Sangdunchoi:Papers

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Sangdun Choi's Lab




2018

  1. Ghosh P, Luong TT, Shah M, Thach TT, Choi S, Lee S, and Rhee DK. Adenylate kinase potentiates the capsular polysaccharide by modulating Cps2D in Streptococcus pneumoniae D39. Exp Mol Med. 2018 Sep 5;50(9):116. DOI:10.1038/s12276-018-0141-y | PubMed ID:30185778 | HubMed [1]
  2. Khajeh Alizadeh Attar M, Anwar MA, Eskian M, Keshavarz-Fathi M, Choi S, and Rezaei N. Basic understanding and therapeutic approaches to target toll-like receptors in cancerous microenvironment and metastasis. Med Res Rev. 2018 Sep;38(5):1469-1484. DOI:10.1002/med.21480 | PubMed ID:29283184 | HubMed [2]
  3. Lee JH, Kwon HK, Shin HJ, Nam GH, Kim JH, and Choi S. Quasi-Stem Cells Derived from Human Somatic Cells by Chemically Modified Carbon Nanotubes. ACS Appl Mater Interfaces. 2018 Mar 14;10(10):8417-8425. DOI:10.1021/acsami.7b12914 | PubMed ID:29286621 | HubMed [3]
  4. Patra MC, Kwon HK, Batool M, and Choi S. Computational Insight Into the Structural Organization of Full-Length Toll-Like Receptor 4 Dimer in a Model Phospholipid Bilayer. Front Immunol. 2018;9:489. DOI:10.3389/fimmu.2018.00489 | PubMed ID:29593733 | HubMed [4]
  5. Patra MC and Choi S. Insight into Phosphatidylinositol-Dependent Membrane Localization of the Innate Immune Adaptor Protein Toll/Interleukin 1 Receptor Domain-Containing Adaptor Protein. Front Immunol. 2018;9:75. DOI:10.3389/fimmu.2018.00075 | PubMed ID:29434596 | HubMed [5]

All Medline abstracts: PubMed | HubMed

2017

  1. Park YS, Choi UJ, Nam NH, Choi SJ, Nasir A, Lee SG, Kim KJ, Jung GY, Choi S, Shim JY, Park S, and Yoo TH. Engineering an aldehyde dehydrogenase toward its substrates, 3-hydroxypropanal and NAD+, for enhancing the production of 3-hydroxypropionic acid. Sci Rep. 2017 Dec 7;7(1):17155. DOI:10.1038/s41598-017-15400-x | PubMed ID:29214999 | HubMed [1]
  2. Yesudhas D, Anwar MA, Panneerselvam S, Kim HK, and Choi S. Evaluation of Sox2 binding affinities for distinct DNA patterns using steered molecular dynamics simulation. FEBS Open Bio. 2017 Nov;7(11):1750-1767. DOI:10.1002/2211-5463.12316 | PubMed ID:29123983 | HubMed [2]
  3. Batool M, Shah M, Patra MC, Yesudhas D, and Choi S. Structural insights into the Middle East respiratory syndrome coronavirus 4a protein and its dsRNA binding mechanism. Sci Rep. 2017 Sep 12;7(1):11362. DOI:10.1038/s41598-017-11736-6 | PubMed ID:28900197 | HubMed [3]
  4. Javaid N and Choi S. Acetylation- and Methylation-Related Epigenetic Proteins in the Context of Their Targets. Genes (Basel). 2017 Aug 7;8(8). DOI:10.3390/genes8080196 | PubMed ID:28783137 | HubMed [4]
  5. Yesudhas D, Batool M, Anwar MA, Panneerselvam S, and Choi S. Proteins Recognizing DNA: Structural Uniqueness and Versatility of DNA-Binding Domains in Stem Cell Transcription Factors. Genes (Basel). 2017 Aug 1;8(8). DOI:10.3390/genes8080192 | PubMed ID:28763006 | HubMed [5]
  6. Shah M and Choi S. Toll-like Receptor-Dependent Negative Effects of Opioids: A Battle between Analgesia and Hyperalgesia. Front Immunol. 2017;8:642. DOI:10.3389/fimmu.2017.00642 | PubMed ID:28620391 | HubMed [6]
  7. Durai P, Shin HJ, Achek A, Kwon HK, Govindaraj RG, Panneerselvam S, Yesudhas D, Choi J, No KT, and Choi S. Toll-like receptor 2 antagonists identified through virtual screening and experimental validation. FEBS J. 2017 Jul;284(14):2264-2283. DOI:10.1111/febs.14124 | PubMed ID:28570013 | HubMed [7]
  8. Anwar MA and Choi S. Structure-Activity Relationship in TLR4 Mutations: Atomistic Molecular Dynamics Simulations and Residue Interaction Network Analysis. Sci Rep. 2017 Mar 8;7:43807. DOI:10.1038/srep43807 | PubMed ID:28272553 | HubMed [8]
  9. Park S, Shin HJ, Shah M, Cho HY, Anwar MA, Achek A, Kwon HK, Lee B, Yoo TH, and Choi S. TLR4/MD2 specific peptides stalled in vivo LPS-induced immune exacerbation. Biomaterials. 2017 May;126:49-60. DOI:10.1016/j.biomaterials.2017.02.023 | PubMed ID:28254693 | HubMed [9]

All Medline abstracts: PubMed | HubMed

Conference Paper:
10. Maria Batool and Sangdun Choi (2018) Identification of druggable genome in staphylococcus aureus multidrug resistant strain. 2017 IEEE Life Sciences Conference (LSC); 13-15 Dec. 2017. [1]

