Prediction of protein oligomer structures using GALAXY in CASP13

Baek, Minkyung,Park, Taeyong,Woo, Hyeonuk,Seok, Chaok John WileySons, Inc. 2019 Proteins Vol.87 No.12

<P><B>Abstract</B></P><P>Many proteins need to form oligomers to be functional, so oligomer structures provide important clues to biological roles of proteins. Prediction of oligomer structures therefore can be a useful tool in the absence of experimentally resolved structures. In this article, we describe the server and human methods that we used to predict oligomer structures in the CASP13 experiment. Performances of the methods on the 42 CASP13 oligomer targets consisting of 30 homo‐oligomers and 12 hetero‐oligomers are discussed. Our server method, Seok‐assembly, generated models with interface contact similarity measure greater than 0.2 as model 1 for 11 homo‐oligomer targets when proper templates existed in the database. Model refinement methods such as loop modeling and molecular dynamics (MD)‐based overall refinement failed to improve model qualities when target proteins have domains not covered by templates or when chains have very small interfaces. In human predictions, additional experimental data such as low‐resolution electron microscopy (EM) map were utilized. EM data could assist oligomer structure prediction by providing a global shape of the complex structure.</P>

미디어의 사회적 죽음에 대한 재현과 맥락적 의미 -고(故) 노무현 대통령 서거 TV 보도에 대한 기호네트워크 분석(Semiotic Network Analysis)-

백선기 ( Seon Gi Baek ),김강석 ( Kang Seok Kim ) 한국기호학회 2009 기호학연구 Vol.26 No.-

The purpose of this study was to investigate patterns of media coverage on the death of former president Moo-Hyun Roh, and its social, political and ideological meanings in the context to Korean society. He had been a central figure who would turn the Korean society into very severe conflicts politically as well as ideologically. Nonetheless, after this death, the Korean society changed rapidly from the atmosphere of criticizing him into the climate for cherishing his great contribution. The authors raised three research questions; that is, `Were there any differences in covering his death among TV stations? If there were differences, what were they?`, `What were differences in types of representation and discourses among TV coverages?` and `What were ideological meanings in such kinds of different types of representation and discourse?`. In order to answer these research questions, they collected news items of three TV stations-that is, KBS 1-TV, MBC TV and SBS TV-from May 23, 2009 to June 10, 2009, and analyzed them through semiotic research methods, especially, Seon-Gi Baek`s `Semitoic Network Analysis(SNA)` and `Discoursive Structure Analysis(DSN)`. As a result of this study, first of all, it was found that there were differences in covering his death among three TV stations on the basis of its own ideological position and favor for or disfavor against him. Second, Korean TV media tended to pay attention to causes of his commit suicide as if it would be a normal incident of commit suicide in order to depoliticize it. Third, they tended not to focus various meanings of his death personally but to emphasize on political and ideological meanings of his death socially in the context to Korean society. In conclusion, the Korean media had a tendency of covering his death differently on the basis of its own political and ideological position: that is, the one tried to put more ideological and political meanings on his death, while the others were inclined to put more personal meanings on his death through de-politicizing meanings of his death.

초음파법을 이용한 콘크리트 시공이음부 공극 및 내부공동의 화상검출 해석에 관한 연구

박석균,백운찬,이한범 대전대학교 산업기술연구소 2000 산업기술연구소 論文集 Vol.11 No.2

The joint and void treatment of concrete is one of the technical problems in construction. Joints and voids created with the construction result in serious weakness from the aspects of both structural and water-barrier function. Ultrasonic image processing technique was used for the inspection of construction joints of SRC(Steel-frame Reinforced Concrete) column and voids of concrete block in this study. The advantages and limitations of this technique for non-destructive inspection in construction joints and voids are investigated. As a result, it has been verified that the semi-direct measurement type is more effective than the other types for detecting the construction joints and voids using ultrasonic method.

