-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., et al. 1990. Basic local alignment search tool. J. Mol. Biol. 215: 403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
-
2
-
-
4644309196
-
The functions of animal microRNAs
-
Ambros, V. 2004. The functions of animal microRNAs. Nature 431: 350-355.
-
(2004)
Nature
, vol.431
, pp. 350-355
-
-
Ambros, V.1
-
3
-
-
0347444723
-
MicroRNAs
-
Cell
-
Bartel, D. P. 2004. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116: 281-297.
-
(2004)
genomics, biogenesis, mechanism, and function
, vol.116
, pp. 281-297
-
-
Bartel, D.P.1
-
4
-
-
13944260434
-
Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes
-
Baskerville, S., and Bartel, D. P. 2005. Microarray profiling of microRNAs reveals frequent coexpression with neighboring miRNAs and host genes. RNA 11: 241-247.
-
(2005)
RNA
, vol.11
, pp. 241-247
-
-
Baskerville, S.1
Bartel, D.P.2
-
5
-
-
33845452609
-
Insect microRNAs
-
Insect Biochem. Mol. Biol.
-
Behura, S. K. 2007. Insect microRNAs: structure, function and evolution. Insect Biochem. Mol. Biol. 37: 3-9.
-
(2007)
structure, function and evolution
, vol.37
, pp. 3-9
-
-
Behura, S.K.1
-
6
-
-
33845370280
-
RNA polymerase III transcribes human microRNAs
-
Borchert, G. M., Lanier, W., and Davidson, B. L. 2006. RNA polymerase III transcribes human microRNAs. Nat. Struct. Mol. Biol. 13: 1097-1101.
-
(2006)
Nat. Struct. Mol. Biol.
, vol.13
, pp. 1097-1101
-
-
Borchert, G.M.1
Lanier, W.2
Davidson, B.L.3
-
7
-
-
46149088914
-
Intronic noncoding RNAs and splicing
-
Brown, J. W., Marshall, D. F., and Echeverria, M. 2008. Intronic noncoding RNAs and splicing. Trends Plant Sci. 13: 335-342.
-
(2008)
Trends Plant Sci.
, vol.13
, pp. 335-342
-
-
Brown, J.W.1
Marshall, D.F.2
Echeverria, M.3
-
9
-
-
31744432337
-
The role of microRNA-1 and microRNA-133 in skeletal muscle proliferation and differentiation
-
Chen, J. F., et al. 2006. The role of microRNA-1 and microRNA-133 in skeletal muscle proliferation and differentiation. Nat. Genet. 38: 228-233.
-
(2006)
Nat. Genet.
, vol.38
, pp. 228-233
-
-
Chen, J.F.1
-
11
-
-
77649193420
-
Ancient animal microRNAs and the evolution of tissue identity
-
Christodoulou, F., et al. 2010. Ancient animal microRNAs and the evolution of tissue identity. Nature 463: 1084-1088.
-
(2010)
Nature
, vol.463
, pp. 1084-1088
-
-
Christodoulou, F.1
-
12
-
-
26444603772
-
Two rounds of whole genome duplication in the ancestral vertebrate
-
Dehal, P., and Boore, J. L. 2005. Two rounds of whole genome duplication in the ancestral vertebrate. PLoS Biol. 3: e314.
-
(2005)
PLoS Biol.
, vol.3
-
-
Dehal, P.1
Boore, J.L.2
-
13
-
-
0032893932
-
Preservation of duplicate genes by complementary, degenerative mutations
-
Force, A., et al. 1999. Preservation of duplicate genes by complementary, degenerative mutations. Genetics 151: 1531-1545.
-
(1999)
Genetics
, vol.151
, pp. 1531-1545
-
-
Force, A.1
-
14
-
-
77951955175
-
Biased hosting of intronic microRNA genes
-
Golan, D., et al. 2010. Biased hosting of intronic microRNA genes. Bioinformatics 26: 992-995.
