Interdisciplinary Program of Integrated OMICS for Biomedical Sciences

Research Output

2007

Pattern-recognition receptor signaling initiated from extracellular, membrane and cytoplastic space

Lee, M. S. & Kim, Y. J., 2007 Feb 1, In : Molecules and cells. 23, 1, p. 1-10 10 p.

Research output: Contribution to journalShort survey

71 Citations (Scopus)

Protein profiling of human plasma samples by two-dimensional electrophoresis

Cho, S. Y., Lee, E. Y., Kim, H. Y., Kang, M. J., Lee, H. J., Kim, H. & Paik, Y. K., 2007 Aug 31, Clinical Proteomics - Methods and Protocols. p. 57-75 19 p. (Methods in Molecular Biology; vol. 428).

Research output: Chapter in Book/Report/Conference proceedingChapter

16 Citations (Scopus)

Proteomic identification of macrophage migration-inhibitory factor upon exposure to TiO2 particles

Cha, M. H., Rhim, T. Y., Kim, K. H., Jang, A. S., Paik, Y. K. & Park, C. S., 2007 Jan, In : Molecular and Cellular Proteomics. 6, 1, p. 56-63 8 p.

Research output: Contribution to journalArticle

37 Citations (Scopus)

Signaling pathways downstream of pattern-recognition receptors and their cross talk

Lee, M. S. & Kim, Y. J., 2007, Annual Review of Biochemistry. p. 447-480 34 p. (Annual Review of Biochemistry; vol. 76).

Research output: Chapter in Book/Report/Conference proceedingChapter

517 Citations (Scopus)

Single-stranded DNA binding factor AtWHY1 modulates telomere length homeostasis in Arabidopsis

Yoo, H. H., Kwon, C., Lee, M. M. & Chung, I. K., 2007 Feb, In : Plant Journal. 49, 3, p. 442-451 10 p.

Research output: Contribution to journalArticle

52 Citations (Scopus)

Structure-activity relationship studies of a series of novel δ-lactam-based histone deacetylase inhibitors

Hwan, M. K., Ryu, D. K., Choi, Y., Bum, W. P., Lee, K., Sang, B. H., Lee, C. W., Kang, M. R., Jong, S. K., Boovanahalli, S. K., Park, S. K., Jung, W. H., Chun, T. G., Lee, H. Y., Nam, K. Y., Eun, H. C. & Han, G., 2007 May 31, In : Journal of Medicinal Chemistry. 50, 11, p. 2737-2741 5 p.

Research output: Contribution to journalArticle

29 Citations (Scopus)

Suppression of RICE TELOMERE BINDING PROTEIN1 results in severe and gradual developmental defects accompanied by genome instability in rice

Hong, J. P., Mi, Y. B., Koo, D. H., An, K., Bang, J. W., In, K. C., An, G. & Woo, T. K., 2007 Jun, In : Plant Cell. 19, 6, p. 1770-1781 12 p.

Research output: Contribution to journalArticle

41 Citations (Scopus)
2006

A critical role for the histidine residues in the catalytic function of acyl-CoA:cholesterol acyltransferase catalysis: Evidence for catalytic difference between ACAT1 and ACAT2

An, S., Cho, K. H., Lee, W. S., Lee, J. O., Paik, Y. K. & Jeong, T. S., 2006 May 15, In : FEBS Letters. 580, 11, p. 2741-2749 9 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

A disease- and phosphorylation-related nonmechanical function for keratin 8

Ku, N. O. & Omary, M. B., 2006 Jul 3, In : Journal of Cell Biology. 174, 1, p. 115-125 11 p.

Research output: Contribution to journalArticle

123 Citations (Scopus)

A facile synthesis of 2-acyl and 2-alkylaminobenzimidazoles for 5-lipoxygenase inhibitors

Lee, A. H., An, M. H., Choi, E. H., Choo, H. Y. P. & Han, G., 2006 Dec 31, In : Heterocycles. 70, p. 571-580 10 p.

