-
1
-
-
0034060221
-
Forkhead transcription factor FoxF2 is expressed in mesodermal tissues involved in epithelio-mesenchymal interactions
-
Aitola M, Carlsson P, Mahlapuu M, Enerback S, Pelto-Huikko M. 2000. Forkhead transcription factor FoxF2 is expressed in mesodermal tissues involved in epithelio-mesenchymal interactions. Dev Dyn 218: 136-149.
-
(2000)
Dev Dyn
, vol.218
, pp. 136-149
-
-
Aitola, M.1
Carlsson, P.2
Mahlapuu, M.3
Enerback, S.4
Pelto-Huikko, M.5
-
3
-
-
0028838391
-
Determination of the consensus binding site for MEF2 expressed in muscle and brain reveals tissuespecific sequence constraints
-
Andres V, Cervera M, Mahdavi V. 1995. Determination of the consensus binding site for MEF2 expressed in muscle and brain reveals tissuespecific sequence constraints. J Biol Chem 270: 23246-23249.
-
(1995)
J Biol Chem
, vol.270
, pp. 23246-23249
-
-
Andres, V.1
Cervera, M.2
Mahdavi, V.3
-
4
-
-
0031877016
-
Combining evidence using p-values: Application to sequence homology searches
-
Bailey TL, Gribskov M. 1998. Combining evidence using p-values: Application to sequence homology searches. Bioinformatics 14: 48-54.
-
(1998)
Bioinformatics
, vol.14
, pp. 48-54
-
-
Bailey, T.L.1
Gribskov, M.2
-
5
-
-
0033566045
-
The transcription factor MEF2C-null mouse exhibits complex vascular malformations and reduced cardiac expression of angiopoietin 1 and VEGF
-
Bi W, Drake CJ, Schwarz JJ. 1999. The transcription factor MEF2C-null mouse exhibits complex vascular malformations and reduced cardiac expression of angiopoietin 1 and VEGF. Dev Biol 211: 255-267.
-
(1999)
Dev Biol
, vol.211
, pp. 255-267
-
-
Bi, W.1
Drake, C.J.2
Schwarz, J.J.3
-
6
-
-
39749191367
-
The developmental genetics of congenital heart disease
-
Bruneau BG. 2008. The developmental genetics of congenital heart disease. Nature 451: 943-948.
-
(2008)
Nature
, vol.451
, pp. 943-948
-
-
Bruneau, B.G.1
-
7
-
-
34548390530
-
Conrad: Gene prediction using conditional random fields
-
DeCaprio D, Vinson JP, Pearson MD, Montgomery P, Doherty M, Galagan JE. 2007. Conrad: Gene prediction using conditional random fields. Genome Res 17: 1389-1398.
-
(2007)
Genome Res
, vol.17
, pp. 1389-1398
-
-
DeCaprio, D.1
Vinson, J.P.2
Pearson, M.D.3
Montgomery, P.4
Doherty, M.5
Galagan, J.E.6
-
8
-
-
23744502709
-
A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts
-
de la Calle-Mustienes E, Feijoo CG, Manzanares M, Tena JJ, Rodriguez-Seguel E, Letizia A, Allende ML,Gomez-Skarmeta JL. 2005. A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts. Genome Res 15: 1061-1072.
-
(2005)
Genome Res
, vol.15
, pp. 1061-1072
-
-
de la Calle-Mustienes, E.1
Feijoo, C.G.2
Manzanares, M.3
Tena, J.J.4
Rodriguez-Seguel, E.5
Letizia, A.6
Allende, M.L.7
Gomez-Skarmeta, J.L.8
-
9
-
-
16244381143
-
Identification of neuronal enhancers of the proopiomelanocortin gene by transgenic mouse analysis and phylogenetic footprinting
-
de Souza FS, Santangelo AM, Bumaschny V, Avale ME, Smart JL, Low MJ, Rubinstein M. 2005. Identification of neuronal enhancers of the proopiomelanocortin gene by transgenic mouse analysis and phylogenetic footprinting. Mol Cell Biol 25: 3076-3086.
