단백질 상호작용 추출을 위한 텍스트 마이닝 기법

이현철,여은주,조완섭,김학용,유재수 충북대학교 컴퓨터정보통신 연구소 2004 컴퓨터정보통신연구 Vol.12 No.1

단백질 간의 상호작용에 대한 연구는 생물학적 프로세스를 이해하기 위해 중요한 부분이다. 이 논문의 목적은 생물학적 내용을 담고 있는 연구논문으로부터 단백질간의 상호작용을 추출하는 확장성을 가진 텍스트 마이닝 기법을 제안하는데 있다. 단백질 간의 상호작용에 대한 정보는 주로 생명과학 관련 연구논문에 존재하지만 컴퓨터로 자동으로 처리하여 상호작용에 관한 정보를 추출할 수 있기 위해서는 텍스트 마이닝 기술이 적용되어야 한다. 바이오 텍스트 마이닝에서 대두되고 있는 중요한 쟁점은 대용량의 연구논문에서 필요한 정보를 어떻게 효율적으로 정확하게 추출할 것인가에 대한 내용이다. 또한, 관심이 있는 단백질의 종류나 상호작용에 대한 관련성을 나타내는 문장내 패턴의 다양성을 수용하기 위하여 시스템의 확장성을 높이는 것도 소프트웨어 공학적인 측면에서 중요한 이슈이다. The research for protein-protein interactions remains an important part to understand the biological process. This paper suggests a text mining technique with extensibility, which extracts the protein-protein interaction from the biological research papers. There is much information related to the protein-protein interactions in plentiful biological research papers, we need the text-mining technique to extract the protein-protein interaction information automatically and rapidly. The main issue in bio-textming lays how to extract the necessary information efficiently and correctly. In addition, it is a significant issue to accommodate the concerned kinds of proteins and the diversity patterns in sentences with the relevance about protein-protein interactions in order to increase system extendibility in aspect of software engineering.

흑두로 제조한 청국에서 분리된 Bacillus subtillus BB-1으로부터 혈전용해효소 유전자 크로닝 및 특성규명

이영훈,이성호,전주미,김홍출,조용운,박기훈,최영주,갈상완 Plant molecular biology and biotechnology research 2005 Plant molecular biology and biotechnology research Vol.2005 No.

A bacterium producing five fibrinolytic isozymes was isolated from black bean chung kuk. The bacterium was identified as Bacillus subtilis BB-1 by 16s rDNA sequence homology search. A gene out of five fibrinolytic genes in the Bacillus subtilis BB-1 was cloned by shot-gun method. A Cla ⅠDNA fragment of B. subtilis BB-1 chromosome was cloned in to pBluescript ⅡSK(-) and showed the fibrinolytic activity to bacterial cells. The Cla ⅠDNA fragment was sequenced and the sequences did not show homology with gene for protease or fibrinolytic enzyme genes in other organisms. The Cla ⅠDNA fragment was reduced to 2,142 bp by activity-guided PCR cloning method. The optimum pH and temperature of the enzyme were 5.0 and 35℃, respectively. Substrate specificity of the fibrinolytic enzyme was detected in skim milk, casein, gelatin and blood agar plates. The activity of the enzyme was not detected with these substrates. Taken together, this enzyme is a new fibrinolytic enzyme and may be used to prevent thrombosis and arteriosclerosis.

