smith J, Pritchard B, Spudich GM, Brent S, Kulesha E, Marin-Garcia P, Smedley D, Birney E, Flicek P: Ensembl variation resources. BMC Genomics 2010, 11:293.
-
(2010)
BMC Genomics
, vol.11
, pp. 293
-
-
Chen, Y.1
Cunningham, F.2
Rios, D.3
McLaren, W.M.4
Smith, J.5
Pritchard, B.6
Spudich, G.M.7
Brent, S.8
Kulesha, E.9
Marin-Garcia, P.10
Smedley, D.11
Birney, E.12
Flicek, P.13
-
63
-
-
84920890450
-
-
The UCSC genome browser. http://genome.ucsc.edu.
-
-
-
-
64
-
-
10644283823
-
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
-
International Chicken Genome Sequencing Consortium (ICGSC): Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 2004, 432(7018):695-716.
-
(2004)
Nature
, vol.432
, Issue.7018
, pp. 695-716
-
-
-
65
-
-
76749135286
-
Intergenic, gene terminal, and intragenic CpG islands in the human genome
-
Medvedeva YA, Fridman MV, Oparina NJ, Malko DB, Ermakova EO, Kulakovskiy IV, Heinzel A, Makeev VJ: Intergenic, gene terminal, and intragenic CpG islands in the human genome. BMC Genomics 2010, 11:48.
-
(2010)
BMC Genomics
, vol.11
, pp. 48
-
-
Medvedeva, Y.A.1
Fridman, M.V.2
Oparina, N.J.3
Malko, D.B.4
Ermakova, E.O.5
Kulakovskiy, I.V.6
Heinzel, A.7
Makeev, V.J.8
-
66
-
-
84920890449
-
-
The European bioinformatics institute. http://www.ebi.ac.uk.
-
-
-
-
67
-
-
0023216891
-
CpG islands in vertebrate genomes
-
Gardiner-Garden M, Frommer M: CpG islands in vertebrate genomes. J Mol Biol 1987, 196(2):261-282.
-
(1987)
J Mol Biol
, vol.196
, Issue.2
, pp. 261-282
-
-
Gardiner-Garden, M.1
Frommer, M.2
-
68
-
-
71349085894
-
WebSat-a web software for microsatellite marker development
-
Martins WS, Lucas DCS, Neves KFS, Bertioli DJ: WebSat-a web software for microsatellite marker development. Bioinformation 2009, 3(6):282-283.
-
(2009)
Bioinformation
, vol.3
, Issue.6
, pp. 282-283
-
-
Martins, W.S.1
Lucas, D.C.S.2
Neves, K.F.S.3
Bertioli, D.J.4
-
69
-
-
84920890448
-
-
Phobos 3.3.11. http://www.ruhr-uni-bochum.de/spezzoo/cm/cm_phobos.htm.
-
-
-
-
70
-
-
60849104081
-
STAMP: Extensions to the STADEN sequence analysis package for high throughput interactive microsatellite marker design
-
Kraemer L, Beszteri B, Gabler-Schwarz S, Held C, Leese F, Mayer C, Pohlmann K, Frickenhaus S: STAMP: Extensions to the STADEN sequence analysis package for high throughput interactive microsatellite marker design. BMC Bioinformatics 2009, 10:41.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 41
-
-
Kraemer, L.1
Beszteri, B.2
Gabler-Schwarz, S.3
Held, C.4
Leese, F.5
Mayer, C.6
Pohlmann, K.7
Frickenhaus, S.8
-
71
-
-
33747860882
-
QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences
-
Web Server issue
-
Kikin O, D'Antonio L, Bagga PS: QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences. Nucleic Acids Res 2006, 34(Web Server issue):W676-W682.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. W676-W682
-
-
Kikin, O.1
D'Antonio, L.2
Bagga, P.S.3
-
72
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
da Huang W, Sherman BT, Lempicki RA: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 2009, 4(1):44-57.
-
(2009)
Nat Protoc
, vol.4
, Issue.1
, pp. 44-57
-
-
da Huang, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
73
-
-
0034069495
-
Gene ontology: tool for the unification of biology
-
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G: Gene ontology: tool for the unification of biology. The gene ontology consortium. Nat Genet 2000, 25(1):25-29.
-
(2000)
The gene ontology consortium. Nat Genet
, vol.25
, Issue.1
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
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