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Center Publications

  1. Kim CY, Na K, Park S, Jeong SK, Cho JY, Shin H, Lee MJ, Han G, Paik YK. (2019) FusionPro, a Versatile Proteogenomic Tool for Identification of Novel Fusion Transcripts and Their Potential Translation Products in Cancer Cells. Mol. Cell Proteomics 2019, Aug;18:1651-1668
    PMID: 31208993
  2. Jang KH, Yoon HN, Lee J, Yi H, Park SY, Lee SY, Lim Y, Lee HJ, Cho JW, Paik YK, Hancock WS, Ku NO. (2019) Liver disease-associated keratin 8 and 18 mutations modulate keratin acetylation and methylation. FASEB J. 2019, Jun;:fj201800263RR
    PMID: 31199680
  3. Kim SH, Lee MJ, Hwang HK, Lee SH, Kim H, Paik YK, Kang CM. (2019) Prognostic potential of the preoperative plasma complement factor B in resected pancreatic cancer: A pilot study. Cancer Biomark 2019, ;24:335-342
    PMID: 30829612
  4. Paik YK, Overall CM, Corrales F, Deutsch EW, Lane L, Omenn GS. (2018) Toward Completion of the Human Proteome Parts List: Progress Uncovering Proteins That Are Missing or Have Unknown Function and Developing Analytical Methods. J. Proteome Res. 2018, 12;17:4023-4030
    PMID: 30985145
  5. Kopylov AT, Ponomarenko EA, Ilgisonis EV, Pyatnitskiy MA, Lisitsa AV, Poverennaya EV, Kiseleva OI, Farafonova TE, Tikhonova OV, Zavialova MG, Novikova S, Moshkovskii SA, Radko SP, Morukov BV, Grigoriev AI, Paik YK, Salekdeh GH, Urbani A, Zgoda VG, Archakov AI. (2018) 200+ Protein Concentrations in Healthy Human Blood Plasma: Targeted Quantitative SRM SIS Screening of Chromosomes 18, 13, Y and the Mitochondrial Chromosome Encoded Proteome. J. Proteome Res. 2018, Nov;:
    PMID: 30480452
  6. Jeong SK, Kim CY, Paik YK. (2018) ASV-ID, a Proteogenomic Workflow to Predict Candidate Protein Isoforms based on Transcript Evidence. J. Proteome Res. 2018, Oct;:
    PMID: 30289715
  7. Paik YK, Lane L, Kawamura T, Chen YJ, Cho JY, LaBaer J, Yoo JS, Domont G, Corrales F, Omenn GS, Archakov A, Encarnación-Guevara S, Lui S, Salekdeh GH, Cho JY, Kim CY, Overall CM. (2018) Launching the C-HPP neXt-CP50 Pilot Project for Functional Characterization of Identified Proteins with No Known Function. J. Proteome Res. 2018, Nov;:
    PMID: 30269496
  8. Hwang H, Jeong JE, Lee HK, Yun KN, An HJ, Lee B, Paik YK, Jeong TS, Yee GT, Kim JY, Yoo JS. (2018) Identification of Missing Proteins in Human Olfactory Epithelial Tissue by Liquid Chromatography-Tandem Mass Spectrometry. J. Proteome Res. 2018, Aug;:
    PMID: 30113170
  9. Omenn GS, Lane L, Overall CM, Corrales FJ, Schwenk JM, Paik YK, Van Eyk JE, Liu S, Snyder M, Baker MS, Deutsch EW. (2018) Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project. J. Proteome Res. 2018, Aug;:
    PMID: 30099871
  10. Shin H, Cha HJ, Na K, Lee MJ, Cho JY, Kim CY, Kim EK, Kang CM, Kim H, Paik YK. (2018) O-GlcNAcylation of the Tumor Suppressor FOXO3 Triggers Aberrant Cancer Cell Growth. Cancer Res. 2018, 03;78:1214-1224
    PMID: 29301793
