-
1
-
-
0037168637
-
Characterization of the intergenic RNA profile at abdominal-A and Abdominal-B in the Drosophila bithorax complex
-
Bae, E., Calhoun, V.C., Levine, M., Lewis, E.B., and Drewell, R.A. 2002. Characterization of the intergenic RNA profile at abdominal-A and Abdominal-B in the Drosophila bithorax complex. Proc. Natl. Acad. Sci. 99: 16847-16852.
-
(2002)
Proc. Natl. Acad. Sci
, vol.99
, pp. 16847-16852
-
-
Bae, E.1
Calhoun, V.C.2
Levine, M.3
Lewis, E.B.4
Drewell, R.A.5
-
2
-
-
0347444723
-
MicroRNAs: Genomics, biogenesis, mechanism, and function
-
Bartel, D.P. 2004. MicroRNAs: Genomics, biogenesis, mechanism, and function. Cell 116: 281-297.
-
(2004)
Cell
, vol.116
, pp. 281-297
-
-
Bartel, D.P.1
-
3
-
-
38149052111
-
MicroRNAs in the Drosophila bithorax complex
-
this issue, doi: 10.1101/gad.1614208
-
Bender, W. 2008. MicroRNAs in the Drosophila bithorax complex. Genes & Dev. (this issue), doi: 10.1101/gad.1614208.
-
(2008)
Genes & Dev
-
-
Bender, W.1
-
4
-
-
0026065957
-
Molecular definition of the morphogenetic and regulatory functions and the cis-regulatory elements of the Drosophila Abd-B homeotic gene
-
Boulet, A.M., Lloyd, A., and Sakonju, S. 1991. Molecular definition of the morphogenetic and regulatory functions and the cis-regulatory elements of the Drosophila Abd-B homeotic gene. Development 111: 393-405.
-
(1991)
Development
, vol.111
, pp. 393-405
-
-
Boulet, A.M.1
Lloyd, A.2
Sakonju, S.3
-
5
-
-
18044377963
-
Principles of microRNA-target recognition
-
doi: 10.1371/journal.pbio.0030085
-
Brennecke, J., Stark, A., Russell, R.B., and Cohen, S.M. 2005. Principles of microRNA-target recognition. PLoS Biol. 3: e85. doi: 10.1371/journal.pbio.0030085.
-
(2005)
PLoS Biol
, vol.3
-
-
Brennecke, J.1
Stark, A.2
Russell, R.B.3
Cohen, S.M.4
-
6
-
-
33947273235
-
Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila
-
Brennecke, J., Aravin, A.A., Stark, A., Dus, M., Kellis, M., Sachidanandam, R., and Hannon, G.J. 2007. Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila. Cell 128: 1089-1103.
-
(2007)
Cell
, vol.128
, pp. 1089-1103
-
-
Brennecke, J.1
Aravin, A.A.2
Stark, A.3
Dus, M.4
Kellis, M.5
Sachidanandam, R.6
Hannon, G.J.7
-
7
-
-
0025367658
-
Characterization of two RNAs transcribed from the cis-regulatory region of the abd-A domain within the Drosophila bithorax complex
-
Cumberledge, S., Zaratzian, A., and Sakonju, S. 1990. Characterization of two RNAs transcribed from the cis-regulatory region of the abd-A domain within the Drosophila bithorax complex. Proc. Natl. Acad. Sci. 87: 3259-3263.
-
(1990)
Proc. Natl. Acad. Sci
, vol.87
, pp. 3259-3263
-
-
Cumberledge, S.1
Zaratzian, A.2
Sakonju, S.3
-
8
-
-
47149117454
-
-
Drosophila 12 Genomes Consortium 2007. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450: 203-218.
-
Drosophila 12 Genomes Consortium 2007. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450: 203-218.
-
-
-
-
9
-
-
0031752664
-
Vertebrate hox gene regulation: Clustering and/or colinearity?