-
(2010)
Bioinformatics
, vol.26
, pp. 992-995
-
-
Golan, D.1
-
15
-
-
0020402387
-
Exaptation-a missing term in the science of form
-
Gould, S. J., and Vrba, E. S. 1982. Exaptation-a missing term in the science of form. Paleobiology 8: 4-15.
-
(1982)
Paleobiology
, vol.8
, pp. 4-15
-
-
Gould, S.J.1
Vrba, E.S.2
-
17
-
-
55249115975
-
Early origins and evolution of microRNAs and Piwi interacting RNAs in animals
-
Grimson, A., et al. 2008. Early origins and evolution of microRNAs and Piwi interacting RNAs in animals. Nature 455: 1193-1197.
-
(2008)
Nature
, vol.455
, pp. 1193-1197
-
-
Grimson, A.1
-
18
-
-
42949146575
-
MicroRNAs and the advent of vertebrate morphological complexity
-
Heimberg, A. M., et al. 2008. MicroRNAs and the advent of vertebrate morphological complexity. Proc. Natl. Acad. Sci. USA 105: 2946-2950.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 2946-2950
-
-
Heimberg, A.M.1
-
19
-
-
78650592620
-
miRNAs reveal the interrelationships of hagfish, lampreys and gnathostomes, and the nature of the ancestral vertebrate
-
Heimberg, A. M., et al. 2010. miRNAs reveal the interrelationships of hagfish, lampreys and gnathostomes, and the nature of the ancestral vertebrate. Proc. Natl. Acad. Sci. USA 107: 19379-19383.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 19379-19383
-
-
Heimberg, A.M.1
-
20
-
-
72749099971
-
Assessing the root of bilaterian animals with scalable phylogenomic methods
-
Hejnol, A., et al. 2009. Assessing the root of bilaterian animals with scalable phylogenomic methods. Proc. Biol. Sci. 276: 4261-4270.
-
(2009)
Proc. Biol. Sci.
, vol.276
, pp. 4261-4270
-
-
Hejnol, A.1
-
21
-
-
33644772270
-
The expansion of the metazoan microRNA repertoire
-
Hertel, J., et al. 2006. The expansion of the metazoan microRNA repertoire. BMC Genomics 7: 25.
-
(2006)
BMC Genomics
, vol.7
, pp. 25
-
-
Hertel, J.1
-
22
-
-
76149113094
-
Evolutionarily stable association of intronic snoRNAs and microRNAs with their host genes
-
Hoeppner, M. P., et al. 2009. Evolutionarily stable association of intronic snoRNAs and microRNAs with their host genes. Genome Biol Evol 2009: 420-428.
-
(2009)
Genome Biol Evol
, vol.2009
, pp. 420-428
-
-
Hoeppner, M.P.1
-
23
-
-
0028971378
-
Sequence and expression of amphioxus alkali myosin light chain (AmphiMLC-alk) throughout development
-
Dev. Biol.
-
Holland, L. Z., et al. 1995. Sequence and expression of amphioxus alkali myosin light chain (AmphiMLC-alk) throughout development: implications for vertebrate myogenesis. Dev. Biol. 171: 665-676.
-
(1995)
implications for vertebrate myogenesis
, vol.171
, pp. 665-676
-
-
Holland, L.Z.1
-
24
-
-
0003463208
-
Molecular Zoology: Advances, Strategies, and Protocols
-
amphioxus verses vertebrates. In, J. D. Ferraris and, S. R. Palumbi, eds.). Wiley, New York -; 473-483.
-
Holland, L. Z., Holland, P. W. H., and Holland, N. D. 1996. Revealing homologies between body parts of distantly related animals by in situ hybridization to developmental genes: amphioxus verses vertebrates. In J. D. Ferraris and S. R. Palumbi (eds.). Molecular Zoology: Advances, Strategies, and Protocols. Wiley, New York, pp. 267-282; 473-483.