  11. Park D, Hahm JH, Park S, Ha G, Chang GE, Jeong H, Kim H, Kim S, Cheong E, Paik YK. (2017) A conserved neuronal DAF-16/FoxO plays an important role in conveying pheromone signals to elicit repulsion behavior in Caenorhabditis elegans. Sci Rep 2017, Aug;7:7260
    PMID: 28775361
  12. Lee D, Yang H, Kim J, Brady S, Zdraljevic S, Zamanian M, Kim H, Paik YK, Kruglyak L, Andersen EC, Lee J. (2017) The genetic basis of natural variation in a phoretic behavior. Nat Commun 2017, 08;8:273
    PMID: 28819099
  13. Park S, Paik YK. (2017) Genetic deficiency in neuronal peroxisomal fatty acid β-oxidation causes the interruption of dauer development in Caenorhabditis elegans. Sci Rep 2017, Aug;7:9358
    PMID: 28839231
  14. Jeong H, Paik YK. (2017) MGL-1 on AIY neurons translates starvation to reproductive plasticity via neuropeptide signaling in Caenorhabditis elegans. Dev. Biol. 2017, 10;430:80-89
    PMID: 28807780
  15. Hwang H, Park GW, Park JY, Lee HK, Lee JY, Jeong JE, Park SR, Yates JR, Kwon KH, Park YM, Lee HJ, Paik YK, Kim JY, Yoo JS. (2017) Next Generation Proteomic Pipeline for Chromosome-Based Proteomic Research Using NeXtProt and GENCODE Databases. J. Proteome Res. 2017, Dec;16:4425-4434
    PMID: 28965411
  16. Na K, Shin H, Cho JY, Jung SH, Lim J, Lim JS, Kim EA, Kim HS, Kang AR, Kim JH, Shin JM, Jeong SK, Kim CY, Park JY, Chung HM, Omenn GS, Hancock WS, Paik YK. (2017) Systematic Proteogenomic Approach To Exploring a Novel Function for NHERF1 in Human Reproductive Disorder: Lessons for Exploring Missing Proteins. J. Proteome Res. 2017, Dec;16:4455-4467
    PMID: 28960081
  17. Paik YK, Overall CM, Deutsch EW, Van Eyk JE, Omenn GS. (2017) Progress and Future Direction of Chromosome-Centric Human Proteome Project. J. Proteome Res. 2017, Dec;16:4253-4258
    PMID: 29191025
  18. Paik YK, Omenn GS, Hancock WS, Lane L, Overall CM. (2017) Advances in the Chromosome-Centric Human Proteome Project: looking to the future. Expert Rev Proteomics 2017, Dec;14:1059-1071
    PMID: 29039980
  19. Cho JY, Lee HJ, Jeong SK, Paik YK. (2017) Epsilon-Q: An Automated Analyzer Interface for Mass Spectral Library Search and Label-Free Protein Quantification. J. Proteome Res. 2017, Dec;16:4435-4445
    PMID: 28299940
  20. Lee JY, Lee HK, Park GW, Hwang H, Jeong HK, Yun KN, Ji ES, Kim KH, Kim JS, Kim JW, Yun SH, Choi CW, Kim SI, Lim JS, Jeong SK, Paik YK, Lee SY, Park J, Kim SY, Choi YJ, Kim YI, Seo J, Cho JY, Oh MJ, Seo N, An HJ, Kim JY, Yoo JS. (2016) Characterization of Site-Specific N-Glycopeptide Isoforms of α-1-Acid Glycoprotein from an Interlaboratory Study Using LC-MS/MS. J. Proteome Res. 2016, Dec;15:4146-4164
    PMID: 27760464
  21. Paik YK, Overall CM, Deutsch EW, Hancock WS, Omenn GS. (2016) Progress in the Chromosome-Centric Human Proteome Project as Highlighted in the Annual Special Issue IV. J. Proteome Res. 2016, Nov;15:3945-3950
    PMID: 27809547