2016

  1. Shah M, Anwar MA, Yesudhas D, Krishnan J, and Choi S. A structural insight into the negative effects of opioids in analgesia by modulating the TLR4 signaling: An in silico approach. Sci Rep. 2016 Dec 16;6:39271. DOI:10.1038/srep39271 | PubMed ID:27982096 | HubMed [1]
  2. G SB, Choi S, Krishnan J, and K R. Cigarette smoke and related risk factors in neurological disorders: An update. Biomed Pharmacother. 2017 Jan;85:79-86. DOI:10.1016/j.biopha.2016.11.118 | PubMed ID:27930990 | HubMed [2]
  3. Patra MC and Choi S. Recent Progress in the Molecular Recognition and Therapeutic Importance of Interleukin-1 Receptor-Associated Kinase 4. Molecules. 2016 Nov 13;21(11). DOI:10.3390/molecules21111529 | PubMed ID:27845762 | HubMed [3]
  4. Shin HJ, Kwon HK, Lee JH, Anwar MA, and Choi S. Etoposide induced cytotoxicity mediated by ROS and ERK in human kidney proximal tubule cells. Sci Rep. 2016 Sep 26;6:34064. DOI:10.1038/srep34064 | PubMed ID:27666530 | HubMed [4]
  5. Morris O, Liu X, Domingues C, Runchel C, Chai A, Basith S, Tenev T, Chen H, Choi S, Pennetta G, Buchon N, and Meier P. Signal Integration by the IκB Protein Pickle Shapes Drosophila Innate Host Defense. Cell Host Microbe. 2016 Sep 14;20(3):283-295. DOI:10.1016/j.chom.2016.08.003 | PubMed ID:27631699 | HubMed [5]
  6. Batool M, Anwar MA, and Choi S. Toll-like receptors targeting technology for the treatment of lymphoma. Expert Opin Drug Discov. 2016 Nov;11(11):1047-1059. DOI:10.1080/17460441.2016.1233964 | PubMed ID:27602749 | HubMed [6]
  7. Achek A, Yesudhas D, and Choi S. Toll-like receptors: promising therapeutic targets for inflammatory diseases. Arch Pharm Res. 2016 Aug;39(8):1032-49. DOI:10.1007/s12272-016-0806-9 | PubMed ID:27515048 | HubMed [7]
  8. Phukan G, Shin TH, Shim JS, Paik MJ, Lee JK, Choi S, Kim YM, Kang SH, Kim HS, Kang Y, Lee SH, Mouradian MM, and Lee G. Silica-coated magnetic nanoparticles impair proteasome activity and increase the formation of cytoplasmic inclusion bodies in vitro. Sci Rep. 2016 Jul 5;6:29095. DOI:10.1038/srep29095 | PubMed ID:27378605 | HubMed [8]
  9. Patra MC and Choi S. Recent progress in the development of Toll-like receptor (TLR) antagonists. Expert Opin Ther Pat. 2016 Jun;26(6):719-30. DOI:10.1080/13543776.2016.1185415 | PubMed ID:27136061 | HubMed [9]
  10. Shah M, Anwar MA, Kim JH, and Choi S. Advances in Antiviral Therapies Targeting Toll-like Receptors. Expert Opin Investig Drugs. 2016;25(4):437-53. DOI:10.1517/13543784.2016.1154040 | PubMed ID:26878224 | HubMed [10]
  11. Yesudhas D, Anwar MA, Panneerselvam S, Durai P, Shah M, and Choi S. Structural Mechanism behind Distinct Efficiency of Oct4/Sox2 Proteins in Differentially Spaced DNA Complexes. PLoS One. 2016;11(1):e0147240. DOI:10.1371/journal.pone.0147240 | PubMed ID:26790000 | HubMed [11]
  12. Anwar MA, Kim S, and Choi S. The triumph of chemically enhanced cellular reprogramming: a patent review. Expert Opin Ther Pat. 2016;26(2):265-80. DOI:10.1517/13543776.2016.1118058 | PubMed ID:26593376 | HubMed [12]

All Medline abstracts: PubMed | HubMed

2015

  1. Shin HJ, Kwon HK, Lee JH, Gui X, Achek A, Kim JH, and Choi S. Doxorubicin-induced necrosis is mediated by poly-(ADP-ribose) polymerase 1 (PARP1) but is independent of p53. Sci Rep. 2015 Nov 2;5:15798. DOI:10.1038/srep15798 | PubMed ID:26522181 | HubMed [1]
  2. Kwon HK, Lee JH, Shin HJ, Kim JH, and Choi S. Structural and functional analysis of cell adhesion and nuclear envelope nano-topography in cell death. Sci Rep. 2015 Oct 22;5:15623. DOI:10.1038/srep15623 | PubMed ID:26490051 | HubMed [2]
  3. Kwon JW, Kwon HK, Shin HJ, Choi YM, Anwar MA, and Choi S. Activating transcription factor 3 represses inflammatory responses by binding to the p65 subunit of NF-κB. Sci Rep. 2015 Sep 28;5:14470. DOI:10.1038/srep14470 | PubMed ID:26412238 | HubMed [3]
  4. Durai P, Batool M, Shah M, and Choi S. Middle East respiratory syndrome coronavirus: transmission, virology and therapeutic targeting to aid in outbreak control. Exp Mol Med. 2015 Aug 28;47:e181. DOI:10.1038/emm.2015.76 | PubMed ID:26315600 | HubMed [4]
  5. Shah M, Anwar MA, Park S, Jafri SS, and Choi S. In silico mechanistic analysis of IRF3 inactivation and high-risk HPV E6 species-dependent drug response. Sci Rep. 2015 Aug 20;5:13446. DOI:10.1038/srep13446 | PubMed ID:26289783 | HubMed [5]
  6. Panneerselvam S, Yesudhas D, Durai P, Anwar MA, Gosu V, and Choi S. A Combined Molecular Docking/Dynamics Approach to Probe the Binding Mode of Cancer Drugs with Cytochrome P450 3A4. Molecules. 2015 Aug 14;20(8):14915-35. DOI:10.3390/molecules200814915 | PubMed ID:26287147 | HubMed [6]
  7. Kwon HK, Shin HJ, Lee JH, Park SH, Kwon MC, Panneerselvam S, Lee CG, Kim SG, Kim JH, and Choi S. Etoposide Induces Necrosis Through p53-Mediated Antiapoptosis in Human Kidney Proximal Tubule Cells. Toxicol Sci. 2015 Nov;148(1):204-19. DOI:10.1093/toxsci/kfv182 | PubMed ID:26259609 | HubMed [7]
  8. Choi YM, Kim HK, Shim W, Anwar MA, Kwon JW, Kwon HK, Kim HJ, Jeong H, Kim HM, Hwang D, Kim HS, and Choi S. Mechanism of Cisplatin-Induced Cytotoxicity Is Correlated to Impaired Metabolism Due to Mitochondrial ROS Generation. PLoS One. 2015;10(8):e0135083. DOI:10.1371/journal.pone.0135083 | PubMed ID:26247588 | HubMed [8]
  9. Durai P, Batool M, and Choi S. Structure and Effects of Cyanobacterial Lipopolysaccharides. Mar Drugs. 2015 Jul 7;13(7):4217-30. DOI:10.3390/md13074217 | PubMed ID:26198237 | HubMed [9]
  10. Lee BS, Shin S, Jeon JY, Jang KS, Lee BY, Choi S, and Yoo TH. Incorporation of Unnatural Amino Acids in Response to the AGG Codon. ACS Chem Biol. 2015 Jul 17;10(7):1648-53. DOI:10.1021/acschembio.5b00230 | PubMed ID:25946114 | HubMed [10]
  11. Anwar MA, Panneerselvam S, Shah M, and Choi S. Insights into the species-specific TLR4 signaling mechanism in response to Rhodobacter sphaeroides lipid A detection. Sci Rep. 2015 Jan 7;5:7657. DOI:10.1038/srep07657 | PubMed ID:25563849 | HubMed [11]
  12. Luong TT, Kim EH, Bak JP, Nguyen CT, Choi S, Briles DE, Pyo S, and Rhee DK. Ethanol-induced alcohol dehydrogenase E (AdhE) potentiates pneumolysin in Streptococcus pneumoniae. Infect Immun. 2015 Jan;83(1):108-19. DOI:10.1128/IAI.02434-14 | PubMed ID:25312953 | HubMed [12]

