-
1
-
-
58149120776
-
Modeling the dynamics of transcriptional gene regulatory networks for animal development
-
Ben-Tabou de-Leon S, Davidson EH (2009) Modeling the dynamics of transcriptional gene regulatory networks for animal development. Dev Biol 325: 317-328.
-
(2009)
Dev Biol
, vol.325
, pp. 317-328
-
-
Ben-Tabou de-Leon, S.1
Davidson, E.H.2
-
2
-
-
77649210933
-
-
Okkema Krause M Transcriptional regulation. In: Community TCeR, ed. WormBook: WormBook
-
Okkema PG, Krause M Transcriptional regulation. In: Community TCeR, ed. WormBook: WormBook.
-
-
-
-
3
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
Johnson DS, Mortazavi A, Myers RM, Wold B (2007) Genome-wide mapping of in vivo protein-DNA interactions. Science 316: 1497-1502.
-
(2007)
Science
, vol.316
, pp. 1497-1502
-
-
Johnson, D.S.1
Mortazavi, A.2
Myers, R.M.3
Wold, B.4
-
4
-
-
34547633677
-
Genomewide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
-
Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, et al. (2007) Genomewide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods 4: 651-657.
-
(2007)
Nat Methods
, vol.4
, pp. 651-657
-
-
Robertson, G.1
Hirst, M.2
Bainbridge, M.3
Bilenky, M.4
Zhao, Y.5
-
5
-
-
0028068018
-
The pha-4 gene is required to generate the pharyngeal primordium of Caenorhabditis elegans
-
Mango SE, Lambie EJ, Kimble J (1994) The pha-4 gene is required to generate the pharyngeal primordium of Caenorhabditis elegans. Development 120: 3019-3031.
-
(1994)
Development
, vol.120
, pp. 3019-3031
-
-
Mango, S.E.1
Lambie, E.J.2
Kimble, J.3
-
6
-
-
0032128183
-
pha-4, an HNF-3 homolog, specifies pharyngeal organ identity in Caenorhabditis elegans
-
Horner MA, Quintin S, Domeier ME, Kimble J, Labouesse M, et al. (1998) pha-4, an HNF-3 homolog, specifies pharyngeal organ identity in Caenorhabditis elegans. Genes Dev 12: 1947-1952.
-
(1998)
Genes Dev
, vol.12
, pp. 1947-1952
-
-
Horner, M.A.1
Quintin, S.2
Domeier, M.E.3
Kimble, J.4
Labouesse, M.5
-
7
-
-
0031818323
-
pha-4 is Ce-fkh-1, a fork head/HNF-3alpha,beta,gamma homolog that functions in organogenesis of the C. elegans pharynx
-
Kalb JM, Lau KK, Goszczynski B, Fukushige T, Moons D, et al. (1998) pha-4 is Ce-fkh-1, a fork head/HNF-3alpha,beta,gamma homolog that functions in organogenesis of the C. elegans pharynx. Development 125: 2171-2180.
-
(1998)
Development
, vol.125
, pp. 2171-2180
-
-
Kalb, J.M.1
Lau, K.K.2
Goszczynski, B.3
Fukushige, T.4
Moons, D.5
-
8
-
-
0035099902
-
Creation of low-copy integrated transgenic lines in Caenorhabditis elegans
-
Praitis V, Casey E, Collar D, Austin J (2001) Creation of low-copy integrated transgenic lines in Caenorhabditis elegans. Genetics 157: 1217-1226.
-
(2001)
Genetics
, vol.157
, pp. 1217-1226
-
-
Praitis, V.1
Casey, E.2
Collar, D.3
Austin, J.4
-
9
-
-
33847284814
-
X chromosome repression by localization of the C. elegans dosage compensation machinery to sites of transcription initiation
-
Ercan S, Giresi PG, Whittle CM, Zhang X, Green RD, et al. (2007) X chromosome repression by localization of the C. elegans dosage compensation machinery to sites of transcription initiation. Nat Genet 39: 403-408.
-
(2007)
Nat Genet
, vol.39
, pp. 403-408
-
-
Ercan, S.1
Giresi, P.G.2
Whittle, C.M.3
Zhang, X.4
Green, R.D.5
-
10
-
-
34250332235
-
Mapping of transcription factor binding regions in mammalian cells by ChIP: Comparison of array- and sequencing-based technologies
-
Euskirchen GM, Rozowsky JS, Wei CL, Lee WH, Zhang ZD, et al. (2007) Mapping of transcription factor binding regions in mammalian cells by ChIP: comparison of array- and sequencing-based technologies. Genome Res 17: 898-909.
-
(2007)
Genome Res
, vol.17
, pp. 898-909
-
-
Euskirchen, G.M.1
Rozowsky, J.S.2
Wei, C.L.3
Lee, W.H.4
Zhang, Z.D.5
-
11
-
-
52949083577
-
-
Whittle CM, McClinic KN, Ercan S, Zhang X, Green RD, et al. (2008) The genomic distribution and function of histone variant HTZ-1 during C. elegans embryogenesis. PLoS Genet 4: e1000187. doi:10.1371/journal.pgen.1000187.