-
(2005)
Mol Cell Biol
, vol.25
, pp. 3076-3086
-
-
de Souza, F.S.1
Santangelo, A.M.2
Bumaschny, V.3
Avale, M.E.4
Smart, J.L.5
Low, M.J.6
Rubinstein, M.7
-
10
-
-
57149148250
-
Combinatorial regulation of endothelial gene expression by ets and forkhead transcription factors
-
De Val S, Chi NC, Meadows SM, Minovitsky S, Anderson JP, Harris IS, Ehlers ML, Agarwal P, Visel A, Xu SM, et al. 2008. Combinatorial regulation of endothelial gene expression by ets and forkhead transcription factors. Cell 135: 1053-1064.
-
(2008)
Cell
, vol.135
, pp. 1053-1064
-
-
De Val, S.1
Chi, N.C.2
Meadows, S.M.3
Minovitsky, S.4
Anderson, J.P.5
Harris, I.S.6
Ehlers, M.L.7
Agarwal, P.8
Visel, A.9
Xu, S.M.10
-
11
-
-
0028279115
-
Mef 2 gene expression marks the cardiac and skeletal muscle lineages during mouse embryogenesis
-
Edmondson DG, Lyons GE, Martin JF, Olson EN. 1994. Mef 2 gene expression marks the cardiac and skeletal muscle lineages during mouse embryogenesis. Development 120: 1251-1263.
-
(1994)
Development
, vol.120
, pp. 1251-1263
-
-
Edmondson, D.G.1
Lyons, G.E.2
Martin, J.F.3
Olson, E.N.4
-
12
-
-
33645833857
-
Conservation of RET regulatory function from human to zebrafish without sequence similarity
-
Fisher S, Grice EA, Vinton RM, Bessling SL, McCallion AS. 2006a. Conservation of RET regulatory function from human to zebrafish without sequence similarity. Science 312: 276-279.
-
(2006)
Science
, vol.312
, pp. 276-279
-
-
Fisher, S.1
Grice, E.A.2
Vinton, R.M.3
Bessling, S.L.4
McCallion, A.S.5
-
13
-
-
34347244234
-
Evaluating the biological relevance of putative enhancers using Tol2 transposon-mediated transgenesis in zebrafish
-
Fisher S, Grice EA, Vinton RM, Bessling SL, Urasaki A, Kawakami K, McCallion AS. 2006b. Evaluating the biological relevance of putative enhancers using Tol2 transposon-mediated transgenesis in zebrafish. Nat Protoc 1: 1297-1305.
-
(2006)
Nat Protoc
, vol.1
, pp. 1297-1305
-
-
Fisher, S.1
Grice, E.A.2
Vinton, R.M.3
Bessling, S.L.4
Urasaki, A.5
Kawakami, K.6
McCallion, A.S.7
-
14
-
-
0035078515
-
On the trail of cardiac specific transcription factors
-
Flesch M. 2001. On the trail of cardiac specific transcription factors. Cardiovasc Res 50: 3-6.
-
(2001)
Cardiovasc Res
, vol.50
, pp. 3-6
-
-
Flesch, M.1
-
15
-
-
0042121118
-
Cluster-Buster: Finding dense clusters of motifs in DNA sequences
-
Frith MC, Li MC, Weng Z. 2003. Cluster-Buster: Finding dense clusters of motifs in DNA sequences. Nucleic Acids Res 31: 3666-3668.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3666-3668
-
-
Frith, M.C.1
Li, M.C.2
Weng, Z.3
-
16
-
-
27744565003
-
Classification and selection of biomarkers in genomic data using LASSO
-
Ghosh D, Chinnaiyan AM. 2005. Classification and selection of biomarkers in genomic data using LASSO. J Biomed Biotechnol 2005: 147-154.