-
Duboule, D. 1998. Vertebrate hox gene regulation: Clustering and/or colinearity? Curr. Opin. Genet. Dev. 8: 514-518.
-
(1998)
Curr. Opin. Genet. Dev
, vol.8
, pp. 514-518
-
-
Duboule, D.1
-
10
-
-
29144505309
-
The widespread impact of mammalian microRNAs on mRNA repression and evolution
-
Farh, K.K., Grimson, A., Jan, C., Lewis, B.P., Johnston, W.K., Lim, L.P., Burge, C.B., and Bartel, D.P. 2005. The widespread impact of mammalian microRNAs on mRNA repression and evolution. Science 310: 1817-1821.
-
(2005)
Science
, vol.310
, pp. 1817-1821
-
-
Farh, K.K.1
Grimson, A.2
Jan, C.3
Lewis, B.P.4
Johnston, W.K.5
Lim, L.P.6
Burge, C.B.7
Bartel, D.P.8
-
11
-
-
33644750115
-
-
Griffiths-Jones, S., Grocock, R.J., van Dongen, S., Bateman, A., and Enright, A.J. 2006. miRBase: MicroRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 34 (Database issue): D140-D144. doi: 10.1093/nar/gkj112.
-
Griffiths-Jones, S., Grocock, R.J., van Dongen, S., Bateman, A., and Enright, A.J. 2006. miRBase: MicroRNA sequences, targets and gene nomenclature. Nucleic Acids Res. 34 (Database issue): D140-D144. doi: 10.1093/nar/gkj112.
-
-
-
-
12
-
-
33750814968
-
Antisense transcription controls cell fate in Saccharomyces cerevisiae
-
Hongay, C.F., Grisafi, P.L., Galitski, T., and Fink, G.R. 2006. Antisense transcription controls cell fate in Saccharomyces cerevisiae. Cell 127: 735-745.
-
(2006)
Cell
, vol.127
, pp. 735-745
-
-
Hongay, C.F.1
Grisafi, P.L.2
Galitski, T.3
Fink, G.R.4
-
13
-
-
28444449496
-
The microRNA miR-196 acts upstream of Hoxb8 and Shh in limb development
-
Hornstein, E., Mansfield, J.H., Yekta, S., Hu, J.K., Harfe, B.D., McManus, M.T., Baskerville, S., Bartel, D.P., and Tabin, C.J. 2005. The microRNA miR-196 acts upstream of Hoxb8 and Shh in limb development. Nature 438: 671-674.
-
(2005)
Nature
, vol.438
, pp. 671-674
-
-
Hornstein, E.1
Mansfield, J.H.2
Yekta, S.3
Hu, J.K.4
Harfe, B.D.5
McManus, M.T.6
Baskerville, S.7
Bartel, D.P.8
Tabin, C.J.9
-
14
-
-
37249031072
-
A microRNA fingerprint of mammary epithelial stem cells
-
Ibarra, I., Erlich, Y., Muthuswamy, S.K., Sachidanandam, R., and Hannon, G.J. 2007. A microRNA fingerprint of mammary epithelial stem cells. Genes & Dev. 21: 3238-3243.
-
(2007)
Genes & Dev
, vol.21
, pp. 3238-3243
-
-
Ibarra, I.1
Erlich, Y.2
Muthuswamy, S.K.3
Sachidanandam, R.4
Hannon, G.J.5
-
15
-
-
0024988384
-
abdA expression in Drosophila embryos
-
Karch, F., Bender, W., and Weiffenbach, B. 1990. abdA expression in Drosophila embryos. Genes & Dev. 4: 1573-1587.
-
(1990)
Genes & Dev
, vol.4
, pp. 1573-1587
-
-
Karch, F.1
Bender, W.2
Weiffenbach, B.3
-
16
-
-
24644472515
-
Antisense transcription in the mammalian transcriptome
-
Katayama, S., Tomaru, Y., Kasukawa, T., Waki, K., Nakanishi, M., Nakamura, M., Nishida, H., Yap, C.C., Suzuki, M., Kawai, J., et al. 2005. Antisense transcription in the mammalian transcriptome. Science 309: 1564-1566.
