-
1
-
-
0032580152
-
A molecular timescale for vertebrate evolution
-
Kumar, S. & Hedges, S. B. A molecular timescale for vertebrate evolution. Nature 392, 917-920 (1998).
-
(1998)
Nature
, vol.392
, pp. 917-920
-
-
Kumar, S.1
Hedges, S.B.2
-
2
-
-
0141609681
-
The evolution of tribospheny and the antiquity of mammalian clades
-
Woodburne, M. O., Rich, T. H. & Springer, M. S. The evolution of tribospheny and the antiquity of mammalian clades. Mol. Phylogenet. Evol. 28, 360-385 (2003).
-
(2003)
Mol. Phylogenet. Evol
, vol.28
, pp. 360-385
-
-
Woodburne, M.O.1
Rich, T.H.2
Springer, M.S.3
-
4
-
-
33744637091
-
Marsupials and monotremes sort genome treasures from junk
-
Wakefield, M. J. & Graves, J. A. M. Marsupials and monotremes sort genome treasures from junk. Genome Biol. 6, 218 (2005).
-
(2005)
Genome Biol
, vol.6
, pp. 218
-
-
Wakefield, M.J.1
Graves, J.A.M.2
-
5
-
-
0036803193
-
Marsupial genetics and genomics
-
Graves, J. A. M. & Westerman, M. Marsupial genetics and genomics. Trends Genet. 18, 517-521 (2002).
-
(2002)
Trends Genet
, vol.18
, pp. 517-521
-
-
Graves, J.A.M.1
Westerman, M.2
-
6
-
-
33745484322
-
Status and applications of genomic resources for the gray, short-tailed opossum, Monodelphis domestica, an American marsupial model for comparative biology
-
Samollow, P. B. Status and applications of genomic resources for the gray, short-tailed opossum, Monodelphis domestica, an American marsupial model for comparative biology. Aust. J. Zool. 54, 173-196 (2006).
-
(2006)
Aust. J. Zool
, vol.54
, pp. 173-196
-
-
Samollow, P.B.1
-
7
-
-
1542563409
-
Initial sequencing and comparative analysis of the mouse genome
-
Mouse Genome Sequencing Consortium
-
Mouse Genome Sequencing Consortium. Initial sequencing and comparative analysis of the mouse genome. Nature 420, 520-562 (2002).
-
(2002)
Nature
, vol.420
, pp. 520-562
-
-
-
8
-
-
1842684068
-
Genome sequence of the Brown Norway rat yields insights into mammalian evolution
-
Rat Genome Sequencing Project Consortium
-
Rat Genome Sequencing Project Consortium. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature 428, 493-521 (2004).
-
(2004)
Nature
, vol.428
, pp. 493-521
-
-
-
9
-
-
24344500211
-
Initial sequence of the chimpanzee genome and comparison with the human genome
-
Chimpanzee Sequencing and Analysis Consortium
-
Chimpanzee Sequencing and Analysis Consortium. Initial sequence of the chimpanzee genome and comparison with the human genome. Nature 437, 69-87 (2005).
-
(2005)
Nature
, vol.437
, pp. 69-87
-
-
-
10
-
-
28644447707
-
Genome sequence, comparative analysis and haplotype structure of the domestic dog
-
Lindblad-Toh, K. et al. Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature 438, 803-819 (2005).
-
(2005)
Nature
, vol.438
, pp. 803-819
-
-
Lindblad-Toh, K.1
-
11
-
-
33749342164
-
Phylogenetic reconstruction of orthology, paralogy, and conserved synteny for dog and human
-
Goodstadt, L. & Ponting, C. P. Phylogenetic reconstruction of orthology, paralogy, and conserved synteny for dog and human. PLoS Comput. Biol. 2, e133 (2006).
-
(2006)
PLoS Comput. Biol
, vol.2
-
-
Goodstadt, L.1
Ponting, C.P.2
-
12
-
-
84945513189
-
Gene content of the human genome
-
submitted
-
Clamp, M. et al. Gene content of the human genome. Nature (submitted).
-
Nature
-
-
Clamp, M.1
-
13
-
-
15244358503
-
Systematic discovery of regulatory motifs in human promoters and 39 UTRs by comparison of several mammals
-
Xie, X. et al. Systematic discovery of regulatory motifs in human promoters and 39 UTRs by comparison of several mammals. Nature 434, 338-345 (2005).
-
(2005)
Nature
, vol.434
, pp. 338-345
-
-
Xie, X.1
-
14
-
-
23744458086
-
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
-
Siepel, A. et al. Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 15, 1034-1050 (2005).
-
(2005)
Genome Res
, vol.15
, pp. 1034-1050
-
-
Siepel, A.1
-
15
-
-
33646272409
-
Identification and classification of conserved RNA secondary structures in the human genome
-
Pedersen, J. S. et al. Identification and classification of conserved RNA secondary structures in the human genome. PLoS Comput. Biol. 2, e33 (2006).
-
(2006)
PLoS Comput. Biol
, vol.2
-
-
Pedersen, J.S.1
-
16
-
-
0142084743
-
Scanning human gene deserts for long-range enhancers
-
Nobrega, M. A., Ovcharenko, I., Afzal, V. & Rubin, E. M. Scanning human gene deserts for long-range enhancers. Science 302, 413 (2003).
