Interdisciplinary Program of Integrated OMICS for Biomedical Sciences

Research Output

2016

Integrated GlycoProteome Analyzer (I-GPA) for Automated Identification and Quantitation of Site-Specific N-Glycosylation

Park, G. W., Kim, J. Y., Hwang, H., Lee, J. Y., Ahn, Y. H., Lee, H. K., Ji, E. S., Kim, K. H., Jeong, H. K., Yun, K. N., Kim, Y. S., Ko, J. H., An, H. J., Kim, J. H., Paik, Y. K. & Yoo, J. S., 2016 Feb 17, In : Scientific reports. 6, 21175.

Research output: Contribution to journalArticle

40 Citations (Scopus)

Integrated Proteomic Pipeline Using Multiple Search Engines for a Proteogenomic Study with a Controlled Protein False Discovery Rate

Park, G. W., Hwang, H., Kim, K. H., Lee, J. Y., Lee, H. K., Park, J. Y., Ji, E. S., Park, S. K. R., Yates, J. R., Kwon, K. H., Park, Y. M., Lee, H. J., Paik, Y. K., Kim, J. Y. & Yoo, J. S., 2016 Nov 4, In : Journal of Proteome Research. 15, 11, p. 4082-4090 9 p.

Research output: Contribution to journalArticle

17 Citations (Scopus)

Interplay of genetic and epigenetic alterations in hepatocellular carcinoma

Lee, S. M., Kim-Ha, J., Choi, W. Y., Lee, J., Kim, D., Lee, J., Choi, E. & Kim, Y. J., 2016 Jul, In : Epigenomics. 8, 7, p. 993-1005 13 p.

Research output: Contribution to journalReview article

18 Citations (Scopus)

Keratins: Biomarkers and modulators of apoptotic and necrotic cell death in the liver

Ku, N. O., Strnad, P., Bantel, H. & Omary, M. B., 2016, In : Hepatology. 64, 3, p. 966-976 11 p.

Research output: Contribution to journalReview article

34 Citations (Scopus)

KY1022, a small molecule destabilizing Ras via targeting the Wnt/β-catenin pathway, inhibits development of metastatic colorectal cancer

Cho, Y. H., Cha, P. H., Kaduwal, S., Park, J. C., Lee, S. K., Yoon, J. S., Shin, W., Kim, H., Ro, E. J., Koo, K. H., Park, K. S., Han, G. & Choi, K. Y., 2016, In : Oncotarget. 7, 49, p. 81727-81740 14 p.

Research output: Contribution to journalArticle

20 Citations (Scopus)

Leucyl-tRNA Synthetase Activates Vps34 in Amino Acid-Sensing mTORC1 Signaling

Yoon, M. S., Son, K., Arauz, E., Han, J. M., Kim, S. & Chen, J., 2016 Aug 9, In : Cell Reports. 16, 6, p. 1510-1517 8 p.

Research output: Contribution to journalArticle

36 Citations (Scopus)

Measuring the health-related Sustainable Development Goals in 188 countries: a baseline analysis from the Global Burden of Disease Study 2015

Lim, S. S., Allen, K., Dandona, L., Forouzanfar, M. H., Fullman, N., Goldberg, E. M., Hay, S. I., Holmberg, M., Kutz, M. J., Larson, H. J., Lopez, A. D., McNellan, C. R., Mokdad, A. H., Mooney, M. D., Naghavi, M., Olsen, H. E., Pigott, D. M., Vos, T., Wang, H., Achoki, T. & 30 others, Afshin, A., Allen, C., Anderson, G. M., Barber, R., Bienhoff, K. A., Blore, J., Brauer, M., Carter, A., Casey, D., Charlson, F. J., Chen, A. Z., Coates, M. M., Coggeshall, M., Cohen, A. J., Deshpande, A., Erskine, H. E., Ferrari, A. J., Fitzmaurice, C., Foreman, K., Chang, H., Chang, J., Choi, J. J., Kim, C., Kim, D., Kim, S., Kim, Y. J., Park, E., Park, H., Shin, M. & Yoon, S., 2016, In : The Lancet. 388, 10053, p. 1813-1850 38 p.