All Medline abstracts: PubMed | HubMed

2014

  1. Yesudhas D, Gosu V, Anwar MA, and Choi S. Multiple roles of toll-like receptor 4 in colorectal cancer. Front Immunol. 2014;5:334. DOI:10.3389/fimmu.2014.00334 | PubMed ID:25076949 | HubMed [1]
  2. Gosu V and Choi S. Structural dynamic analysis of apo and ATP-bound IRAK4 kinase. Sci Rep. 2014 Jul 18;4:5748. DOI:10.1038/srep05748 | PubMed ID:25034608 | HubMed [2]
  3. Anwar MA and Choi S. Gram-negative marine bacteria: structural features of lipopolysaccharides and their relevance for economically important diseases. Mar Drugs. 2014 Apr 30;12(5):2485-514. DOI:10.3390/md12052485 | PubMed ID:24796306 | HubMed [3]
  4. Panneerselvam S and Choi S. Nanoinformatics: emerging databases and available tools. Int J Mol Sci. 2014 Apr 25;15(5):7158-82. DOI:10.3390/ijms15057158 | PubMed ID:24776761 | HubMed [4]
  5. Choi YM, Cho HY, Anwar MA, Kim HK, Kwon JW, and Choi S. ATF3 attenuates cyclosporin A-induced nephrotoxicity by downregulating CHOP in HK-2 cells. Biochem Biophys Res Commun. 2014 May 30;448(2):182-8. DOI:10.1016/j.bbrc.2014.04.083 | PubMed ID:24768635 | HubMed [5]
  6. Lee CG, Kim JG, Kim HJ, Kwon HK, Cho IJ, Choi DW, Lee WH, Kim WD, Hwang SJ, Choi S, and Kim SG. Discovery of an integrative network of microRNAs and transcriptomics changes for acute kidney injury. Kidney Int. 2014 Nov;86(5):943-53. DOI:10.1038/ki.2014.117 | PubMed ID:24759152 | HubMed [6]

All Medline abstracts: PubMed | HubMed

2013

  1. Durai P, Govindaraj RG, and Choi S. Structure and dynamic behavior of Toll-like receptor 2 subfamily triggered by malarial glycosylphosphatidylinositols of Plasmodium falciparum. FEBS J. 2013 Dec;280(23):6196-212. DOI:10.1111/febs.12541 | PubMed ID:24090058 | HubMed [1]
  2. Kim EH, Kim IH, Lee MJ, Thach Nguyen C, Ha JA, Lee SC, Choi S, Choi KT, Pyo S, and Rhee DK. Anti-oxidative stress effect of red ginseng in the brain is mediated by peptidyl arginine deiminase type IV (PADI4) repression via estrogen receptor (ER) β up-regulation. J Ethnopharmacol. 2013 Jul 9;148(2):474-85. DOI:10.1016/j.jep.2013.04.041 | PubMed ID:23665163 | HubMed [2]
  3. Anwar MA, Basith S, and Choi S. Negative regulatory approaches to the attenuation of Toll-like receptor signaling. Exp Mol Med. 2013 Feb 22;45:e11. DOI:10.1038/emm.2013.28 | PubMed ID:23429360 | HubMed [3]
  4. Basith S, Manavalan B, Gosu V, and Choi S. Evolutionary, structural and functional interplay of the IκB family members. PLoS One. 2013;8(1):e54178. DOI:10.1371/journal.pone.0054178 | PubMed ID:23372681 | HubMed [4]

All Medline abstracts: PubMed | HubMed

5. Kwon H-K, Shin H-J, Choi S (2013) The Mechanisms of Cell Death: Apoptosis, Necrosis and Necroptosis. The National Academy of Sciences 52: 165-182. PDF.

Book Chapters:

1. Selvarajoo K (2013) Immuno Systems Biology. In: S. Choi, series editor. New York: Springer. pp. 150.
2. Govindaraj RG, Durai P, Choi S (2013) In Silico Approaches to Study Drug-induced Renal Toxicity. In: S.G. Kim, editor. KIDNEY:Toxicological Assessment. Boca Raton: CRC Press. pp. 103-120.