-
(2003)
Science
, vol.302
, pp. 413
-
-
Nobrega, M.A.1
Ovcharenko, I.2
Afzal, V.3
Rubin, E.M.4
-
17
-
-
4744356096
-
Interpreting mammalian evolution using Fugu genome comparisons
-
Ovcharenko, I., Stubbs, L. & Loots, G. G. Interpreting mammalian evolution using Fugu genome comparisons. Genomics 84, 890-895 (2004).
-
(2004)
Genomics
, vol.84
, pp. 890-895
-
-
Ovcharenko, I.1
Stubbs, L.2
Loots, G.G.3
-
18
-
-
33745628791
-
Close sequence comparisons are sufficient to identify human cis-regulatory elements
-
Prabhakar, S. et al. Close sequence comparisons are sufficient to identify human cis-regulatory elements. Genome Res. 16, 855-863 (2006).
-
(2006)
Genome Res
, vol.16
, pp. 855-863
-
-
Prabhakar, S.1
-
19
-
-
20144388947
-
An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing
-
Margulies, E. H. et al. An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing. Proc. Natl Acad. Sci. USA 102, 4795-4800 (2005).
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 4795-4800
-
-
Margulies, E.H.1
-
20
-
-
10644283823
-
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
-
Hillier, L. W. et al. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432, 695-716 (2004).
-
(2004)
Nature
, vol.432
, pp. 695-716
-
-
Hillier, L.W.1
-
21
-
-
84971084988
-
The gray short-tailed opossum (Monodelphis domestica) as a model didelphid species for genetic research
-
VandeBerg, J. L. The gray short-tailed opossum (Monodelphis domestica) as a model didelphid species for genetic research. Aust. J. Zool. 37, 235-247 (1990).
-
(1990)
Aust. J. Zool
, vol.37
, pp. 235-247
-
-
VandeBerg, J.L.1
-
22
-
-
84945501828
-
-
VandeBerg, J. L. in UFAW Handbook on the Management of Laboratory Animals. 1 Terrestrial Vertebrates (eds Poole, T. & English, P.) 193-209 (Blackwell Science, Oxford, 1999).
-
VandeBerg, J. L. in UFAW Handbook on the Management of Laboratory Animals. Vol. 1 Terrestrial Vertebrates (eds Poole, T. & English, P.) 193-209 (Blackwell Science, Oxford, 1999).
-
-
-
-
23
-
-
0038118635
-
Imprinting evolution and the price of silence
-
Murphy, S. K. & Jirtle, R. L. Imprinting evolution and the price of silence. Bioessays 25, 577-588 (2003).
-
(2003)
Bioessays
, vol.25
, pp. 577-588
-
-
Murphy, S.K.1
Jirtle, R.L.2
-
24
-
-
33750430830
-
Recent assembly of an imprinted domain from non-imprinted components
-
Rapkins, R. W. et al. Recent assembly of an imprinted domain from non-imprinted components. PLoS Genet. 2, e182 (2006).
-
(2006)
PLoS Genet
, vol.2
-
-
Rapkins, R.W.1
-
25
-
-
4644275242
-
Phylogenetic footprint analysis of IGF2 in extant mammals
-
Weidman, J. R. et al. Phylogenetic footprint analysis of IGF2 in extant mammals. Genome Res. 14, 1726-1732 (2004).
-
(2004)
Genome Res
, vol.14
, pp. 1726-1732
-
-
Weidman, J.R.1
-
26
-
-
33751333448
-
Evolution and comparative analysis of the MHC Class III inflammatory region
-
Deakin, J. E. et al. Evolution and comparative analysis of the MHC Class III inflammatory region. BMC Genomics 7, 281 (2006).
-
(2006)
BMC Genomics
, vol.7
, pp. 281
-
-
Deakin, J.E.1
-
27
-
-
33744989009
-
Physical mapping of immunoglobulin loci IGH@, IGK@, and IGL@ in the opossum (Monodelphis domestica)
-
Deakin, J. E., Olp, J. J., Graves, J. A. & Miller, R. D. Physical mapping of immunoglobulin loci IGH@, IGK@, and IGL@ in the opossum (Monodelphis domestica). Cytogenet. Genome Res. 114, 94H (2006).
-
(2006)
Cytogenet. Genome Res
, vol.114
-
-
Deakin, J.E.1
Olp, J.J.2
Graves, J.A.3
Miller, R.D.4
-
28
-
-
33644988716
-
Reconstructing an ancestral mammalian immune supercomplex from a marsupial major histocompatibility complex
-
Belov, K. et al. Reconstructing an ancestral mammalian immune supercomplex from a marsupial major histocompatibility complex. PLoS Biol. 4, e46 (2006).
-
(2006)
PLoS Biol
, vol.4
-
-
Belov, K.1
-
29
-
-
1642505414
-
Strategies for identifying genes that play a role in spinal cord regeneration
-
Wintzer, M. et al. Strategies for identifying genes that play a role in spinal cord regeneration. J. Anat. 204, 3-11 (2004).