Research output: Contribution to journalArticle

12 Citations (Scopus)

A functional annotation of subproteomes in human plasma

Ping, P., Vondriska, T. M., Creighton, C. J., Gandhi, T. K. B., Yang, Z., Menon, R., Kwon, M. S., Cho, S. Y., Drwal, G., Kellmann, M., Peri, S., Suresh, S., Gronborg, M., Molina, H., Chaerkady, R., Rekha, B., Shet, A. S., Gerszten, R. E., Wu, H., Raftery, M. & 8 others, Wasinger, V., Schulz-Knappe, P., Hanash, S. M., Paik, Y. K., Hancock, W. S., States, D. J., Omenn, G. S. & Pandey, A., 2006 Nov 2, Exploring the Human Plasma Proteome. Wiley - VCH Verlag GmbH & CO. KGaA, p. 329-351 23 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Alteration of the glutamate and GABA transporters in the hippocampus of the Niemann-Pick disease, type C mouse using proteomic analysis

Byun, K., Kim, J., Cho, S. Y., Hutchinson, B., Yang, S. R., Kang, K. S., Cho, M., Hwang, K., Michikawa, M., Jeon, Y. W., Paik, Y. K. & Lee, B., 2006 Feb, In : Proteomics. 6, 4, p. 1230-1236 7 p.

Research output: Contribution to journalArticle

23 Citations (Scopus)

Analysis of neuron-like differentiation of human bone marrow mesenchymal stem cells

Choi, C. B., Cho, Y. K., Bhanu Prakash, K. V., Jee, B. K., Han, C. W., Paik, Y. K., Kim, H. Y., Lee, K. H., Chung, N. & Rha, H. K., 2006 Nov 10, In : Biochemical and Biophysical Research Communications. 350, 1, p. 138-146 9 p.

Research output: Contribution to journalArticle

51 Citations (Scopus)

Antitumor activity of the novel human cytokine AIMP1 in an in vivo tumor model

Lee, Y. S., Han, J. M., Kang, T., Park, Y. I., Kim, H. M. & Kim, S., 2006 Apr 30, In : Molecules and cells. 21, 2, p. 213-217 5 p.

Research output: Contribution to journalArticle

25 Citations (Scopus)

Biomarker discovery from the plasma proteome using multidimensional fractionation proteomics

Lee, H. J., Lee, E. Y., Kwon, M. S. & Paik, Y. K., 2006 Feb, In : Current Opinion in Chemical Biology. 10, 1, p. 42-49 8 p.

Research output: Contribution to journalReview article

89 Citations (Scopus)

Bispecific and human disease-related anti-keratin rabbit monoclonal antibodies

Tao, G. Z., Nakamichi, I., Ku, N. O., Wang, J., Frolkis, M., Gong, X., Zhu, W., Pytela, R. & Omary, M. B., 2006 Feb 15, In : Experimental Cell Research. 312, 4, p. 411-422 12 p.

Research output: Contribution to journalArticle

15 Citations (Scopus)

C. elegans: An invaluable model organism for the proteomics studies of the cholesterol-mediated signaling pathway

Paik, Y. K., Jeong, S. K., Lee, E. Y., Jeong, P. Y. & Shim, Y. H., 2006, In : Expert Review of Proteomics. 3, 4, p. 439-453 15 p.

Research output: Contribution to journalReview article

10 Citations (Scopus)

Cell biology: Skin care by keratins

Omary, M. B. & Ku, N. O., 2006 May 18, In : Nature. 441, 7091, p. 296-297 2 p.

Research output: Contribution to journalShort survey

11 Citations (Scopus)

Complement C3a and C4a increased in plasma of patients with aspirin-induced asthma

Lee, S. H., Rhim, T. Y., Choi, Y. S., Min, J. W., Kim, S. H., Cho, S. Y., Paik, Y. K. & Park, C. S., 2006 Feb 15, In : American Journal of Respiratory and Critical Care Medicine. 173, 4, p. 370-378 9 p.

Research output: Contribution to journalArticle

37 Citations (Scopus)

Denaturing temperature selection may underestimate keratin mutation detection by DHPLC

Strnad, P., Lienau, T. C., Tao, G. Z., Ku, N. O., Magin, T. M. & Omary, M. B., 2006 May, In : Human mutation. 27, 5, p. 444-452 9 p.

Research output: Contribution to journalArticle

14 Citations (Scopus)

Differentially expressed proteins in gastrointestinal stromal tumors with KIT and PDGFRA mutations

Kang, H. J., Koh, K. H., Yang, E., You, K. T., Kim, H. J., Paik, Y. K. & Kim, H., 2006 Feb, In : Proteomics. 6, 4, p. 1151-1157 7 p.