2012

  1. Choi S, Chang MS, Stuecker T, Chung C, Newcombe DA, and Venkateswaran K. A fosmid cloning strategy for detecting the widest possible spectrum of microbes from the international space station drinking water system. Genomics Inform. 2012 Dec;10(4):249-55. DOI:10.5808/GI.2012.10.4.249 | PubMed ID:23346038 | HubMed [1]
  2. Gosu V, Basith S, Durai P, and Choi S. Molecular evolution and structural features of IRAK family members. PLoS One. 2012;7(11):e49771. DOI:10.1371/journal.pone.0049771 | PubMed ID:23166766 | HubMed [2]
  3. Krishnan J and Choi S. Systems Biological Approaches Reveal Non-additive Responses and Multiple Crosstalk Mechanisms between TLR and GPCR Signaling. Genomics Inform. 2012 Sep;10(3):153-66. DOI:10.5808/GI.2012.10.3.153 | PubMed ID:23166526 | HubMed [3]
  4. Gosu V, Basith S, Kwon OP, and Choi S. Therapeutic applications of nucleic acids and their analogues in Toll-like receptor signaling. Molecules. 2012 Nov 14;17(11):13503-29. DOI:10.3390/molecules171113503 | PubMed ID:23151919 | HubMed [4]
  5. Park EJ, Kwon HK, Choi YM, Shin HJ, and Choi S. Doxorubicin induces cytotoxicity through upregulation of pERK-dependent ATF3. PLoS One. 2012;7(9):e44990. DOI:10.1371/journal.pone.0044990 | PubMed ID:23028726 | HubMed [5]
  6. Basith S, Manavalan B, Yoo TH, Kim SG, and Choi S. Roles of toll-like receptors in cancer: a double-edged sword for defense and offense. Arch Pharm Res. 2012 Aug;35(8):1297-316. DOI:10.1007/s12272-012-0802-7 | PubMed ID:22941474 | HubMed [6]
  7. Shim W, Paik MJ, Nguyen DT, Lee JK, Lee Y, Kim JH, Shin EH, Kang JS, Jung HS, Choi S, Park S, Shim JS, and Lee G. Analysis of changes in gene expression and metabolic profiles induced by silica-coated magnetic nanoparticles. ACS Nano. 2012 Sep 25;6(9):7665-80. DOI:10.1021/nn301113f | PubMed ID:22830605 | HubMed [7]
  8. Kim B, Yang MS, Choi D, Kim JH, Kim HS, Seol W, Choi S, Jou I, Kim EY, and Joe EH. Impaired inflammatory responses in murine Lrrk2-knockdown brain microglia. PLoS One. 2012;7(4):e34693. DOI:10.1371/journal.pone.0034693 | PubMed ID:22496842 | HubMed [8]

All Medline abstracts: PubMed | HubMed

Book Chapters:

1. Krishnan J, Basith S, Choi S. 2012. Advances in Toll-like Receptor Signaling. Advances in Systems Biology 1: 5-15. PDF.
2. ManavalanB, Basith S, Choi S. 2012. IkB-ζ. In Encyclopedia of Signaling Molecules, ed. SChoi, pp. 892-9. New York: Springer.
3. Krishnan J, Choi S. 2012. TLR4, Toll-Like Receptor 4. In Encyclopedia of Signaling Molecules, ed. S Choi , pp. 1866-75. New York: Springer.
4. Choi S. 2012. As the director of the stage starring TLR, IκB-ζ and ATF3. Molecular and Cellular Biology News 2012: 1-8.
5. Choi S, ed. 2012. Encyclopedia of Signaling Molecules, Vols. 1-3. New York: Springer. 2150 pp.
6. Basith S, Manavalan B, Choi S. 2012. MyD88, Myeloid Differentiation Primary Response Gene 88. In Encyclopedia of Signaling Molecules, ed. S Choi, pp. 1149-59. New York: Springer.

2011

  1. Park EJ, Kim SA, Choi YM, Kwon HK, Shim W, Lee G, and Choi S. Capric acid inhibits NO production and STAT3 activation during LPS-induced osteoclastogenesis. PLoS One. 2011;6(11):e27739. DOI:10.1371/journal.pone.0027739 | PubMed ID:22110749 | HubMed [1]
  2. Park EJ, Roh J, Kang MS, Kim SN, Kim Y, and Choi S. Biological responses to diesel exhaust particles (DEPs) depend on the physicochemical properties of the DEPs. PLoS One. 2011;6(10):e26749. DOI:10.1371/journal.pone.0026749 | PubMed ID:22039547 | HubMed [2]
  3. Park EJ, Roh J, Kim SN, Kang MS, Lee BS, Kim Y, and Choi S. Biological toxicity and inflammatory response of semi-single-walled carbon nanotubes. PLoS One. 2011;6(10):e25892. DOI:10.1371/journal.pone.0025892 | PubMed ID:22016783 | HubMed [3]
  4. Govindaraj RG, Manavalan B, Basith S, and Choi S. Comparative analysis of species-specific ligand recognition in Toll-like receptor 8 signaling: a hypothesis. PLoS One. 2011;6(9):e25118. DOI:10.1371/journal.pone.0025118 | PubMed ID:21949866 | HubMed [4]
  5. Basith S, Manavalan B, Govindaraj RG, and Choi S. In silico approach to inhibition of signaling pathways of Toll-like receptors 2 and 4 by ST2L. PLoS One. 2011;6(8):e23989. DOI:10.1371/journal.pone.0023989 | PubMed ID:21897866 | HubMed [5]
  6. Kim IH, Kim SK, Kim EH, Kim SW, Sohn SH, Lee SC, Choi S, Pyo S, and Rhee DK. Korean Red Ginseng Up-regulates C21-Steroid Hormone Metabolism via Cyp11a1 Gene in Senescent Rat Testes. J Ginseng Res. 2011 Sep;35(3):272-82. DOI:10.5142/jgr.2011.35.3.272 | PubMed ID:23717070 | HubMed [6]
  7. Manavalan B, Basith S, and Choi S. Similar Structures but Different Roles - An Updated Perspective on TLR Structures. Front Physiol. 2011;2:41. DOI:10.3389/fphys.2011.00041 | PubMed ID:21845181 | HubMed [7]
  8. Manavalan B, Govindaraj R, Lee G, and Choi S. Molecular modeling-based evaluation of dual function of IκBζ ankyrin repeat domain in toll-like receptor signaling. J Mol Recognit. 2011 Jul-Aug;24(4):597-607. DOI:10.1002/jmr.1085 | PubMed ID:21472811 | HubMed [8]
  9. Basith S, Manavalan B, Lee G, Kim SG, and Choi S. Toll-like receptor modulators: a patent review (2006-2010). Expert Opin Ther Pat. 2011 Jun;21(6):927-44. DOI:10.1517/13543776.2011.569494 | PubMed ID:21406035 | HubMed [9]
  10. Oh YT, Oh KS, Choi YM, Jokiaho A, Donovan C, Choi S, Kang I, and Youn JH. Continuous 24-h nicotinic acid infusion in rats causes FFA rebound and insulin resistance by altering gene expression and basal lipolysis in adipose tissue. Am J Physiol Endocrinol Metab. 2011 Jun;300(6):E1012-21. DOI:10.1152/ajpendo.00650.2010 | PubMed ID:21386057 | HubMed [10]
  11. Siewe BT, Kalis SL, Le PT, Witte PL, Choi S, Conway SJ, Druschitz L, and Knight KL. In vitro requirement for periostin in B lymphopoiesis. Blood. 2011 Apr 7;117(14):3770-9. DOI:10.1182/blood-2010-08-301119 | PubMed ID:21285437 | HubMed [11]
  12. Choi S, Yoon H, Oh KS, Oh YT, Kim YI, Kang I, and Youn JH. Widespread effects of nicotinic acid on gene expression in insulin-sensitive tissues: implications for unwanted effects of nicotinic acid treatment. Metabolism. 2011 Jan;60(1):134-44. DOI:10.1016/j.metabol.2010.02.013 | PubMed ID:20303128 | HubMed [12]