-
(2005)
J Biomed Biotechnol
, vol.2005
, pp. 147-154
-
-
Ghosh, D.1
Chinnaiyan, A.M.2
-
17
-
-
58849151863
-
The transcription factor LMO2 is a robust marker of vascular endothelium and vascular neoplasms and selected other entities
-
Gratzinger D, Zhao S, West R, Rouse RV, Vogel H, Gil EC, Levy R, Lossos IS, Natkunam Y. 2009. The transcription factor LMO2 is a robust marker of vascular endothelium and vascular neoplasms and selected other entities. Am J Clin Pathol 131: 264-278.
-
(2009)
Am J Clin Pathol
, vol.131
, pp. 264-278
-
-
Gratzinger, D.1
Zhao, S.2
West, R.3
Rouse, R.V.4
Vogel, H.5
Gil, E.C.6
Levy, R.7
Lossos, I.S.8
Natkunam, Y.9
-
18
-
-
30344439849
-
Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity
-
Hallikas O, Palin K, Sinjushina N, Rautiainen R, Partanen J, Ukkonen E, Taipale J. 2006. Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity. Cell 124: 47-59.
-
(2006)
Cell
, vol.124
, pp. 47-59
-
-
Hallikas, O.1
Palin, K.2
Sinjushina, N.3
Rautiainen, R.4
Partanen, J.5
Ukkonen, E.6
Taipale, J.7
-
19
-
-
65549104157
-
Histone modifications at human enhancers reflect global cell-type-specific gene expression
-
Heintzman ND, Hon GC, Hawkins RD, Kheradpour P, Stark A, Harp LF, Ye Z, Lee LK, Stuart RK, Ching CW, et al. 2009. Histone modifications at human enhancers reflect global cell-type-specific gene expression. Nature 459: 108-112.
-
(2009)
Nature
, vol.459
, pp. 108-112
-
-
Heintzman, N.D.1
Hon, G.C.2
Hawkins, R.D.3
Kheradpour, P.4
Stark, A.5
Harp, L.F.6
Ye, Z.7
Lee, L.K.8
Stuart, R.K.9
Ching, C.W.10
-
20
-
-
0032617919
-
Expression of MEF2 genes during human cardiac development
-
Iida K, Hidaka K, Takeuchi M, Nakayama M, Yutani C, Mukai T, Morisaki T. 1999. Expression of MEF2 genes during human cardiac development. Tohoku J Exp Med 187: 15-23.
-
(1999)
Tohoku J Exp Med
, vol.187
, pp. 15-23
-
-
Iida, K.1
Hidaka, K.2
Takeuchi, M.3
Nakayama, M.4
Yutani, C.5
Mukai, T.6
Morisaki, T.7
-
21
-
-
4344636300
-
A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish
-
Kawakami K, Takeda H, Kawakami N, Kobayashi M, Matsuda N, Mishina M. 2004. A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Dev Cell 7: 133-144.
-
(2004)
Dev Cell
, vol.7
, pp. 133-144
-
-
Kawakami, K.1
Takeda, H.2
Kawakami, N.3
Kobayashi, M.4
Matsuda, N.5
Mishina, M.6
-
22
-
-
0029045033
-
Stages of embryonic development of the zebrafish
-
Kimmel CB, BallardWW, Kimmel SR, Ullmann B, Schilling TF. 1995. Stages of embryonic development of the zebrafish. Dev Dyn 203: 253-310.
-
(1995)
Dev Dyn
, vol.203
, pp. 253-310
-
-
Kimmel, C.B.1
Ballard, W.W.2
Kimmel, S.R.3
Ullmann, B.4
Schilling, T.F.5
-
23
-
-
0034819935
-
A predictive model for regulatory sequences directing liver-specific transcription
-
Krivan W, Wasserman WW. 2001. A predictive model for regulatory sequences directing liver-specific transcription. Genome Res 11: 1559-1566.
-
(2001)
Genome Res
, vol.11
, pp. 1559-1566
-
-
Krivan, W.1
Wasserman, W.W.2
-
24
-
-
34748826166
-
A high-resolution atlas of nucleosome occupancy in yeast
-
Lee W, Tillo D, Bray N, Morse RH, Davis RW, Hughes TR, Nislow C. 2007. A high-resolution atlas of nucleosome occupancy in yeast. Nat Genet 39: 1235-1244.
