Biology Reference
In-Depth Information
[156] Schrimpf SP, Weiss M, Reiter L, Ahrens CH, Jovanovic M,
Malmstrom J, et al. Comparative functional analysis of the Cae-
norhabditis elegans and Drosophila melanogaster proteomes.
PLoS Biol 2009;7:e48.
[157] Jovanovic M, Reiter L, Picotti P, Lange V, Bogan E,
Hurschler BA, et al. A quantitative targeted proteomics approach
to validate predicted microRNA targets in C. elegans. Nat
Methods 2010;7:837
e
42.
[158] Chu DS, Liu H, Nix P, Wu TF, Ralston EJ, Yates 3rd JR, et al.
Sperm chromatin proteomics identifies evolutionarily conserved
fertility factors. Nature 2006;443:101
e
5.
[159] Dong MQ, Venable JD, Au N, Xu T, Park SK, Cociorva D, et al.
Quantitative mass spectrometry identifies insulin signaling targets
in C. elegans. Science 2007;317:660
e
3.
[160] David DC, Ollikainen N, Trinidad JC, Cary MP, Burlingame AL,
Kenyon C. Widespread protein aggregation as an inherent part of
aging in C. elegans. PLoS Biol 2010;8:e1000450.
[161] Zielinska DF, Gnad F, Jedrusik-Bode M, Wisniewski JR,
Mann M. Caenorhabditis elegans has a phosphoproteome atypical
for metazoans that is enriched in developmental and sex deter-
mination proteins. J Proteome Res 2009;8:4039
e
49.
[162] Walhout AJ, Sordella R, Lu X, Hartley JL, Temple GF, Brasch MA,
et al. Protein interaction mapping in C. elegans using proteins
involved in vulval development. Science 2000;287:116
e
22.
[163] Davy A, Bello P, Thierry-Mieg N, Vaglio P, Hitti J, Doucette-
Stamm L, et al. A protein
[174] Lehner B, Lee I. Network-guided genetic screening: building,
testing and using gene networks to predict gene function. Brief-
ings Funct Genomics Proteomics 2008;7:217
e
27.
[175] Zhong W, Sternberg PW. Genome-wide prediction of C. elegans
genetic interactions. Science 2006;311:1481
e
4.
[176] Goehring NW, Trong PK, Bois JS, Chowdhury D, Nicola EM,
Hyman AA, et al. Polarization of PAR proteins by advective trig-
gering of a pattern-forming system. Science 2011;334:1137
e
41.
[177] Kozlowski C, Srayko M, Nedelec F. Cortical microtubule contacts
position the spindle in C. elegans embryos. Cell 2007;129:499
e
510.
[178] Giurumescu CA, Sternberg PW, Asthagiri AR. Intercellular
coupling amplifies fate segregation during Caenorhabditis
elegans vulval development. Proc Natl Acad Sci U S A
2006;103:1331
e
6.
[179] Giurumescu CA, Sternberg PW, Asthagiri AR. Predicting
phenotypic diversity and the underlying quantitative molecular
transitions. PLoS Comput Biol 2009;5:e1000354.
[180] Sun X, Hong P. Computational modeling of Caenorhabditis ele-
gans vulval induction. Bioinformatics 2007;23:i499
e
507.
[181] Mayer M, Depken M, Bois JS, Julicher F, Grill SW. Anisotropies
in cortical tension reveal the physical basis of polarizing cortical
flows. Nature 2010;467:617
e
21.
[182] Kitano H, Hamahashi S, Luke S. The perfect C. elegans project:
an initial report. Artificial life 1998;4:141
e
56.
[183] Brenner S. Turing centenary: Life's code script. Nature 2012;
482:461.
[184] Gerstein MB, Lu ZJ, Van Nostrand EL, Cheng C, Arshinoff BI,
Liu T, et al. Integrative analysis of the Caenorhabditis elegans
genome
protein interaction map of
the
e
8.
[164] Walhout AJ, Reboul J, Shtanko O, Bertin N, Vaglio P, Ge H, et al.
Integrating interactome, phenome, and transcriptome mapping
data for the C. elegans germline. Curr Biol 2002;12:1952
e
8.