Research output: Contribution to journalArticle

213 Citations (Scopus)

Measuring the health-related Sustainable Development Goals in 188 countries: a baseline analysis from the Global Burden of Disease Study 2015

Lim, S. S., Allen, K., Dandona, L., Forouzanfar, M. H., Fullman, N., Goldberg, E. M., Hay, S. I., Holmberg, M., Kutz, M. J., Larson, H. J., Lopez, A. D., McNellan, C. R., Mokdad, A. H., Mooney, M. D., Naghavi, M., Olsen, H. E., Pigott, D. M., Vos, T., Wang, H., Achoki, T. & 30 others, Afshin, A., Allen, C., Anderson, G. M., Barber, R., Bienhoff, K. A., Blore, J., Brauer, M., Carter, A., Casey, D., Charlson, F. J., Chen, A. Z., Coates, M. M., Coggeshall, M., Cohen, A. J., Deshpande, A., Erskine, H. E., Ferrari, A. J., Fitzmaurice, C., Foreman, K., Chang, H., Chang, J., Choi, J. J., Kim, C., Kim, D., Kim, S., Kim, Y. J., Park, E., Park, H., Shin, M. & Yoon, S., 2016 Oct 8, The Lancet. Lancet Publishing Group, p. 1813-1850 38 p. (The Lancet; vol. 388).

Research output: Chapter in Book/Report/Conference proceedingChapter

Mincle-mediated translational regulation is required for strong nitric oxide production and inflammation resolution

Lee, W. B., Kang, J. S., Choi, W. Y., Zhang, Q., Kim, C. H., Choi, U. Y., Kim-Ha, J. & Kim, Y. J., 2016 Apr 18, In : Nature communications. 7, 11322.

Research output: Contribution to journalArticle

28 Citations (Scopus)

NEDD8 ultimate buster-1 regulates the abundance of TRF1 at telomeres by promoting its proteasomal degradation

Jeong, Y. Y., Her, J. & Chung, I. K., 2016 Jun 1, In : FEBS Letters. p. 1776-1790 15 p.

Research output: Contribution to journalLetter

1 Citation (Scopus)

OASL1 deficiency promotes antiviral protection against genital herpes simplex virus type 2 infection by enhancing type i interferon production

Oh, J. E., Lee, M. S., Kim, Y. J. & Lee, H. K., 2016 Jan 11, In : Scientific reports. 6, 19089.

Research output: Contribution to journalArticle

14 Citations (Scopus)

O-GlcNAcylation of orphan nuclear receptor estrogen-related receptorγ promotes hepatic gluconeogenesis

Misra, J., Kim, D. K., Jung, Y. S., Kim, H. B., Kim, Y. H., Yoo, E. K., Kim, B. G., Kim, S., Lee, I. K., Harris, R. A., Kim, J. S., Lee, C. H., Cho, J. W. & Choi, H. S., 2016 Oct 1, In : Diabetes. 65, 10, p. 2835-2848 14 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

O-linked N-acetylglucosamine transferase promotes cervical cancer tumorigenesis through human papillomaviruses E6 and E7 oncogenes

Kim, M., Kim, Y. S., Kim, H., Kang, M. Y., Park, J., Lee, D. H., Roh, G. S., Kim, H. J., Kang, S. S., Cho, G. J., Park, J. K., Cho, J. W., Shin, J. K. & Choi, W. S., 2016, In : Oncotarget. 7, 28, p. 44596-44607 12 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Oncogenic mutation of AIMP2/p38 inhibits its tumor-suppressive interaction with Smurf2

Kim, D. G., Lee, J. Y., Lee, J. H., Cho, H. Y., Kang, B. S., Jang, S. Y., Kim, M. H., Guo, M., Han, J. M., Kim, S. J. & Kim, S., 2016 Jun 1, In : Cancer Research. 76, 11, p. 3422-3436 15 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Potential therapeutic application of small molecule with sulfonamide for chondrogenic differentiation and articular cartilage repair

