-
1
-
-
0036889175
-
Functional evolution of noncoding DNA
-
M.Z. Ludwig Functional evolution of noncoding DNA Curr. Opin. Genet. Dev. 12 2002 634 639
-
(2002)
Curr. Opin. Genet. Dev.
, vol.12
, pp. 634-639
-
-
Ludwig, M.Z.1
-
2
-
-
0036911605
-
Distribution and characterization of regulatory elements in the human genome
-
J. Majewski, and J. Ott Distribution and characterization of regulatory elements in the human genome Genome Res. 12 2002 1827 1836
-
(2002)
Genome Res.
, vol.12
, pp. 1827-1836
-
-
Majewski, J.1
Ott, J.2
-
3
-
-
0033976523
-
Discovery and modeling of transcriptional regulatory regions
-
J.W. Fickett, and W.W. Wasserman Discovery and modeling of transcriptional regulatory regions Curr. Opin. Biotech. 11 2000 19 24
-
(2000)
Curr. Opin. Biotech.
, vol.11
, pp. 19-24
-
-
Fickett, J.W.1
Wasserman, W.W.2
-
4
-
-
18344415808
-
Distinguishing regulatory DNA from neutral sites
-
L. Elnitski Distinguishing regulatory DNA from neutral sites Genome Res. 13 2003 64 72
-
(2003)
Genome Res.
, vol.13
, pp. 64-72
-
-
Elnitski, L.1
-
5
-
-
0037372327
-
A significant fraction of conserved noncoding DNA in human and mouse consists of predicted matrix attachment regions
-
G.V. Glazko, E.V. Koonin, I.B. Rogozin, and S.A. Shabalina A significant fraction of conserved noncoding DNA in human and mouse consists of predicted matrix attachment regions Trends Genet. 19 2003 119 124
-
(2003)
Trends Genet.
, vol.19
, pp. 119-124
-
-
Glazko, G.V.1
Koonin, E.V.2
Rogozin, I.B.3
Shabalina, S.A.4
-
7
-
-
18744395183
-
Numerous potentially functional but non-genic conserved sequences on human chromosome 21
-
E.T. Dermitzakis Numerous potentially functional but non-genic conserved sequences on human chromosome 21 Nature 420 2002 578 582
-
(2002)
Nature
, vol.420
, pp. 578-582
-
-
Dermitzakis, E.T.1
-
8
-
-
1542563409
-
Initial sequencing and comparative analysis of the mouse genome
-
MGSC Initial sequencing and comparative analysis of the mouse genome Nature 420 2002 520 562
-
(2002)
Nature
, vol.420
, pp. 520-562
-
-
Mgsc1
-
9
-
-
1842684068
-
Genome sequence of the Brown Norway rat yields insights into mammalian evolution
-
RGSPC Genome sequence of the Brown Norway rat yields insights into mammalian evolution Nature 428 2004 493 521
-
(2004)
Nature
, vol.428
, pp. 493-521
-
-
Rgspc1
-
10
-
-
1842667855
-
Characterization of evolutionary rates and constraints in three mammalian genomes
-
G.M. Cooper Characterization of evolutionary rates and constraints in three mammalian genomes Genome Res. 14 2004 539 548
-
(2004)
Genome Res.
, vol.14
, pp. 539-548
-
-
Cooper, G.M.1
-
11
-
-
0041465867
-
Comparative analyses of multi-species sequences from targeted genomic regions
-
J.W. Thomas Comparative analyses of multi-species sequences from targeted genomic regions Nature 424 2003 788 793
-
(2003)
Nature
, vol.424
, pp. 788-793
-
-
Thomas, J.W.1
-
13
-
-
0024497416
-
Mutation rates differ among regions of the mammalian genome
-
K.H. Wolfe, P.M. Sharp, and W.H. Li Mutation rates differ among regions of the mammalian genome Nature 337 1989 283 285
-
(1989)
Nature
, vol.337
, pp. 283-285
-
-
Wolfe, K.H.1
Sharp, P.M.2
Li, W.H.3
-
14
-
-
0036844415
-
Patterns in spontaneous mutation revealed by human-baboon sequence comparison
-
J.C. Silva, and A.S. Kondrashov Patterns in spontaneous mutation revealed by human-baboon sequence comparison Trends Genet. 18 2002 544 547
-
(2002)
Trends Genet.