항균제 사용에 대한 감염내과의사의 의견에 대한 담당의사의 순응도와 단기효과

김백남,진규복,홍윤석 대한감염학회 2004 감염과 화학요법 Vol.36 No.3

crobial utilization density로 환산하여 분기별로 비교하였다. 결과 : 부적절한 처방사례는 전체의 85.6%이었으며, 치료적 사용인 경우 73.7%가 부적절하였으며, 예방적 사용인 경우는 모두 부적절하였다. 감염내과의사의 의견에 대한 담당의사의 순응도는 46.5%이었으며, 외과계에 비해 내과계 지료과에서(64.2% vs. 43.1%, P=0.005), 예방적 사용에 비해 치료적 사용인 경우(54.7% vs. 36.5%, P=0.001) 순응도가 높았다. Aminoglycoside계열 향균제는 2002년 1사분기 때 269.1 AUD에서 2003년 2사분기 때 171.8 AUD로, antipseudomonal cephalosporin계열 항균제는 112.1 AUD에서 64.5 AUD로 감소하였으며, 입원환자 전체에서 정주용 항균제의 사용은 2002년 1사분기 때 770.8 AUD에서 2003년 2사분기 때는 626.8 AUD로 감소하였다(모두, P<0.01). 결론 : 순응도가 비교적 낮은데도 이와 같은 방법으로 항균제 사용량의 감소가 관찰되었지만, 적절한 항균제 사용을 유도하기 위해서는 더 효과적이고 효율적인 항균제 관리 체제의 개발과 수용이 필요하다. Background : Many strategies have been developed to guide more appropriate and cost-effective antibiotic use in hospitals. This study was done to evaluate compliance and short-term impact of targeted antibiotic advisory consult implemented in our hospital since October 2002. Materials and methods : A total of 339 prescriptions in 187 patients were retrospectively reviewed and antimicrobial utilization density was compared quarterly from January 2002 through June 2003. Results : Overall, 85.6% of prescriptions were inappropriate, with 73.7% being inappropriate for therapeutic regimens and 100% for prophylactic regimens. Overall compliance was 46.5%. The compliance was higher in the medical services than in the surgical services (64.2% vs. 43.1%, P=0.005) and for therapeutic use than for prophylactic use (54.7% vs. 36.5%, P=0.001). From 1Q 2002 to 2Q 2003, use of aminoglycosides was reduced from 269.1 AUD to 171.8 AUD, and that for antipseudomonal cephalosporins from 112.1 AUD to 64.5 AUD (both, P<0.01). Overall, inpatient use of parenteral antibiotics was decreased from 770.8 AUD to 626.8 AUD (P<0.01). Conclusion : Targeted antibiotic advisory consult resulted in substantial reduction in antibiotic use despite relatively poor compliance. This type of antibiotic control program can be an alternative for hospitals with limited human resources trying to implement an antibiotic policy.

초음파법을 이용한 콘크리트 역타시공 이음부 공극의 화상검출특성

박석균,백운찬,이한범,김명모 한국비파괴검사학회 2000 한국비파괴검사학회지 Vol.20 No.4

최근 역타시공법 등에 의한 콘크리트 구조물의 시공이 증가 추세에 있다. 이 경우, 자주 발생되는 신ㆍ구타설 콘크리트 시공이음부의 공극은 향후 구조물의 구조적인 특성과 내구성 등에 큰 영향을 미치게 된다. 그러나 현재 제안되고 있는 비파괴 검사법으로는 효과적으로 이음부 공극을 평가하기에 많은 한계가 있다. 본 연구에서는 시공이음부의 콘크리트 충전상태를 평가하기 위해 철골철근 콘크리트와 무근 콘크리트 시험체내에 공극을 모의제작한 후, 초음파속도 측정을 실시하고, 화상처리기법을 이용하여 비교적 용이하게 해석 가능한 방법에 대해 검토하였다.

분수로 분류부 형상에 따른 유량분배율 특성의 실험적 연구

최한규,백효선,이석환 江原大學校 産業技術硏究所 2002 産業技術硏究 Vol.22 No.A

The divided channel is not often used on the river and when the installation is for the controlling of the flow quantity. The determination of the channel size is not a easy task. Model tests are examined to confirm the variation of distribution rate by the method of the channel installation and the position of the structure and the adjustment of numerical simulation is executed by the comparing of the results. This study is to execute numerical model according to installation of divided channel by using AQUADYN program, the 2nd dimension numerical model, and HEC-RAS program, the 1st dimension numerical model, by the shape of divided channel. Also, it compares with difference by method about each case.

The Effect of Service Quality on Satisfaction, Image and Word-of-Mouth Intention of the Seoul Square Skating Rink Users

