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Kim H, Hong S, Woo B, Lee S, Kwon S, You Y. EMPOWERING OLDER ADULTS WITH CHRONIC DISEASES: THE MHEALTH PROTOCOL AND FEASIBILITY TEST. Innov Aging 2017. [DOI: 10.1093/geroni/igx004.2990] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Kim H, Hong S, Woo B, Lee M, Kwon S. METHODOLOGICAL ASPECTS OF GENDER ON CAREGIVING BURDEN: EVIDENCE FROM 2015 U.S. CAREGIVING DATA. Innov Aging 2017. [DOI: 10.1093/geroni/igx004.1430] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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53
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Yang D, Kwon S, Yhim H, Park B, Park Y. Prognostic significance of interim 11
C-methionine PET for the treatment of primary central nervous system lymphoma (PCNSL). Hematol Oncol 2017. [DOI: 10.1002/hon.2439_35] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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54
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Yu GE, Kwon S, Hwang JH, An SM, Park DH, Kang DG, Kim TW, Kim IS, Park HC, Ha J, Kim CW. Effects of cell death-inducing DFF45-like effector B on meat quality traits in Berkshire pigs. GENETICS AND MOLECULAR RESEARCH 2017; 16:gmr-16-02-gmr.16029408. [PMID: 28549200 DOI: 10.4238/gmr16029408] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Cell death-inducing DFF45-like effector (CIDE) B is a member of the CIDE family of apoptosis-inducing factors. In the present study, we detected a single nucleotide polymorphism (SNP), c.414G>A, which corresponds to the synonymous SNP 414Arg, in CIDE-B in the Berkshire pigs. We also analyzed the relationships between the CIDE-B SNP and various meat quality traits. The SNP was significantly associated with post-mortem pH24h, water-holding capacity (WHC), fat content, protein content, drip loss, post-mortem temperature at 12 h (T12) and 24 h (T24) in a co-dominant model (P < 0.05). A significant association was detected between the SNP and post-mortem pH24h, fat content, protein content, drip loss, shear force, and T24 in gilts; and color parameter b*, WHC, and T24 in barrows (P < 0.05). The SNP was significantly correlated with the fat content, and CIDE-B mRNA expression was significantly upregulated during the early stage of adipogenesis, suggesting that CIDE-B may contribute towards initiation of adipogenesis (P < 0.05). Furthermore, CIDE-B mRNA was strongly expressed in the liver, kidney, large intestine, and small intestine, and weakly expressed in the stomach, lung, spleen, and white adipose tissue. These results indicate that the CIDE-B SNP is closely associated with meat quality traits and may be a useful DNA marker for improving pork quality.
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Kwon S, Kang S, Park C, Jung S, Park E, Lee J, Kim S, Woo H. P01.18 Recurrent glioblastomas reveal molecular subtypes associated with mechanistic implications of drug-resistance. Neuro Oncol 2017. [DOI: 10.1093/neuonc/nox036.094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
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56
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Kwon B, Paik NJ, Kim WS, Park JH, Kwon S. Effects of rTMS based on brain activation during language performance in stroke patients with non-fluent Aphasia (Pilot Study). Brain Stimul 2017. [DOI: 10.1016/j.brs.2017.01.503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
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57
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Kwon S, Choi D, Park I, Lee J. Novel clinical method for preventing condensation in noncontact wide-angle viewing systems. Acta Ophthalmol 2016. [DOI: 10.1111/j.1755-3768.2016.0410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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58
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Salazar Garcia M, Kwon S, Nguyen K, Sung N, Wu L, Skariah A, Dambaeva S, Gilman-Sachs A, Beaman K, Kwak-Kim J. Co-presence of increased antral follicle count and hyperandrogenism predicts the manifestation of immune inflammatory responses. Fertil Steril 2016. [DOI: 10.1016/j.fertnstert.2016.07.702] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Zhang L, Crowley G, Haider SH, Zedan M, Kwon S, Nolan A. Air Pollution and Lung Function Loss: The Importance of Metabolic Syndrome. AUSTIN JOURNAL OF PULMONARY AND RESPIRATORY MEDICINE 2016; 3:1043. [PMID: 27868109 PMCID: PMC5114002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Grants] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