-
(2004)
J. Anat
, vol.204
, pp. 3-11
-
-
Wintzer, M.1
-
30
-
-
0028158244
-
Genetic analysis of ultraviolet radiation-induced skin hyperplasia and neoplasia in a laboratory marsupial model (Monodelphis domestica)
-
VandeBerg, J. L. et al. Genetic analysis of ultraviolet radiation-induced skin hyperplasia and neoplasia in a laboratory marsupial model (Monodelphis domestica). Arch. Dermatol. Res. 286, 12-17 (1994).
-
(1994)
Arch. Dermatol. Res
, vol.286
, pp. 12-17
-
-
VandeBerg, J.L.1
-
31
-
-
33847255003
-
Analysis of a set of Australian northern brown bandicoot expressed sequence tags with comparison to the genome sequence of the south American grey short-tailed opossum
-
Baker, M. L. et al. Analysis of a set of Australian northern brown bandicoot expressed sequence tags with comparison to the genome sequence of the south American grey short-tailed opossum. BMC Genom. 8, 50 (2007).
-
(2007)
BMC Genom
, vol.8
, pp. 50
-
-
Baker, M.L.1
-
32
-
-
34248594184
-
Characterization of the opossum immune genome provides insights into the evolution of the mammalian immune system
-
doi:10.1101/gr.6121807
-
Belov, K. et al. Characterization of the opossum immune genome provides insights into the evolution of the mammalian immune system. Genome Res. doi:10.1101/gr.6121807 (2007).
-
(2007)
Genome Res
-
-
Belov, K.1
-
33
-
-
34248512741
-
Evolutionarydynamics of transposable elements intheshort-tailed opossum Monodelphis domestica
-
doi:10.1101/gr.6070707
-
Gentles, A.J. et al. Evolutionarydynamics of transposable elements intheshort-tailed opossum Monodelphis domestica. Genome Res. doi:10.1101/gr.6070707 (2007).
-
(2007)
Genome Res
-
-
Gentles, A.J.1
-
34
-
-
34248596154
-
An analysis of the gene complement of a marsupial Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes
-
doi:10.1101/gr.6093907
-
Goodstadt, L., Heger, A., Webber, C. & Ponting, C. P. An analysis of the gene complement of a marsupial Monodelphis domestica: Evolution of lineage-specific genes and giant chromosomes. Genome Res. doi:10.1101/gr.6093907 (2007).
-
(2007)
Genome Res
-
-
Goodstadt, L.1
Heger, A.2
Webber, C.3
Ponting, C.P.4
-
35
-
-
34249698193
-
-
Gu, W. et al. Phylogenetic detection, population genetics, and distribution of active SINEs in the genome of Monodelphis domestica. Gene doi:10.1016/j.gene.2007.02.028 (2007).
-
Gu, W. et al. Phylogenetic detection, population genetics, and distribution of active SINEs in the genome of Monodelphis domestica. Gene doi:10.1016/j.gene.2007.02.028 (2007).
-
-
-
-
36
-
-
84945506498
-
Regulatory conservation of protein coding and miRNA genes in vertebrates: Lessons from the opossum genome
-
Mahony, S., Corcoran, D. L., Feingold, E. & Benos, P. V. Regulatory conservation of protein coding and miRNA genes in vertebrates: lessons from the opossum genome. Genome Biol. (in the press).
-
Genome Biol. (in the press)
-
-
Mahony, S.1
Corcoran, D.L.2
Feingold, E.3
Benos, P.V.4
-
37
-
-
84945506098
-
A new T-cell receptor discovered in marsupials
-
submitted
-
Parra, Z. E. et al. A new T-cell receptor discovered in marsupials. Proc. Natl Acad. Sci. USA (submitted).
-
Proc. Natl Acad. Sci. USA
-
-
Parra, Z.E.1
-
38
-
-
34248160503
-
A microsatellite-based, physically anchored linkagemap for the gray, short-tailed opossum (Monodelphis domestica). Chromosome Res
-
publication, doi:10.1007/s10577-007-1123-4 25 February
-
Samollow, P. B. et al. A microsatellite-based, physically anchored linkagemap for the gray, short-tailed opossum (Monodelphis domestica). Chromosome Res. advance online publication, doi:10.1007/s10577-007-1123-4 (25 February 2007).
-
(2007)
advance online
-
-
Samollow, P.B.1
-
39
-
-
33847254940
-
In silico identification of opossum cytokine genes suggests the complexity of the marsupial immune system rivals that of eutherian mammals
-
Wong, E. S., Young, L. J., Papenfuss, A. T. & Belov, K. In silico identification of opossum cytokine genes suggests the complexity of the marsupial immune system rivals that of eutherian mammals. Immunome Res. 2, 4 (2006).
-
(2006)
Immunome Res
, vol.2
, pp. 4
-
-
Wong, E.S.1
Young, L.J.2
Papenfuss, A.T.3
Belov, K.4
-
40
-
-
33847614443
-
The region homologous to the X-chromosome inactivation centre has been disrupted in marsupial and monotreme mammals
-
Hore, T., Koina, E., Wakefield, M. J. & Graves, J. A. M. The region homologous to the X-chromosome inactivation centre has been disrupted in marsupial and monotreme mammals. Chromosome Res. 15, 147-161 (2007).
