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Frequent inactivation of SPARC by promoter hypermethylation in colon cancers
Yang, Eungi,Kang, Hyun Ju,Koh, Kwi Hye,Rhee, Hwanseok,Kim, Nam Kyu,Kim, Hoguen Alan R. Liss, Inc 2007 International journal of cancer Vol.121 No.3
<P>Epigenetic modification of gene expression plays an important role in the development of human cancers. The inactivation of SPARC through CpG island methylation was studied in colon cancers using oligonucleotide microarray analysis and methylation specific PCR (MSP). Gene expression of 7 colon cancer cell lines was evaluated before and after treatment with the demethylating agent 5-aza-2′-deoxycytidine (5Aza-dC) by oligonucleotide microarray analysis. Expression of SPARC was further examined in colon cancer cell lines and primary colorectal cancers, and the methylation status of the SPARC promoter was determined by MSP. SPARC expression was undetectable in 5 of 7 (71%) colorectal cancer cell lines. Induction of SPARC was demonstrated after treatment with the demethylating agent 5Aza-dC in 5 of the 7 cell lines. We examined the methylation status of the CpG island of SPARC in 7 colon cancer cell lines and in 20 test set of colon cancer tissues. MSP demonstrated hypermethylation of the CpG island of SPARC in 6 of 7 cell lines and in all 20 primary colon cancers, when compared with only 3 of 20 normal colon mucosa. Immunohistochemical analysis showed that SPARC expression was downregulated or absent in 17 of 20 colon cancers. A survival analysis of 292 validation set of colorectal carcinoma patients revealed a poorer prognosis for patients lacking SPARC expression than for patients with normal SPARC expression (56.79% vs. 75.83% 5-year survival rate, p = 0.0014). The results indicate that epigenetic gene silencing of SPARC is frequent in colon cancers, and that inactivation of SPARC is related to rapid progression of colon cancers. © 2007 Wiley-Liss, Inc.</P>
Yang, Jeong-Soo,Kim, Jung-Ryul,Cho, EunGi,Huh, Wooseong,Ko, Jae-Wook,Lee, Soo-Youn The Korean Society for Laboratory Medicine 2015 Annals of Laboratory Medicine Vol.35 No.4
<P><B>Background</B></P><P>This study describes a novel analytical method for simultaneously determining sarpogrelate and its metabolite (M-1) in human plasma, using liquid chromatography coupled with tandem mass spectrometry, with electrospray ionization in the positive ion mode.</P><P><B>Methods</B></P><P>Sarpogrelate, M-1, and labeled internal standard (d3-sarpogrelate) were extracted from 50 µL of human plasma by simple protein precipitation. Chromatographic separation was performed by using a linear gradient elution of a mobile phase involving water-formic acid (99.9:0.1, v/v) and acetonitrile-formic acid (99.9:0.1, v/v) over 4 min of run time on a column, with a core-shell-type stationary phase (Kinetex C18, 50 mm×2.1 mm i.d., 2.6-µm particle size, Phenomenex, USA). Detection of the column effluent was performed by using a triple-quadruple mass spectrometer in the multiple-reaction monitoring mode.</P><P><B>Results</B></P><P>The developed method was validated in human plasma, with lower limits of quantification of 10 ng/mL for sarpogrelate and 2 ng/mL for M-1. The calibration curves of sarpogrelate and M-1 were linear over the concentration ranges of 10-2,000 and 2-400 ng/mL, respectively (R<SUP>2</SUP>>0.99). The carry-over effect, precision, accuracy, and stability of the method met the criteria for acceptance.</P><P><B>Conclusions</B></P><P>A simple, fast, robust, and reliable analytical method was successfully developed and applied to the high-throughput determination of sarpogrelate and its metabolite in real plasma samples in a pharmacokinetic study of healthy subjects.</P>
Oh, Dong-Geun,Kim, Eungi,Yeo, Jisuk,Yang, Kiduk,Lee, Jongwook Korea Institute of Science and Technology Informat 2019 Journal of Information Science Theory and Practice Vol.7 No.4
Due to the competitive nature of journal publishing, editorial leadership has become an increasingly important issue on many editorial teams. This study aimed to compare the major and non-Western international journals in library and information science and reveal the differences between them. To conduct this study, journals indexed by Scopus and Web of Science were analyzed in terms of gender, professional position and rank, institutions, and the iSchool status of the editorial leaders' institutions. The most notable results were the following: a) As a whole, both types of journals lacked true internationalization. Editorial leaders of major journals tended to be from Western countries, whereas editorial leaders of non-Western journals tended to be from non-Western countries; b) Most non-Western journals tended to appoint editorial leaders from the same country as the publisher's country; and c) Almost all editorial leaders of non-Western journals were from various non-Western countries and tended to have lower h-index scores, and their institutions were not part of the iSchool. Future research should assess editorial leadership, compare the results of this study to other disciplines, and find effective ways to collect data on editorial leaders while minimizing ethical concerns in order to meet future research needs.
