Aquaporin 1 Is an Independent Marker of Poor Prognosis in Lung Adenocarcinoma

Sumi Yun,Ping-Li Sun,Yan Jin,김효진,박은향,박수영,이규호,이경열,정진행 대한병리학회 2016 Journal of Pathology and Translational Medicine Vol.50 No.4

Background: Aquaporin 1 (AQP1) overexpression has been shown to be associated with uncontrolled cell replication, invasion, migration, and tumor metastasis. We aimed to evaluate AQP1 expression in lung adenocarcinomas and to examine its association with clinicopathological features and prognostic significance. We also investigated the association between AQP1 overexpression and epithelial-mesenchymal transition (EMT) markers. Methods: We examined AQP1 expression in 505 cases of surgically resected lung adenocarcinomas acquired at the Seoul National University Bundang Hospital from 2003 to 2012. Expression of AQP1 and EMT-related markers, including Ecadherin and vimentin, were analyzed by immunohistochemistry and tissue microarray. Results: AQP1 overexpression was associated with several aggressive pathological parameters, including venous invasion, lymphatic invasion, and tumor recurrence. AQP1 overexpression tended to be associated with higher histological grade, advanced pathological stage, and anaplastic lymphoma kinase (ALK) translocation; however, these differences were not statistically significant. In addition, AQP1 overexpression positively correlated with loss of E-cadherin expression and acquired expression of vimentin. Lung adenocarcinoma patients with AQP1 overexpression showed shorter progression-free survival (PFS, 46.1 months vs. 56.2 months) compared to patients without AQP1 overexpression. Multivariate analysis confirmed that AQP1 overexpression was significantly associated with shorter PFS (hazard ratio, 1.429; 95% confidence interval, 1.033 to 1.977; p = .031). Conclusions: AQP1 overexpression was thereby concluded to be an independent factor of poor prognosis associated with shorter PFS in lung adenocarcinoma. These results suggested that AQP1 overexpression might be considered as a prognostic biomarker of lung adenocarcinoma.

Ligand-Independent Epidermal Growth Factor Receptor Overexpression Correlates with Poor Prognosis in Colorectal Cancer

Yun, Sumi,Kwak, Yoonjin,Nam, Soo Kyung,Seo, An Na,Oh, Heung-Kwon,Kim, Duck-Woo,Kang, Sung-Bum,Lee, Hye Seung Korean Cancer Association 2018 Cancer Research and Treatment Vol.50 No.4

<P><B>Purpose</B></P><P>Molecular treatments targeting epidermal growth factor receptors (EGFRs) are important strategies for advanced colorectal cancer (CRC). However, clinicopathologic implications of EGFRs and EGFR ligand signaling have not been fully evaluated. We evaluated the expression of EGFR ligands and correlation with their receptors, clinicopathologic factors, and patients’ survival with CRC.</P><P><B>Materials and Methods</B></P><P>The expression of EGFR ligands, including heparin binding epidermal growth factor-like growth factor (HBEGF), transforming growth factor (TGF), betacellulin, and epidermal growth factor (EGF), were evaluated in 331 consecutive CRC samples using mRNA <I>in situ</I> hybridization (ISH). We also evaluated the expression status of EGFR, human epidermal growth factor receptor 2 (HER2), HER3, and HER4 using immunohistochemistry and/or silver ISH.</P><P><B>Results</B></P><P>Unlike low incidences of <I>TGF</I> (38.1%), <I>betacellulin</I> (7.9%), and <I>EGF</I> (2.1%), <I>HBEGF</I> expression was noted in 62.2% of CRC samples. However, the expression of each EGFR ligand did not reveal significant correlations with survival. The combined analyses of EGFR ligands and EGFR expression indicated that the ligands‒/EGFR+ group showed a significant association with the worst disease-free survival (DFS; p=0.018) and overall survival (OS; p=0.005). It was also an independent, unfavorable prognostic factor for DFS (p=0.026) and OS (p=0.007). Additionally, HER4 nuclear expression, regardless of ligand expression, was an independent, favorable prognostic factor for DFS (p=0.034) and OS (p=0.049), by multivariate analysis.</P><P><B>Conclusion</B></P><P>Ligand-independent EGFR overexpression was suggested to have a significant prognostic impact; thus, the expression status of EGFR ligands, in addition to EGFR, might be necessary for predicting patients' outcome in CRC. </P>

