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[87] Gunsalus KC, Ge H, Schetter AJ, Goldberg DS, Han JD, Hao T,
et al. Predictive models of molecular machines involved in Cae-
norhabditis elegans early embryogenesis. Nature 2005;436:861
e
5.
[88] Piano F, Schetter AJ, Mangone M, Stein L, Kemphues KJ. RNAi
analysis of genes expressed in the ovary of Caenorhabditis ele-
gans. Curr Biol 2000;10:1619
e
22.
[89] Sonnichsen B, Koski LB, Walsh A, Marschall P, Neumann B,
Brehm M, et al. Full-genome RNAi profiling of early embryo-
genesis in Caenorhabditis elegans. Nature 2005;434:462
e
9.
[90] Zipperlen P, Fraser AG, Kamath RS, Martinez-Campos M,
Ahringer J. Roles for 147 embryonic lethal genes on C. elegans
chromosome I identified by RNA interference and video
microscopy. EMBO J 2001;20:3984
e
92.
[91] Green RA, Kao HL, Audhya A, Arur S, Mayers JR,
Fridolfsson HN, et al. A high-resolution C. elegans essential gene
network based on phenotypic profiling of a complex tissue. Cell
2011;145:470
e
82.
[92] Abrams JM, White K, Fessler LI, Steller H. Programmed cell
death during Drosophila embryogenesis. Development 1993;
117:29
e
43.
[93] Steller H, Abrams JM, Grether ME, White K. Programmed cell
death in Drosophila. Philosophical transactions of the Royal
Society of London Series B. Biological sciences 1994;345:
247
e
50.
[94] White K, Grether ME, Abrams JM, Young L, Farrell K, Steller H.
Genetic control of programmed cell death in Drosophila. Science
1994;264:677
[105] Golden TR, Melov S. Microarray analysis of gene expression with
age in individual nematodes. Aging Cell 2004;3:111
24.
[106] Lund J, Tedesco P, Duke K, Wang J, Kim SK, Johnson TE.
Transcriptional profile of aging in C. elegans. Curr Biol
2002;12:1566
e
73.
[107] GuhaThakurta D, Palomar L, Stormo GD, Tedesco P, Johnson TE,
Walker DW, et al. Identification of a novel cis-regulatory element
involved in the heat shock response in Caenorhabditis elegans
using microarray gene expression and computational methods.
Genome Res 2002;12:701
e
12.
[108] Lamm AT, Stadler MR, Zhang H, Gent JI, Fire AZ. Multimodal
RNA-seq using single-strand, double-strand, and CircLigase-based
capture yields a refined and extended description of the C. elegans
transcriptome. Genome Res 2011;21:265
e
75.
[109] Allen MA, Hillier LW, Waterston RH, Blumenthal T. A global
analysis of C. elegans
e
trans-splicing. Genome Res 2011;
21:255
e
64.
[110] Ramani AK, Calarco JA, Pan Q, Mavandadi S, Wang Y,
Nelson AC, et al. Genome-wide analysis of alternative
splicing in Caenorhabditis elegans. Genome Res 2011;21:
342
e
8.
[111]
Jan CH, Friedman RC, Ruby JG, Bartel DP. Formation, regulation
and evolution of Caenorhabditis elegans 3
0
;UTRs. Nature 2011;
469:97
101.
[112] Mangone M, Manoharan AP, Thierry-Mieg D, Thierry-Mieg J,
Han T, Mackowiak SD, et al. The landscape of C. elegans
3
0
UTRs. Science 2010;329:432
e
83.
[95] Byrne AB, Weirauch MT, Wong V, Koeva M, Dixon SJ,
Stuart JM, et al. A global analysis of genetic interactions in
Caenorhabditis elegans. J Biol 2007;6:8.
[96] Lehner B, Tischler J, Fraser AG. RNAi screens in Caenorhabditis
elegans in a 96-well liquid format and their application to the
systematic identification of genetic interactions. Nat Protoc
2006;1:1617
e
20.
[97] Tischler J, Lehner B, Chen N, Fraser AG. Combinatorial RNA
interference in Caenorhabditis elegans reveals that redundancy
between gene duplicates can be maintained for more than 80
million years of evolution. Genome Biol 2006;7:R69.
[98] Tischler J, Lehner B, Fraser AG. Evolutionary plasticity of
genetic interaction networks. Nat Genet 2008;40:390
e
1.
[99] Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED,
Sevier CS, et al. The genetic landscape of a cell. Science
2010;327:425
e
31.
[100] Cutter AD, Payseur BA, Salcedo T, Estes AM, Good JM, Wood E,
et al. Molecular correlates of genes exhibiting RNAi phenotypes
in Caenorhabditis elegans. Genome Res 2003;13:2651
e
7.
[101] Ramani AK, Chuluunbaatar T, Verster AJ, Na H, Vu V, Pelte N,
et al. The majority of animal genes are required for wild-type
fitness. Cell 2012;148:792
5.
[113] Lu ZJ, Yip KY, Wang G, Shou C, Hillier LW, Khurana E, et al.
Prediction and characterization of noncoding RNAs in C. elegans by
integrating conservation, secondary structure, and high-throughput
sequencing and array data. Genome Res 2011;21:276
e
85.
[114] Yanai I, Hunter CP. Comparison of diverse developmental tran-
scriptomes reveals that coexpression of gene neighbors is not
evolutionarily conserved. Genome Res 2009;19:2214
e
20.
[115] Gaudet J, Mango SE. Regulation of organogenesis by the Cae-
norhabditis
e
e
elegans FoxA protein PHA-4. Science 2002;
295:821
e
5.
[116] Baugh LR, Hill AA, Claggett JM, Hill-Harfe K, Wen JC,
Slonim DK, et al. The homeodomain protein PAL-1 specifies
a lineage-specific regulatory network in the C. elegans embryo.
Development 2005;132:1843
e
54.
[117] Reinke V, Gil IS, Ward S, Kazmer K. Genome-wide germline-
enriched and sex-biased expression profiles in Caenorhabditis
elegans. Development 2004;131:311
e
23.
[118] Jiang M, Ryu J, Kiraly M, Duke K, Reinke V, Kim SK. Genome-
wide analysis of developmental and sex-regulated gene expression
profiles in Caenorhabditis elegans. Proc Natl Acad Sci U S A
2001;98:218
e
23.
[119] Roy PJ, Stuart JM, Lund J, Kim SK. Chromosomal clustering of
muscle-expressed genes
802.
[102] Greenwald I, Seydoux G. Analysis of gain-of-function mutations
of the lin-12 gene of Caenorhabditis elegans. Nature 1990;
346:197
e
in Caenorhabditis elegans. Nature
9.
[120] Pauli F, Liu Y, Kim YA, Chen PJ, Kim SK. Chromosomal clus-
tering and GATA transcriptional regulation of intestine-expressed
genes in C. elegans. Development 2006;133:287
e
95.
[121] Stoeckius M, Maaskola J, Colombo T, Rahn HP, Friedlander MR,
Li N, et al. Large-scale sorting of C. elegans embryos reveals the
dynamics of
2002;418:975
e
9.
[103] Baugh LR, Hill AA, Slonim DK, Brown EL, Hunter CP.
Composition and dynamics of the Caenorhabditis elegans early
embryonic transcriptome. Development 2003;130:889
e
900.
[104] Budovskaya YV, Wu K, Southworth LK, Jiang M, Tedesco P,
Johnson TE, et al. An elt-3/elt-5/elt-6 GATA transcription circuit
guides aging in C. elegans. Cell 2008;134:291
e
303.
e
small RNA expression. Nat Methods 2009;
6:745
e
51.