-
(2007)
Chromosome Res
, vol.15
, pp. 147-161
-
-
Hore, T.1
Koina, E.2
Wakefield, M.J.3
Graves, J.A.M.4
-
41
-
-
33847622895
-
The search for a marsupial XIC reveals a break with vertebrate synteny
-
Davidow, L. S. et al. The search for a marsupial XIC reveals a break with vertebrate synteny. Chromosome Res. 15, 137-146 (2007).
-
(2007)
Chromosome Res
, vol.15
, pp. 137-146
-
-
Davidow, L.S.1
-
42
-
-
0035895505
-
The sequence of the human genome
-
Venter, J. C. et al. The sequence of the human genome. Science 291, 1304-1351 (2001).
-
(2001)
Science
, vol.291
, pp. 1304-1351
-
-
Venter, J.C.1
-
43
-
-
34248232519
-
Integrated cytogenetic BAC map of the genome of the gray short-tailed opossum, Monodelphis domestica. Chromosome Res
-
publication, doi:10.1007/s10577-007-1131-4 6 April
-
Duke, S. E. et al. Integrated cytogenetic BAC map of the genome of the gray short-tailed opossum, Monodelphis domestica. Chromosome Res. advance online publication, doi:10.1007/s10577-007-1131-4 (6 April 2007).
-
(2007)
advance online
-
-
Duke, S.E.1
-
44
-
-
0002473195
-
The laboratory opossum (Monodelphis domestica) in laboratory research
-
VandeBerg, J. L. The laboratory opossum (Monodelphis domestica) in laboratory research. ILAR J. 38, 4-12 (1997).
-
(1997)
ILAR J
, vol.38
, pp. 4-12
-
-
VandeBerg, J.L.1
-
45
-
-
0035791402
-
Karyotype relationships between distantly related marsupials from South America and Australia
-
Rens, W. et al. Karyotype relationships between distantly related marsupials from South America and Australia. Chromosome Res. 9, 301-308 (2001).
-
(2001)
Chromosome Res
, vol.9
, pp. 301-308
-
-
Rens, W.1
-
46
-
-
2942684863
-
The decline of isochores in mammals: An assessment of the GC content variation along the mammalian phylogeny
-
Belle, E. M., Duret, L., Galtier, N. & Eyre-Walker, A. The decline of isochores in mammals: an assessment of the GC content variation along the mammalian phylogeny. J. Mol. Evol. 58, 653-660 (2004).
-
(2004)
J. Mol. Evol
, vol.58
, pp. 653-660
-
-
Belle, E.M.1
Duret, L.2
Galtier, N.3
Eyre-Walker, A.4
-
47
-
-
1842717957
-
Comparative recombination rates in the rat, mouse, and human genomes
-
Jensen-Seaman, M. I. et al. Comparative recombination rates in the rat, mouse, and human genomes. Genome Res. 14, 528-538 (2004).
-
(2004)
Genome Res
, vol.14
, pp. 528-538
-
-
Jensen-Seaman, M.I.1
-
48
-
-
33751511707
-
A new perspective on isochore evolution
-
Duret, L., Eyre-Walker, A. & Galtier, N. A new perspective on isochore evolution. Gene 385, 71-74 (2006).
-
(2006)
Gene
, vol.385
, pp. 71-74
-
-
Duret, L.1
Eyre-Walker, A.2
Galtier, N.3
-
49
-
-
0036861731
-
Chromosomal rearrangements and evolution of recombination: Comparison of chiasma distribution patterns in standard and robertsonian populations of the house mouse
-
Dumas, D. & Britton-Davidian, J. Chromosomal rearrangements and evolution of recombination: comparison of chiasma distribution patterns in standard and robertsonian populations of the house mouse. Genetics 162, 1355-1366 (2002).
-
(2002)
Genetics
, vol.162
, pp. 1355-1366
-
-
Dumas, D.1
Britton-Davidian, J.2
-
50
-
-
26844482093
-
A fine-scale map of recombination rates and hotspots across the human genome
-
Myers, S. et al. A fine-scale map of recombination rates and hotspots across the human genome. Science 310, 321-324 (2005).
-
(2005)
Science
, vol.310
, pp. 321-324
-
-
Myers, S.1
-
51
-
-
0027134162
-
Selected features of marsupial genetics
-
Hope, R. M. Selected features of marsupial genetics. Genetica 90, 165-180 (1993).
-
(1993)
Genetica
, vol.90
, pp. 165-180
-
-
Hope, R.M.1
-
52
-
-
84966144170
-
An examination of the role of chiasma frequency in the genetic system of marsupials
-
Sharp, P. J. & Hayman, D. L. An examination of the role of chiasma frequency in the genetic system of marsupials. Heredity 60, 77-85 (1988).
-
(1988)
Heredity
, vol.60
, pp. 77-85
-
-
Sharp, P.J.1
Hayman, D.L.2
-
53
-
-
0022938768
-
Ultrastructural analysis of meiotic recombination and chiasma formation
-
Holm, P. B. Ultrastructural analysis of meiotic recombination and chiasma formation. Tokai J. Exp. Clin. Med. 11, 415-436 (1986).