Improved Hydrolysis of Organophosphorus Compounds by Engineered Human Prolidases

Yun, Hyeongseok,Lee, Sungrae,Kim, Sumi,Yu, Jiyeon,Lee, Nari,Lee, Jinhee,Kim, Nam Doo,Yu, Chiho,Rho, Jaerang Bentham Science 2017 Protein and peptide letters Vol.24 No.7

<P>Conclusion: We report here that by introducing either the A252R or P365R substitution mutation, the structural changes affecting catalytic turnover rate and substrate binding affinity are valuable in improving the catalytic activity of human prolidase towards toxic organophosphorus compound hydrolysis.</P>

Prevertebrate Local Gene Duplication Facilitated Expansion of the Neuropeptide GPCR Superfamily

Yun, Seongsik,Furlong, Michael,Sim, Mikang,Cho, Minah,Park, Sumi,Cho, Eun Bee,Reyes-Alcaraz, Arfaxad,Hwang, Jong-Ik,Kim, Jaebum,Seong, Jae Young University of Chicago Press 2015 Molecular biology and evolution Vol.32 No.11

<P>In humans, numerous genes encode neuropeptides that comprise a superfamily of more than 70 genes in approximately 30 families and act mainly through rhodopsin-like G protein-coupled receptors (GPCRs). Two rounds of whole-genome duplication (2R WGD) during early vertebrate evolution greatly contributed to proliferation within gene families; however, the mechanisms underlying the initial emergence and diversification of these gene families before 2R WGD are largely unknown. In this study, we analyzed 25 vertebrate rhodopsin-like neuropeptide GPCR families and their cognate peptides using phylogeny, synteny, and localization of these genes on reconstructed vertebrate ancestral chromosomes (<I>VAC</I>s). Based on phylogeny, these GPCR families can be divided into five distinct clades, and members of each clade tend to be located on the same <I>VAC</I>s. Similarly, their neuropeptide gene families also tend to reside on distinct <I>VAC</I>s. Comparison of these GPCR genes with those of invertebrates including <I>Drosophila melanogaster</I>, <I>Caenorhabditis elegans</I>, <I>Branchiostoma floridae</I>, and <I>Ciona intestinalis</I> indicates that these GPCR families emerged through tandem local duplication during metazoan evolution prior to 2R WGD. Our study describes a presumptive evolutionary mechanism and development pathway of the vertebrate rhodopsin-like GPCR and cognate neuropeptide families from the urbilaterian ancestor to modern vertebrates.</P>

항목명 중심의 데이터셋 자동연계 방법

황윤영(Yun-Young Hwang),신수미(Sumi Shin) 한국정보과학회 2021 한국정보과학회 학술발표논문집 Vol.2021 No.12

Clinical Performance of Two Automated Immunoassays, EliA CTD Screen and QUANTA Flash CTD Screen Plus, for Antinuclear Antibody Screening

Yoon Sumi,Moon Hee-Won,Kim Hanah,Hur Mina,Yun Yeo-Min 대한진단검사의학회 2022 Annals of Laboratory Medicine Vol.42 No.1

