Publications
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Aging mice show a decreasing correlation of gene expression within genetic modules.
Southworth LK,
Owen AB, Kim SK.
PLoS Genet.
2009;
5
(12):
e1000776
-
Analysis of cell fate from single-cell gene expression profiles in C. elegans.
Liu X,
Long F, Peng H, Aerni SJ, Jiang M, Sánchez-Blanco A, Murray JI, Preston E, Mericle B, Batzoglou S, Myers EW, Kim SK.
Cell.
2009;
139
(3):
623-33
-
Sequential use of transcriptional profiling, expression quantitative trait mapping, and gene association implicates MMP20 in human kidney aging.
Wheeler HE,
Metter EJ, Tanaka T, Absher D, Higgins J, Zahn JM, Wilhelmy J, Davis RW, Singleton A, Myers RM, Ferrucci L, Kim SK.
PLoS Genet.
2009;
5
(10):
e1000685
-
An elt-3/elt-5/elt-6 GATA transcription circuit guides aging in C. elegans.
Budovskaya YV,
Wu K, Southworth LK, Jiang M, Tedesco P, Johnson TE, Kim SK.
Cell.
2008;
134
(2):
291-303
-
AGEMAP: a gene expression database for aging in mice.
Zahn JM,
Poosala S, Owen AB, Ingram DK, Lustig A, Carter A, Weeraratna AT, Taub DD, Gorospe M, Mazan-Mamczarz K, Lakatta EG, Boheler KR, Xu X, Mattson MP, Falco G, Ko MS, Schlessinger D, Firman J, Kummerfeld SK, Wood WH, Zonderman AB, Kim SK, Becker KG.
PLoS Genet.
2007;
3
(11):
e201
-
Transcriptional profiling of aging in human muscle reveals a common aging signature.
Zahn JM,
Sonu R, Vogel H, Crane E, Mazan-Mamczarz K, Rabkin R, Davis RW, Becker KG, Owen AB, Kim SK.
PLoS Genet.
2006;
2
(7):
e115
-
A transcriptional profile of aging in the human kidney.
Rodwell GE,
Sonu R, Zahn JM, Lund J, Wilhelmy J, Wang L, Xiao W, Mindrinos M, Crane E, Segal E, Myers BD, Brooks JD, Davis RW, Higgins J, Owen AB, Kim SK.
PLoS Biol.
2004;
2
(12):
e427
-
A gene-coexpression network for global discovery of conserved genetic modules.
Stuart JM,
Segal E, Koller D, Kim SK.
Science.
2003;
302
(5643):
249-55
-
Chromosomal clustering of muscle-expressed genes in Caenorhabditis elegans.
Roy PJ,
Stuart JM, Lund J, Kim SK.
Nature.
2002;
418
(6901):
975-9
-
A gene expression map for Caenorhabditis elegans.
Kim SK,
Lund J, Kiraly M, Duke K, Jiang M, Stuart JM, Eizinger A, Wylie BN, Davidson GS.
Science.
2001;
293
(5537):
2087-92
-
Reconciliation of daf-2 suppression by elt-3 in Caenorhabditis elegans from Tonsaker et al. (2012) and Kim et al. (2012).
Kim SK,
Budovskaya YV, Johnson TE.
Mech Ageing Dev.
2013 Jan-Feb;
134
(1-2):
64-5
-
Integrative analysis of C. elegans modENCODE ChIP-seq data sets to infer gene regulatory interactions.
Van Nostrand EL,
Kim SK.
Genome Res.
2013;
23
(6):
941-53
-
Roles of the developmental regulator unc-62/Homothorax in limiting longevity in Caenorhabditis elegans.
Van Nostrand EL,
Sánchez-Blanco A, Wu B, Nguyen A, Kim SK.
PLoS Genet.
2013;
9
(2):
e1003325
-
An engineering approach to extending lifespan in C. elegans.
Sagi D,
Kim SK.
PLoS Genet.
2012;
8
(6):
e1002780
-
Interpretome: a freely available, modular, and secure personal genome interpretation engine.
Karczewski KJ,
Tirrell RP, Cordero P, Tatonetti NP, Dudley JT, Salari K, Snyder M, Altman RB, Kim SK.
Pac Symp Biocomput.
2012:
339-50
-
Response to Tonsaker et al.
Kim SK,
Budovskaya YV, Johnson TE.