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60
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Jung K, Park W, Kwon S, Lim M. AB0610 Platelet Factor 4 as A Biomarker in Korean Patients with Systemic Sclerosis. Ann Rheum Dis 2016. [DOI: 10.1136/annrheumdis-2016-eular.4867] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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61
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Jung K, Kim Y, Park W, Lim M, Carl M, Kim D, Hwang M, Cha J, Kwon S. FRI0533 The Diagnostic Performance of Post-Contrast 3-D Ultrashort Echo Time Sequence of Sacroiliitis in Patients with Axial Spondyloarthropathy Comparing with Conventional Post-Contrast Fat Suppressed T1 Weighted Sequence. Ann Rheum Dis 2016. [DOI: 10.1136/annrheumdis-2016-eular.3349] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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Jung K, Oh S, Park W, Lim M, Kwon S, Park S. SAT0199 Nmr-Based Metabolomic Analysis for The Diagnosis of Systemic Sclerosis. Ann Rheum Dis 2016. [DOI: 10.1136/annrheumdis-2016-eular.3126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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Lee HB, Kim S, Lee KM, Jung Y, Lee AC, Kim J, Bae S, Ryu HS, Yoo TK, Moon HG, Noh DY, Kwon S, Han W. Abstract P1-02-01: Genomic analysis of single cells isolated by a pulse laser retrieval system. Cancer Res 2016. [DOI: 10.1158/1538-7445.sabcs15-p1-02-01] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Abstract
Background: Isolating tumor cells of interest and harvesting histologically pure samples is important for genomic studies. Laser capture microdissection (LCM) is an established method to obtain such purified cell populations for various applications including DNA, gene expression, and single cell analyses. However, LCM possesses problems such as limited optical resolution, cell fragmentation from dissection, and adherence of adjacent tissue to the cells which interrupts with single cell isolation from tissue sections. To overcome these obstacles, we developed a high-throughput pulse laser retrieval system which uses a wavelength that minimizes damage to the cellular content and is processed with a sacrificial layer that provides applicable optical resolution. The aim of this study was to evaluate the performance of the pulse laser retrieval system to provide appropriate samples for genomic analysis using breast cancer tissue.
Methods: An indium tin oxide (ITO) coated glass slide was prepared using fresh frozen breast cancer tissue sections of 4㎛ thickness and stained by hematoxylin and eosin. The slide was mounted on the cell isolation machine and imaging was performed with a charge-coupled device camera using a 20× lens. Following identification of the target cells by a pathologist, nano-second pulsed laser (wavelength= 1064nm) was irradiated on the target. Isolated cells were collected in a polymerase chain reaction tube and whole genome amplification (WGA) was carried out using Illustra GenomiPhi V2 DNA Amplification Kit (GE Healthcare Life Sciences, Pittsburgh, PA, USA). Amplified genomic DNA was fragmented and Illumina sequencing libraries were constructed. Sequencing was carried out to generate data with 0.1∼0.2× depth throughout the whole genome for each sample. Copy number variation (CNV) was analyzed by the Variable binning algorithm.
Results: Whole genome amplification was performed using bulk tissue and 10 captured single cells from the same specimen. No difference in amplification coverage was observed between the two samples. A CNV analysis of captured single cells revealed similar CNV profiles with those in a matched bulk tumor. Whole exome sequencing (WES) of captured single cells yielded a variant frequency of 15% at a read depth of 15× and 50M base coverage, compared to 0% at 100× and 50M for WES using bulk tumor and 0.5% at 1200× and 100K for targeted sequencing using bulk tumor. Laser capture was performed for DCIS and stromal cells from the same slide. CNV analysis of the two samples showed minimal CNV in normal stromal cells in contrast to DCIS where multiple CNVs were observed.