, vol.18
, pp. 544-547
-
-
Silva, J.C.1
Kondrashov, A.S.2
-
15
-
-
0036737595
-
Deterministic mutation rate variation in the human genome
-
N.G.C. Smith, M.T. Webster, and H. Ellegren Deterministic mutation rate variation in the human genome Genome Res. 12 2002 1350 1356
-
(2002)
Genome Res.
, vol.12
, pp. 1350-1356
-
-
Smith, N.G.C.1
Webster, M.T.2
Ellegren, H.3
-
16
-
-
0038247862
-
High intron sequence conservation across three mammalian orders suggests functional constraints
-
M.P. Hare, and S.R. Palumbi High intron sequence conservation across three mammalian orders suggests functional constraints Mol. Biol. Evol. 20 2003 969 978
-
(2003)
Mol. Biol. Evol.
, vol.20
, pp. 969-978
-
-
Hare, M.P.1
Palumbi, S.R.2
-
17
-
-
0037066542
-
Intra- and interspecific variation in primate gene expression patterns
-
W. Enard Intra- and interspecific variation in primate gene expression patterns Science 296 2002 340 343
-
(2002)
Science
, vol.296
, pp. 340-343
-
-
Enard, W.1
-
18
-
-
0037058932
-
Near-neutrality in evolution of genes and gene regulation
-
T. Ohta Near-neutrality in evolution of genes and gene regulation Proc. Natl. Acad. Sci. USA 99 2002 16134 16137
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 16134-16137
-
-
Ohta, T.1
-
19
-
-
0035986888
-
Evolution of transcription factor binding sites in mammalian gene regulatory regions: Conservation and turnover
-
E.T. Dermitzakis, and A.G. Clark Evolution of transcription factor binding sites in mammalian gene regulatory regions: conservation and turnover Mol. Biol. Evol. 19 2002 1114 1121
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 1114-1121
-
-
Dermitzakis, E.T.1
Clark, A.G.2
-
20
-
-
0034598832
-
Evidence for stabilizing selection in a eukaryotic enhancer element
-
M.Z. Ludwig, C. Bergman, N.H. Patel, and M. Kreitman Evidence for stabilizing selection in a eukaryotic enhancer element Nature 403 2000 564 567
-
(2000)
Nature
, vol.403
, pp. 564-567
-
-
Ludwig, M.Z.1
Bergman, C.2
Patel, N.H.3
Kreitman, M.4
-
21
-
-
0037398368
-
LAGAN and Multi-LAGAN: Efficient tools for large-scale multiple alignment of genomic DNA
-
M. Brudno LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA Genome Res. 13 2003 721 731
-
(2003)
Genome Res.
, vol.13
, pp. 721-731
-
-
Brudno, M.1
-
22
-
-
10744222156
-
Identification and characterization of multi-species conserved sequences
-
E.H. Margulies, M. Blanchette, D. Haussler, and E.D. Green Identification and characterization of multi-species conserved sequences Genome Res. 13 2003 2507 2518
-
(2003)
Genome Res.
, vol.13
, pp. 2507-2518
-
-
Margulies, E.H.1
Blanchette, M.2
Haussler, D.3
Green, E.D.4
-
23
-
-
0042121222
-
MAVID multiple alignment server
-
N. Bray, and L. Pachter MAVID multiple alignment server Nucleic Acid Res. 31 2003 3525 3526
-
(2003)
Nucleic Acid Res.
, vol.31
, pp. 3525-3526
-
-
Bray, N.1
Pachter, L.2
-
24
-
-
0038781885
-
Quantitative estimates of sequence divergence for comparative analyses of mammalian genomes
-
G.M. Cooper, M. Brudno, E.D. Green, S. Batzoglou, and A. Sidow Quantitative estimates of sequence divergence for comparative analyses of mammalian genomes Genome Res. 13 2003 813 820
-
(2003)
Genome Res.