-
(2007)
Nat Genet
, vol.39
, pp. 1235-1244
-
-
Lee, W.1
Tillo, D.2
Bray, N.3
Morse, R.H.4
Davis, R.W.5
Hughes, T.R.6
Nislow, C.7
-
25
-
-
0042810698
-
A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly
-
Lettice LA, Heaney SJ, Purdie LA, Li L, de Beer P, Oostra BA, Goode D, Elgar G, Hill RE, de Graaff E. 2003. A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly. Hum Mol Genet 12: 1725-1735.
-
(2003)
Hum Mol Genet
, vol.12
, pp. 1725-1735
-
-
Lettice, L.A.1
Heaney, S.J.2
Purdie, L.A.3
Li, L.4
de Beer, P.5
Oostra, B.A.6
Goode, D.7
Elgar, G.8
Hill, R.E.9
de Graaff, E.10
-
27
-
-
33746228114
-
Interchromosomal interactions and olfactory receptor choice
-
Lomvardas S, Barnea G, Pisapia DJ, Mendelsohn M, Kirkland J, Axel R. 2006. Interchromosomal interactions and olfactory receptor choice. Cell 126: 403-413.
-
(2006)
Cell
, vol.126
, pp. 403-413
-
-
Lomvardas, S.1
Barnea, G.2
Pisapia, D.J.3
Mendelsohn, M.4
Kirkland, J.5
Axel, R.6
-
28
-
-
0034616398
-
Identification of a coordinate regulator of interleukins 4, 13, and 5 by cross-species sequence comparisons
-
Loots GG, Locksley RM, Blankespoor CM, Wang ZE, Miller W, Rubin EM, Frazer KA. 2000. Identification of a coordinate regulator of interleukins 4, 13, and 5 by cross-species sequence comparisons. Science 288: 136-140.
-
(2000)
Science
, vol.288
, pp. 136-140
-
-
Loots, G.G.1
Locksley, R.M.2
Blankespoor, C.M.3
Wang, Z.E.4
Miller, W.5
Rubin, E.M.6
Frazer, K.A.7
-
29
-
-
34547569191
-
STAMP: A web tool for exploring DNA-binding motif similarities
-
Mahony S, Benos PV. 2007. STAMP: A web tool for exploring DNA-binding motif similarities. Nucleic Acids Res 35: W253-W258.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Mahony, S.1
Benos, P.V.2
-
31
-
-
59449089844
-
Asymmetrical distribution of non-conserved regulatory sequences at PHOX2B is reflected at the ENCODE loci and illuminates a possible genome-wide trend
-
doi: 10.1186/1471-2164-10-8
-
McGaughey DM, Stine ZE, Huynh JL, Vinton RM, McCallion AS. 2009. Asymmetrical distribution of non-conserved regulatory sequences at PHOX2B is reflected at the ENCODE loci and illuminates a possible genome-wide trend. BMC Genomics 10: 8. doi: 10.1186/1471-2164-10-8.
-
(2009)
BMC Genomics
, vol.10
, pp. 8
-
-
McGaughey, D.M.1
Stine, Z.E.2
Huynh, J.L.3
Vinton, R.M.4
McCallion, A.S.5
-
32
-
-
33845957530
-
Accurate phylogenetic classification of variable-length DNA fragments
-
McHardy AC, Martin HG, Tsirigos A, Hugenholtz P, Rigoutsos I. 2007. Accurate phylogenetic classification of variable-length DNA fragments. Nat Methods 4: 63-72.
-
(2007)
Nat Methods
, vol.4
, pp. 63-72
-
-
McHardy, A.C.1
Martin, H.G.2
Tsirigos, A.3
Hugenholtz, P.4
Rigoutsos, I.5
-
33
-
-
10344236515
-
Restricted inactivation of serum response factor to the cardiovascular system
-
Miano JM, Ramanan N, Georger MA, de Mesy Bentley KL, Emerson RL, Balza RO Jr, Xiao Q, Weiler H, Ginty DD, Misra RP. 2004. Restricted inactivation of serum response factor to the cardiovascular system. Proc Natl Acad Sci 101: 17132-17137.