Conclusions: Newly developed pulse laser retrieval system is suitable for capturing single cells for genomic analysis of breast cancer. WGA, WES, and CNV analysis was successfully carried out using the captured single cells and showed no difference in profile compared to those performed with bulk tissue. This method may have the potential to replace LCM for certain applications such as single cell analyses.
Citation Format: Lee H-B, Kim S, Lee K-M, Jung Y, Lee AC, Kim J, Bae S, Ryu HS, Yoo T-K, Moon H-G, Noh D-Y, Kwon S, Han W. Genomic analysis of single cells isolated by a pulse laser retrieval system. [abstract]. In: Proceedings of the Thirty-Eighth Annual CTRC-AACR San Antonio Breast Cancer Symposium: 2015 Dec 8-12; San Antonio, TX. Philadelphia (PA): AACR; Cancer Res 2016;76(4 Suppl):Abstract nr P1-02-01.
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Simons E, Kwon S, Yang C, Dell SD. Prediction of childhood atopy by questionnaire. Clin Exp Allergy 2015; 45:835-7. [PMID: 25678339 DOI: 10.1111/cea.12510] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Choi J, Yoo J, Lee M, Kim EG, Lee JS, Lee S, Joo S, Song SH, Kim EC, Lee JC, Kim HC, Jung YG, Kwon S. A rapid antimicrobial susceptibility test based on single-cell morphological analysis. Sci Transl Med 2014; 6:267ra174. [DOI: 10.1126/scitranslmed.3009650] [Citation(s) in RCA: 201] [Impact Index Per Article: 20.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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66
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Cho Y, Lee D, Lee Y, Park J, Kim K, Jung H, Ji Y, Chang U, Kwon S. Dosimetric Evaluation of Polymer Gel Dosimeter Using Saccharide in Clinical Radiation Therapy System. Int J Radiat Oncol Biol Phys 2014. [DOI: 10.1016/j.ijrobp.2014.05.2648] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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67
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Cho K, Min C, Jung J, Lee S, Lee S, Huh H, Cho S, Shim J, Chang K, Kim W, Yong Ho K, Moon S, Kim E, Yeo S, Kwon S. Dosimetric Evaluation Using MVCT Images for Adapted Plan-Dose Monitoring in Tomotherapy. Int J Radiat Oncol Biol Phys 2014. [DOI: 10.1016/j.ijrobp.2014.05.2492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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68
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Kwon S, Albright T, Gepshtein S. Invariants of center-surround interactions. J Vis 2014. [DOI: 10.1167/14.10.258] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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69
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Lee A, Karcz A, Akman R, Zheng T, Kwon S, Chou ST, Sucayan S, Tricoli LJ, Hustedt JM, Leng Q, Kahn JD, Mixson AJ, Seog J. Direct Observation of Dynamic Mechanical Regulation of DNA Condensation by Environmental Stimuli. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201403499] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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Lee A, Karcz A, Akman R, Zheng T, Kwon S, Chou ST, Sucayan S, Tricoli LJ, Hustedt JM, Leng Q, Kahn JD, Mixson AJ, Seog J. Direct observation of dynamic mechanical regulation of DNA condensation by environmental stimuli. Angew Chem Int Ed Engl 2014; 53:10631-5. [PMID: 25146232 DOI: 10.1002/anie.201403499] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2014] [Indexed: 11/08/2022]
Abstract
Gene delivery is a promising way to treat hereditary diseases and cancer; however, there is little understanding of DNA:carrier complex mechanical properties, which may be critical for the protection and release of nucleic acids. We applied optical tweezers to directly measure single-molecule mechanical properties of DNA condensed using 19-mer poly-L-lysine (PLL) or branched histidine-lysine (HK) peptides. Force-extension profiles indicate that both carriers condense DNA actively, showing force plateaus during stretching and relaxation cycles. As the environment such as carrier concentration, pH, and the presence of zinc ions changes, DNA:HK complexes showed dynamically regulated mechanical properties at multiple force levels. The fundamental knowledge from this study can be applied to design a mechanically tailored complex which may enhance transfection efficiency by controlling the stability of the complex temporally and spatially.