  22. Kim JW, Hwang H, Lim JS, Lee HJ, Jeong SK, Yoo JS, Paik YK. (2016) gFinder: A Web-Based Bioinformatics Tool for the Analysis of N-Glycopeptides. J. Proteome Res. 2016, Nov;15:4116-4125
    PMID: 27573070
  23. Deutsch EW, Overall CM, Van Eyk JE, Baker MS, Paik YK, Weintraub ST, Lane L, Martens L, Vandenbrouck Y, Kusebauch U, Hancock WS, Hermjakob H, Aebersold R, Moritz RL, Omenn GS. (2016) Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1. J. Proteome Res. 2016, Nov;15:3961-3970
    PMID: 27490519
  24. Park GW, Hwang H, Kim KH, Lee JY, Lee HK, Park JY, Ji ES, Park SR, Yates JR, Kwon KH, Park YM, Lee HJ, Paik YK, Kim JY, Yoo JS. (2016) Integrated Proteomic Pipeline Using Multiple Search Engines for a Proteogenomic Study with a Controlled Protein False Discovery Rate. J. Proteome Res. 2016, Nov;15:4082-4090
    PMID: 27537616
  25. Joo HJ, Park S, Kim KY, Kim MY, Kim H, Park D, Paik YK. (2016) HSF-1 is involved in regulation of ascaroside pheromone biosynthesis by heat stress in Caenorhabditis elegans. Biochem. J. 2016, Mar;473:789-96
    PMID: 26759377
  26. Kim S, Lee HJ, Hahm JH, Jeong SK, Park DH, Hancock WS, Paik YK. (2016) Quantitative Profiling Identifies Potential Regulatory Proteins Involved in Development from Dauer Stage to L4 Stage in Caenorhabditis elegans. J. Proteome Res. 2016, Feb;15:531-9
    PMID: 26751275
  27. Park GW, Kim JY, Hwang H, Lee JY, Ahn YH, Lee HK, Ji ES, Kim KH, Jeong HK, Yun KN, Kim YS, Ko JH, An HJ, Kim JH, Paik YK, Yoo JS. (2016) Integrated GlycoProteome Analyzer (I-GPA) for Automated Identification and Quantitation of Site-Specific N-Glycosylation. Sci Rep 2016, Feb;6:21175
    PMID: 26883985
  28. Hwang H, Park GW, Kim KH, Lee JY, Lee HK, Ji ES, Park SK, Xu T, Yates JR, Kwon KH, Park YM, Lee HJ, Paik YK, Kim JY, Yoo JS. (2015) Chromosome-Based Proteomic Study for Identifying Novel Protein Variants from Human Hippocampal Tissue Using Customized neXtProt and GENCODE Databases. J. Proteome Res. 2015, Dec;14:5028-37
    PMID: 26549206
  29. Yan JF, Kim H, Jeong SK, Lee HJ, Sethi MK, Lee LY, Beavis RC, Im H, Snyder MP, Hofree M, Ideker T, Wu SL, Paik YK, Fanayan S, Hancock WS. (2015) Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues. J. Proteome Res. 2015, Dec;14:4995-5006
    PMID: 26435392
  30. Sethi MK, Kim H, Park CK, Baker MS, Paik YK, Packer NH, Hancock WS, Fanayan S, Thaysen-Andersen M. (2015) In-depth N-glycome profiling of paired colorectal cancer and non-tumorigenic tissues reveals cancer-, stage- and EGFR-specific protein N-glycosylation. Glycobiology 2015, Oct;25:1064-78
    PMID: 26085185
  31. Hwang H, Park GW, Kim KH, Lee JY, Lee HK, Ji ES, Park SK, Xu T, Yates JR, Kwon KH, Park YM, Lee HJ, Paik YK, Kim JY, Yoo JS. (2015) Chromosome-Based Proteomic Study for Identifying Novel Protein Variants from Human Hippocampal Tissue Using Customized neXtProt and GENCODE Databases. J. Proteome Res. 2015, Dec;14:5028-37
    PMID: 26549206