윤태훈,손석정,백우열 남서울대학교 2010 남서울대학교 논문집 Vol.16 No.2

본 연구는 서울광장 스케이트장의 서비스품질이 이용객들의 만족, 이미지 그리고 구전의도에 미치는 영향을 규명하는데 그 목적이 있다. 이를 위해 서울시청 앞 서울광장 스케이트장을 이용하는 시민들을 모집단으로 선정하여 편의추출법을 통해 450명을 선택한 다음 자기평가기입법으로 설문에 응답하게 하였다. 450부의 설문지 가운데 409부가 회수되었고 이 가운데 신뢰성이 떨어진다고 판단되는 30부의 설문지를 제외하고 379부가 통계분석에 이용되었다. 수집된 자료는 SPSS Ver. 10.0프로그램을 이용하여 빈도분석, 요인분석, 신뢰도분석을 실시하였으며 연구가설의 검증을 위해 t검정과 일원변량분석, 회귀분석을 실시하였다. 이상의 연구방법을 통해 도출된 결과는 다음과 같다. 첫째, 이용시민들의 성별에서는 식음서비스에서 유의한 차이가 나타났으며, 연령별에서 운영서비스와 이벤트 및 프로그램 서비스가 유의한 차이가 나타났다. 학력별로 이벤트 및 프로그램 서비스에서 유의적인 차이가 나타났으며, 연령별로 운영서비스와 이벤트 및 프로그램 서비스가 유의적인 차이가 나타났다. 직업별로는 운영서비스와 식음서비스, 안전서비스, 이용서비스에 유의한 차이가 나타났으며, 총수입별로는 이용서비스에 있어 통계적으로 유의한 차이가 있는 것으로 나타났다. 둘째, 스케이트장 서비스품질이 이용 시민행동에 미치는 영향은 먼저 서비스품질 속성인 운영서비스, 이벤트 및 프로그램 서비스, 안전서비스가 이용객들의 만족도에 유의한 영향을 미치는 것으로 나타났으며 운영, 이벤트 및 프로그램 서비스도 이용객들의 이미지에 유의한 영향을 미치는 것으로 나타났다. 결과적으로 서울광장 스케이트장이 이용객들에게 사랑 받는 명소로 자리 잡기 위해서는 우선적으로 운영과 안전에 관련된 서비스를 개선하고 강화할 필요성이 요구되고 있다. 주요어: 스케이트장, 서비스품질, 만족도, 이미지, 구전의도

새로운 이중모드 자력복구 채널등화 알고리즘

황유모,류석규,백관현 明知大學校 産業技術硏究所 2000 産業技術硏究所論文集 Vol.19 No.-

We propose a robust blind equalization algorithm based on quadrant-partitioned constellations for QAM demodulation. The algorithm divides the received M-QAM constellation into simple four quadrant. The channel equalization for symbols in each quadrant can be accomplished fast and reliably using the Constant Modulus Algorithm(CMA) and the Dual-mode Algorithm, Test results confirm that the proposed algorithm with lower complexity outperforms both the Dual-Mode Modified Constant Modulus Algorithm(DM-MCMA) and the Dual-Mode Generalized Sato Algorithm(DMGSA)in reducing the SER as well as the MSE at the equalizer output.

노인 인구에서 신경인지기능저하와 혈청 지질농도와의 상관성

유영선,최석주,정성수,김지은,윤성욱,전동욱,백준형,박성우,이정구,추일한,김영훈 大韓神經精神醫學會 2008 신경정신의학 Vol.47 No.6

Objectives : In this study, the authors evaluated the correlation between eurocognitive impairments and serum lipids levels among Korean elderly over the age of 65. Methods : A total of 609 elderly individuals participated in this study. Screening for cognitive impairments were carried out using the Mini-Mental Status Examination-Korean version (MMSE-KC). There were 197 subjects above 1.5SD Of MMSE- KC and they were evaluated using the Korean versions of the Consortium to Establish a Registry for Alzheimer's Disease (AD) (CERAD-KC) and Geriatric Depression Scale (GDS-K). Results : There was a correlation between old age/low levels of education and AD (p<0.05, P<0.01). There was an inverse correlation between the serum level of total cholesterol and the word list recognition test scores. The serum levels of LDL cholesterol were inversely correlated with the scores on the constructional praxis test, word list recall test and word list recognition test. Inverse correlations between the serum level of triglyceride and scores on the word list recall test and word list recognition test were also observed. Conclusion : There were inverse correlations between the serum levels of lipids and language/memory function in subjects with AD.

비부비동 반정성 유두종의 전산화 단층촬영상과 자기공명영상의 분석

배창훈,서영중,이석춘,천승민,백운희,정은채,송시연,김용대 영남대학교 의과대학 2005 Yeungnam University Journal of Medicine Vol.22 No.2

Background: Computed tomography (CT) is commonly used to evaluate the degree of sinus involvement in case of inverted papilloma (IP). However, CT cannot differentiate tumor from adjacent inflammatory mucosa or retained secretions. By contrast, magnetic resonance imaging (MRI) has been reported to be useful in distinguishing IP from paranasal sinusitis. This study investigated whether preoperative assessment with MRI and CT accurately predict the extent of IP. Materials and methods: CT and MRI were retrospectively reviewed in 9 case of IP. Patients were categorized into staged based on CT and MRI findings according to the staging system proposed by Krouse. The involvement of IP in each sinus was also assessed. Results: Differentiation of IP from inflammatory disease may be more successful in routine case where the inflammatory mucosa has low signal intensity on T1-weighted images and very high signal intensity on T2-weighted images. CT imaging could not differentiate tumor from adjacent inflammatory mucosa or retained secretions. Conclusion: Preoperative MRI of IP can predict the location and extent of the tumor involvement in the paranasal sinuses and sometimes predicts malignant changes.