-
(1986)
Tokai J. Exp. Clin. Med
, vol.11
, pp. 415-436
-
-
Holm, P.B.1
-
54
-
-
1642399763
-
First-generation linkage map of the gray, short-tailed opossum, Monodelphis domestica, reveals genome-wide reduction in female recombination rates
-
Samollow, P. B. et al. First-generation linkage map of the gray, short-tailed opossum, Monodelphis domestica, reveals genome-wide reduction in female recombination rates. Genetics 166, 307-329 (2004).
-
(2004)
Genetics
, vol.166
, pp. 307-329
-
-
Samollow, P.B.1
-
55
-
-
4444264564
-
Hotspots of mammalian chromosomal evolution
-
Bailey, J. A. et al. Hotspots of mammalian chromosomal evolution. Genome Biol. 5, R23 (2004).
-
(2004)
Genome Biol
, vol.5
-
-
Bailey, J.A.1
-
56
-
-
28844452823
-
Hotspots of mutation and breakage in dog and human chromosomes
-
Webber, C. & Ponting, C. P. Hotspots of mutation and breakage in dog and human chromosomes. Genome Res. 15, 1787-1797 (2005).
-
(2005)
Genome Res
, vol.15
, pp. 1787-1797
-
-
Webber, C.1
Ponting, C.P.2
-
57
-
-
23844525077
-
Repbase Update, a database of eukaryotic repetitive elements
-
Jurka, J. et al. Repbase Update, a database of eukaryotic repetitive elements. Cytogenet. Genome Res. 110, 462-467 (2005).
-
(2005)
Cytogenet. Genome Res
, vol.110
, pp. 462-467
-
-
Jurka, J.1
-
58
-
-
33750386912
-
Reconstructing contiguous regions of an ancestral genome
-
Ma, J. et al. Reconstructing contiguous regions of an ancestral genome. Genome Res. 16, 1557-1565 (2006).
-
(2006)
Genome Res
, vol.16
, pp. 1557-1565
-
-
Ma, J.1
-
59
-
-
7444259604
-
Wide genome comparisons reveal the origins of the human X chromosome
-
Kohn, M. et al. Wide genome comparisons reveal the origins of the human X chromosome. Trends Genet. 20, 598-603 (2004).
-
(2004)
Trends Genet
, vol.20
, pp. 598-603
-
-
Kohn, M.1
-
60
-
-
33644761962
-
Sex chromosome specialization and degeneration in mammals
-
Graves, J. A. Sex chromosome specialization and degeneration in mammals. Cell 124, 901-914 (2006).
-
(2006)
Cell
, vol.124
, pp. 901-914
-
-
Graves, J.A.1
-
61
-
-
15244363491
-
The DNA sequence of the human X chromosome
-
Ross, M. T. et al. The DNA sequence of the human X chromosome. Nature 434, 325-337 (2005).
-
(2005)
Nature
, vol.434
, pp. 325-337
-
-
Ross, M.T.1
-
62
-
-
0000095385
-
X-inactivation in marsupials and monotremes
-
Cooper, D. W., Johnston, P. G., Graves, J. A. & Watson, J. M. X-inactivation in marsupials and monotremes. Sem. Dev. Biol. 4, 117-128 (1993).
-
(1993)
Sem. Dev. Biol
, vol.4
, pp. 117-128
-
-
Cooper, D.W.1
Johnston, P.G.2
Graves, J.A.3
Watson, J.M.4
-
63
-
-
2342481623
-
Recent advances in X-chromosome inactivation
-
Heard, E. Recent advances in X-chromosome inactivation. Curr. Opin. Cell Biol. 16, 247-255 (2004).
-
(2004)
Curr. Opin. Cell Biol
, vol.16
, pp. 247-255
-
-
Heard, E.1
-
64
-
-
0030885648
-
Histone underacetylation is an ancient component of mammalian X chromosome inactivation
-
Wakefield, M. J., Keohane, A. M., Turner, B. M. & Graves, J. A. Histone underacetylation is an ancient component of mammalian X chromosome inactivation. Proc. Natl Acad. Sci. USA 94, 9665-9668 (1997).
-
(1997)
Proc. Natl Acad. Sci. USA
, vol.94
, pp. 9665-9668
-
-
Wakefield, M.J.1
Keohane, A.M.2
Turner, B.M.3
Graves, J.A.4
-
65
-
-
17744391429
-
Co-evolution of X-chromosome inactivation and imprinting in mammals
-
Reik, W. & Lewis, A. Co-evolution of X-chromosome inactivation and imprinting in mammals. Nature Rev. Genet. 6, 403-410 (2005).
-
(2005)
Nature Rev. Genet
, vol.6
, pp. 403-410
-
-
Reik, W.1
Lewis, A.2
-
66
-
-
33745125901
-
The Xist RNA gene evolved in eutherians by pseudogenization of a protein-coding gene
-
Duret, L. et al. The Xist RNA gene evolved in eutherians by pseudogenization of a protein-coding gene. Science 312, 1653-1655 (2006).