  32. Yan JF, Kim H, Jeong SK, Lee HJ, Sethi MK, Lee LY, Beavis RC, Im H, Snyder MP, Hofree M, Ideker T, Wu SL, Paik YK, Fanayan S, Hancock WS. (2015) Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues. J. Proteome Res. 2015, Dec;14:4995-5006
    PMID: 26435392
  33. Sethi MK, Kim H, Park CK, Baker MS, Paik YK, Packer NH, Hancock WS, Fanayan S, Thaysen-Andersen M. (2015) In-depth N-glycome profiling of paired colorectal cancer and non-tumorigenic tissues reveals cancer-, stage- and EGFR-specific protein N-glycosylation. Glycobiology 2015, Oct;25:1064-78
    PMID: 26085185
  34. Cho JY, Lee HJ, Jeong SK, Kim KY, Kwon KH, Yoo JS, Omenn GS, Baker MS, Hancock WS, Paik YK. (2015) Combination of Multiple Spectral Libraries Improves the Current Search Methods Used to Identify Missing Proteins in the Chromosome-Centric Human Proteome Project. J. Proteome Res. 2015, Dec;14:4959-66
    PMID: 26330117
  35. Paik YK, Omenn GS, Overall CM, Deutsch EW, Hancock WS. (2015) Recent Advances in the Chromosome-Centric Human Proteome Project: Missing Proteins in the Spot Light. J. Proteome Res. 2015, Sep;14:3409-14
    PMID: 26337862
  36. Jeong SK, Hancock WS, Paik YK. (2015) GenomewidePDB 2.0: A Newly Upgraded Versatile Proteogenomic Database for the Chromosome-Centric Human Proteome Project. J. Proteome Res. 2015, Sep;14:3710-9
    PMID: 26272709
  37. Sethi MK, Thaysen-Andersen M, Kim H, Park CK, Baker MS, Packer NH, Paik YK, Hancock WS, Fanayan S. (2015) Quantitative proteomic analysis of paired colorectal cancer and non-tumorigenic tissues reveals signature proteins and perturbed pathways involved in CRC progression and metastasis. J Proteomics 2015, Aug;126:54-67
    PMID: 26054784
  38. Horvatovich P, Lundberg EK, Chen YJ, Sung TY, He F, Nice EC, Goode RJ, Yu S, Ranganathan S, Baker MS, Domont GB, Velasquez E, Li D, Liu S, Wang Q, He QY, Menon R, Guan Y, Corrales FJ, Segura V, Casal JI, Pascual-Montano A, Albar JP, Fuentes M, Gonzalez-Gonzalez M, Diez P, Ibarrola N, Degano RM, Mohammed Y, Borchers CH, Urbani A, Soggiu A, Yamamoto T, Salekdeh GH, Archakov A, Ponomarenko E, Lisitsa A, Lichti CF, Mostovenko E, Kroes RA, Rezeli M, Végvári Á, Fehniger TE, Bischoff R, Vizcaíno JA, Deutsch EW, Lane L, Nilsson CL, Marko-Varga G, Omenn GS, Jeong SK, Lim JS, Paik YK, Hancock WS. (2015) Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project. J. Proteome Res. 2015, Sep;14:3415-31
    PMID: 26076068
  39. Park M, Lim JS, Lee HJ, Na K, Lee MJ, Kang CM, Paik YK, Kim H. (2015) Distinct Protein Expression Profiles of Solid-Pseudopapillary Neoplasms of the Pancreas. J. Proteome Res. 2015, Aug;14:3007-14
    PMID: 26148796
  40. Nilsson CL, Mostovenko E, Lichti CF, Ruggles K, Fenyo D, Rosenbloom KR, Hancock WS, Paik YK, Omenn GS, LaBaer J, Kroes RA, Uhlen M, Hober S, Vegvari A, Andren PE, Sulman EP, Lang FF, Fuentes M, Carlsohn E, Emmett MR, Moskal JR, Berven FS, Fehniger TE, Marko-Varga G. (2015) Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome. J Proteome Res. 2015 Feb 6;14(2):603-8. doi: 10.1021/pr500564q. Epub 2014 Nov 26.