Choi, E., Lee, J., Lee, S., Song, B. W., Seo, H. H., Cha, M. J., Lim, S., Lee, C., Song, S. W., Han, G. & Hwang, K. C., 2016, In : Bioorganic and Medicinal Chemistry Letters. 26, 20, p. 5098-5102 5 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Progress in the Chromosome-Centric Human Proteome Project as Highlighted in the Annual Special Issue IV

Paik, Y. K., Overall, C. M., Deutsch, E. W., Hancock, W. S. & Omenn, G. S., 2016 Nov 4, In : Journal of Proteome Research. 15, 11, p. 3945-3950 6 p.

Research output: Contribution to journalReview article

14 Citations (Scopus)

Quantitative Profiling Identifies Potential Regulatory Proteins Involved in Development from Dauer Stage to L4 Stage in Caenorhabditis elegans

Kim, S., Lee, H. J., Hahm, J. H., Jeong, S. K., Park, D. H., Hancock, W. S. & Paik, Y. K., 2016 Feb 5, In : Journal of Proteome Research. 15, 2, p. 531-539 9 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Small-molecule binding of the axin RGS domain promotes β-catenin and Ras degradation

Cha, P. H., Cho, Y. H., Lee, S. K., Lee, J., Jeong, W. J., Moon, B. S., Yun, J. H., Yang, J. S., Choi, S., Yoon, J., Kim, H. Y., Kim, M. Y., Kaduwal, S., Lee, W., Min, D. S., Kim, H., Han, G. & Choi, K. Y., 2016 Aug 1, In : Nature Chemical Biology. 12, 8, p. 593-600 8 p.

Research output: Contribution to journalArticle

27 Citations (Scopus)

Structural modifications at the 6-position of thieno[2,3- d ]pyrimidines and their effects on potency at FLT3 for treatment of acute myeloid leukemia

Kim, H., Lee, C., Yang, J. S., Choi, S., Park, C. H., Kang, J. S., Oh, S. J., Yun, J., Kim, M. H. & Han, G., 2016 Sep 14, In : European Journal of Medicinal Chemistry. 120, p. 74-85 12 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

Telomerase activates transcription of cyclin D1 gene through an interaction with NOL1

Hong, J., Lee, J. H. & Chung, I. K., 2016 Apr 1, In : Journal of cell science. 129, 8, p. 1566-1579 14 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

TRIM31 promotes Atg5/Atg7-independent autophagy in intestinal cells

Ra, E. A., Lee, T. A., Won Kim, S., Park, A., Choi, H. J., Jang, I., Kang, S., Hee Cheon, J., Cho, J. W., Eun Lee, J., Lee, S. & Park, B., 2016 May 24, In : Nature communications. 7, 11726.

Research output: Contribution to journalArticle

27 Citations (Scopus)
2015

2-(Trimethylammonium)ethyl (R)-3-methoxy-3-oxo-2-stearamidopropyl phosphate promotes megakaryocytic differentiation of myeloid leukaemia cells and primary human CD34+ haematopoietic stem cells

Limb, J. K., Song, D., Jeon, M., Han, S. Y., Han, G., Jhon, G. J., Bae, Y. S. & Kim, J., 2015 Apr 1, In : Journal of Tissue Engineering and Regenerative Medicine. 9, 4, p. 435-446 12 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Akt-mediated phosphorylation increases the binding affinity of hTERT for importin α to promote nuclear translocation

Jeong, S. A., Kim, K., Lee, J. H., Cha, J. S., Khadka, P., Cho, H. S. & Chung, I. K., 2015, In : Journal of cell science. 128, 12, p. 2287-2301 15 p.