All Medline abstracts: PubMed | HubMed

13. Park JH, Choi S. (2011) Gene Expression Analysis of Gα13-/- Knockout Mouse Embryos Reveals Perturbations in Gα13 Signaling Relatedto Angiogenesis and Hypoxia. Genomics&Informatics. 9: 161-172. PDF.

14. Kim SN, Kang MS, Han YA, Kim JH, Roh J, et al. (2011) Toxicity Analysis of Carbon Nanotubes Based on Their Physicochemical Properties. Clean Technology 17: 273-279.PDF.

15. Paik M-J, Shim W, Moon SM, Kim YM, Kim DW, et al. (2011) Altered Amino Acid Metabolic Patterns in the Plasma of Rat Models with Adenovirus Infection. Bull Korean Chem Soc 32: 1569-1574.PDF.

16. Paik M-J, Nguyen D-T, Youn J, Cho I-S, Shim W, et al. (2011) Selective 3,4-Dihydroxyphenylalanine Analysis in Human Urine as Ethoxycarbonyltert-butyldimethylsilyl Derivatives by Gas Chromatography-Mass Spectrometry. Bull Korean Chem Soc 32: 977-980. PDF.

Book Chapters:

1. Basith S, Manavalan B, Choi S (2011) MyD88, MYELOID DIFFERENTIATION PRIMARY RESPONSE GENE 88. In:Choi S, editor. Encyclopedia of Signaling Molecules. 1 ed. New York: Springer. pp. 2500.

2. Manavalan B, Basith S, Choi S (2011) IkBz , IKAPPABZETA In: Choi S, editor. Encyclopedia of Signaling Molecules. 1 ed. New York: Springer. pp. 2500.

3. Krishnan J, Choi S (2011) TLR4,TOLL-LIKE RECEPTOR 4. In: Choi S, editor. Encyclopedia of Signaling Molecules. 1 ed. New York: Springer. pp. 2500.

4. Choi S, editor (2011) Encyclopedia of Signaling Molecules. 1 ed. New York: Springer. 2500 p.

5. Booß-Bavnbek B, Klösgen B, Larsen J, Pociot F, Renström E, editors (2011) Systems Biology of Regulated Exocytosis in Pancreatic ß-Cells. 1 ed. New York: Springer. 440 p.

2010

  1. Manavalan B, Basith S, Choi YM, Lee G, and Choi S. Structure-function relationship of cytoplasmic and nuclear IκB proteins: an in silico analysis. PLoS One. 2010 Dec 23;5(12):e15782. DOI:10.1371/journal.pone.0015782 | PubMed ID:21203422 | HubMed [1]
  2. Kim EY, Shin HY, Kim JY, Kim DG, Choi YM, Kwon HK, Rhee DK, Kim YS, and Choi S. ATF3 plays a key role in Kdo2-lipid A-induced TLR4-dependent gene expression via NF-κB activation. PLoS One. 2010 Dec 2;5(12):e14181. DOI:10.1371/journal.pone.0014181 | PubMed ID:21152039 | HubMed [2]
  3. Basith S and Choi S. Overview of human cytochrome P450 networks in chemical space. Arch Pharm Res. 2010 Sep;33(9):1289-91. DOI:10.1007/s12272-010-0900-3 | PubMed ID:20945125 | HubMed [3]
  4. Govindaraj RG, Manavalan B, Lee G, and Choi S. Molecular modeling-based evaluation of hTLR10 and identification of potential ligands in Toll-like receptor signaling. PLoS One. 2010 Sep 16;5(9):e12713. DOI:10.1371/journal.pone.0012713 | PubMed ID:20877634 | HubMed [4]
  5. Paik MJ, Ahn YH, Lee PH, Kang H, Park CB, Choi S, and Lee G. Polyamine patterns in the cerebrospinal fluid of patients with Parkinson's disease and multiple system atrophy. Clin Chim Acta. 2010 Oct 9;411(19-20):1532-5. DOI:10.1016/j.cca.2010.05.034 | PubMed ID:20515677 | HubMed [5]
  6. Manavalan B, Murugapiran SK, Lee G, and Choi S. Molecular modeling of the reductase domain to elucidate the reaction mechanism of reduction of peptidyl thioester into its corresponding alcohol in non-ribosomal peptide synthetases. BMC Struct Biol. 2010 Jan 12;10:1. DOI:10.1186/1472-6807-10-1 | PubMed ID:20067617 | HubMed [6]

All Medline abstracts: PubMed | HubMed

7. Paik MJ, Nguyen DT, Cho IS, Shim W, kim KR, et al. (2010) Seletive dopa analysis in human urine as ethoxycarbony/tert-butyldimethysily derivatives by Gas chromatography-Mass spectrometry. Analytical Letters. PDF.

Book Chapters:

1. Choi S, ed. (2010) Systems Biology Approaches: Solving New Puzzles in a Symphonic Manner. Systems Biology for Signaling Networks. Springer Inc., NewYork.