-
(2004)
Proc Natl Acad Sci
, vol.101
, pp. 17132-17137
-
-
Miano, J.M.1
Ramanan, N.2
Georger, M.A.3
de Mesy Bentley, K.L.4
Emerson, R.L.5
Balza Jr, R.O.6
Xiao, Q.7
Weiler, H.8
Ginty, D.D.9
Misra, R.P.10
-
34
-
-
36949023082
-
A nucleosome-guided map of transcription factor binding sites in yeast
-
doi:10.1371/journal.pcbi.0030215
-
Narlikar L, Gordan R, Hartemink AJ. 2007. A nucleosome-guided map of transcription factor binding sites in yeast. PLoS Comput Biol 3: e215. doi:10.1371/journal.pcbi.0030215.
-
(2007)
PLoS Comput Biol
, vol.3
-
-
Narlikar, L.1
Gordan, R.2
Hartemink, A.J.3
-
36
-
-
3242878193
-
ECR Browser: A tool for visualizing and accessing data from comparisons of multiple vertebrate genomes
-
Ovcharenko I, Nobrega MA, Loots GG, Stubbs L. 2004. ECR Browser: A tool for visualizing and accessing data from comparisons of multiple vertebrate genomes. Nucleic Acids Res 32: W280-W286.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Ovcharenko, I.1
Nobrega, M.A.2
Loots, G.G.3
Stubbs, L.4
-
37
-
-
33751316959
-
In vivo enhancer analysis of human conserved non-coding sequences
-
Pennacchio LA, Ahituv N, Moses AM, Prabhakar S, NobregaMA, Shoukry M, Minovitsky S, Dubchak I, Holt A, Lewis KD, et al. 2006. In vivo enhancer analysis of human conserved non-coding sequences. Nature 444: 499-502.
-
(2006)
Nature
, vol.444
, pp. 499-502
-
-
Pennacchio, L.A.1
Ahituv, N.2
Moses, A.M.3
Prabhakar, S.4
Nobrega, M.A.5
Shoukry, M.6
Minovitsky, S.7
Dubchak, I.8
Holt, A.9
Lewis, K.D.10
-
39
-
-
33847388800
-
Combinatorial function of ETS transcription factors in the developing vasculature
-
Pham VN, Lawson ND, Mugford JW, Dye L, Castranova D, Lo B, Weinstein BM. 2007. Combinatorial function of ETS transcription factors in the developing vasculature. Dev Biol 303: 772-783.
-
(2007)
Dev Biol
, vol.303
, pp. 772-783
-
-
Pham, V.N.1
Lawson, N.D.2
Mugford, J.W.3
Dye, L.4
Castranova, D.5
Lo, B.6
Weinstein, B.M.7
-
40
-
-
34547633677
-
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
-
Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, Zeng T, Euskirchen G, Bernier B, Varhol R, Delaney A, et al. 2007. Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods 4: 651-657.
-
(2007)
Nat Methods
, vol.4
, pp. 651-657
-
-
Robertson, G.1
Hirst, M.2
Bainbridge, M.3
Bilenky, M.4
Zhao, Y.5
Zeng, T.6
Euskirchen, G.7
Bernier, B.8
Varhol, R.9
Delaney, A.10
-
41
-
-
0030869663
-
A method for identifying splice sites and translational start sites in eukaryotic mRNA
-
Salzberg SL. 1997. A method for identifying splice sites and translational start sites in eukaryotic mRNA. Comput Appl Biosci 13: 365-376.
