Sangdunchoi:Papers

Innate Immunity, Cell Signaling and Molecular Modeling Laboratory

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2023

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2022

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2021

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2020

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2019

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2. Park SH, Seo JY, Park JY, Ji YB, Kim K, Choi HS, Choi S, Kim JH, Min BH and Kim MS. An injectable, click-crosslinked, cytomodulin-modified hyaluronic acid hydrogel for cartilage tissue engineering. NPG Asia Materials volume 11, Article number: 30 (2019). DOI: 10.1038/s41427-019-0130-1

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2018

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Book Chapters:
1. Choi S. (2018). Preface. In Encyclopedia of Signaling Molecules, Ed. S Choi, pp. v-xii. New York: Springer. PDF

2. Basith S, Manavalan B, Choi S. (2018). MyD88 (Myeloid Differentiation Primary Response Gene 88). In Encyclopedia of Signaling Molecules, Ed. S Choi, pp. 3280-91. New York: Springer. PDF

3. Manavalan B, Basith S, Choi S. (2018). IkBz. In Encyclopedia of Signaling Molecules, Ed. S Choi, pp. 2512-19. New York: Springer. PDF

4. Shah M and Choi S. (2018). Interferon Regulatory Factor, Ed. S Choi, pp. 2672-80. New York: Springer. PDF

5. Krishnan J, Anwar MA, Choi S. (2018). TLR4 (Toll-Like Receptor 4), Ed. S Choi, pp. 5472-83. New York: Springer. PDF

6. Durai P and Choi S. (2018). Toll-Like Receptor 2, Ed. S Choi, pp. 5518-24. New York: Springer. PDF

7. Anwar MA and Choi S. (2018). Receptor-Interacting Protein Kinase, Ed. S Choi, pp. 4547-4555. New York: Springer. PDF

2017

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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. Link

2016

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2015

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2014

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2013

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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

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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

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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. Download 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

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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

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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

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Book Chapters:

1.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.

2.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.

3.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.

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

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• 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

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3. Hiroaki Shizuya, Sangdun Choi, and Yu-Juin Chen (2001) Supplementary Information. Initial sequencing and analysis of the human genome.

• 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

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Book Chapters:

1. 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.