共 26 条
Biological function of unannotated transcription during the early development of Drosophila melanogaster
被引:148
作者:

Manak, J. Robert
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Affymetrix Inc, Santa Clara, CA 95051 USA Affymetrix Inc, Santa Clara, CA 95051 USA

Dike, Sujit
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Sementchenko, Victor
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Kapranov, Philipp
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h-index: 0
机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Biemar, Frederic
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h-index: 0
机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Long, Jeff
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h-index: 0
机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Cheng, Jill
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Bell, Ian
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Ghosh, Srinka
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Piccolboni, Antonio
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA

Gingeras, Thomas R.
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机构: Affymetrix Inc, Santa Clara, CA 95051 USA
机构:
[1] Affymetrix Inc, Santa Clara, CA 95051 USA
[2] Univ Calif Berkeley, Ctr Integrat Genom, Dept Mol & Cell Biol, Berkeley, CA 94720 USA
关键词:
D O I:
10.1038/ng1875
中图分类号:
Q3 [遗传学];
学科分类号:
071007 ;
090102 ;
摘要:
Many animal and plant genomes are transcribed much more extensively than current annotations predict. However, the biological function of these unannotated transcribed regions is largely unknown. Approximately 7% and 23% of the detected transcribed nucleotides during D. melanogaster embryogenesis map to unannotated intergenic and intronic regions, respectively. Based on computational analysis of coordinated transcription, we conservatively estimate that 29% of all unannotated transcribed sequences function as missed or alternative exons of well-characterized protein-coding genes. We estimate that 15.6% of intergenic transcribed regions function as missed or alternative transcription start sites (TSS) used by 11.4% of the expressed protein-coding genes. Identification of P element mutations within or near newly identified 5' exons provides a strategy for mapping previously uncharacterized mutations to their respective genes. Collectively, these data indicate that at least 85% of the fly genome is transcribed and processed into mature transcripts representing at least 30% of the fly genome.
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页码:1151 / 1158
页数:8
相关论文
共 26 条
[21]
Neurobeachin is essential for neuromuscular synaptic transmission
[J].
Su, YH
;
Balice-Gordon, RJ
;
Hess, DM
;
Landsman, DS
;
Minarcik, J
;
Golden, J
;
Hurwitz, I
;
Liebhaber, SA
;
Cooke, NE
.
JOURNAL OF NEUROSCIENCE,
2004, 24 (14)
:3627-3636

Su, YH
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Balice-Gordon, RJ
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Hess, DM
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Landsman, DS
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Minarcik, J
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Golden, J
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Hurwitz, I
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Liebhaber, SA
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA

Cooke, NE
论文数: 0 引用数: 0
h-index: 0
机构: Univ Penn, Sch Med, Dept Genet & Med, Philadelphia, PA 19104 USA
[22]
Setting the stage for development:: mRNA translation and stability during oocyte maturation and egg activation in Drosophila
[J].
Tadros, W
;
Lipshitz, HD
.
DEVELOPMENTAL DYNAMICS,
2005, 232 (03)
:593-608

Tadros, W
论文数: 0 引用数: 0
h-index: 0
机构: Hosp Sick Children, Res Inst, Program Dev Biol, Toronto, ON M5G 1X8, Canada

Lipshitz, HD
论文数: 0 引用数: 0
h-index: 0
机构: Hosp Sick Children, Res Inst, Program Dev Biol, Toronto, ON M5G 1X8, Canada
[23]
Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation
[J].
Tamayo, P
;
Slonim, D
;
Mesirov, J
;
Zhu, Q
;
Kitareewan, S
;
Dmitrovsky, E
;
Lander, ES
;
Golub, TR
.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,
1999, 96 (06)
:2907-2912

Tamayo, P
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Slonim, D
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Mesirov, J
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Zhu, Q
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Kitareewan, S
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Dmitrovsky, E
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Lander, ES
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA

Golub, TR
论文数: 0 引用数: 0
h-index: 0
机构: Whitehead Inst Biomed Res, Cambridge Ctr 9, Cambridge, MA 02142 USA
[24]
A complementary transposon tool kit for Drosophila melanogaster using P and piggyBac
[J].
Thibault, ST
;
Singer, MA
;
Miyazaki, WY
;
Milash, B
;
Dompe, NA
;
Singh, CM
;
Buchholz, R
;
Demsky, M
;
Fawcett, R
;
Francis-Lang, HL
;
Ryner, L
;
Cheung, LM
;
Chong, A
;
Erickson, C
;
Fisher, WW
;
Greer, K
;
Hartouni, SR
;
Howie, E
;
Jakkula, L
;
Joo, D
;
Killpack, K
;
Laufer, A
;
Mazzotta, J
;
Smith, RD
;
Stevens, LM
;
Stuber, C
;
Tan, LR
;
Ventura, R
;
Woo, A
;
Zakrajsek, I
;
Zhao, L
;
Chen, F
;
Swimmer, C
;
Kopczynski, C
;
Duyk, G
;
Winberg, ML
;
Margolis, J
.
NATURE GENETICS,
2004, 36 (03)
:283-287

Thibault, ST
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Singer, MA
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Miyazaki, WY
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Milash, B
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Dompe, NA
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Singh, CM
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Buchholz, R
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Demsky, M
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Fawcett, R
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Francis-Lang, HL
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Ryner, L
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Cheung, LM
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Chong, A
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Erickson, C
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Fisher, WW
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Greer, K
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Hartouni, SR
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Howie, E
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Jakkula, L
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Joo, D
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Killpack, K
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Laufer, A
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Mazzotta, J
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Smith, RD
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Stevens, LM
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Stuber, C
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Tan, LR
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Ventura, R
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Woo, A
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Zakrajsek, I
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Zhao, L
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Chen, F
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Swimmer, C
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Kopczynski, C
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Duyk, G
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Winberg, ML
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA

Margolis, J
论文数: 0 引用数: 0
h-index: 0
机构:
Exelixis, San Francisco, CA 94083 USA Exelixis, San Francisco, CA 94083 USA
[25]
SERIAL ANALYSIS OF GENE-EXPRESSION
[J].
VELCULESCU, VE
;
ZHANG, L
;
VOGELSTEIN, B
;
KINZLER, KW
.
SCIENCE,
1995, 270 (5235)
:484-487

VELCULESCU, VE
论文数: 0 引用数: 0
h-index: 0
机构: JOHNS HOPKINS UNIV, CTR ONCOL, HOWARD HUGHES MED INST, BALTIMORE, MD 21231 USA

ZHANG, L
论文数: 0 引用数: 0
h-index: 0
机构: JOHNS HOPKINS UNIV, CTR ONCOL, HOWARD HUGHES MED INST, BALTIMORE, MD 21231 USA

VOGELSTEIN, B
论文数: 0 引用数: 0
h-index: 0
机构: JOHNS HOPKINS UNIV, CTR ONCOL, HOWARD HUGHES MED INST, BALTIMORE, MD 21231 USA

KINZLER, KW
论文数: 0 引用数: 0
h-index: 0
机构: JOHNS HOPKINS UNIV, CTR ONCOL, HOWARD HUGHES MED INST, BALTIMORE, MD 21231 USA
[26]
5′ Long serial analysis of gene expression (LongSAGE) and 3′ LongSAGE for transcriptome characterization and genome annotation
[J].
Wei, CL
;
Ng, P
;
Chiu, KP
;
Wong, CH
;
Ang, CC
;
Lipovich, L
;
Liu, ET
;
Ruan, YJ
.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,
2004, 101 (32)
:11701-11706

Wei, CL
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Ng, P
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Chiu, KP
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Wong, CH
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Ang, CC
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Lipovich, L
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Liu, ET
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore

Ruan, YJ
论文数: 0 引用数: 0
h-index: 0
机构: Genome Inst Singapore, Cloning & Sequencing Grp, Singapore 138672, Singapore