-
(1997)
Comput Appl Biosci
, vol.13
, pp. 365-376
-
-
Salzberg, S.L.1
-
42
-
-
0347125328
-
JASPAR: An open-access database for eukaryotic transcription factor binding profiles
-
Sandelin A, Alkema W, Engstrom P, Wasserman WW, Lenhard B. 2004. JASPAR: An open-access database for eukaryotic transcription factor binding profiles. Nucleic Acids Res 32: D91-D94.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Sandelin, A.1
Alkema, W.2
Engstrom, P.3
Wasserman, W.W.4
Lenhard, B.5
-
43
-
-
0345830423
-
Calcineurin signaling and NFAT activation in cardiovascular and skeletal muscle development
-
Schulz RA, Yutzey KE. 2004. Calcineurin signaling and NFAT activation in cardiovascular and skeletal muscle development. Dev Biol 266: 1-16.
-
(2004)
Dev Biol
, vol.266
, pp. 1-16
-
-
Schulz, R.A.1
Yutzey, K.E.2
-
44
-
-
38749127589
-
Predicting expression patterns from regulatory sequence in Drosophila segmentation
-
Segal E, Raveh-Sadka T, Schroeder M, Unnerstall U, Gaul U. 2008. Predicting expression patterns from regulatory sequence in Drosophila segmentation. Nature 451: 535-540.
-
(2008)
Nature
, vol.451
, pp. 535-540
-
-
Segal, E.1
Raveh-Sadka, T.2
Schroeder, M.3
Unnerstall, U.4
Gaul, U.5
-
45
-
-
0037067697
-
Combinatorial expression of GATA4, Nkx2-5, and serum response factor directs early cardiac gene activity
-
Sepulveda JL, Vlahopoulos S, Iyer D, Belaguli N, Schwartz RJ. 2002. Combinatorial expression of GATA4, Nkx2-5, and serum response factor directs early cardiac gene activity. J Biol Chem 277: 25775-25782.
-
(2002)
J Biol Chem
, vol.277
, pp. 25775-25782
-
-
Sepulveda, J.L.1
Vlahopoulos, S.2
Iyer, D.3
Belaguli, N.4
Schwartz, R.J.5
-
47
-
-
0036205732
-
The role of interferon regulatory factors in the cardiac response to viral infection
-
Sherry B. 2002. The role of interferon regulatory factors in the cardiac response to viral infection. Viral Immunol 15: 17-28.
-
(2002)
Viral Immunol
, vol.15
, pp. 17-28
-
-
Sherry, B.1
-
48
-
-
0035956898
-
Identification and dissection of an enhancer controlling epithelial gene expression in skin
-
Sinha S, Fuchs E. 2001. Identification and dissection of an enhancer controlling epithelial gene expression in skin. Proc Natl Acad Sci 98: 2455-2460.
-
(2001)
Proc Natl Acad Sci
, vol.98
, pp. 2455-2460
-
-
Sinha, S.1
Fuchs, E.2
-
49
-
-
33747853888
-
Stubb: A program for discovery and analysis of cis-regulatory modules
-
Sinha S, Liang Y, Siggia E. 2006. Stubb: A program for discovery and analysis of cis-regulatory modules. Nucleic Acids Res 34: W555-W559.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Sinha, S.1
Liang, Y.2
Siggia, E.3
-
50
-
-
0037007048
-
Large-scale analysis of the human and mouse transcriptomes
-
Su AI, CookeMP, Ching KA, Hakak Y,Walker JR,Wiltshire T, Orth AP, Vega RG, Sapinoso LM, Moqrich A, et al. 2002. Large-scale analysis of the human and mouse transcriptomes. Proc Natl Acad Sci 99: 4465-4470.
-
(2002)
Proc Natl Acad Sci
, vol.99
, pp. 4465-4470
-
-
Su, A.I.1
Cooke, M.P.2
Ching, K.A.3
Hakak, Y.4
Walker, J.R.5
Wiltshire, T.6
Orth, A.P.7
Vega, R.G.8
Sapinoso, L.M.9
Moqrich, A.10
-
51
-
-
32044468056
-
Defining the mammalian CArGome
-
Sun Q, Chen G, Streb JW, Long X, Yang Y, Stoeckert CJ Jr,Miano JM. 2006. Defining the mammalian CArGome. Genome Res 16: 197-207.