Research output: Contribution to journalArticle

38 Citations (Scopus)

Disease biomarker discovery in Korea

Paik, Y. K., 2006 Feb, In : Proteomics. 6, 4, p. 1091-1093 3 p.

Research output: Contribution to journalEditorial

Efficient prefractionation of low-abundance proteins in human plasma and construction of a two-dimensional map

Cho, S. Y., Lee, E. Y., Lee, J. S., Kim, H. Y., Park, J. M., Kwon, M. S., Park, Y. K., Lee, H. J., Kang, M. J., Kim, J. Y., Yoo, J. S., Park, S. J., Cho, J. W., Kim, H. S. & Paik, Y. K., 2006 Nov 2, Exploring the Human Plasma Proteome. Wiley - VCH Verlag GmbH & CO. KGaA, p. 201-219 19 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Gelastatins and their hydroxamates as dual functional inhibitors for TNF-α converting enzyme and matrix metalloproteinases: Synthesis, biological evaluation, and mechanism studies

Park, S. K., Han, S. B., Lee, K., Lee, H. J., Kho, Y. H., Chun, H., Choi, Y., Yang, J. Y., Yoon, Y. D., Lee, C. W., Kim, H. M., Choi, H. M., Tae, H. S., Lee, H. Y., Nam, K. Y. & Han, G., 2006 Mar 10, In : Biochemical and Biophysical Research Communications. 341, 2, p. 627-634 8 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Guidelines for the next 10 years of proteomics

Wilkins, M. R., Appel, R. D., Van Eyk, J. E., Chung, M. C. M., Görg, A., Hecker, M., Huber, L. A., Langen, H., Link, A. J., Paik, Y. K., Patterson, S. D., Pennington, S. R., Rabilloud, T., Simpson, R. J., Weiss, W. & Dunn, M. J., 2006 Jan, In : Proteomics. 6, 1, p. 4-8 5 p.

Research output: Contribution to journalReview article

262 Citations (Scopus)

'Heads and tails' of intermediate filament phosphorylation: multiple sites and functional insights

Omary, M. B., Ku, N. O., Tao, G. Z., Toivola, D. M. & Liao, J., 2006 Jul, In : Trends in Biochemical Sciences. 31, 7, p. 383-394 12 p.

Research output: Contribution to journalReview article

210 Citations (Scopus)

Heat shock protein 60 modified with O-linked N-acetylglucosamine is involved in pancreatic β-cell death under hyperglycemic conditions

Kim, H. S., Kim, E. M., Lee, J., Yang, W. H., Park, T. Y., Kim, Y. M. & Cho, J. W., 2006 Apr 17, In : FEBS Letters. 580, 9, p. 2311-2316 6 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

Hierarchical network between the components of the multi-tRNA synthetase complex: Implications for complex formation

Jung, M. H., Min, J. L., Sang, G. P., Sun, H. L., Razin, E., Choi, E. C. & Kim, S., 2006 Dec 15, In : Journal of Biological Chemistry. 281, 50, p. 38663-38667 5 p.

Research output: Contribution to journalArticle

46 Citations (Scopus)

Human plasma proteome analysis by reversed sequence database search and molecular weight correlation based on a bacterial proteome analysis

Park, G. W., Kwon, K. H., Kim, J. Y., Lee, J. H., Yun, S. H., Kim, S. I., Park, Y. M., Cho, S. Y., Paik, Y. K. & Yoo, J. S., 2006 Feb, In : Proteomics. 6, 4, p. 1121-1132 12 p.

Research output: Contribution to journalArticle

23 Citations (Scopus)

Intracellular uptake of thymidine and antiherpetic drugs for thymidine kinase-deficient mutants of herpes simplex virus type 1

Bae, P. K., Kim, J. H., Kim, H. S., Chung, I. K., Paik, S. G. & Lee, C. K., 2006 Jul, In : Antiviral Research. 70, 3, p. 93-104 12 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

Loss of transgelin in repeated bouts of ulcerative colitis-induced colon carcinogenesis

Yeo, M., Kim, D. K., Park, H. J., Oh, T. Y., Kim, J. H., Cho, S. W., Paik, Y. K. & Nahm, K. B., 2006 Feb, In : Proteomics. 6, 4, p. 1158-1165 8 p.