-
(2006)
Science
, vol.312
, pp. 1653-1655
-
-
Duret, L.1
-
67
-
-
33646103928
-
LINEs have a role in X-chromosome inactivation?
-
Lyon, M. F. Do LINEs have a role in X-chromosome inactivation? J. Biomed. Biotechnol. 2006, 59746 (2006).
-
(2006)
J. Biomed. Biotechnol
, vol.2006
, pp. 59746
-
-
Lyon, M.F.D.1
-
68
-
-
0034612238
-
Molecular evidence for a relationship between LINE-1 elements and X chromosome inactivation: The Lyon repeat hypothesis
-
Bailey, J. A., Carrel, L., Chakravarti, A. & Eichler, E. E. Molecular evidence for a relationship between LINE-1 elements and X chromosome inactivation: the Lyon repeat hypothesis. Proc. Natl Acad. Sci. USA 97, 6634-6639 (2000).
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 6634-6639
-
-
Bailey, J.A.1
Carrel, L.2
Chakravarti, A.3
Eichler, E.E.4
-
69
-
-
0344099539
-
Escape from X inactivation
-
Disteche, C. M., Filippova, G. N. & Tsuchiya, K. D. Escape from X inactivation. Cytogenet. Genome Res. 99, 36-43 (2002).
-
(2002)
Cytogenet. Genome Res
, vol.99
, pp. 36-43
-
-
Disteche, C.M.1
Filippova, G.N.2
Tsuchiya, K.D.3
-
70
-
-
0037387007
-
Comparison of the genomes of human and mouse lays the foundation of genome zoology
-
Emes, R. D., Goodstadt, L., Winter, E. E. & Ponting, C. P. Comparison of the genomes of human and mouse lays the foundation of genome zoology. Hum. Mol. Genet. 12, 701-709 (2003).
-
(2003)
Hum. Mol. Genet
, vol.12
, pp. 701-709
-
-
Emes, R.D.1
Goodstadt, L.2
Winter, E.E.3
Ponting, C.P.4
-
71
-
-
0028073253
-
Cloning of a marsupial DNA photolyase gene and the lack of related nucleotide sequences in placental mammals
-
Kato, T. Jr et al. Cloning of a marsupial DNA photolyase gene and the lack of related nucleotide sequences in placental mammals. Nucleic Acids Res. 22, 4119-4124 (1994).
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4119-4124
-
-
Kato Jr, T.1
-
72
-
-
34248223568
-
Evolution of glyoxylate cycle enzymes in Metazoa: Evidence of multiple horizontal transfer events and pseudogene formation
-
Kondrashov, F. A. et al. Evolution of glyoxylate cycle enzymes in Metazoa: evidence of multiple horizontal transfer events and pseudogene formation. Biol. Direct 1, 31 (2006).
-
(2006)
Biol. Direct
, vol.1
, pp. 31
-
-
Kondrashov, F.A.1
-
73
-
-
20844436918
-
γN-crystallin and the evolution of the βγ-crystallin superfamily in vertebrates
-
Wistow, G. et al. γN-crystallin and the evolution of the βγ-crystallin superfamily in vertebrates. FEBS J. 272, 2276-2291 (2005).
-
(2005)
FEBS J
, vol.272
, pp. 2276-2291
-
-
Wistow, G.1
-
74
-
-
17644417813
-
Dramatic variation of the vomeronasal pheromone receptor gene repertoire among five orders of placental and marsupial mammals
-
Grus, W. E., Shi, P., Zhang, Y. P. & Zhang, J. Dramatic variation of the vomeronasal pheromone receptor gene repertoire among five orders of placental and marsupial mammals. Proc. Natl Acad. Sci. USA 102, 5767-5772 (2005).
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 5767-5772
-
-
Grus, W.E.1
Shi, P.2
Zhang, Y.P.3
Zhang, J.4
-
75
-
-
7244245762
-
Finishing the euchromatic sequence of the human genome
-
International Human Genome Sequencing Consortium
-
International Human Genome Sequencing Consortium. Finishing the euchromatic sequence of the human genome. Nature 431, 931-945 (2004).
-
(2004)
Nature
, vol.431
, pp. 931-945
-
-
-
76
-
-
0035986888
-
Evolution of transcription factor binding sites in Mammalian gene regulatory regions: Conservation and turnover
-
Dermitzakis, E. T. & Clark, A. G. Evolution of transcription factor binding sites in Mammalian gene regulatory regions: conservation and turnover. Mol. Biol. Evol. 19, 1114-1121 (2002).
-
(2002)
Mol. Biol. Evol
, vol.19
, pp. 1114-1121
-
-
Dermitzakis, E.T.1
Clark, A.G.2
-
77
-
-
33644750115
-
-
Griffiths-Jones, S. et al. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 34 (database issue), D140-D144 (2006).
-
Griffiths-Jones, S. et al. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 34 (database issue), D140-D144 (2006).
-
-
-
-
78
-
-
0142120587
-
Reduced accumulation of specific microRNAs in colorectal neoplasia
-
Michael, M. Z. et al. Reduced accumulation of specific microRNAs in colorectal neoplasia. Mol. Cancer Res. 1, 882-891 (2003).