-
Whittle CM, McClinic KN, Ercan S, Zhang X, Green RD, et al. (2008) The genomic distribution and function of histone variant HTZ-1 during C. elegans embryogenesis. PLoS Genet 4: e1000187. doi:10.1371/journal.pgen.1000187.
-
-
-
-
12
-
-
0030587611
-
Onset of C. elegans gastrulation is blocked by inhibition of embryonic transcription with an RNA polymerase antisense RNA
-
Powell-Coffman JA, Knight J, Wood WB (1996) Onset of C. elegans gastrulation is blocked by inhibition of embryonic transcription with an RNA polymerase antisense RNA. Dev Biol 178: 472-483.
-
(1996)
Dev Biol
, vol.178
, pp. 472-483
-
-
Powell-Coffman, J.A.1
Knight, J.2
Wood, W.B.3
-
13
-
-
0030790516
-
Transcriptionally repressed germ cells lack a subpopulation of phosphorylated RNA polymerase II in early embryos of Caenorhabditis elegans and Drosophila melanogaster
-
Seydoux G, Dunn MA (1997) Transcriptionally repressed germ cells lack a subpopulation of phosphorylated RNA polymerase II in early embryos of Caenorhabditis elegans and Drosophila melanogaster. Development 124: 2191-2201.
-
(1997)
Development
, vol.124
, pp. 2191-2201
-
-
Seydoux, G.1
Dunn, M.A.2
-
14
-
-
0036468361
-
Regulation of organogenesis by the Caenorhabditis elegans FoxA protein PHA-4
-
Gaudet J, Mango SE (2002) Regulation of organogenesis by the Caenorhabditis elegans FoxA protein PHA-4. Science 295: 821-825.
-
(2002)
Science
, vol.295
, pp. 821-825
-
-
Gaudet, J.1
Mango, S.E.2
-
15
-
-
14044261199
-
Whole-genome analysis of temporal gene expression during foregut development
-
doi:10.1371/journal.pbio.0020352
-
Gaudet J, Muttumu S, Horner M, Mango SE (2004) Whole-genome analysis of temporal gene expression during foregut development. PLoS Biol 2: e352. doi:10.1371/journal.pbio.0020352.
-
(2004)
PLoS Biol
, vol.2
-
-
Gaudet, J.1
Muttumu, S.2
Horner, M.3
Mango, S.E.4
-
16
-
-
34249888736
-
PHA-4/Foxa mediates diet-restriction-induced longevity of C. elegans
-
Panowski SH, Wolff S, Aguilaniu H, Durieux J, Dillin A (2007) PHA-4/Foxa mediates diet-restriction-induced longevity of C. elegans. Nature 447: 550-555.
-
(2007)
Nature
, vol.447
, pp. 550-555
-
-
Panowski, S.H.1
Wolff, S.2
Aguilaniu, H.3
Durieux, J.4
Dillin, A.5
-
17
-
-
52049093450
-
The Target of Rapamycin pathway antagonizes pha-4/FoxA to control development and aging
-
Sheaffer KL, Updike DL, Mango SE (2008) The Target of Rapamycin pathway antagonizes pha-4/FoxA to control development and aging. Curr Biol 18: 1355-1364.
-
(2008)
Curr Biol
, vol.18
, pp. 1355-1364
-
-
Sheaffer, K.L.1
Updike, D.L.2
Mango, S.E.3
-
18
-
-
33847343312
-
PHA-4/FoxA cooperates with TAM-1/ TRIM to regulate cell fate restriction in the C. elegans foregut
-
Kiefer JC, Smith PA, Mango SE (2007) PHA-4/FoxA cooperates with TAM-1/ TRIM to regulate cell fate restriction in the C. elegans foregut. Dev Biol 303: 611-624.
-
(2007)
Dev Biol
, vol.303
, pp. 611-624
-
-
Kiefer, J.C.1
Smith, P.A.2
Mango, S.E.3
-
19
-
-
46249096804
-
Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution
-
Wilhelm BT, Marguerat S, Watt S, Schubert F, Wood V, et al. (2008) Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature 453: 1239-1243.
-
(2008)
Nature
, vol.453
, pp. 1239-1243
-
-
Wilhelm, B.T.1
Marguerat, S.2
Watt, S.3
Schubert, F.4
Wood, V.5
-
20
-
-
60149112271
-
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls
-
Rozowsky J, Euskirchen G, Auerbach RK, Zhang ZD, Gibson T, et al. (2009) PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. Nat Biotechnol 27: 66-75.
-
(2009)
Nat Biotechnol
, vol.27
, pp. 66-75
-
-
Rozowsky, J.1
Euskirchen, G.2
Auerbach, R.K.3
Zhang, Z.D.4
Gibson, T.5
-
21
-
-
77649198292
-
-
Savage-Dunn C TGF-b signaling. In: Community TCeR, ed. WormBook: WormBook
-
Savage-Dunn C TGF-b signaling. In: Community TCeR, ed. WormBook: WormBook.