Research output: Contribution to journalArticle

33 Citations (Scopus)

Modification of p53 with O-linked N-acetylglucosamine regulates p53 activity and stability

Yang, W. H., Kim, J. E., Nam, H. W., Ju, J. W., Kim, H. S., Kim, Y. S. & Cho, J. W., 2006 Oct, In : Nature Cell Biology. 8, 10, p. 1074-1083 10 p.

Research output: Contribution to journalArticle

281 Citations (Scopus)

Overview of the HUPO Plasma Proteome Project: Results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database

Omenn, G. S., States, D. J., Adamski, M., Blackwell, T. W., Menon, R., Hermjakob, H., Apweiler, R., Haab, B. B., Simpson, R. J., Eddes, J. S., Kapp, E. A., Moritz, R. L., Chan, D. W., Rai, A. J., Admon, A., Aebersold, R., Eng, J., Hancock, W. S., Hefta, S. A., Meyer, H. & 20 others, Paik, Y. K., Yoo, J. S., Ping, P., Pounds, J., Adkins, J., Qian, X., Wang, R., Wasinger, V., Wu, C. Y., Zhao, X., Zeng, R., Archakov, A., Tsugita, A., Beer, I., Pandey, A., Pisano, M., Andrews, P., Tammen, H., Speicher, D. W. & Hanash, S. M., 2006 Nov 2, Exploring the Human Plasma Proteome. Wiley - VCH Verlag GmbH & CO. KGaA, p. 1-35 35 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

Proteomic analysis of mammalian basic proteins by liquid-based two-dimensional column chromatography

Shin, Y. K., Lee, H. J., Lee, J. S. & Paik, Y. K., 2006 Feb, In : Proteomics. 6, 4, p. 1143-1150 8 p.

Research output: Contribution to journalArticle

37 Citations (Scopus)

Solid phase combinatorial synthesis of benzothiazoles and evaluation of topoisomerase II inhibitory activity

Choi, S. J., Park, H. J., Lee, S. K., Kim, S. W., Han, G. & Choo, H. Y. P., 2006 Feb 15, In : Bioorganic and Medicinal Chemistry. 14, 4, p. 1229-1235 7 p.

Research output: Contribution to journalArticle

87 Citations (Scopus)
22 Citations (Scopus)

Synthesis, enzymatic inhibition, and cancer cell growth inhibition of novel δ-lactam-based histone deacetylase (HDAC) inhibitors

Kim, H. M., Lee, K., Park, B. W., Ryu, D. K., Kim, K., Lee, C. W., Park, S. K., Han, J. W., Lee, H. Y., Lee, H. Y. & Han, G., 2006 Aug 1, In : Bioorganic and Medicinal Chemistry Letters. 16, 15, p. 4068-4070 3 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

The HUPO Plasma Proteome Project: A report from the Munich congress

Omenn, G. S., Paik, Y. K. & Speicher, D., 2006 Jan, In : Proteomics. 6, 1, p. 9-11 3 p.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Two-dimensional electrophoretic profiling of atopic dermatitis in primary cultured keratinocytes from patients

Park, Y. D., Jang, H. S., Kim, S. Y., Ko, S. K., Lyou, Y. J., Lee, D. Y., Paik, Y. K. & Yang, J. M., 2006 Feb, In : Proteomics. 6, 4, p. 1362-1370 9 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)
2005

Activation of c-Jun N-terminal kinase is required for neurite outgrowth of dopaminergic neuronal cells

Eom, D. S., Choi, W. S., Ji, S., Cho, J. W. & Oh, Y. J., 2005 May 31, In : NeuroReport. 16, 8, p. 823-828 6 p.