-
(2003)
Mol. Cancer Res
, vol.1
, pp. 882-891
-
-
Michael, M.Z.1
-
79
-
-
0035955374
-
Identification of novel genes coding for small expressed RNAs
-
Lagos-Quintana, M., Rauhut, R., Lendeckel, W. & Tuschl, T. Identification of novel genes coding for small expressed RNAs. Science 294, 853-858 (2001).
-
(2001)
Science
, vol.294
, pp. 853-858
-
-
Lagos-Quintana, M.1
Rauhut, R.2
Lendeckel, W.3
Tuschl, T.4
-
80
-
-
30044449116
-
Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS)
-
Crawford, G. E. et al. Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS). Genome Res. 16, 123-131 (2006).
-
(2006)
Genome Res
, vol.16
, pp. 123-131
-
-
Crawford, G.E.1
-
81
-
-
22144473057
-
Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes
-
Sandelin, A. et al. Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes. BMC Genom. 5, 99 (2004).
-
(2004)
BMC Genom
, vol.5
, pp. 99
-
-
Sandelin, A.1
-
82
-
-
20044366725
-
Highly conserved non-coding sequences are associated with vertebrate development
-
Woolfe, A. et al. Highly conserved non-coding sequences are associated with vertebrate development. PLoS Biol. 3, e7 (2005).
-
(2005)
PLoS Biol
, vol.3
-
-
Woolfe, A.1
-
83
-
-
33748594960
-
A global genomic transcriptional code associated with CNS-expressed genes
-
Bailey, P. J. et al. A global genomic transcriptional code associated with CNS-expressed genes. Exp. Cell Res. 312, 3108-3119 (2006).
-
(2006)
Exp. Cell Res
, vol.312
, pp. 3108-3119
-
-
Bailey, P.J.1
-
84
-
-
23744502709
-
A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts
-
de la Calle-Mustienes, E. et al. A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts. Genome Res. 15, 1061-1072 (2005).
-
(2005)
Genome Res
, vol.15
, pp. 1061-1072
-
-
de la Calle-Mustienes, E.1
-
85
-
-
33751316959
-
In vivo enhancer analysis of human conserved non-coding sequences
-
Pennacchio, L. A. et al. In vivo enhancer analysis of human conserved non-coding sequences. Nature 444, 499-502 (2006).
-
(2006)
Nature
, vol.444
, pp. 499-502
-
-
Pennacchio, L.A.1
-
86
-
-
22744439568
-
Evolution at two levels: On genes and form
-
Carroll, S. B. Evolution at two levels: on genes and form. PLoS Biol. 3, e245 (2005).
-
(2005)
PLoS Biol
, vol.3
-
-
Carroll, S.B.1
-
87
-
-
32444446240
-
Gene regulatory networks and the evolution of animal body plans
-
Davidson, E. H. & Erwin, D. H. Gene regulatory networks and the evolution of animal body plans. Science 311, 796-800 (2006).
-
(2006)
Science
, vol.311
, pp. 796-800
-
-
Davidson, E.H.1
Erwin, D.H.2
-
88
-
-
26444591973
-
Genomic regulatory networks and animal development
-
Stathopoulos, A. & Levine, M. Genomic regulatory networks and animal development. Dev. Cell 9, 449-462 (2005).
-
(2005)
Dev. Cell
, vol.9
, pp. 449-462
-
-
Stathopoulos, A.1
Levine, M.2
-
89
-
-
0031593249
-
Mobile elements inserted in the distant past have taken on important functions
-
Britten, R. J. Mobile elements inserted in the distant past have taken on important functions. Gene 205, 177-182 (1997).
-
(1997)
Gene
, vol.205
, pp. 177-182
-
-
Britten, R.J.1
-
90
-
-
0014690698
-
Gene regulation for higher cells: A theory
-
Britten, R. J. & Davidson, E. H. Gene regulation for higher cells: a theory. Science 165, 349-357 (1969).
-
(1969)
Science
, vol.165
, pp. 349-357
-
-
Britten, R.J.1
Davidson, E.H.2
-
91
-
-
0033289533
-
Genomes were forged by massive bombardments with retroelements and retrosequences
-
Brosius, J. Genomes were forged by massive bombardments with retroelements and retrosequences. Genetica 107, 209-238 (1999).
-
(1999)
Genetica
, vol.107
, pp. 209-238
-
-
Brosius, J.1
-
92
-
-
1542513556
-
Mobile elements: Drivers of genome evolution
-
Kazazian, H. H. Jr. Mobile elements: drivers of genome evolution. Science 303, 1626-1632 (2004).
-
(2004)
Science
, vol.303
, pp. 1626-1632
-
-
Kazazian Jr., H.H.1
-
93
-
-
23844538442
-
Transposable elements donate lineage-specific regulatory sequences to host genomes
-
Marino-Ramirez, L., Lewis, K. C., Landsman, D. & Jordan, I. K. Transposable elements donate lineage-specific regulatory sequences to host genomes. Cytogenet. Genome Res. 110, 333-341 (2005).