2. Choi S, ed. (2010) Systems Biology for Signaling Networks. Springer Inc., NewYork.

2009

  • Krishnan J, Lee G, Choi S. (2009) Drugs Targeting Toll-like Receptors. Arch Pharm Res. 11: 1485-1502.PMID:20091261. PDF.
  • Lee KA, Shim W, Paik MJ, Lee SC, Shin JY, Park K, Kim JH, Choi S, Lee G. (2009) Analysis of changes in the viability and gene expression profiles of human mesenchymal stromal cells over time. Cytotherapy 11: 688-967.PMID:19878055.PDF.
  • You MH, Kim WJ, Shim W, Lee SR, Lee G, Choi S, Kim DY, Kim YM, Kim H, Han SU. (2009) Cytosine deaminase-producing human mesenchymal stem cells mediate an antitumor effect in a mouse xenograft model. J Gastroenterol Hepatol 24: 1393-1400.PMID:19486256.PDF.
  • Lee G, Lee SS, Kay KY, Kim DW, Choi S, Jun HK. (2009) Isolation and characterization of a novel adenosine deaminase inhibitor, IADA-7, from Bacillus sp. J-89. J Enzyme Inhib Med Chem 24: 59-64.PMID:18608782.PDF.
  • Hwang DY, Hong S, Jeong JW, Choi S, Kim H, Kim J, Kim KS. (2009) VMAT2 and DAT are molecular targets of Pitx3 in the ventral midbrain dopamine neurons. J Neurochem 111: 1202-1212. PDF.
  • Lee G, Santat LA, Chang MS, Choi S. (2009) RNAi methodologies for the functional study of signaling molecules. PLoS ONE 4: e4559.PMID:19238203.PDF.
  • Tsuchiya M, Piras V, Choi S, Akira S, Tomita M, Giuliani A, Selvarajoo K. (2009) Emergent genome-wide control in wildtype and genetically mutated lipopolysaccarides-stimulated macrophages. PLoS ONE 4: e4905.PMID:19300509.PDF.
  • Paik MJ, Li WY, Ahn YH, Lee PH, Choi S, Kim KR, Kim YM, Bang OY, Lee G. (2009) The free fatty acid metabolome in cerebral ischemia following human mesenchymal stem cell transplantation in rats. Clin Chim Acta 402: 25-30.PMID:19161994. PDF.

2008

  • Krishnan J, Chen J, Shin KJ, Hwang JI, Han SU, Lee G, Choi S. (2008) Gene expression profiling of light-induced retinal degeneration in phototransduction gene knockout mice. Exp Mol Med 40: 495-504. PDF.
  • Paik MJ, Yu J, Hu MB, Kim SJ, Kim KR, Ahn YH, Choi S, Lee G. (2008) Gas chromatographic-mass spectrometric analyses of cholesterol and its precursors in rat plasma as tert-butyldimethylsilyl derivatives. Clin Chim Acta 396: 62-5. PDF.
  • Paik MJ, Moon SM, Kim KR, Choi S, Ahn YH, Lee G. (2008) Target metabolic profiling analysis of free amino acids in plasma as EOC/TBDMS derivatives by GC-SIM-MS. Biomed Chromatogr 22: 339-42. PDF.
  • Paik MJ, Cho EY, Kim H, Kim KR, Choi S, Ahn YH, Lee G. (2008) Simultaneous clinical monitoring of lactic acid, pyruvic acid and ketone bodies in plasma as methoxime/tert-butyldimethylsilyl derivatives by gas chromatography-mass spectrometry in selected ion monitoring mode. Biomed Chromatogr 22: 450-3. PDF.
  • Krishnan J, Lee G, Han SU, Choi S. (2008) Characterization of phototransduction gene knockouts revealed important signaling networks in the light-induced retinal degeneration. J Biomed Biotechnol 2008: 327468. PDF.

2007

  • Krishnan J, Selvarajoo K, Tsuchiya M, Lee G, Choi S. (2007) Toll-like receptor signal transduction. Experimental and Molecular Medicine 39: 421-38. PDF.
  • Cho MK, Kim WD, Ki SH, Hwang JI, Choi S, Lee CH, Kim SG. (2007) Role of Galpha12 and Galpha13 as novel switches for the activity of Nrf2, a key antioxidative transcription factor. Mol Cell Biol 27: 6195-208. PDF.
  • Choi S, ed. (2007) Introduction to Systems Biology. Humana Press Inc., Totowa, NJ.
  • Piras V, Selvarajoo K, Fujikawa N, Choi S, Tomita M, Giuliani A, Tsuchiya M. (2007) Statistical Analysis of Gene Expression in Innate Immune Responses: Dynamic Interactions between MicroRNA and Signaling Molecules. Genomics & Informatics 5: 95-100.
  • Krishnan J, Lee G, Han S-U, Choi S. (2007) Signaling Networks Involved in Retinal Degeneration in Mice. IEEE 2007: 3-6.
  • Jeon H, Choi S. (2007) Fluorescence Quenching Causes Systematic Dye Bias in Microarray Experiments Using Cyanine Dye. Genomics & Informatics 5: 113-8

2006

  • Zhu X, Chang MS, Hsueh RC, Taussig R, Smith KD, Simon MI, Choi S. (2006) Dual ligand stimulation of RAW 264.7 cells uncovers feedback mechanisms that regulate TLR-mediated gene expression. J Immunol 177: 4299-310.PDF.
  • Kim DH, Behlke MA, Rose SD, Chang MS, Choi S, Rossi JJ. (2006) Enhancing RNAi with Synthetic RNA Duplexes. Non-viral Gene Therapy: 465-75.
  • Yu Y, Santat LA, Choi S. (2006) Bioinformatics packages for sequence analysis. In Genes, Genomics & Bioinformatics, ed. D Arora, R Berka, G Singh, The Netherlands: Elsevier Science, pp. 143-60. PDF.
  • Nam JS, Turcotte TJ, Smith PF, Choi S, Yoon JK. (2006) Mouse cristin/R-spondin family proteins are novel ligands for the Frizzled 8 and LRP6 receptors and activate beta-catenin-dependent gene expression. J Biol Chem 281: 13247-57. PDF.
  • Lee JA, Sinkovits RS, Mock D, Rab EL, Cai J, Yang P, Saunders B, Hsueh RC, Choi S, Subramaniam S, Scheuermann RH. (2006) Components of the antigen processing and presentation pathway revealed by gene expression microarray analysis following B cell antigen receptor (BCR) stimulation. BMC Bioinformatics 7: 237. PDF.
  • Kuo WP, Liu F, Trimarchi J, Punzo C, Lombardi M, Sarang J, Whipple ME, Maysuria M, Serikawa K, Lee SY, McCrann D, Kang J, Shearstone JR, Burke J, Park DJ, Wang X, Rector TL, Ricciardi-Castagnoli P, Perrin S, Choi S, Bumgarner R, Kim JH, Short GF, 3rd, Freeman MW, Seed B, Jensen R, Church GM, Hovig E, Cepko CL, Park P, Ohno-Machado L, Jenssen TK. (2006) A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies. Nat Biotechnol 24: 832-40. PDF.
  • Choi S, Seo J-S. (2006) Single and dual ligand effects on gene expression changes in mouse macrophage cells. Genomics and Informatics 4: 57-74.
  • Choi S. (2006) Construction of chromosome-specific BAC libraries from the filamentous ascomycete Ashbya gossypii. Genomics and Informatics 4: 80-6.