Research output: Contribution to journalArticle

22 Citations (Scopus)

A facile synthesis of 2-aminothiazolo[5,4-b]pyridines and2-aminobanzoxazoles via cyclization of thioureas

Yoon, J. H., Song, H., Kim, S. W., Han, G. & Choo, H. Y. P., 2005 Nov 1, In : Heterocycles. 65, 11, p. 2729-2740 12 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

A functional annotation of subproteomes in human plasma

Ping, P., Vondriska, T. M., Creighton, C. J., Gandhi, T. K. B., Yang, Z., Menon, R., Kwon, M. S., Cho, S. Y., Drwal, G., Kellmann, M., Peri, S., Suresh, S., Gronborg, M., Molina, H., Chaerkady, R., Rekha, B., Shet, A. S., Gerszten, R. E., Wu, H., Raftery, M. & 8 others, Wasinger, V., Schulz-Knappe, P., Hanash, S. M., Paik, Y. K., Hancock, W. S., States, D. J., Omenn, G. S. & Pandey, A., 2005 Aug, In : Proteomics. 5, 13, p. 3506-3519 14 p.

Research output: Contribution to journalArticle

68 Citations (Scopus)

Age-dependent changes of gene expression in the Drosophila head

Kim, S. N., Rhee, J. H., Song, Y. H., Park, D. Y., Hwang, M., Lee, S. L., Kim, J. E., Gim, B. S., Yoon, J. H., Kim, Y. J. & Kim-Ha, J., 2005 Jul, In : Neurobiology of Aging. 26, 7, p. 1083-1091 9 p.

Research output: Contribution to journalArticle

44 Citations (Scopus)

Alterations of protein expression in macrophages in response to Candida albicans infection

Shin, Y. K., Kim, K. Y. & Paik, Y. K., 2005, In : Molecules and cells. 20, 2, p. 271-279 9 p.

Research output: Contribution to journalArticle

14 Citations (Scopus)

Blocking tumor cell migration and invasion with biphenyl isoxazole derivative KRIBB3, a synthetic molecule that inhibits Hsp27 phosphorylation

Shin, K. D., Lee, M. Y., Shin, D. S., Lee, S., Son, K. H., Koh, S., Paik, Y. K., Kwon, B. M. & Han, D. C., 2005 Dec 16, In : Journal of Biological Chemistry. 280, 50, p. 41439-41448 10 p.

Research output: Contribution to journalArticle

154 Citations (Scopus)

Chemical structure and biological activity of the Caenorhabditis elegans dauer-inducing pheromone

Jeong, P. Y., Jung, M., Yim, Y. H., Kim, H., Park, M., Hong, E., Lee, W., Kim, Y. H., Kim, K. & Paik, Y. K., 2005 Feb 3, In : Nature. 433, 7025, p. 541-545 5 p.

Research output: Contribution to journalArticle

234 Citations (Scopus)

Cholesterol-producing transgenic Caenorhabditis elegans lives longer due to newly acquired enhanced stress resistance

Lee, E. Y., Shim, Y. H., Chitwood, D. J., Hwang, S. B., Lee, J. & Paik, Y. K., 2005 Mar 25, In : Biochemical and Biophysical Research Communications. 328, 4, p. 929-936 8 p.

Research output: Contribution to journalArticle

42 Citations (Scopus)

De novo formation of basal bodies in Naegleria gruberi: Regulation by phosphorylation

Kim, H. K., Kang, J. G., Yumura, S., Walsh, C. J., Jin, W. C. & Lee, J., 2005 Jun, In : Journal of Cell Biology. 169, 5, p. 719-724 6 p.

Research output: Contribution to journalArticle

18 Citations (Scopus)

Downregulation of lipopolysaccharide response in drosophila by negative crosstalk between the AP1 and NF-κB signaling modules

Kim, T., Yoon, J., Cho, H., Lee, W. B., Kim, J., Song, Y. H., Kim, S. N., Yoon, J. H., Kim-Ha, J. & Kim, Y. J., 2005 Feb, In : Nature Immunology. 6, 2, p. 211-218 8 p.

Research output: Contribution to journalArticle

98 Citations (Scopus)

Efficient prefractionation of low-abundance proteins in human plasma and construction of a two-dimensional map

Cho, S. Y., Lee, E. Y., Lee, J. S., Kim, H. Y., Park, J. M., Kwon, M. S., Park, Y. K., Lee, H. J., Kang, M. J., Kim, J. Y., Yoo, J. S., Park, S. J., Cho, J. W., Kim, H. S. & Paik, Y. K., 2005 Aug, In : Proteomics. 5, 13, p. 3386-3396 11 p.

Research output: Contribution to journalArticle

113 Citations (Scopus)