-
(1996)
Revealing homologies between body parts of distantly related animals by in situ hybridization to developmental genes
, pp. 267-282
-
-
Holland, L.Z.1
Holland, P.W.H.2
Holland, N.D.3
-
25
-
-
6044269754
-
Cephalochordate (amphioxus) embryos
-
Methods Cell Biol.
-
Holland, L. Z., and Yu, J. K. 2004. Cephalochordate (amphioxus) embryos: procurement, culture, and basic methods. Methods Cell Biol. 74: 195-215.
-
(2004)
procurement, culture, and basic methods
, vol.74
, pp. 195-215
-
-
Holland, L.Z.1
Yu, J.K.2
-
26
-
-
0002677801
-
Essential Developmental Biology: A practical approach
-
In, C. D. Stern and, P. W. H. Holland, eds.). IRL, Press, Oxford.
-
Holland, N. D., and Holland, L. Z. 1993. Embryos and larvae of invertebrate deuterostomes. In C. D. Stern and P. W. H. Holland (eds.). Essential Developmental Biology: A practical approach. IRL, Press, Oxford, pp. 21-32.
-
(1993)
Embryos and larvae of invertebrate deuterostomes
, pp. 21-32
-
-
Holland, N.D.1
Holland, L.Z.2
-
27
-
-
7244259101
-
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype
-
Jaillon, O., et al. 2004. Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature 431: 946-957.
-
(2004)
Nature
, vol.431
, pp. 946-957
-
-
Jaillon, O.1
-
28
-
-
33645525893
-
MicroRNAS and their regulatory roles in plants
-
Jones-Rhoades, M. W., Bartel, D. P., and Bartel, B. 2006. MicroRNAS and their regulatory roles in plants. Annu. Rev. Plant Biol. 57: 19-53.
-
(2006)
Annu. Rev. Plant Biol.
, vol.57
, pp. 19-53
-
-
Jones-Rhoades, M.W.1
Bartel, D.P.2
Bartel, B.3
-
29
-
-
33846945735
-
Processing of intronic microRNAs
-
Kim, Y. K., and Kim, V. N. 2007. Processing of intronic microRNAs. EMBO J. 26: 775-783.
-
(2007)
EMBO J.
, vol.26
, pp. 775-783
-
-
Kim, Y.K.1
Kim, V.N.2
-
30
-
-
31344454565
-
In situ detection of miRNAs in animal embryos using LNA-modified oligonucleotide probes
-
Kloosterman, W. P. 2006. In situ detection of miRNAs in animal embryos using LNA-modified oligonucleotide probes. Nat Methods 3: 27-29.
-
(2006)
Nat Methods
, vol.3
, pp. 27-29
-
-
Kloosterman, W.P.1
-
31
-
-
0035955374
-
Identification of novel genes coding for small expressed RNAs
-
Lagos-Quintana, M., et al. 2001. Identification of novel genes coding for small expressed RNAs. Science 294: 853-858.
-
(2001)
Science
, vol.294
, pp. 853-858
-
-
Lagos-Quintana, M.1
-
32
-
-
0037321349
-
New microRNAs from mouse and human
-
Lagos-Quintana, M., et al. 2003. New microRNAs from mouse and human. RNA 9: 175-179.
-
(2003)
RNA
, vol.9
, pp. 175-179
-
-
Lagos-Quintana, M.1
-
33
-
-
0038825783
-
Computational identification of Drosophila microRNA genes
-
Lai, E. C., et al. 2003. Computational identification of Drosophila microRNA genes. Genome Biol. 4: R42.
-
(2003)
Genome Biol.
, vol.4
-
-
Lai, E.C.1
-
34
-
-
0035955361
-
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
-
Lau, N. C., et al. 2001. An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294: 858-862.