    PMID: 25369122
  41. Lee MJ, Na K, Jeong SK, Lim JS, Kim SA, Lee MJ, Song SY, Kim H, Hancock WS, Paik YK. (2014) Identification of human complement factor B as a novel biomarker candidate for pancreatic ductal adenocarcinoma. J Proteome Res. 2014 Nov 7;13(11):4878-88. doi: 10.1021/pr5002719. Epub 2014 Aug 8.
    PMID: 25057901
  42. Lee HJ, Cha HJ, Lim JS, Lee SH, Song SY, Kim H, Hancock WS, Yoo JS, Paik YK. (2014) Abundance-Ratio-Based Semiquantitative Analysis of Site-Specific N-Linked Glycopeptides Present in the Plasma of Hepatocellular Carcinoma Patients. J Proteome Res. 2014 May 2;13(5):2328-38. doi: 10.1021/pr4011519. Epub 2014 Apr 4.
    PMID: 24628331
  43. Park M, Kim M, Hwang D, Park M, Kim WK, Kim SK, Shin J, Park ES, Kang CM, Paik YK, Kim H. (2014) Characterization of gene expression and activated signaling pathways in solid-pseudopapillary neoplasm of pancreas. Mod Pathol. 2014 Apr;27(4):580-93. doi: 10.1038/modpathol.2013.154. Epub 2013 Sep 27.
    PMID: 24072181
  44. Lee J, Kim KY, Paik YK. (2014) Alteration in cellular acetylcholine influences dauer formation in Caenorhabditis elegans. BMB Rep. 2014 Feb;47(2):80-5.
    PMID: 24219868
  45. Ahn JM, Kim MS, Kim YI, Jeong SK, Lee HJ, Lee SH, Paik YK, Pandey A, Cho JY. (2014) Proteogenomic analysis of human chromosome 9-encoded genes from human samples and lung cancer tissues. J Proteome Res. 2014 Jan 3;13(1):137-46. doi: 10.1021/pr400792p. Epub 2013 Dec 6.
    PMID: 24274035
  46. Paik YK, Omenn GS, Thongboonkerd V, Marko-Varga G, Hancock WS. (2014) Genome-wide Proteomics, Chromosome-centric Human Proteome Project (C-HPP), Part II. J Proteome Res. 2014 Jan 3;13(1):1-4. doi: 10.1021/pr4011958. Epub 2013 Dec 16.
    PMID: 24328071
  47. Xu M, Choi EY, Paik YK. (2014) , Mutation of the lbp-5 Gene Alters Metabolic Output in Caenorhabditis elegans. BMB Rep. 2014 Jan;47(1):15-20.
    PMID: 24195791
  48. Na K, Jeong SK, Lee MJ, Cho SY, Kim SA, Lee MJ, Song SY, Kim H, Kim KS, Lee HW, Paik YK. (2013) Human liver carboxylesterase 1 outperforms alpha-fetoprotein as biomarker to discriminate hepatocellular carcinoma from other liver diseases in Korean patients. Int J Cancer. 2013 Jul 15;133(2):408-15. doi: 10.1002/ijc.28020. Epub 2013 Feb 13.