-
(2005)
Science
, vol.309
, pp. 1564-1566
-
-
Katayama, S.1
Tomaru, Y.2
Kasukawa, T.3
Waki, K.4
Nakanishi, M.5
Nakamura, M.6
Nishida, H.7
Yap, C.C.8
Suzuki, M.9
Kawai, J.10
-
17
-
-
0036079158
-
The human genome browser at UCSC
-
Kent, W.J., Sugnet, C.W., Furey, T.S., Roskin, K.M., Pringle, T.H., Zahler, A.M., and Haussler, D. 2002. The human genome browser at UCSC. Genome Res. 12: 996-1006.
-
(2002)
Genome Res
, vol.12
, pp. 996-1006
-
-
Kent, W.J.1
Sugnet, C.W.2
Furey, T.S.3
Roskin, K.M.4
Pringle, T.H.5
Zahler, A.M.6
Haussler, D.7
-
18
-
-
0142165224
-
Functional siRNAs and miRNAs exhibit strand bias
-
Khvorova, A., Reynolds, A., and Jayasena, S.D. 2003. Functional siRNAs and miRNAs exhibit strand bias. Cell 115: 209-216.
-
(2003)
Cell
, vol.115
, pp. 209-216
-
-
Khvorova, A.1
Reynolds, A.2
Jayasena, S.D.3
-
19
-
-
0018240421
-
A gene complex controlling segmentation in Drosophila
-
Lewis, E.B. 1978. A gene complex controlling segmentation in Drosophila. Nature 276: 565-570.
-
(1978)
Nature
, vol.276
, pp. 565-570
-
-
Lewis, E.B.1
-
20
-
-
11844278458
-
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
-
Lewis, B.P., Burge, C.B., and Bartel, D.P. 2005. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120: 15-20.
-
(2005)
Cell
, vol.120
, pp. 15-20
-
-
Lewis, B.P.1
Burge, C.B.2
Bartel, D.P.3
-
21
-
-
0037447334
-
The microRNAs of Caenorhabditis elegans
-
Lim, L.P., Lau, N.C., Weinstein, E.G., Abdelhakim, A., Yekta, S., Rhoades, M.W., Burge, C.B., and Bartel, D.P. 2003. The microRNAs of Caenorhabditis elegans. Genes & Dev. 17: 991-1008.
-
(2003)
Genes & Dev
, vol.17
, pp. 991-1008
-
-
Lim, L.P.1
Lau, N.C.2
Weinstein, E.G.3
Abdelhakim, A.4
Yekta, S.5
Rhoades, M.W.6
Burge, C.B.7
Bartel, D.P.8
-
22
-
-
0025611986
-
Expression and regulation of the abd-A gene of Drosophila
-
Macias, A., Casanova, J., and Morata, G. 1990. Expression and regulation of the abd-A gene of Drosophila. Development 110: 1197-1207.
-
(1990)
Development
, vol.110
, pp. 1197-1207
-
-
Macias, A.1
Casanova, J.2
Morata, G.3
-
23
-
-
55849137262
-
Extensive polycistronism and antisense transcription in the mammalian hox clusters
-
doi: 10.1371/journal.pone.0000356
-
Mainguy, G., Koster, J., Woltering, J., Jansen, H., and Durston, A. 2007. Extensive polycistronism and antisense transcription in the mammalian hox clusters. PLoS ONE 2: e356. doi: 10.1371/journal.pone.0000356.