-
(2005)
Cytogenet. Genome Res
, vol.110
, pp. 333-341
-
-
Marino-Ramirez, L.1
Lewis, K.C.2
Landsman, D.3
Jordan, I.K.4
-
94
-
-
22244452677
-
Distribution and intensity of constraint in mammalian genomic sequence
-
Cooper, G. M. et al. Distribution and intensity of constraint in mammalian genomic sequence. Genome Res. 15, 901-913 (2005).
-
(2005)
Genome Res
, vol.15
, pp. 901-913
-
-
Cooper, G.M.1
-
95
-
-
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
-
Silva, J. C. et al. Conserved fragments of transposable elements in intergenic regions: evidence for widespread recruitment of MIR- and L2-derived sequences within the mouse and human genomes. Genet. Res. 82, 1-18 (2003).
-
(2003)
Genet. Res
, vol.82
, pp. 1-18
-
-
Silva, J.C.1
-
96
-
-
33646928347
-
A distal enhancer and an ultraconserved exon are derived from a novel retroposon
-
Bejerano, G. et al. A distal enhancer and an ultraconserved exon are derived from a novel retroposon. Nature 441, 87-90 (2006).
-
(2006)
Nature
, vol.441
, pp. 87-90
-
-
Bejerano, G.1
-
97
-
-
33745620751
-
Functional noncoding sequences derived from SINEs in the mammalian genome
-
Nishihara, H., Smit, A. F. & Okada, N. Functional noncoding sequences derived from SINEs in the mammalian genome. Genome Res. 16, 864-874 (2006).
-
(2006)
Genome Res
, vol.16
, pp. 864-874
-
-
Nishihara, H.1
Smit, A.F.2
Okada, N.3
-
98
-
-
33746801653
-
A family of conserved noncoding elements derived from an ancient transposable element
-
Xie, X., Kamal, M. & Lander, E. S. A family of conserved noncoding elements derived from an ancient transposable element. Proc. Natl Acad. Sci. USA 103, 11659-11664 (2006).
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 11659-11664
-
-
Xie, X.1
Kamal, M.2
Lander, E.S.3
-
99
-
-
0034764307
-
SSAHA: A fast search method for large DNA databases
-
Ning, Z., Cox, A. J. & Mullikin, J. C. SSAHA: a fast search method for large DNA databases. Genome Res. 11, 1725-1729 (2001).
-
(2001)
Genome Res
, vol.11
, pp. 1725-1729
-
-
Ning, Z.1
Cox, A.J.2
Mullikin, J.C.3
-
100
-
-
13444269543
-
Haploview: Analysis and visualization of LD and haplotype maps
-
Barrett, J. C., Fry, B., Maller, J. & Daly, M. J. Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21, 263-265 (2005).
-
(2005)
Bioinformatics
, vol.21
, pp. 263-265
-
-
Barrett, J.C.1
Fry, B.2
Maller, J.3
Daly, M.J.4
-
101
-
-
33644876924
-
-
Ensembl, database issue, D556-D561
-
Birney, E. et al. Ensembl 2006. Nucleic Acids Res. 34 (database issue), D556-D561 (2006).
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Birney, E.1
-
102
-
-
24044447664
-
Automated generation of heuristics for biological sequence comparison
-
Slater, G. S. & Birney, E. Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics 6, 31 (2005).
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 31
-
-
Slater, G.S.1
Birney, E.2
-
103
-
-
0141815478
-
Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes
-
Kent, W. J. et al. Evolution's cauldron: duplication, deletion, and rearrangement in the mouse and human genomes. Proc. Natl Acad. Sci. USA 100, 11484-11489 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 11484-11489
-
-
Kent, W.J.1
-
104
-
-
0036202921
-
PatternHunter: Faster and more sensitive homology search
-
Ma, B., Tromp, J. & Li, M. PatternHunter: faster and more sensitive homology search. Bioinformatics 18, 440-445 (2002).
-
(2002)
Bioinformatics
, vol.18
, pp. 440-445
-
-
Ma, B.1
Tromp, J.2
Li, M.3
-
105
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang, Z. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13, 555-556 (1997).
-
(1997)
Comput. Appl. Biosci
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
106
-
-
0034069495
-
Gene ontology: Tool for the unification of biology
-
Ashburner, M. et al. Gene ontology: tool for the unification of biology. Nature Genet. 25, 25-29 (2000).
-
(2000)
Nature Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
-
107
-
-
1542748076
-
-
Blanchette, M. et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 14, 708-715 (2004).
-
Blanchette, M. et al. Aligning multiple genomic sequences with the threaded blockset aligner. Genome Res. 14, 708-715 (2004).
-
-
-
-
108
-
-
0037267806
-
Human-mouse alignments with BLASTZ
-
Schwartz, S. et al. Human-mouse alignments with BLASTZ. Genome Res. 13, 103-107 (2003).
-
(2003)
Genome Res
, vol.13
, pp. 103-107
-
-
Schwartz, S.1
-
109
-
-
33646133653
-
The UCSC known genes
-
Hsu, F. et al. The UCSC known genes. Bioinformatics 22, 1036-1046 (2006).
-
(2006)
Bioinformatics
, vol.22
, pp. 1036-1046
-
-
Hsu, F.1
|