    PMID: 23319432
  49. Lee HJ, Jeong SK, Na K, Lee MJ, Lee SH, Lim JS, Cha HJ, Cho JY, Kwon JY, Kim H, Song SY, Yoo JS, Park YM, Kim H, Hancock WS, Paik YK. (2013) Comprehensive Genome-Wide Proteomic Analysis of Human Placental Tissue for the Chromosome-Centric Human Proteome Project. J Proteome Res. 2013 Jun 7;12(6):2458-66. doi: 10.1021/pr301040g. Epub 2013 Feb 14.
    PMID: 23362793
  50. Zhang EY, Cristofanilli M, Robertson F, Reuben JM, Mu Z, Beavis RC, Im H, Snyder M, Hofree M, Ideker T, Omenn GS, Fanayan S, Jeong SK, Paik YK, Zhang AF, Wu SL, Hancock WS. (2013) Genome wide proteomics of ERBB2 and EGFR and other oncogenic pathways in inflammatory breast cancer. J Proteome Res. 2013 Jun 7;12(6):2805-17. doi: 10.1021/pr4001527. Epub 2013 May 22.
    PMID: 23647160
  51. Cheong MC, Lee HJ, Na K, Joo HJ, Avery L, You YJ, Paik YK. (2013) NSBP-1 mediates the effects of cholesterol on insulin/IGF-1 signaling in Caenorhabditis elegans. Cell Mol Life Sci. 2013 May;70(9):1623-36. doi: 10.1007/s00018-012-1221-0. Epub 2012 Dec 20.
    PMID: 23255046
  52. Kim KY, Joo HJ, Kwon HW, Kim H, Hancock WS, Paik YK. (2013) Development of a method to quantitate nematode pheromone for study of small-molecule metabolism in Caenorhabditis elegans. Anal Chem. 2013 Mar 5;85(5):2681-8. doi: 10.1021/ac4001964. Epub 2013 Feb 14.
    PMID: 23347231
  53. Liu S, Im H, Bairoch A, Cristofanilli M, Chen R, Deutsch EW, Dalton S, Fenyo D, Fanayan S, Gates C, Gaudet P, Hincapie M, Hanash S, Kim H, Jeong SK, Lundberg E, Mias G, Menon R, Mu Z, Nice E, Paik YK, Uhlen M, Wells L, Wu SL, Yan F, Zhang F, Zhang Y, Snyder M, Omenn GS, Beavis RC, Hancock WS. (2013) A Chromosome-centric Human Proteome Project (C-HPP) to Characterize the Sets of Proteins Encoded in Chromosome 17. J Proteome Res. 2013 Jan 4;12(1):45-57. doi: 10.1021/pr300985j. Epub 2012 Dec 21.
    PMID: 23259914
  54. Marko-Varga G, Omenn GS, Paik YK, Hancock WS. (2013) A first step toward completion of a genome-wide characterization of the human proteome. J Proteome Res. 2013 Jan 4;12(1):1-5. doi: 10.1021/pr301183a. Epub 2012 Dec 20.
    PMID: 23256439
  55. Kwon KH, Kim JY, Kim SY, Min HK, Lee HJ, Ji IJ, Kang T, Park GW, An HJ, Lee B, Ravid R, Ferrer I, Chung CK, Paik YK, Hancock WS, Park YM, Yoo JS. (2013) Chromosome 11-centric human proteome analysis of human brain hippocampus tissue. J Proteome Res. 2013 Jan 4;12(1):97-105. doi: 10.1021/pr3008368.
    PMID: 23286719
  56. Jeong SK, Lee HJ, Na K, Cho JY, Lee MJ, Kwon JY, Kim H, Park YM, Yoo JS, Hancock WS, Paik YK. (2013) GenomewidePDB, a Proteomic Database Exploring the Comprehensive Protein Parts List and Transcriptome Landscape in Human Chromosomes. J Proteome Res. 2013 Jan 4;12(1):106-11. doi: 10.1021/pr3009447. Epub 2012 Dec 19.