-
(2001)
Science
, vol.294
, pp. 858-862
-
-
Lau, N.C.1
-
35
-
-
8144225486
-
MicroRNA genes are transcribed by RNA polymerase II
-
Lee, Y., et al. 2004. MicroRNA genes are transcribed by RNA polymerase II. EMBO J. 23: 4051-4060.
-
(2004)
EMBO J.
, vol.23
, pp. 4051-4060
-
-
Lee, Y.1
-
36
-
-
33749325080
-
Genomic evolution of Hox gene clusters
-
Lemons, D., and McGinnis, W. 2006. Genomic evolution of Hox gene clusters. Science 313: 1918-1922.
-
(2006)
Science
, vol.313
, pp. 1918-1922
-
-
Lemons, D.1
McGinnis, W.2
-
37
-
-
33947309774
-
Evolution of plant microRNA gene families
-
Li, A., and Mao, L. 2007. Evolution of plant microRNA gene families. Cell Res. 17: 212-218.
-
(2007)
Cell Res.
, vol.17
, pp. 212-218
-
-
Li, A.1
Mao, L.2
-
38
-
-
66249117657
-
Lowly expressed human microRNA genes evolve rapidly
-
Liang, H., and Li, W. H. 2009. Lowly expressed human microRNA genes evolve rapidly. Mol. Biol. Evol. 26: 1195-1198.
-
(2009)
Mol. Biol. Evol.
, vol.26
, pp. 1195-1198
-
-
Liang, H.1
Li, W.H.2
-
39
-
-
0034634395
-
The evolutionary fate and consequences of duplicate genes
-
Lynch, M., and Conery, J. S. 2000. The evolutionary fate and consequences of duplicate genes. Science 290: 1151-1155.
-
(2000)
Science
, vol.290
, pp. 1151-1155
-
-
Lynch, M.1
Conery, J.S.2
-
40
-
-
33645509923
-
Evolution of Arabidopsis microRNA families through duplication events
-
Maher, C., Stein, L., and Ware, D. 2006. Evolution of Arabidopsis microRNA families through duplication events. Genome Res. 16: 510-519.
-
(2006)
Genome Res.
, vol.16
, pp. 510-519
-
-
Maher, C.1
Stein, L.2
Ware, D.3
-
41
-
-
0025317138
-
Detecting pseudoknots and other local base-pairing structures in RNA sequences
-
Martinez, H. M. 1990. Detecting pseudoknots and other local base-pairing structures in RNA sequences. Methods Enzymol. 183: 306-317.
-
(1990)
Methods Enzymol.
, vol.183
, pp. 306-317
-
-
Martinez, H.M.1
-
43
-
-
33745593721
-
Generation of neuronal variability and complexity
-
Muotri, A. R., and Gage, F. H. 2006. Generation of neuronal variability and complexity. Nature 441: 1087-1093.
-
(2006)
Nature
, vol.441
, pp. 1087-1093
-
-
Muotri, A.R.1
Gage, F.H.2
-
44
-
-
56549129538
-
Chromatin structure analyses identify miRNA promoters
-
Ozsolak, F., et al. 2008. Chromatin structure analyses identify miRNA promoters. Genes Dev. 22: 3172-3183.
-
(2008)
Genes Dev.
, vol.22
, pp. 3172-3183
-
-
Ozsolak, F.1
-
45
-
-
70349320089
-
MicroRNAs and metazoan macroevolution
-
Bioessays
-
Peterson, K. J., Dietrich, M. R., and McPeek, M. A. 2009. MicroRNAs and metazoan macroevolution: insights into canalization, complexity, and the Cambrian explosion. Bioessays 31: 736-747.
-
(2009)
insights into canalization, complexity, and the Cambrian explosion
, vol.31
, pp. 736-747
-
-
Peterson, K.J.1
Dietrich, M.R.2
McPeek, M.A.3
-
46
-
-
54249158400
-
Emerging role of miR-106b-25/miR-17-92 clusters in the control of transforming growth factor β signaling
-
Petrocca, F., Vecchione, A., and Croce, C. M. 2008. Emerging role of miR-106b-25/miR-17-92 clusters in the control of transforming growth factor β signaling. Cancer Res. 68: 8191-8194.