Mech Ageing Dev.
2012;
133
(1):
54-6; discussion 57-8
-
The GATA transcription factor egl-27 delays aging by promoting stress resistance in Caenorhabditis elegans.
Xu X,
Kim SK.
PLoS Genet.
2012;
8
(12):
e1003108
-
Genetics and genomics of human ageing.
Wheeler HE,
Kim SK.
Philos Trans R Soc Lond B Biol Sci.
2011;
366
(1561):
43-50
-
Seeing elegance in gene regulatory networks of the worm.
Van Nostrand EL,
Kim SK.
Curr Opin Genet Dev.
2011;
21
(6):
776-86
-
The early bird catches the worm: new technologies for the Caenorhabditis elegans toolkit.
Xu X,
Kim SK.
Nat Rev Genet.
2011;
12
(11):
793-801
-
Variable pathogenicity determines individual lifespan in Caenorhabditis elegans.
Sánchez-Blanco A,
Kim SK.
PLoS Genet.
2011;
7
(4):
e1002047
-
Properties of balanced permutations.
Southworth LK,
Kim SK, Owen AB.
J Comput Biol.
2009;
16
(4):
625-38
-
Cell biology. Proteins that promote long life.
Kim SK,
Science.
2007;
317
(5838):
603-4
-
Common aging pathways in worms, flies, mice and humans.
Kim SK,
The Journal of Experimental Biology.
2007;
(210):
1607-1612
-
Common aging pathways in worms, flies, mice and humans.
Kim SK,
J Exp Biol.
2007;
210
(Pt 9):
1607-12
-
Systems biology of aging in four species.
Zahn JM,
Kim SK.
Curr Opin Biotechnol.
2007;
18
(4):
355-9
-
Chromosomal clustering and GATA transcriptional regulation of intestine-expressed genes in C. elegans.
Pauli F,
Liu Y, Kim YA, Chen PJ, Kim SK.
Development.
2006;
133
(2):
287-95
-
A gene recommender algorithm to identify coexpressed genes in C. elegans.
Owen AB,
Stuart J, Mach K, Villeneuve AM, Kim S.
Genome Res.
2003;
13
(8):
1828-37
-
Global analysis of dauer gene expression in Caenorhabditis elegans.
Wang J,
Kim SK.
Development.
2003;
130
(8):
1621-34
-
The modular era of functional genomics.
Segal E,
Kim SK.
Genome Biol.
2003;
4
(5):
317
-
A targeted RNAi screen for genes involved in chromosome morphogenesis and nuclear organization in the Caenorhabditis elegans germline.
Colaiácovo MP,
Stanfield GM, Reddy KC, Reinke V, Kim SK, Villeneuve AM.
Genetics.
2002;
162
(1):
113-28
-
Downstream targets of let-60 Ras in Caenorhabditis elegans.
Romagnolo B,
Jiang M, Kiraly M, Breton C, Begley R, Wang J, Lund J, Kim SK.
Dev Biol.
2002;
247
(1):
127-36
-
Transcriptional profile of aging in C. elegans.
Lund J,
Tedesco P, Duke K, Wang J, Kim SK, Johnson TE.
Curr Biol.
2002;
12
(18):
1566-73
-
Functional genomics: the worm scores a knockout.
Kim SK,
Curr Biol.
2001;
11
(3):
R85-7
-
Genome-wide analysis of developmental and sex-regulated gene expression profiles in Caenorhabditis elegans.
Jiang M,
Ryu J, Kiraly M, Duke K, Reinke V, Kim SK.
Proc Natl Acad Sci U S A.
2001;
98
(1):
218-23
-
Http://C. elegans: mining the functional genomic landscape.
Kim SK,
Nat Rev Genet.
2001;
2
(9):
681-9
-
"Fluorescent timer": protein that changes color with time.
Terskikh A,
Fradkov A, Ermakova G, Zaraisky A, Tan P, Kajava AV, Zhao X, Lukyanov S, Matz M, Kim S, Weissman I, Siebert P.
Science.
2000;
290
(5496):
1585-8
-
A global profile of germline gene expression in C. elegans.
Reinke V,
Smith HE, Nance J, Wang J, Van Doren C, Begley R, Jones SJ, Davis EB, Scherer S, Ward S, Kim SK.
Mol Cell.
2000;
6
(3):
605-16
-
Protruding vulva mutants identify novel loci and Wnt signaling factors that function during Caenorhabditis elegans vulva development.