    PMID: 23252913
  57. Jeong SK, Na K, Kim KY, Kim H, Paik YK. (2012) PanelComposer: a web-based panel construction tool for multivariate analysis of disease biomarker candidates. J Proteome Res. 2012 Dec 7;11(12):6277-81. doi: 10.1021/pr3004387. Epub 2012 Nov 16.
    PMID: 23140350
  58. Paik YK, Hancock WS. (2012) Uniting ENCODE with genome-wide proteomics. Nat Biotechnol. 2012 Nov;30(11):1065-7. doi: 10.1038/nbt.2416.
    PMID: 23138303
  59. He X, Bonaparte N, Kim S, Kim JH, Acharya B, Lee JY, Chi L, Lee HJ, Paik YK, Moon PG, Baek MC, Lee EK, Kim IS, Lee BH. (2012) Enhanced delivery of T cells to tumor after chemotherapy using membrane-anchored, apoptosis-targeted peptide. J Control Release. 2012 Sep 28;162(3):521-8. doi: 10.1016/j.jconrel.2012.07.023. Epub 2012 Jul 21.
    PMID: 22824781
  60. Kim S, Shin EJ, Hahm JH, Park PJ, Hwang JE, Paik YK. (2012) PDHK-2 Deficiency Is Associated with Attenuation of Lipase-Mediated Fat Consumption for the Increased Survival of Caenorhabditis elegans Dauers. PLoS One. 2012;7(7):e41755. doi: 10.1371/journal.pone.0041755. Epub 2012 Jul 27.
    PMID: 22848591
  61. Jadaliha M, Lee HJ, Pakzad M, Fathi A, Jeong SK, Cho SY, Baharvand H, Paik YK, Salekdeh GH. (2012) Quantitative proteomic analysis of human embryonic stem cell differentiation by 8-plex iTRAQ labelling. PLoS One. 2012;7(6):e38532. doi: 10.1371/journal.pone.0038532. Epub 2012 Jun 18.
    PMID: 22723866
  62. Na K, Lee MJ, Jeong HJ, Kim H, Paik YK. (2012) Differential gel-based proteomic approach for cancer biomarker discovery using human plasma. Methods Mol Biol. 2012;854:223-37
    PMID: 22311764
  63. Paik YK, Jeong SK, Omenn GS, Uhlen M, Hanash S, Cho SY, Lee HJ, Na K, Choi EY, Yan F, Zhang F, Zhang Y, Snyder M, Cheng Y, Chen R, Marko-Varga G, Deutsch EW, Kim H, Kwon JY, Aebersold R, Bairoch A, Taylor AD, Kim KY, Lee EY, Hochstrasser D, Legrain P, Hancock WS. (2012) The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome. Nat Biotechnol. 2012 Mar 7;30(3):221-3. doi: 10.1038/nbt.2152.
    PMID: 22398612
  64. Paik YK, Omenn GS, Uhlen M, Hanash S, Marko-Varga G, Aebersold R, Bairoch A, Yamamoto T, Legrain P, Lee HJ, Na K, Jeong SK, He F, Binz PA, Nishimura T, Keown P, Baker MS, Yoo JS, Garin J, Archakov A, Bergeron J, Salekdeh GH, Hancock WS. (2012) Standard Guidelines of the Chromosome-Centric Human Proteome Project. J Proteome Res. 2012 Apr 6;11(4):2005-13. doi: 10.1021/pr200824a. Epub 2012 Mar 26.
    PMID: 22443261
  65. Kong DH, Jung JW, Na K, Jeong SK, Paik YK, Jung SH, Suh IB, Kim YM, Ha KS. (2012) Normalization using a tagged-internal standard assay for analysis of antibody arrays and the evaluation of serological biomarkers for liver disease. Anal Chim Acta. 2012 Mar 9;718:92-8. Epub 2012 Jan 2.