-
(2006)
Genome Res
, vol.16
, pp. 197-207
-
-
Sun, Q.1
Chen, G.2
Streb, J.W.3
Long, X.4
Yang, Y.5
Stoeckert Jr, C.J.6
Miano, J.M.7
-
52
-
-
0036137323
-
A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling
-
Thijs G, Lescot M, Marchal K, Rombauts S, De Moor B, Rouze P, Moreau Y. 2001. A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling. Bioinformatics 17: 1113-1122.
-
(2001)
Bioinformatics
, vol.17
, pp. 1113-1122
-
-
Thijs, G.1
Lescot, M.2
Marchal, K.3
Rombauts, S.4
De Moor, B.5
Rouze, P.6
Moreau, Y.7
-
53
-
-
6344265848
-
Decoding human regulatory circuits
-
Thompson W, Palumbo MJ, Wasserman WW, Liu JS, Lawrence CE. 2004. Decoding human regulatory circuits. Genome Res 14: 1967-1974.
-
(2004)
Genome Res
, vol.14
, pp. 1967-1974
-
-
Thompson, W.1
Palumbo, M.J.2
Wasserman, W.W.3
Liu, J.S.4
Lawrence, C.E.5
-
54
-
-
0001287271
-
Regression shrinkage and selection via the Lasso
-
Tibshirani R. 1996. Regression shrinkage and selection via the Lasso. J R Stat Soc Ser B Methodol 58: 267-288.
-
(1996)
J R Stat Soc Ser B Methodol
, vol.58
, pp. 267-288
-
-
Tibshirani, R.1
-
55
-
-
62149110057
-
-
Tschopp P, Tarchini B, Spitz F, Zakany J, Duboule D. 2009. Uncoupling time and space in the collinear regulation of Hox genes. PLoS Genet 5: e1000398. doi: 10.1371/journal.pgen.1000398.
-
Tschopp P, Tarchini B, Spitz F, Zakany J, Duboule D. 2009. Uncoupling time and space in the collinear regulation of Hox genes. PLoS Genet 5: e1000398. doi: 10.1371/journal.pgen.1000398.
-
-
-
-
57
-
-
60149091656
-
ChIP-seq accurately predicts tissuespecific activity of enhancers
-
Visel A, Blow MJ, Li Z, Zhang T, Akiyama JA, Holt A, Plajzer-Frick I, Shoukry M, Wright C, Chen F, et al. 2009. ChIP-seq accurately predicts tissuespecific activity of enhancers. Nature 457: 854-858.
-
(2009)
Nature
, vol.457
, pp. 854-858
-
-
Visel, A.1
Blow, M.J.2
Li, Z.3
Zhang, T.4
Akiyama, J.A.5
Holt, A.6
Plajzer-Frick, I.7
Shoukry, M.8
Wright, C.9
Chen, F.10
-
58
-
-
33747835613
-
Composite Module Analyst: Identification of transcription factor binding site combinations using genetic algorithm
-
Waleev T, Shtokalo D, Konovalova T, Voss N, Cheremushkin E, Stegmaier P, Kel-Margoulis O,Wingender E, Kel A. 2006. Composite Module Analyst: Identification of transcription factor binding site combinations using genetic algorithm. Nucleic Acids Res 34: W541-W545.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Waleev, T.1
Shtokalo, D.2
Konovalova, T.3
Voss, N.4
Cheremushkin, E.5
Stegmaier, P.6
Kel-Margoulis, O.7
Wingender, E.8
Kel, A.9
-
59
-
-
0025269196
-
Cell movements during epiboly and gastrulation in zebrafish
-
Warga RM, Kimmel CB. 1990. Cell movements during epiboly and gastrulation in zebrafish. Development 108: 569-580.
-
(1990)
Development
, vol.108
, pp. 569-580
-
-
Warga, R.M.1
Kimmel, C.B.2
-
60
-
-
0032562789
-
Identification of regulatory regions which confer muscle-specific gene expression
-
Wasserman WW, Fickett JW. 1998. Identification of regulatory regions which confer muscle-specific gene expression. J Mol Biol 278: 167-181.