Research output: Contribution to journalArticle

14 Citations (Scopus)

CCCTC-binding factor controls the homeostatic maintenance and migration of Langerhans cells

Kim, T. G., Kim, M., Lee, J. J., Kim, S. H., Je, J. H., Lee, Y., Song, M. J., Choi, Y., Chung, Y. W., Park, C. G., Cho, J. W., Lee, M. G., Lee, Y. S. & Kim, H. P., 2015 Sep 1, In : Journal of Allergy and Clinical Immunology. 136, 3, p. 713-724 12 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Chromosome-Based Proteomic Study for Identifying Novel Protein Variants from Human Hippocampal Tissue Using Customized neXtProt and GENCODE Databases

Hwang, H., Park, G. W., Kim, K. H., Lee, J. Y., Lee, H. K., Ji, E. S., Park, S. K. R., Xu, T., Yates, J. R., Kwon, K. H., Park, Y. M., Lee, H. J., Paik, Y. K., Kim, J. Y. & Yoo, J. S., 2015 Dec 4, In : Journal of Proteome Research. 14, 12, p. 5028-5037 10 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Combination of Multiple Spectral Libraries Improves the Current Search Methods Used to Identify Missing Proteins in the Chromosome-Centric Human Proteome Project

Cho, J. Y., Lee, H. J., Jeong, S. K., Kim, K. Y., Kwon, K. H., Yoo, J. S., Omenn, G. S., Baker, M. S., Hancock, W. S. & Paik, Y. K., 2015 Dec 4, In : Journal of Proteome Research. 14, 12, p. 4959-4966 8 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

Correction to "Akt-mediated phosphorylation increases the binding affinity of hTERT for importin α to promote nuclear translocation". [J. Cell Sci., 128, (2015), 2287-2301]

Jeong, S. A., Kim, K., Lee, J. H., Cha, J. S., Khadka, P., Cho, H. S. & Chung, I. K., 2015, In : Journal of cell science. 128, 15, p. 2951 1 p.

Research output: Contribution to journalComment/debate

6 Citations (Scopus)

Direct regulation of TLR5 expression by caveolin-1

Lim, J. S., Nguyen, K. C. T., Han, J. M., Jang, I. S., Fabian, C. & Cho, K. A., 2015 Nov 26, In : Molecules and cells. 38, 12, p. 1111-1117 7 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Discovery of orally available runt-related transcription factor 3 (RUNX3) modulators for anticancer chemotherapy by epigenetic activation and protein stabilization

Yang, J. S., Lee, C., Cho, M., Kim, H., Kim, J. H., Choi, S., Oh, S. J., Kang, J. S., Jeong, J. H., Kim, H. J. & Han, G., 2015 Apr 23, In : Journal of Medicinal Chemistry. 58, 8, p. 3512-3521 10 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Distinct Protein Expression Profiles of Solid-Pseudopapillary Neoplasms of the Pancreas

Park, M., Lim, J. S., Lee, H. J., Na, K., Lee, M. J., Kang, C. M., Paik, Y. K. & Kim, H., 2015 Aug 7, In : Journal of Proteome Research. 14, 8, p. 3007-3014 8 p.

Research output: Contribution to journalArticle

14 Citations (Scopus)

Euodia sutchuenensis Dode extract stimulates osteoblast differentiation via Wnt/β-catenin pathway activation

Hwang, J. H., Cha, P. H., Han, G., Bach, T. T. H., Min, D. S. I. & Choi, K. Y., 2015, In : Experimental & molecular medicine. 47, p. e152

Research output: Contribution to journalArticle

15 Citations (Scopus)

Flagellin-dependent TLR5/caveolin-1 as a promising immune activator in immunosenescence

Lim, J. S., Nguyen, K. C. T., Nguyen, C. T., Jang, I. S., Han, J. M., Fabian, C., Lee, S. E., Rhee, J. H. & Cho, K. A., 2015 Oct 1, In : Aging Cell. 14, 5, p. 907-915 9 p.