, vol.13
, pp. 813-820
-
-
Cooper, G.M.1
Brudno, M.2
Green, E.D.3
Batzoglou, S.4
Sidow, A.5
-
25
-
-
0038781903
-
Neutral substitutions occur at a faster rate in exons than in noncoding DNA in primate genomes
-
S. Subramanian, and S. Kumar Neutral substitutions occur at a faster rate in exons than in noncoding DNA in primate genomes Genome Res. 13 2003 838 844
-
(2003)
Genome Res.
, vol.13
, pp. 838-844
-
-
Subramanian, S.1
Kumar, S.2
-
26
-
-
0031593249
-
Mobile elements inserted in the distant past have taken on important functions
-
R.J. Britten Mobile elements inserted in the distant past have taken on important functions Gene 205 1997 177
-
(1997)
Gene
, vol.205
, pp. 177
-
-
Britten, R.J.1
-
27
-
-
0141615769
-
Conserved fragments of transposable elements in intergenic regions: Evidence for widespread recruitment of MIR- and L2-derived sequences within the mouse and human genomes
-
J.C. Silva, S.A. Shabalina, D.G. Harris, J.L. Spouge, and A.S. Kondrashov Conserved fragments of transposable elements in intergenic regions: evidence for widespread recruitment of MIR- and L2-derived sequences within the mouse and human genomes Gen. Res. 82 2003 1 18
-
(2003)
Gen. Res.
, vol.82
, pp. 1-18
-
-
Silva, J.C.1
Shabalina, S.A.2
Harris, D.G.3
Spouge, J.L.4
Kondrashov, A.S.5
-
29
-
-
0033805215
-
Consistency of SINE insertion topology and flanking sequence tree: Quantifying relationships among Cetartiodactyls
-
J.K. Lum Consistency of SINE insertion topology and flanking sequence tree: quantifying relationships among Cetartiodactyls Mol. Biol. Evol. 17 2000 1417 1424
-
(2000)
Mol. Biol. Evol.
, vol.17
, pp. 1417-1424
-
-
Lum, J.K.1
-
30
-
-
0033799618
-
Active conservation of noncoding sequences revealed by three- way species comparisons
-
I. Dubchak Active conservation of noncoding sequences revealed by three- way species comparisons Genome Res. 10 2000 1304 1306
-
(2000)
Genome Res.
, vol.10
, pp. 1304-1306
-
-
Dubchak, I.1
-
31
-
-
0242659321
-
DNA sequence evolution with neighbor-dependent mutation
-
P.F. Arndt, C.B. Burge, and T. Hwa DNA sequence evolution with neighbor-dependent mutation J. Comp. Biol. 10 2003 313 322
-
(2003)
J. Comp. Biol.
, vol.10
, pp. 313-322
-
-
Arndt, P.F.1
Burge, C.B.2
Hwa, T.3
-
32
-
-
0242418246
-
Phylogenetic shadowing of primate sequences to find functional regions of the human genome
-
D. Boffelli Phylogenetic shadowing of primate sequences to find functional regions of the human genome Science 299 2003 1391 1394
-
(2003)
Science
, vol.299
, pp. 1391-1394
-
-
Boffelli, D.1
-
33
-
-
18544404720
-
Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution
-
R.C. Hardison Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution Genome Res. 13 2003 13 26
-
(2003)
Genome Res.
, vol.13
, pp. 13-26
-
-
Hardison, R.C.1
-
35
-
-
0037263797
-
Strategies and tools for whole-genome alignments
-
O. Couronne Strategies and tools for whole-genome alignments Genome Res. 13 2003 73 80
-
(2003)
Genome Res.
, vol.13
, pp. 73-80
-
-
Couronne, O.1
-
36
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Z. Yang PAML: a program package for phylogenetic analysis by maximum likelihood Comput. Appl. Biosci. 13 1997 555 556
-
(1997)
Comput. Appl. Biosci.
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
37
-
-
0027157960
-
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
-
K. Tamura, and M. Nei Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10 1993 512 526
-
(1993)
Mol. Biol. Evol.
, vol.10
, pp. 512-526
-
-
Tamura, K.1
Nei, M.2
-
38
-
-
0028064845
-
Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
-
Z. Yang Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods J. Mol. Evol. 39 1994 306 314
-
(1994)
J. Mol. Evol.
, vol.39
, pp. 306-314
-
-
Yang, Z.1
|