-
(1998)
J Mol Biol
, vol.278
, pp. 167-181
-
-
Wasserman, W.W.1
Fickett, J.W.2
-
61
-
-
0033832853
-
The olfactory placodes of the zebrafish form by convergence of cellular fields at the edge of the neural plate
-
Whitlock KE, Westerfield M. 2000. The olfactory placodes of the zebrafish form by convergence of cellular fields at the edge of the neural plate. Development 127: 3645-3653.
-
(2000)
Development
, vol.127
, pp. 3645-3653
-
-
Whitlock, K.E.1
Westerfield, M.2
-
62
-
-
0035172256
-
The TRANSFAC system on gene expression regulation
-
Wingender E, Chen X, Fricke E, Geffers R, Hehl R, Liebich I, Krull M, Matys V, Michael H, Ohnhauser R, et al. 2001. The TRANSFAC system on gene expression regulation. Nucleic Acids Res 29: 281-283.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 281-283
-
-
Wingender, E.1
Chen, X.2
Fricke, E.3
Geffers, R.4
Hehl, R.5
Liebich, I.6
Krull, M.7
Matys, V.8
Michael, H.9
Ohnhauser, R.10
-
63
-
-
20044366725
-
Highly conserved non-coding sequences are associated with vertebrate development
-
doi: 10.1371/journal.pbio.0030007
-
Woolfe A, Goodson M, Goode DK, Snell P, McEwen GK, Vavouri T, Smith SF, North P, Callaway H, Kelly K, et al. 2005. Highly conserved non-coding sequences are associated with vertebrate development. PLoS Biol 3: e7. doi: 10.1371/journal.pbio.0030007.
-
(2005)
PLoS Biol
, vol.3
-
-
Woolfe, A.1
Goodson, M.2
Goode, D.K.3
Snell, P.4
McEwen, G.K.5
Vavouri, T.6
Smith, S.F.7
North, P.8
Callaway, H.9
Kelly, K.10
-
64
-
-
0032577253
-
Genomic cloning and characterization of the mouse POZ/zinc-finger protein ZF5
-
Yokoro K, Yanagidani A, Obata T, Yamamoto S, Numoto M. 1998. Genomic cloning and characterization of the mouse POZ/zinc-finger protein ZF5. Biochem Biophys Res Commun 246: 668-674.
-
(1998)
Biochem Biophys Res Commun
, vol.246
, pp. 668-674
-
-
Yokoro, K.1
Yanagidani, A.2
Obata, T.3
Yamamoto, S.4
Numoto, M.5
-
65
-
-
0027377256
-
A weight array method for splicing signal analysis
-
Zhang MQ, Marr TG. 1993. A weight array method for splicing signal analysis. Comput Appl Biosci 9: 499-509.
-
(1993)
Comput Appl Biosci
, vol.9
, pp. 499-509
-
-
Zhang, M.Q.1
Marr, T.G.2
-
66
-
-
4344607122
-
CisModule: De novo discovery of cis-regulatory modules by hierarchical mixture modeling
-
Zhou Q, Wong WH. 2004. CisModule: De novo discovery of cis-regulatory modules by hierarchical mixture modeling. Proc Natl Acad Sci 101: 12114-12119.
-
(2004)
Proc Natl Acad Sci
, vol.101
, pp. 12114-12119
-
-
Zhou, Q.1
Wong, W.H.2
-
67
-
-
19344371725
-
Regulation of the lmo2 promoter during hematopoietic and vascular development in zebrafish
-
Zhu H, Traver D, Davidson AJ, Dibiase A, Thisse C, Thisse B, Nimer S, Zon LI. 2005. Regulation of the lmo2 promoter during hematopoietic and vascular development in zebrafish. Dev Biol 281: 256-269.
-
(2005)
Dev Biol
, vol.281
, pp. 256-269
-
-
Zhu, H.1
Traver, D.2
Davidson, A.J.3
Dibiase, A.4
Thisse, C.5
Thisse, B.6
Nimer, S.7
Zon, L.I.8
|