Eisenmann DM,
Kim SK.
Genetics.
2000;
156
(3):
1097-116
-
Reading the worm genome.
Kim SK,
Science.
2000;
287
(5450):
52-3
-
Basolateral localization of the Caenorhabditis elegans epidermal growth factor receptor in epithelial cells by the PDZ protein LIN-10.
Whitfield CW,
Bénard C, Barnes T, Hekimi S, Kim SK.
Mol Biol Cell.
1999;
10
(6):
2087-100
-
Signaling specificity: the RTK/RAS/MAP kinase pathway in metazoans.
Tan PB,
Kim SK.
Trends Genet.
1999;
15
(4):
145-9
-
Genetic analysis of the Caenorhabditis elegans MAP kinase gene mpk-1.
Lackner MR,
Kim SK.
Genetics.
1998;
150
(1):
103-17
-
MAP kinase signaling specificity mediated by the LIN-1 Ets/LIN-31 WH transcription factor complex during C. elegans vulval induction.
Tan PB,
Lackner MR, Kim SK.
Cell.
1998;
93
(4):
569-80
-
The LIN-2/LIN-7/LIN-10 complex mediates basolateral membrane localization of the C. elegans EGF receptor LET-23 in vulval epithelial cells.
Kaech SM,
Whitfield CW, Kim SK.
Cell.
1998;
94
(6):
761-71
-
The beta-catenin homolog BAR-1 and LET-60 Ras coordinately regulate the Hox gene lin-39 during Caenorhabditis elegans vulval development.
Eisenmann DM,
Maloof JN, Simske JS, Kenyon C, Kim SK.
Development.
1998;
125
(18):
3667-80
-
Inhibition of Caenorhabditis elegans vulval induction by gap-1 and by let-23 receptor tyrosine kinase.
Hajnal A,
Whitfield CW, Kim SK.
Genes Dev.
1997;
11
(20):
2715-28
-
Mechanism of activation of the Caenorhabditis elegans ras homologue let-60 by a novel, temperature-sensitive, gain-of-function mutation.
Eisenmann DM,
Kim SK.
Genetics.
1997;
146
(2):
553-65
-
Polarized signaling: basolateral receptor localization in epithelial cells by PDZ-containing proteins.
Kim SK,
Curr Opin Cell Biol.
1997;
9
(6):
853-9
-
LET-23 receptor localization by the cell junction protein LIN-7 during C. elegans vulval induction.
Simske JS,
Kaech SM, Harp SA, Kim SK.
Cell.
1996;
85
(2):
195-204
-
Mosaic analysis using a ncl-1 (+) extrachromosomal array reveals that lin-31 acts in the Pn.p cells during Caenorhabditis elegans vulval development.
Miller LM,
Waring DA, Kim SK.
Genetics.
1996;
143
(3):
1181-91
-
The C. elegans vulval induction gene lin-2 encodes a member of the MAGUK family of cell junction proteins.
Hoskins R,
Hajnal AF, Harp SA, Kim SK.
Development.
1996;
122
(1):
97-111
-
Sequential signalling during Caenorhabditis elegans vulval induction.
Simske JS,
Kim SK.
Nature.
1995;
375
(6527):
142-6
-
Tight junctions, membrane-associated guanylate kinases and cell signaling.
Kim SK,
Curr Opin Cell Biol.
1995;
7
(5):
641-9
-
A MAP kinase homolog, mpk-1, is involved in ras-mediated induction of vulval cell fates in Caenorhabditis elegans.
Lackner MR,
Kornfeld K, Miller LM, Horvitz HR, Kim SK.
Genes Dev.
1994;
8
(2):
160-73
-
Signal transduction and cell fate specification during Caenorhabditis elegans vulval development.
Eisenmann DM,
Kim SK.
Curr Opin Genet Dev.
1994;
4
(4):
508-16
-
lin-31, a Caenorhabditis elegans HNF-3/fork head transcription factor homolog, specifies three alternative cell fates in vulval development.
Miller LM,
Gallegos ME, Morisseau BA, Kim SK.
Genes Dev.
1993;
7
(6):
933-47
-
Prevention of programmed cell death in Caenorhabditis elegans by human bcl-2.
Vaux DL,
Weissman IL, Kim SK.
Science.
1992;
258
(5090):
1955-7
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