-
(2008)
Cancer Res.
, vol.68
, pp. 8191-8194
-
-
Petrocca, F.1
Vecchione, A.2
Croce, C.M.3
-
47
-
-
33846052292
-
Evidence for a microRNA expansion in the bilaterian ancestor
-
Prochnik, S. E., Rokhsar, D. S., and Aboobaker, A. A. 2007. Evidence for a microRNA expansion in the bilaterian ancestor. Dev. Genes Evol. 217: 73-77.
-
(2007)
Dev. Genes Evol.
, vol.217
, pp. 73-77
-
-
Prochnik, S.E.1
Rokhsar, D.S.2
Aboobaker, A.A.3
-
48
-
-
45749086679
-
The amphioxus genome and the evolution of the chordate karyotype
-
Putnam, N. H., et al. 2008. The amphioxus genome and the evolution of the chordate karyotype. Nature 453: 1064-1071.
-
(2008)
Nature
, vol.453
, pp. 1064-1071
-
-
Putnam, N.H.1
-
49
-
-
6344281172
-
Identification of mammalian microRNA host genes and transcription units
-
Rodriguez, A., et al. 2004. Identification of mammalian microRNA host genes and transcription units. Genome Res. 14: 1902-1910.
-
(2004)
Genome Res.
, vol.14
, pp. 1902-1910
-
-
Rodriguez, A.1
-
50
-
-
29144438977
-
The Drosophila microRNA iab-4 causes a dominant homeotic transformation of halteres to wings
-
Ronshaugen, M., et al. 2005. The Drosophila microRNA iab-4 causes a dominant homeotic transformation of halteres to wings. Genes Dev. 19: 2947-2952.
-
(2005)
Genes Dev.
, vol.19
, pp. 2947-2952
-
-
Ronshaugen, M.1
-
51
-
-
38149071979
-
Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
-
Ruby, J. G., et al. 2007. Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res. 17: 1850-1864.
-
(2007)
Genome Res.
, vol.17
, pp. 1850-1864
-
-
Ruby, J.G.1
-
52
-
-
33845608152
-
The phylogenetic distribution of metazoan microRNAs: insights into evolutionary complexity and constraint
-
Sempere, L. F., et al. 2006. The phylogenetic distribution of metazoan microRNAs: insights into evolutionary complexity and constraint. J. Exp. Zool. B. Mol. Dev. Evol. 306: 575-588.
-
(2006)
J. Exp. Zool. B. Mol. Dev. Evol.
, vol.306
, pp. 575-588
-
-
Sempere, L.F.1
-
53
-
-
84919715621
-
Animal Evolution-Genomes, Trees and Fossils
-
big trees from little genes. In, M. J. Telford and, D. T. J. Littlewood, eds.). Oxford University Press, Oxford -, 197-237.
-
Sperling, E. A., and Peterson, K. J. 2009. microRNAs and metazoan phylogeny: big trees from little genes. In M. J. Telford and D. T. J. Littlewood (eds.). Animal Evolution-Genomes, Trees and Fossils. Oxford University Press, Oxford, pp. 157-170, 197-237.
-
(2009)
microRNAs and metazoan phylogeny
, pp. 157-170
-
-
Sperling, E.A.1
Peterson, K.J.2
-
54
-
-
72749120240
-
MicroRNAs resolve an apparent conflict between annelid systematics and their fossil record
-
Sperling, E. A., et al. 2009. MicroRNAs resolve an apparent conflict between annelid systematics and their fossil record. Proc. Biol. Sci. 276: 4315-4322.
-
(2009)
Proc. Biol. Sci.