-
(2007)
PLoS ONE
, vol.2
-
-
Mainguy, G.1
Koster, J.2
Woltering, J.3
Jansen, H.4
Durston, A.5
-
24
-
-
6944246368
-
MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression
-
Mansfield, J.H., Harfe, B.D., Nissen, R., Obenauer, J., Srineel, J., Chaudhuri, A., Farzan-Kashani, R., Zuker, M., Pasquinelli, A.E., Ruvkun, G., et al. 2004. MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression. Nat. Genet. 36: 1079-1083.
-
(2004)
Nat. Genet
, vol.36
, pp. 1079-1083
-
-
Mansfield, J.H.1
Harfe, B.D.2
Nissen, R.3
Obenauer, J.4
Srineel, J.5
Chaudhuri, A.6
Farzan-Kashani, R.7
Zuker, M.8
Pasquinelli, A.E.9
Ruvkun, G.10
-
25
-
-
0026504525
-
Homeobox genes and axial patterning
-
McGinnis, W. and Krumlauf, R. 1992. Homeobox genes and axial patterning. Cell 68: 283-302.
-
(1992)
Cell
, vol.68
, pp. 283-302
-
-
McGinnis, W.1
Krumlauf, R.2
-
26
-
-
0028722641
-
Imaging neuronal subsets and other cell types in wholemount Drosophila embryos and larvae using antibody probes
-
Patel, N.H. 1994. Imaging neuronal subsets and other cell types in wholemount Drosophila embryos and larvae using antibody probes. Methods Cell Biol. 44: 445-487.
-
(1994)
Methods Cell Biol
, vol.44
, pp. 445-487
-
-
Patel, N.H.1
-
27
-
-
28944438404
-
Modulating Hox gene functions during animal body patterning
-
Pearson, J.C., Lemons, D., and McGinnis, W. 2005. Modulating Hox gene functions during animal body patterning. Nat. Rev. Genet. 6: 893-904.
-
(2005)
Nat. Rev. Genet
, vol.6
, pp. 893-904
-
-
Pearson, J.C.1
Lemons, D.2
McGinnis, W.3
-
28
-
-
29144438977
-
The Drosophila microRNA iab-4 causes a dominant homeotic transformation of halteres to wings
-
Ronshaugen, M., Biemar, F., Piel, J., Levine, M., and Lai, E.C. 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
Biemar, F.2
Piel, J.3
Levine, M.4
Lai, E.C.5
-
29
-
-
38149071979
-
Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
-
doi: 10.1101/gr.6597907
-
Ruby, J.G., Stark, A., Johnston, W.K., Kellis, M., Bartel, D.P., and Lai, E.C. 2007. Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. Genome Res. doi: 10.1101/gr.6597907.
-
(2007)
Genome Res
-
-
Ruby, J.G.1
Stark, A.2
Johnston, W.K.3
Kellis, M.4
Bartel, D.P.5
Lai, E.C.6
-
30
-
-
10744225153
-
Asymmetry in the assembly of the RNAi enzyme complex
-
Schwarz, D.S., Hutvagner, G., Du, T., Xu, Z., Aronin, N., and Zamore, P.D. 2003. Asymmetry in the assembly of the RNAi enzyme complex. Cell 115: 199-208.
-
(2003)
Cell
, vol.115
, pp. 199-208
-
-
Schwarz, D.S.1
Hutvagner, G.2
Du, T.3
Xu, Z.4
Aronin, N.5
Zamore, P.D.6
-
31
-
-
19444377759
-
Transcriptional interference - A crash course
-
Shearwin, K.E., Callen, B.P., and Egan, J.B. 2005. Transcriptional interference - A crash course. Trends Genet. 21: 339-345.
-
(2005)
Trends Genet
, vol.21
, pp. 339-345
-
-
Shearwin, K.E.1
Callen, B.P.2
Egan, J.B.3
-
32
-
-
4243170045
-
Identification of Drosophila microRNA targets
-
doi: 10.1371/journal.pbio.0000060
-
Stark, A., Brennecke, J., Russell, R.B., and Cohen, S.M. 2003. Identification of Drosophila microRNA targets. PLoS Biol. 1: E60. doi: 10.1371/journal.pbio.0000060.