2005

  • Kim DH, Behlke MA, Rose SD, Chang MS, Choi S, Rossi JJ. (2005) Synthetic dsRNA Dicer substrates enhance RNAi potency and efficacy. Nat Biotechnol 23: 222-6.PMID:15619617. PDF.
  • Hwang JI, Choi S, Fraser ID, Chang MS, Simon MI. (2005) Silencing the expression of multiple Gbeta-subunits eliminates signaling mediated by all four families of G proteins. Proc Natl Acad Sci U S A 102: 9493-8. PDF.
  • Choi S, Liu X, Li P, Akimoto T, Lee SY, Zhang M, Yan Z. (2005) Transcriptional profiling in mouse skeletal muscle following a single bout of voluntary running: evidence of increased cell proliferation. J Appl Physiol 99: 2406-15. PDF.
  • Xiaocui Zhu and Sangdun Choi (2005) Understanding cellular signaling networks in mouse macrophage cells. In Introduction to Systems Biology. Humana Press Inc., Totowa, NJ.
  • Sangdun Choi, ed. (2005) Introduction to Systems Biology. Humana Press Inc., Totowa, NJ.
  • Winston P. Kuo, Peter J. Park, and Sangdun Choi (2005) DNA microarrays and statistical genomic techniques (D. Allison, G. Page, M. Beasley, J. Edwards, Eds). Marcel Dekker Inc., New York.

2004

  • Zhu X, Hart R, Chang MS, Kim JW, Lee SY, Cao YA, Mock D, Ke E, Saunders B, Alexander A, Grossoehme J, Lin KM, Yan Z, Hsueh R, Lee J, Scheuermann RH, Fruman DA, Seaman W, Subramaniam S, Sternweis P, Simon MI, Choi S. (2004) Analysis of the major patterns of B cell gene expression changes in response to short-term stimulation with 33 single ligands. J Immunol 173: 7141-9. PMID:15585835.PDF.
  • Jonathan M. Levenson, Sangdun Choi, Sun-Young Lee, Yun Anna Cao, Kim Worley, Hui Zheng, and David Sweatt (2004) A bioinformatics analysis of memory consolidation reveals involvement of the transcription factor c-Rel. The Journal of Neuroscience. 24, p3933-3943. PMID:15102909.PDF.
  • Hwang JI, Fraser ID, Choi S, Qin XF, Simon MI. (2004) Analysis of C5a-mediated chemotaxis by lentiviral delivery of small interfering RNA. Proc Natl Acad Sci U S A 101: 488-93.PMID:14699051.PDF.
  • Park PJ, Cao YA, Lee SY, Kim JW, Chang MS, Hart R, Choi S. (2004) Current issues for DNA microarrays: platform comparison, double linear amplification, and universal RNA reference. J Biotechnol 112: 225-45.PMID:15313001.
  • Dietrich FS, Voegeli S, Brachat S, Lerch A, Gates K,Steiner S, Mohr C, Pohlmann R, Luedi P, Choi S, Wing RA, Flavier A, Gaffney TD, Philippsen P. (2004) The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome. Science 304: 304-7.PMID:15001715.PDF.
  • Kim JH, Ha IS, Hwang CI, Lee YJ, Kim J, Yang SH, Kim YS, Cao YA, Choi S, Park WY. (2004) Gene expression profiling of anti-GBM glomerulonephritis model: the role of NF-kappaB in immune complex kidney disease. Kidney Int 66: 1826-37.PMID:15496153.PDF.
  • Choi S. (2004) DNA Chips and Microarray Analysis: An Overview. In Handbook of fungal biotechnology, ed. D Arora, pp. 173-9. New York, NY: Marcel Dekker, Inc.Book weblink.
  • Choi S. (2004) Large DNA Transformation. In Bacterial Artificial Chromosomes: Functional Studies, ed. S Zhao, J Walker, pp. 57-68. Totowa, NJ: Humana Press Inc.Goolge book link.
  • Roach T, Choi S, Han H, Zhu H. (2004) Cultured transgenic human Bcl-2 B cells as an alternative signaling model for primary B cells. In Nature - The Signaling Gateway: AfCS Research Reports, pp. 13BC.
  • Deane JA, Trifilo MJ, Yballe CM, Choi S, Lane TE, Fruman DA. (2004) Enhanced T cell proliferation in mice lacking the p85beta subunit of phosphoinositide 3-kinase. J Immunol 172: 6615-25. [PMID: http://www.ncbi.nlm.nih.gov/pubmed/15153476 PMID:15153476 ].PDF.