Background: Recently, two fully automated immunoassays for antinuclear antibody (ANA) screening were introduced: EliA CTD Screen (Thermo Fisher Scientific, Freiburg, Germany) and QUANTA Flash CTD Screen Plus (Inova Diagnostics, San Diego, USA). We evaluated their clinical performance in comparison with the indirect immunofluorescence assay (IIFA) and analyzed samples with discrepant results. Methods: In total, 406 serum samples (206 from patients undergoing routine checkups and 200 from rheumatology clinic patients) were assayed using EliA, QUANTA Flash, and IIFA. We evaluated assay concordance and agreement and confirmed the presence of anti-extractable nuclear antigen (ENA) antibodies in samples with discrepant automated immunoassay and IIFA results. Additionally, we compared the clinical performance of each assay in diagnosing ANA-associated rheumatic disease (AARD) and adjusted the cut-off values. Results: In rheumatology clinic samples, the concordance and agreement were 91.5% and strong between EliA and QUANTA Flash, 79.0% and weak between EliA and IIFA, and 80.5% and moderate between QUANTA Flash and IIFA, respectively. In automated immunoassay-positive, IIFA-negative samples (N=15), all anti-ENA antibodies detected (6/15) were anti-Sjögren’s syndrome antigen A/Ro (Ro60) antibodies. The automated immunoassays and IIFA showed high accuracy for diagnosing AARD, and adjusted cut-off values improved their sensitivities (EliA with 0.56 ratio, 82.9% sensitivity; QUANTA Flash with 9.7 chemiluminescent units, 87.8% sensitivity). Conclusions: The two automated immunoassays showed reliable performance compared with IIFA and can be efficiently used with the IIFA in clinical immunology laboratories. Clinical cut-off values can be adjusted according to the workflow in each laboratory.

부산 장산 지역의 구과상(球球球) 유문암에 대한 암석학적 연구

박수미(Sumi Park),윤성효(Sung-Hyo Yun) 한국암석학회 2013 암석학회지 Vol.22 No.3

부산광역시 동부의 장산화산암체는 화산함몰체로 알려져 있고, 화산함몰체 외각부를 따라 구과상 유문암이 60°~90°의 각도로 수직유상구조를 보여주며 환상암맥으로 나타난다. 구과의 직경은 수 mm에서 2.8 cm 이상이며, 평균적으로 5~10 mm로 측정되었다. 이들 구과는 하나의 핵을 중심으로 방사상을 나타내는 단식 구과형과 육안상 흰색을 띠는 각을 가지면서 핵 부분을 중심으로 방사상을 나타내는 방사상 단식 구과형으로 비교적 단순한 형태를 보여주며, 이들 구과들이 서로 인접하여 합체된 포도송이와 같은 집합체를 보여주기도 한다. 구과의 동심원상 핵 부분에 대한 전자현미분석 결과, 은미정질 기질부 물질의 성분은 주로 SiO₂가 거의 82% 이상, Al₂O₃는 7~10%, Na₂O+K₂O는 8% 이하의 실리카 물질과 장석(새니딘)의 미세한 섬유상 교생으로 나타났다. 구과에 대한 X-선 회절분석 결과, 석영, 새니딘, 앨바이트 그리고 소규모의 운모, 카오린, 녹니석으로 구성되며, X-선 면분석 결과, 핵 부분은 SiO₂가 풍부하며, 각 부분은 Na₂O 또는 K₂O, Al₂O₃가 풍부하였다. 장산콜드론의 유문암 암맥에서 나타나는 구과의 깃털형과 비등형 결정 형태는 마그마 관입에 의한 이동속도보다 유리질 물질로부터 탈유리화작용이 더 빠른 속도로 진행되었고, 비교적 정체된 상태에서 급속한 냉각으로 형성되었음을 지시한다. 구과들은 고규산(75.4~75.7 wt.%) 유문암질 마그마로부터 유래되었다. Spherulitic rhyolite occur as part of ring dyke which showing a vertical flowage of 60°~90°, of the Jangsan cauldron was studied. The spherulites range in diameter from a few millimeters to 2.8 centimeters or more, and average 5~10 millimeters. It belongs to radiated simple spherulite type. They consist of a core of moderate brown dense material encased by a thin crust, a few millimeters thick at most of white grey material. The spherulites frequently have a radiating fibrous structure, which are thought to have formed as a consequence of rapid mineral growth caused by very fast cooling of the dykes in shallow depth near the surface. EPMA examination of the concentric-zoned core of spherulites show that they are mainly composed of cryptocrystalline-fibrous intergrowth of silica minerals and alkali feldspars which have SiO₂ 82% or more, Al₂O₃ 7~10%, Na₂O+K₂O less than 8%. The feldspar compositions of the spherulites lie essentially within the sanidine field. XRD examination show that spherulites are mainly composed of quartz, sanidine, albite with minor mica, kaolinite and chlorite. According to X-ray mapping, the spherulites are enriched in SiO₂ in the core and partly enriched Na₂O or K₂O, Al₂O₃ in the shell that reflect in compositional zoning with increasing spherulitic devitrification. The feathery and non-equant crystal shapes of spherulites from rhyolite dyke of Jangsan cauldron suggest that they may have formed during the rapid cooling of dyke under the static state, or faster velocity of devitrification from glassy materials than movement velocity of the magma intrusion. The spherulitic rhyolite originated from high-silica(75.4~75.7 wt.%) rhyolite magma.