Research output: Contribution to journalArticle

13 Citations (Scopus)

Functional Roles of O-Glcnac in Cell Signaling

Park, S. & Cho, J. W., 2015 Jan 1, Glycoscience: Biology and Medicine. Springer Japan, p. 1213-1220 8 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

GenomewidePDB 2.0: A newly upgraded versatile proteogenomic database for the chromosome-centric human proteome project

Jeong, S. K., Hancock, W. S. & Paik, Y. K., 2015 Sep 4, In : Journal of Proteome Research. 14, 9, p. 3710-3719 10 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Identification of a thienopyrimidine derivatives target by a kinome and chemical biology approach

Lee, C., Yang, J. S. & Han, G., 2015 Sep 1, In : Archives of pharmacal research. 38, 9, p. 1575-1581 7 p., 634.

Research output: Contribution to journalArticle

1 Citation (Scopus)

In-depth N-glycome profiling of paired colorectal cancer and non-tumorigenic tissues reveals cancer-, stage- and EGFR-specific protein N-glycosylation

Sethi, M. K., Kim, H., Park, C. K., Baker, M. S., Paik, Y. K., Packer, N. H., Hancock, W. S., Fanayan, S. & Thaysen-Andersen, M., 2015 May 4, In : Glycobiology. 25, 10, p. 1064-1078 15 p.

Research output: Contribution to journalArticle

36 Citations (Scopus)

Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues

Yan, J. F., Kim, H., Jeong, S. K., Lee, H. J., Sethi, M. K., Lee, L. Y., Beavis, R. C., Im, H., Snyder, M. P., Hofree, M., Ideker, T., Wu, S. L., Paik, Y. K., Fanayan, S. & Hancock, W. S., 2015 Dec 4, In : Journal of Proteome Research. 14, 12, p. 4995-5006 12 p.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Inter-laboratory evaluation of instrument platforms and experimental workflows for quantitative accuracy and reproducibility assessment

Percy, A. J., Tamura-Wells, J., Albar, J. P., Aloria, K., Amirkhani, A., Araujo, G. D. T., Arizmendi, J. M., Blanco, F. J., Canals, F., Cho, J. Y., Colomé-Calls, N., Corrales, F. J., Domont, G., Espadas, G., Fernandez-Puente, P., Gil, C., Haynes, P. A., Hernáez, M. L., Kim, J. Y., Kopylov, A. & 16 others, Marcilla, M., McKay, M. J., Mirzaei, M., Molloy, M. P., Ohlund, L. B., Paik, Y. K., Paradela, A., Raftery, M., Sabidó, E., Sleno, L., Wilffert, D., Wolters, J. C., Yoo, J. S., Zgoda, V., Parker, C. E. & Borchers, C. H., 2015 Sep 1, In : EuPA Open Proteomics. 8, p. 6-15 10 p.

Research output: Contribution to journalArticle

25 Citations (Scopus)

Involvement of SRSF11 in cell cycle-specific recruitment of telomerase to telomeres at nuclear speckles

Lee, J. H., Jeong, S. A., Khadka, P., Hong, J. & Chung, I. K., 2015 Sep 30, In : Nucleic acids research. 43, 17, p. 8435-8451 17 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

M1 RNA is important for the in-cell solubility of its cognate C5 protein: Implications for RNA-mediated protein folding

Son, A., Choi, S. I., Han, G. & Seong, B. L., 2015 Jan 1, In : RNA Biology. 12, 11, p. 1198-1208 11 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Mitochondrial ATP synthase activity is impaired by suppressed O-GlcNAcylation in Alzheimer's disease

Cha, M. Y., Cho, H. J., Kim, C., Jung, Y. O., Kang, M. J., Murray, M. E., Hong, H. S., Choi, Y. J., Choi, H., Kim, D. K., Choi, H., Kim, J., Dickson, D. W., Song, H. K., Cho, J. W., Yi, E. C., Kim, J., Jin, S. M. & Mook-Jung, I., 2015, In : Human molecular genetics. 24, 22, p. 6492-6504 13 p.

Research output: Contribution to journalArticle

29 Citations (Scopus)

O-GlcNAc modification is essential for the regulation of autophagy in Drosophila melanogaster

Park, S., Lee, Y., Pak, J. W., Kim, H., Choi, H., Kim, J. W., Roth, J. & Cho, J. W., 2015 Aug 25, In : Cellular and Molecular Life Sciences. 72, 16, p. 3173-3183 11 p.