    PMID: 22305903
  66. Reddy PJ, Jain R, Paik YK, Downey R, Ptolemy AS, Ozdemir V, Srivastava S. (2011) Personalized Medicine in the Age of Pharmacoproteomics: A Close up on India and Need for Social Science Engagement for Responsible Innovation in Post-Proteomic Biology. Curr Pharmacogenomics Person Med. 2011 Mar 1;9(1):67-75.
    PMID: 22279515
  67. Lee J, Kim KY, Joo HJ, Kim H, Jeong PY, Paik YK. (2011) Methods for evaluating the Caenorhabditis elegans dauer state: standard dauer-formation assay using synthetic daumones and proteomic analysis of O-GlcNAc modifications. Methods Cell Biol. 2011;106:445-60.
    PMID: 22118287
  68. Lee H, Choi MK, Lee D, Kim HS, Hwang H, Kim H, Park S, Paik YK, Lee J. (2011) Nictation, a dispersal behavior of the nematode Caenorhabditis elegans, is regulated by IL2 neurons. Nat Neurosci. 2011 Nov 13;15(1):107-12. doi:10.1038/nn.2975
    PMID: 22081161
  69. Lee S, Kwon MS, Lee HJ, Paik YK, Tang H, Lee JK, Park T. (2011) Enhanced peptide quantification using spectral count clustering and cluster abundance. BMC Bioinformatics. 2011 Oct 28;12:423.
    PMID: 22034872
  70. Lee JY, Kim JY, Park GW, Cheon MH, Kwon KH, Ahn YH, Moon MH, Lee HJ, Paik YK, Yoo JS. (2011) Targeted mass spectrometric approach for biomarker discovery and validation with nonglycosylated tryptic peptides from N-linked glycoproteins in human plasma Mol Cell Proteomics. 2011 Dec;10(12):M111.009290. Epub 2011 Sep 22
    PMID: 21940909
  71. Park JY, Kim SA, Chung JW, Bang S, Park SW, Paik YK, Song SY. (2011) Proteomic analysis of pancreatic juice for the identification of biomarkers of pancreatic cancer. J Cancer Res Clin Oncol Aug;137(8):1229-38.
    PMID: 21691750
  72. Xu M, Joo HJ, Paik YK. (2011) Novel Functions of LBP-5 in Caenorhabditis elegans Fat Metabolism. J. Biol. Chem, Aug 12;286(32):28111-8. Epub 2011 Jun 22
    PMID: 21697096
  73. Legrain P, Aebersold R, Archakov A, Bairoch A, Bala K, Beretta L, Bergeron J, Borchers CH, Corthals GL, Costello CE, Deutsch EW, Domon B, Hancock W, He F, Hochstrasser D, Marko-Varga G, Salekdeh GH, Sechi S, Snyder M, Srivastava S, Uhlen M, Wu CH, Yamamoto T, Paik YK, Omenn GS. (2011) The Human Proteome Project: Current State and Future Direction. Mol. Cell Proteomics, 2011 Jul;10(7):M111.009993.
    PMID: 21742803
  74. Lee J, Kim KY, Joo HJ, Kim H, Jeong PY, Paik YK. (2011) Methods for evaluating the Caenorhabditis elegans dauer state: standard dauer-formation assay using synthetic daumones and proteomic analysis of O-GlcNAc modifications. Methods Cell Biol, 106, 445-460, 2011
    PMID: 22118287
  75. Lee HJ, Na K, Kwon MS, Park T, Kim KS, Kim H, Paik YK. (2011) A new versatile peptide-based size exclusion chromatography platform for global profiling and quantitation of candidate biomarkers in hepatocellular carcinoma specimens. Proteomics May;11(10):1976-84
    PMID: 21500349
  76. Lee JE, Jeong PY, Joo HJ, Kim H, Lee T, Koo HS, Paik YK. (2011) STR-33, a novel G protein-coupled receptor that regulates locomotion and egg-laying in Caenorhabditis elegans. J Biol Chem. 2011 Nov 18;286(46):39860-70. Epub 2011 Sep 21.
    PMID: 21937442
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