-
(2003)
PLoS Biol
, vol.1
-
-
Stark, A.1
Brennecke, J.2
Russell, R.B.3
Cohen, S.M.4
-
33
-
-
28944439309
-
Animal microRNAs confer robustness to gene expression and have a significant impact on 3′UTR evolution
-
Stark, A., Brennecke, J., Bushati, N., Russell, R.B., and Cohen, S.M. 2005. Animal microRNAs confer robustness to gene expression and have a significant impact on 3′UTR evolution. Cell 123: 1133-1146.
-
(2005)
Cell
, vol.123
, pp. 1133-1146
-
-
Stark, A.1
Brennecke, J.2
Bushati, N.3
Russell, R.B.4
Cohen, S.M.5
-
34
-
-
36049018312
-
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
-
Stark, A., Lin, M.F., Kheradpour, P., Pedersen, J.S., Parts, L., Carlson, J.W., Crosby, M.A., Rasmussen, M.D., Roy, S., Deoras, A.N., et al. 2007a. 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
Lin, M.F.2
Kheradpour, P.3
Pedersen, J.S.4
Parts, L.5
Carlson, J.W.6
Crosby, M.A.7
Rasmussen, M.D.8
Roy, S.9
Deoras, A.N.10
-
35
-
-
37249025294
-
Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes
-
doi: 10.1101/gr.6593807
-
Stark, A., Kheradpour, P., Parts, L., Brennecke, J., Hodges, E., Hannon, G.J., and Kellis, M. 2007b. Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes. Genome Res. doi: 10.1101/gr.6593807.
-
(2007)
Genome Res
-
-
Stark, A.1
Kheradpour, P.2
Parts, L.3
Brennecke, J.4
Hodges, E.5
Hannon, G.J.6
Kellis, M.7
-
36
-
-
0032523883
-
Ultrabithorax regulates genes at several levels of the wing-patterning hierarchy to shape the development of the Drosophila haltere
-
Weatherbee, S.D., Halder, G., Kim, J., Hudson, A., and Carroll, S. 1998. Ultrabithorax regulates genes at several levels of the wing-patterning hierarchy to shape the development of the Drosophila haltere. Genes & Dev. 12: 1474-1482.
-
(1998)
Genes & Dev
, vol.12
, pp. 1474-1482
-
-
Weatherbee, S.D.1
Halder, G.2
Kim, J.3
Hudson, A.4
Carroll, S.5
-
37
-
-
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
-
38
-
-
12244275645
-
Widespread occurrence of antisense transcription in the human genome
-
Yelin, R., Dahary, D., Sorek, R., Levanon, E.Y., Goldstein, O., Shoshan, A., Diber, A., Biton, S., Tamir, Y., Khosravi, R., et al. 2003. Widespread occurrence of antisense transcription in the human genome. Nat. Biotechnol. 21: 379-386.
-
(2003)
Nat. Biotechnol
, vol.21
, pp. 379-386
-
-
Yelin, R.1
Dahary, D.2
Sorek, R.3
Levanon, E.Y.4
Goldstein, O.5
Shoshan, A.6
Diber, A.7
Biton, S.8
Tamir, Y.9
Khosravi, R.10
-
39
-
-
33646714432
-
The evolution of abdominal reduction and the recent origin of distinct Abdominal-B transcript classes in Diptera
-
Yoder, J.H. and Carroll, S.B. 2006. The evolution of abdominal reduction and the recent origin of distinct Abdominal-B transcript classes in Diptera. Evol. Dev. 8: 241-251.
-
(2006)
Evol. Dev
, vol.8
, pp. 241-251
-
-
Yoder, J.H.1
Carroll, S.B.2
-
40
-
-
0042121256
-
Mfold Web server for nucleic acid folding and hybridization prediction
-
Zuker, M. 2003. Mfold Web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 31: 3406-3415.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
|