Differentially expressed proteins in gastrointestinal stromal tumors with KIT and PDGFRA mutations
Kang, Hyun Ju,Koh, Kwi Hye,Yang, Eungi,You, Kwon Tae,Kim, Hee Jin,Paik, Young-Ki,Kim, Hoguen WILEY-VCH Verlag 2006 Proteomics Vol.6 No.4
<P>Most gastrointestinal stromal tumors (GIST) have activating mutations in either KIT or PDGFRA. However, a small subset of GIST lacks either mutation. To investigate the molecular characteristics of GIST according to mutation type, protein expression profiles in 12 GIST (2 cases with PDGFRA mutations, 8 cases with KIT mutations and 2 cases lacking either mutation) were analyzed using 2-DE and MALDI-TOF-MS.<SUP> </SUP>Comparative analysis of the respective spot patterns using 2-DE showed that 15 proteins were differently expressed according to the mutation status. Expression levels of septin and heat shock protein (HSP) 27 were increased in GIST with KIT mutations and annexin V was overexpressed in GIST lacking either mutation. Among the 15 proteins, overexpression of 5 proteins [annexin V, high mobility group protein 1 (HMGB1), C13orf2, glutamate dehydrogenase 1 and fibrinogen beta chain] and decreased expression of RoXaN correlated with a higher tumor grade. These findings suggest that differential protein expression can be used as a diagnostic biomarker. Moreover, it may play a role in the development and progression of GIST according to activating mutation type, as these proteins have been shown to be involved in tumor metastasis, apoptosis and immune response.</P>
Wolff Bernard J.,Gaines Anna,Conley Andrew B.,Norris Emily,Rishishwar Lavanya,Chande Aroon T.,Yang Eungi,Diaz Maureen H.,Winchell Jonas M. 대한진단검사의학회 2023 Annals of Laboratory Medicine Vol.43 No.4
We developed and assessed the performance of a new multiplex real-time PCR assay for the detection of all Chlamydia species and simultaneous differentiation of Chlamydia psittaci and Chlamydia pneumoniae—two important human respiratory pathogens—in human clinical specimens. Next-generation sequencing was used to identify unique targets to design real-time PCR assays targeting all Chlamydia species, C. psittaci, and C. pneumoniae. To validate the assay, we used a panel of 49 culture isolates comprising seven C. psittaci genotypes, eight C. pneumoniae isolates, seven other Chlamydia species, and 22 near-neighbor bacterial and viral isolates, along with 22 specimens from external quality assessment (EQA) panels and 34 nasopharyngeal and oropharyngeal swabs and cerebrospinal fluid, stool, and sputum specimens previously identified as positive or negative for C. psittaci or C. pneumoniae. The assays were 100% specific, with limits of detection of 7.64– 9.02 fg/μL. The assay results matched with historical assay results for all specimens, except for one owing to the increased sensitivity of the new C. psittaci assay; the results of the EQA specimens were 100% accurate. This assay may improve the timely and accurate clinical diagnosis of Chlamydia infections and provide a greater understanding of the burden of disease caused by these agents.