2003

  • Yan Z, Choi S, Liu X, Zhang M, Schageman JJ, Lee SY, Hart R, Lin L, Thurmond FA, Williams RS. (2003) Highly coordinated gene regulation in mouse skeletal muscle regeneration. J Biol Chem 278: 8826-36. PMID:12477723.PDF.
  • Cao YA, Lee SY, Kim JW, Chang MS, Choi S. (2003) Cross comparison of DNA microarray platforms. In Nature - The Signaling Gateway: AfCS Research Reports, pp. DA0010.PDF.
  • Sangdun Choi (2003). Systems Biology. Korea Genome Organization (KOGO) News 3(4), p7-9.
  • Mi Sook Chang, Yun Anna Cao, and Sangdun Choi (2003) Microarray Protocol for Agilent Inkjet-Deposited Presynthesized Oligo Arrays? Aminoallyl Method. Nature-The Signaling Gateway. PDF.
  • Sangdun Choi (2003) G-Protein Coupled Receptor from Molecular Tinkering to Drug Target. KOGO News 3(3), 8-10.
  • Sangdun Choi (2003) Biodiversity. KOGO News 3(2), 8-10.
  • J.M. Levenson, S. Choi, K.C. Worley, H. Zheng, M. Simon, J.D. Sweatt (2003) Regulation of histone acetylation and gene expression during consolidation of long-term memory in the hippocampus (Neuroscience).
  • Sangdun Choi (2003) The DNA structure made Watson and Crick. KOGO News. 3(1), 9-11.
  • Yun Anna Cao and Sangdun Choi (2003) Affimetrix Microarray Analysis. Nature-The Signaling Gateway.
  • Yun Anna Cao and Sangdun Choi (2003) Microarray Protocol for Agilent Inkjet-Deposited Presynthesized Oligo Arrays. Nature-The Signaling Gateway.
  • Jonathan M. Levenson, Sangdun Choi, Sun-Young Lee, Melvin I. Simon, J. David Sweatt (2003) RNA expression profiling of long-term memory consolidation in normal and Alzheimer's hippocampus. Learning & Memory. Cold Spring Harbor Laboratory.

2002

  • Sambrano GR, Chandy G, Choi S, Decamp D, Hsueh R, Lin KM, Mock D, O'Rourke N, Roach T, Shu H, Sinkovits B, Verghese M, Bourne H. (2002) Unravelling the signal-transduction network in B lymphocytes. Nature 420: 708-10.
  • Gilman AG, Simon MI, Bourne HR, Harris BA, Long R, Ross EM, Stull JT, Taussig R, Bourne HR, Arkin AP, Cobb MH, Cyster JG, Devreotes PN, Ferrell JE, Fruman D, Gold M, Weiss A, Stull JT, Berridge MJ, Cantley LC, Catterall WA, Coughlin SR, Olson EN, Smith TF, Brugge JS, Botstein D, Dixon JE, Hunter T, Lefkowitz RJ, Pawson AJ, Sternberg PW, Varmus H, Subramaniam S, Sinkovits RS, Li J, Mock D, Ning Y, Saunders B, Sternweis PC, Hilgemann D, Scheuermann RH, DeCamp D, Hsueh R, Lin KM, Ni Y, Seaman WE, Simpson PC, O'Connell TD, Roach T, Simon MI, Choi S, Eversole-Cire P, Fraser I, Mumby MC, Zhao Y, Brekken D, Shu H, Meyer T, Chandy G, Heo WD, Liou J, O'Rourke N, Verghese M, Mumby SM, Han H, Brown HA, Forrester JS, Ivanova P,Milne SB, Casey PJ, Harden TK, Arkin AP, Doyle J, Gray ML, Meyer T, Michnick S, Schmidt MA, Toner M, Tsien RY, Natarajan M, Ranganathan R, Sambrano GR. (2002) Overview of the Alliance for Cellular Signaling. Nature 420: 703-6.
  • Sangdun Choi (2002) Transcript Profiling by Microarray Analysis. Nature-The Signaling Gateway.
  • Sangdun Choi (2002) Size matters = afcs.org. Korea Genome Organization News. 2(2): p3-5.
  • Sangdun Choi (2002) Eternal Life. Korea Genome Organization News. 2(3): p9-11.
  • Sangdun Choi (2002) Current issues and technologies of DNA microarrays. Korea Genome Organization News. 2(1): p2-4.
  • Jonathan M. Levenson, Sangdun Choi, Melvin I. Simon, J. David Sweatt (2002) Genomic blueprint for formation of contextual fear memory. Neuroscience, Nov. 2-7, 2002. Orlando, FL. 84.14.

2001

  • Eric Lander .. Sangdun Choi, et al. (2001) Initial sequencing and analysis of the human genome. Nature (2001) 409:860-921. PMID: 11237011.
  • Sangdun Choi and Ung-Jin Kim (2001) Construction of a bacterial artificial chromosome library. In Genomics Protocol. Methods Mol Biol. The Humana Press Inc., U.K. (R. Elaswarapu and M. Starkey, Eds.) 175: p57-68.
  • Yang, Z. N., Ye, X. R., Choi, S., Molina, J., Moonan, F., Wing, R. A., Roose, M. L., and Mirkov. (2001) T. E. Construction of a 1.2 MB contig in the Citrus Tristeza virus resistance gene locus using a bacterial artificial chromosome library of Poncirus trifoliate (L.) RAF. Genome 44:382-393.
  • Sangdun Choi and Ung-Jin Kim (2001) Construction of a bacterial artificial chromosome library. In Genomics Protocol. Methods Mol Biol. The Humana Press Inc., U.K. (R. Elaswarapu and M. Starkey, Eds.) 175: p57-68.
  • Sangdun Choi (2001) Gene Stories. Korea Genome Organization News. 1(5): p10-11.
  • Sangdun Choi (2001) Array of Arrays. Korea Genome Organization News. 1(4): p4-6.
  • Sangdun Choi (2001) Genome Era. Korea Genome Organization News. 1(2): p3-5.
  • Sangdun Choi et al. (2001) Light-induced apoptosis. The Scientist.

2000

  • Sangdun Choi and Rod A. Wing (2000) Construction of Bacterial Artificial Chromosome (BAC) Libraries. In Plant Molecular Biology Manual (2 ed) Kluwer Academic Publishers, The Netherlands (S. Gelvin and R. Schilperoort, Eds.) H5, 1-28.
  • Sangdun Choi (2000) Functional genomics. The Biochemistry News 19(3): 215-219.
  • Tomkins, J. P., Miller-Smith, H., Sasinowski, M., Choi, S., Sasinowska, H., Verce, M., Freedman, D. L., Dean, R. A., and Wing, R. A. (2000) Physical map and organization of the Ochrobactrum anthropi genome using bacterial artificial chromosome contigs. Microbial & Comparative Genomics 4(3): 203-217.