-
-
-
-
22
-
-
0042691506
-
Autophagy genes are essential for dauer development and life-span extension in C. elegans
-
Melendez A, Talloczy Z, Seaman M, Eskelinen EL, Hall DH, et al. (2003) Autophagy genes are essential for dauer development and life-span extension in C. elegans. Science 301: 1387-1391.
-
(2003)
Science
, vol.301
, pp. 1387-1391
-
-
Melendez, A.1
Talloczy, Z.2
Seaman, M.3
Eskelinen, E.L.4
Hall, D.H.5
-
23
-
-
34548421950
-
Dual roles of autophagy in the survival of Caenorhabditis elegans during starvation
-
Kang C, You YJ, Avery L (2007) Dual roles of autophagy in the survival of Caenorhabditis elegans during starvation. Genes Dev 21: 2161-2171.
-
(2007)
Genes Dev
, vol.21
, pp. 2161-2171
-
-
Kang, C.1
You, Y.J.2
Avery, L.3
-
24
-
-
40149105890
-
-
Hansen M, Chandra A, Mitic LL, Onken B, Driscoll M, et al. (2008) A role for autophagy in the extension of lifespan by dietary restriction in C. elegans. PLoS Genet 4: e24. doi:10.1371/journal.pgen.0040024.
-
Hansen M, Chandra A, Mitic LL, Onken B, Driscoll M, et al. (2008) A role for autophagy in the extension of lifespan by dietary restriction in C. elegans. PLoS Genet 4: e24. doi:10.1371/journal.pgen.0040024.
-
-
-
-
25
-
-
36549013619
-
RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo
-
Zeitlinger J, Stark A, Kellis M, Hong JW, Nechaev S, et al. (2007) RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet 39: 1512-1516.
-
(2007)
Nat Genet
, vol.39
, pp. 1512-1516
-
-
Zeitlinger, J.1
Stark, A.2
Kellis, M.3
Hong, J.W.4
Nechaev, S.5
-
26
-
-
64249139132
-
RNA Pol II accumulates at promoters of growth genes during developmental arrest
-
Baugh LR, Demodena J, Sternberg PW (2009) RNA Pol II accumulates at promoters of growth genes during developmental arrest. Science 324: 92-94.
-
(2009)
Science
, vol.324
, pp. 92-94
-
-
Baugh, L.R.1
Demodena, J.2
Sternberg, P.W.3
-
27
-
-
33748999996
-
A recombineering pipeline for functional genomics applied to Caenorhabditis elegans
-
Sarov M, Schneider S, Pozniakovski A, Roguev A, Ernst S, et al. (2006) A recombineering pipeline for functional genomics applied to Caenorhabditis elegans. Nat Methods 3: 839-844.
-
(2006)
Nat Methods
, vol.3
, pp. 839-844
-
-
Sarov, M.1
Schneider, S.2
Pozniakovski, A.3
Roguev, A.4
Ernst, S.5
-
28
-
-
77649224539
-
-
Ahringer ed, J Reverse genetics. In: Community TCeR, eds. WormBook: WormBook
-
Ahringer (ed.) J Reverse genetics. In: Community TCeR, eds. WormBook: WormBook.
-
-
-
-
29
-
-
45549088326
-
The transcriptional landscape of the yeast genome defined by RNA sequencing
-
Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, et al. (2008) The transcriptional landscape of the yeast genome defined by RNA sequencing. Science 320: 1344-1349.
-
(2008)
Science
, vol.320
, pp. 1344-1349
-
-
Nagalakshmi, U.1
Wang, Z.2
Waern, K.3
Shou, C.4
Raha, D.5
-
30
-
-
63849342015
-
Massively parallel sequencing of the polyadenylated transcriptome of C. elegans
-
Hillier LW, Reinke V, Green P, Hirst M, Marra MA, et al. (2009) Massively parallel sequencing of the polyadenylated transcriptome of C. elegans. Genome Res 19: 657-666.
-
(2009)
Genome Res
, vol.19
, pp. 657-666
-
-
Hillier, L.W.1
Reinke, V.2
Green, P.3
Hirst, M.4
Marra, M.A.5
-
31
-
-
27344435774
-
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
-
Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, et al. (2005) Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A 102: 15545-15550.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 15545-15550
-
-
Subramanian, A.1
Tamayo, P.2
Mootha, V.K.3
Mukherjee, S.4
Ebert, B.L.5
-
32
-
-
67849122320
-
-
Nucleic Acids Res
-
Bailey TL, Boden M, Buske FA, Frith M, Grant CE, et al. (2009) MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res.
-
(2009)
MEME SUITE: Tools for motif discovery and searching
-
-
Bailey, T.L.1
Boden, M.2
Buske, F.A.3
Frith, M.4
Grant, C.E.5
|