[165] Boulton SJ, Gartner A, Reboul J, Vaglio P, Dyson N, Hill DE,
et al. Combined functional genomic maps of the C. elegans DNA
damage response. Science 2002;295:127
e
31.
[166] Tewari M, Hu PJ, Ahn JS, Ayivi-Guedehoussou N, Vidalain PO,
Li S, et al. Systematic interactome mapping and genetic pertur-
bation analysis of a C. elegans TGF-beta signaling network. Mol
Cell 2004;13:469
e
82.
[167] Li S, Armstrong CM, Bertin N, Ge H, Milstein S, Boxem M, et al.
A map of the interactome network of the metazoan C. elegans.
Science 2004;303:540
e
3.
[168] Simonis N, Rual JF, Carvunis AR, Tasan M, Lemmens I,
Hirozane-Kishikawa T, et al. Empirically controlled mapping of
the Caenorhabditis elegans protein
e
protein interactome network.
Nat Methods 2009;6:47
e
54.
[169] Boxem M, Maliga Z, Klitgord N, Li N, Lemmens I, Mana M,
et al. A protein domain-based interactome network for C. elegans
early embryogenesis. Cell 2008;134:534
e
45.
[170] Lehner B. Modelling genotype-phenotype relationships and
human disease with genetic interaction networks. J Exp Biol
2007;210:1559
Caenorhabditis elegans 26S proteasome. EMBORep 2001;2:821
e
by
the modENCODE project.
Science
2010;
330:1775
e
87.
[185] Manolio TA, Collins FS, Cox NJ, Goldstein DB, Hindorff LA,
Hunter DJ, et al. Finding the missing heritability of complex
diseases. Nature 2009;461:747
e
53.
[186] Seidel HS, Rockman MV, Kruglyak L. Widespread genetic
incompatibility in C. elegans maintained by balancing selection.
Science 2008;319:589
e
94.
[187] Andersen EC, Gerke JP, Shapiro JA, Crissman JR, Ghosh R,
Bloom JS, et al. Chromosome-scale selective sweeps shape Cae-
norhabditis elegans genomic diversity. Nat Genet 2012;44:285
e
90.
[188] Doroszuk A, Snoek LB, Fradin E, Riksen J, Kammenga J. A
genome-wide library of CB4856/N2 introgression lines of
Caenorhabditis elegans. Nucleic Acids Res 2009;37:e110.
[189] Shaham S, Reddien PW, Davies B, Horvitz HR. Mutational
analysis of the Caenorhabditis elegans cell-death gene ced-3.
Genetics 1999;153:1655
e
71.
[190] Moy TI, Conery AL, Larkins-Ford J, Wu G, Mazitschek R,
Casadei G, et al. High-throughput screen for novel antimicrobials
using a whole animal
infection model. ACS Chem Biol
33.
[191] Wahlby C, Riklin-Raviv T, Ljosa V, Conery AL, Golland P,
Ausubel FM, et al. Resolving Clustered Worms Via Probabilistic
Shape Models. Proceedings / IEEE International Symposium on
Biomedical Imaging: from nano to macro IEEE International
Symposium on Biomedical Imaging 2010;2010:552
e
5.
[192] Carpenter AE, Jones TR, Lamprecht MR, Clarke C, Kang IH,
Friman O, et al. CellProfiler: image analysis software for identi-
fying and quantifying cell phenotypes. Genome Biol 2006;
7:R100.
2009;4:527
e
66.
[171] Fraser AG, Marcotte EM. A probabilistic view of gene function.
Nat Genet 2004;36:559
e
64.
[172] Lee I, Lehner B, Crombie C, Wong W, Fraser AG, Marcotte EM. A
single gene network accurately predicts phenotypic effects of gene
perturbation in Caenorhabditis elegans. Nat Genet 2008;40:181
e
8.
[173] Lee I, Lehner B, Vavouri T, Shin J, Fraser AG, Marcotte EM.
Predicting genetic modifier loci using functional gene networks.
Genome Res 2010;20:1143
e
53.
e