Research output: Contribution to journalArticle

20 Citations (Scopus)

O-GlcNAcylation of eIF2α regulates the phospho-eIF2α-mediated ER stress response

Jang, I., Kim, H. B., Seo, H., Kim, J. Y., Choi, H., Yoo, J. S., Kim, J. W. & Cho, J. W., 2015 Aug 1, In : Biochimica et Biophysica Acta - Molecular Cell Research. 1853, 8, p. 1860-1869 10 p.

Research output: Contribution to journalArticle

12 Citations (Scopus)

Oligoadenylate synthase-like (OASL) proteins: dual functions and associations with diseases

Choi, U. Y. U., Kang, J. S., Hwang, Y. S. A. & Kim, Y. J., 2015, In : Experimental & molecular medicine. 47, p. e144

Research output: Contribution to journalReview article

71 Citations (Scopus)
10 Citations (Scopus)

PIAS1-mediated sumoylation promotes STUbL-dependent proteasomal degradation of the human telomeric protein TRF2

Her, J., Jeong, Y. Y. & Chung, I. K., 2015 Oct 24, In : FEBS Letters. 589, 21, p. 3277-3286 10 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Polyubiquitin chain-dependent protein degradation in TRIM30 cytoplasmic bodies

Choi, U. Y. U., Choi, W. Y. O., Hur, J. Y. E. & Kim, Y. J., 2015, In : Experimental & molecular medicine. 47, p. e159

Research output: Contribution to journalArticle

3 Citations (Scopus)

Quantitative proteomic analysis of paired colorectal cancer and non-tumorigenic tissues reveals signature proteins and perturbed pathways involved in CRC progression and metastasis

Sethi, M. K., Thaysen-Andersen, M., Kim, H., Park, C. K., Baker, M. S., Packer, N. H., Paik, Y. K., Hancock, W. S. & Fanayan, S., 2015 Aug 3, In : Journal of Proteomics. 126, p. 54-67 14 p.

Research output: Contribution to journalArticle

19 Citations (Scopus)

Quest for missing proteins: Update 2015 on chromosome-centric human proteome project

Horvatovich, P., Lundberg, E. K., Chen, Y. J., Sung, T. Y., He, F., Nice, E. C., Goode, R. J., Yu, S., Ranganathan, S., Baker, M. S., Domont, G. B., Velasquez, E., Li, D., Liu, S., Wang, Q., He, Q. Y., Menon, R., Guan, Y., Corrales, F. J., Segura, V. & 34 others, Casal, J. I., Pascual-Montano, A., Albar, J. P., Fuentes, M., Gonzalez-Gonzalez, M., Diez, P., Ibarrola, N., Degano, R. M., Mohammed, Y., Borchers, C. H., Urbani, A., Soggiu, A., Yamamoto, T., Salekdeh, G. H., Archakov, A., Ponomarenko, E., Lisitsa, A., Lichti, C. F., Mostovenko, E., Kroes, R. A., Rezeli, M., Végvári, Á., Fehniger, T. E., Bischoff, R., Vizcaíno, J. A., Deutsch, E. W., Lane, L., Nilsson, C. L., Marko-Varga, G., Omenn, G. S., Jeong, S. K., Lim, J. S., Paik, Y. K. & Hancock, W. S., 2015 Sep 4, In : Journal of Proteome Research. 14, 9, p. 3415-3431 17 p.

Research output: Contribution to journalReview article

50 Citations (Scopus)

Recent advances in the chromosome-centric human proteome project: Missing proteins in the spot light

Paik, Y. K., Omenn, G. S., Overall, C. M., Deutsch, E. W. & Hancock, W. S., 2015 Sep 4, In : Journal of Proteome Research. 14, 9, p. 3409-3414 6 p.

Research output: Contribution to journalReview article

15 Citations (Scopus)