Knowledge Model for Disaster Dataset Navigation

Hwang, Yun-Young,Yuk, Jin-Hee,Shin, Sumi Korea Institute of Science and Technology Informat 2021 Journal of Information Science Theory and Practice Vol.9 No.4

In a situation where there are multiple diverse datasets, it is essential to have an efficient method to provide users with the datasets they require. To address this suggestion, necessary datasets should be selected on the basis of the relationships between the datasets. In particular, in order to discover the necessary datasets for disaster resolution, we need to consider the disaster resolution stage. In this paper, in order to provide the necessary datasets for each stage of disaster resolution, we constructed a disaster type and disaster management process ontology and designed a method to determine the necessary datasets for each disaster type and disaster management process step. In addition, we introduce a method to determine relationships between datasets necessary for disaster response. We propose a method for discovering datasets based on minimal relationships such as "isA," "sameAs," and "subclassOf." To discover suitable datasets, we designed a knowledge exploration model and collected 651 disaster-related datasets for improving our method. These datasets were categorized by disaster type from the perspective of disaster management. Categorizing actual datasets into disaster types and disaster management types allows a single dataset to be classified as multiple types in both categories. We built a knowledge exploration model on the basis of disaster examples to ensure the configuration of our model.

표적 SAR 시뮬레이션 영상을 이용한 식별 성능 분석

이수미 ( Sumi Lee ),이윤경 ( Yun-kyung Lee ),김상완 ( Sang-wan Kim ) 대한원격탐사학회 2022 大韓遠隔探査學會誌 Vol.38 No.3

Synthetic Aperture Radar (SAR)영상은 날씨와 주야에 관계없이 취득될 수 있어 감시, 정찰 및 국토안보 등의 목적을 위한 자동표적인식(Automatic Target Recognition, ATR)에 활용 가능성이 높다. 그러나, 식별 시스템 개발을 위해 다양하고 방대한 양의 시험영상을 구축하는 것은 비용, 운용측면에서 한계가 있다. 최근 표적 모델을 이용하여 시뮬레이션된 SAR 영상에 기반한 표적 식별 시스템 개발에 대한 관심이 높아지고 있다. SARATR 분야에서 대표적으로 이용되는 산란점 매칭과 템플릿 매칭 기반 알고리즘을 적용하여 표적식별을 수행하였다. 먼저 산란점 매칭 기반의 식별은 점을 World View Vector (WVV)로 재구성 후 Weighted Bipartite Graph Matching (WBGM)을 수행하였고, 템플릿 매칭을 통한 식별은 서로 인접한 산란점으로 재구성한 두 영상간의 상관계수를 사용하였다. 개발한 두 알고리즘의 식별성능시험을 위해 최근 미국 Defense Advanced Research Projects Agency (DARPA)에서 배포한 표적 시뮬레이션 영상인 Synthetic and Measured Paired Labeled Experiment (SAMPLE) 자료를 사용하였다. 표준 환경, 표적의 부분 폐색, 랜덤 폐색 정도에 따른 알고리즘 성능을 분석하였다. 산란점 매칭 알고리즘의 식별 성능이 템플릿 매칭보다 전반적으로 우수하였다. 10개 표적을 대상으로 표준 환경에서의 산란점 매칭기반 평균 식별률은 85.1%, 템플릿 매칭기반은 74.4%이며, 표적별 식별성능 편차 또한 산란점 매칭기법이 템플릿 매칭기법보다 작았다. 표적의 부분 폐색정도에 따른 성능은 산란점 매칭기반 알고리즘이 템플릿 매칭보다 약 10% 높고, 표적의 랜덤 폐색 60% 발생에도 식별률이 73.4% 정도로 비교적 높은 식별성능을 보였다. As Synthetic Aperture Radar (SAR) image can be acquired regardless of the weather and day or night, it is highly recommended to be used for Automatic Target Recognition (ATR) in the fields of surveillance, reconnaissance, and national security. However, there are some limitations in terms of cost and operation to build various and vast amounts of target images for the SAR-ATR system. Recently, interest in the development of an ATR system based on simulated SAR images using a target model is increasing. Attributed Scattering Center (ASC) matching and template matching mainly used in SAR-ATR are applied to target classification. The method based on ASC matching was developed by World View Vector (WVV) feature reconstruction and Weighted Bipartite Graph Matching (WBGM). The template matching was carried out by calculating the correlation coefficient between two simulated images reconstructed with adjacent points to each other. For the performance analysis of the two proposed methods, the Synthetic and Measured Paired Labeled Experiment (SAMPLE) dataset was used, which has been recently published by the U.S. Defense Advanced Research Projects Agency (DARPA). We conducted experiments under standard operating conditions, partial target occlusion, and random occlusion. The performance of the ASC matching is generally superior to that of the template matching. Under the standard operating condition, the average recognition rate of the ASC matching is 85.1%, and the rate of the template matching is 74.4%. Also, the ASC matching has less performance variation across 10 targets. The ASC matching performed about 10% higher than the template matching according to the amount of target partial occlusion, and even with 60% random occlusion, the recognition rate was 73.4%.