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Kwon S, Yoon Y, Lee B, Hong B, Kwon H. Prognostic value of elevated homocysteine level in patients with coronary artery disease. Atherosclerosis 2014. [DOI: 10.1016/j.atherosclerosis.2014.05.417] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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72
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Cho Y, Lee D, Jung H, Ji Y, Kim K, Chang U, Kwon S. SU-E-T-130: Dosimetric Evaluation of Tissue Equivalent Gel Dosimeter Using Saccharide in Radiotherapy System. Med Phys 2014. [DOI: 10.1118/1.4888460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
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73
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Lv S, Zhao J, Zhang J, Kwon S, Han M, Bian R, Fu H, Zhang Y, Pan H. Tumor necrosis factor α level in cerebrospinal fluid for bacterial and aseptic meningitis: a diagnostic meta-analysis. Eur J Neurol 2014; 21:1115-1123. [PMID: 24712836 DOI: 10.1111/ene.12441] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2014] [Accepted: 03/06/2014] [Indexed: 11/28/2022]
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Seon M, Lee M, Kim D, Lee K, Yang Y, Oh W, Choi S, Kwon S. The effects of microscale and nanoscale patterns on the proliferation of umbilical cord blood-derived mesenchymal stem cells. Cytotherapy 2014. [DOI: 10.1016/j.jcyt.2014.01.261] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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75
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Lv S, Han M, Yi R, Kwon S, Dai C, Wang R. Anti-TNF-α therapy for patients with sepsis: a systematic meta-analysis. Int J Clin Pract 2014; 68:520-8. [PMID: 24548627 DOI: 10.1111/ijcp.12382] [Citation(s) in RCA: 100] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
OBJECTIVE In humans, the role of anti-tumour necrosis factor (TNF)-α therapy in severe sepsis and septic shock is debatable. The aim of this meta-analysis was to determine the efficacy of anti-TNF-α therapies against placebo in patients with severe sepsis or septic shock. METHODS A structured literature search was undertaken to identify randomised controlled trials (RCTs) conducted in patients with severe sepsis or septic shock receiving anti-TNF-α therapy or placebo. A meta-analysis on relative risk (OR) with a 95% confidence interval (95% CI) was performed. RESULTS Seventeen studies with a total of 8971 patients were included. When all forms of anti-TNF-α therapy were pooled together, there was a significant reduction of 28-day all-cause mortality with respect to placebo (OR = 0.91, 95% CI: 0.83-0.99; p = 0.04). Subgroup analysis showed that anti-TNF-α antibodies (monoclonal and polyclonal) reduced mortality (OR = 0.90, 95% CI: 0.81-0.99; p = 0.04). Monoclonal antibodies enhanced survival (OR = 0.91, 95% CI: 0.82-1.00; p = 0.05), while polyclonal antibodies or receptor blockers did not enhance survival (OR = 0.71, 95% CI: 0.39-1.28, p = 0.25; OR = 0.95, 95% CI: 0.78-1.17, p = 0.65). There was a trend towards better survival in patients with high levels of IL-6 (> 1000 pg/ml) and patients with shock if they were treated with anti-TNF-α therapy (OR = 0.85, 95% CI: 0.72-1.00; OR = 0.80, 95% CI: 0.62-1.04). Publication bias and statistical heterogeneity (I(2) < 50% and p > 0.1) were absent. Sensitivity analysis suggests that these results are highly stable. CONCLUSIONS This meta-analysis suggests that in patients with severe sepsis (before shock), immunotherapy with anti-TNF-α monoclonal antibodies reduces overall mortality. In patients with shock or high levels of IL-6 (> 1000 pg/ml), anti-TNF-α therapy may improve survival.
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