, vol.276
, pp. 4315-4322
-
-
Sperling, E.A.1
-
55
-
-
36049018312
-
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
-
Stark, A., et al. 2007. Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature 450: 219-232.
-
(2007)
Nature
, vol.450
, pp. 219-232
-
-
Stark, A.1
-
56
-
-
38049016849
-
Xenopus microRNA genes are predominantly located within introns and are differentially expressed in adult frog tissues via post-transcriptional regulation
-
Tang, G. Q., and Maxwell, E. S. 2008. Xenopus microRNA genes are predominantly located within introns and are differentially expressed in adult frog tissues via post-transcriptional regulation. Genome Res. 18: 104-112.
-
(2008)
Genome Res.
, vol.18
, pp. 104-112
-
-
Tang, G.Q.1
Maxwell, E.S.2
-
57
-
-
2342450524
-
Molecular evolution of a microRNA cluster
-
Tanzer, A., and Stadler, P. F. 2004. Molecular evolution of a microRNA cluster. J. Mol. Biol. 339: 327-335.
-
(2004)
J. Mol. Biol.
, vol.339
, pp. 327-335
-
-
Tanzer, A.1
Stadler, P.F.2
-
58
-
-
14844298721
-
Evolution of microRNAs located within Hox gene clusters
-
Tanzer, A., et al. 2005. Evolution of microRNAs located within Hox gene clusters. J. Exp. Zool. B. Mol. Dev. Evol. 304: 75-85.
-
(2005)
J. Exp. Zool. B. Mol. Dev. Evol.
, vol.304
, pp. 75-85
-
-
Tanzer, A.1
-
59
-
-
1642490608
-
On the Origin of Phyla
-
University of Chicago Press, Chicago, London.
-
Valentine, J. W. 2004. On the Origin of Phyla. University of Chicago Press, Chicago, London.
-
(2004)
-
-
Valentine, J.W.1
-
60
-
-
58549086017
-
The deep evolution of metazoan microRNAs
-
Wheeler, B. M., et al. 2009. The deep evolution of metazoan microRNAs. Evol. Dev. 11: 50-68.
-
(2009)
Evol. Dev.
, vol.11
, pp. 50-68
-
-
Wheeler, B.M.1
-
61
-
-
38849096973
-
MiR-10 represses HoxB1a and HoxB3a in zebrafish
-
Woltering, J. M., and Durston, A. J. 2008. MiR-10 represses HoxB1a and HoxB3a in zebrafish. PLoS One 3: e1396.
-
(2008)
PLoS One
, vol.3
-
-
Woltering, J.M.1
Durston, A.J.2
-
62
-
-
2142654329
-
MicroRNA-directed cleavage of HOXB8 mRNA
-
Yekta, S., Shih, I. H., and Bartel, D. P. 2004. MicroRNA-directed cleavage of HOXB8 mRNA. Science 304: 594-596.
-
(2004)
Science
, vol.304
, pp. 594-596
-
-
Yekta, S.1
Shih, I.H.2
Bartel, D.P.3
-
63
-
-
52149090746
-
MicroRNAs in the Hox network
-
Nat. Rev. Genet.
-
Yekta, S., Tabin, C. J., and Bartel, D. P. 2008. MicroRNAs in the Hox network: an apparent link to posterior prevalence. Nat. Rev. Genet. 9: 789-796.
-
(2008)
an apparent link to posterior prevalence
, vol.9
, pp. 789-796
-
-
Yekta, S.1
Tabin, C.J.2
Bartel, D.P.3
-
64
-
-
63049110327
-
Diversity and evolution of MicroRNA gene clusters
-
Zhang, Y., Zhang, R., and Su, B. 2009. Diversity and evolution of MicroRNA gene clusters. Sci. China C. Life Sci. 52: 261-266.
-
(2009)
Sci. China C. Life Sci.
, vol.52
, pp. 261-266
-
-
Zhang, Y.1
Zhang, R.2
Su, B.3
|