Stimulus-Responsive Azobenzene Supramolecules: Fibers, Gels, and Hollow Spheres

Lee, Sumi,Oh, Seungwhan,Lee, Joosub,Malpani, Yashwardhan,Jung, Young-Sik,Kang, Baotao,Lee, Jin Yong,Ozasa, Kazunari,Isoshima, Takashi,Lee, Sang Yun,Hara, Masahiko,Hashizume, Daisuke,Kim, Jong-Man American Chemical Society 2013 Langmuir Vol.29 No.19

<P>Novel, stimulus-responsive supramolecular structures in the form of fibers, gels, and spheres, derived from an azobenzene-containing benzenetricarboxamide derivative, are described. Self-assembly of tris(4-((<I>E</I>)-phenyldiazenyl)phenyl)benzene-1,3,5-tricarboxamide (<B>Azo-1</B>) in aqueous organic solvent systems results in solvent dependent generation of microfibers (aq DMSO), gels (aq DMF), and hollow spheres (aq THF). The results of a single crystal X-ray diffraction analysis of <B>Azo-1</B> (crystallized from a mixture of DMSO and H<SUB>2</SUB>O) reveal that it possesses supramolecular columnar packing along the <I>b</I> axis. Data obtained from FTIR analysis and density functional theory (DFT) calculation suggest that multiple hydrogen bonding modes exist in the <B>Azo-1</B> fibers. UV irradiation of the microfibers, formed in aq DMSO, causes complete melting while regeneration of new fibers occurs upon visible light irradiation. In addition to this photoinduced and reversible phase transition, the <B>Azo-1</B> supramolecules display a reversible, fiber-to-sphere morphological transition upon exposure to pure DMSO or aq THF. The role played by amide hydrogen bonds in the morphological changes occurring in <B>Azo-1</B> is demonstrated by the behavior of the analogous, ester-containing tris(4-((<I>E</I>)-phenyldiazenyl)phenyl)benzene-1,3,5-tricarboxylate (<B>Azo-2</B>) and by the hydrogen abstraction in the presence of fluoride anions.</P><P><B>Graphic Abstract</B> <IMG SRC='http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/langd5/2013/langd5.2013.29.issue-19/la400159m/production/images/medium/la-2013-00159m_0013.gif'></P><P><A href='http://pubs.acs.org/doi/suppl/10.1021/la400159m'>ACS Electronic Supporting Info</A></P>