조혈모세포이식 후 발생한 주폐포자층 폐렴에 대한 고찰

주지현,최정현,이동건,백지연,고윤호,이혜정,김세희,신호진,박윤희,박지영,김유진,신완식,김춘추 대한감염학회 2001 감염 Vol.33 No.4

Background : Pneumocytitis cainii pneumonia (PCP) can occur in immunocompromised hosts especially such as AIDS or cancer patients. Although recent research had focused on PCP in AIDS patients, few studies have described the clinical presentations of PCP in recipients of stem cell transplantation (SCT). We evaluated the clinical manifestations of PCP in SCT patients admitted at St. Mary's hospital, Seoul, Korea. Methods : The medical records of 17 PCP patients undergoing SCT between Feb. 1998 and Feb. 2000 were reviewed. The diagnosis of PCP was confirmed through the demonstration of Pneumocytitis cainii via either cytology of brochoalveolar lavage (BAL) or histological technique of lung biopsy. CMV disease and CMV infection were confirmed by BAL culture and antigenemia respectively . Results : Seventeen patients were all recipients of allogeneic SCT and 7 of 17 patients were performed non-sibling SCT. Patients presented with symptoms including brief period (4 ∼23 days) of fever (76%), dyspnea (70%), cough (64%), and signs such as rare(58.8%), Sixteen patients (94%) had been receiving immunosuppressive agent such as cyclosporine A (64%) or Fk506 (35%) without PCP prophylaxis. Eleven patients (64%) were treated with corticosteroid with mean dose of 16 mg/day prednisolone and mean duration of 4.6 months after post-SCT period. Twelve patients were co-infected with CMV. Another co-infected miCroorganisms were Pseudomonas aeruginosa, Mycobacterium tuberculosis, herpes simplex virus, parainfluenza virus, Average duration of treatment with trimethoprim-sulfamethoxazole (TMP/SMX) was 21 ±9 days. Four patients died, and three of them were related with PCP. Conclusion : PCP developed frequently in patients who were taking immunosuppressive drug due to graft versus host disease or were not taking TMP/SMX prophylaxis. High risk patients showing fever, cough, or dyspnea should be considered to take early bronchoscopic intervention for detection of PCP. When treat for PCP, it also be considered to the possibility of coinfection such as CMV. (Korean J Infect Dis 33:273∼279, 2001)

다량의 하부위장관출혈이 병발된 Vibrio vulnificus 패혈증 1예

최주연,유진홍,한석원,이대훈,최민호,박순민,김연식,김선우,신완식,강문원,강성구 대한화학요법학회 1996 대한화학요법학회지 Vol.14 No.2

최근 저자들은 Vibrio vulnificus 감염에 의해 패혈증 및 이차성 피부 병변을 보인 42세의 남자 환자의 치료중 하부 위장관 출혈이 병발된 1예를 경험하였기에 보고하는 바이다. We experienced a case of Vibrop vulnificus septicemia which showed an unusual manifestation such as hematochezia. The patient was a 42-year-old man with chronic liver disease. The blood and wound culture revealed the organism. During intensive care, he suffered from massive hematochezi for several days. Colonoscopy and abdominal CT showed findings suspicious of ischemic colitis. To our knowledge, this is the first unusual case of V.vulnificus infection which showed massive lower gastrointestinal bleeding.

돈분과 피마자박의 혼합비율에 따른 퇴비화 연구

장기운,이종진,홍주화,김남천,김완주,최우영 충남대학교 농업과학연구소 2007 농업과학연구 Vol.34 No.2

This study was conducted to estimate the humificating grade according to experiment of physico-chemical characterization and phyto-toxicity during composting of using with pig manure and castor meal. The material ratios of the compost which was mixed with pig manure(P), castor meal(C), and saw dust(S) were 5 : 1 : 4(PCS-I), 5 : 2.5 : 2.5(PCS-II) and 5 : 4 : 1(PCS-III) by volume to volume, and they were decomposed for 60 days. In the result, the changes of temperature in all treatments during composting were rapidly increased more than 68℃ at the incipient stage, and gradually decreased within 39℃ at 60 days the after treatment. pH was slowly increased from 7.5 to 7.7, and the C/N ratio was 13∼14 at the final composting stage. The low C/N ratio value in this compost was caused by the castor meal contented high nitrogen level(T-N 5.7 %). G.I.(germination index) was showed 73 to 78 range in all treatments at the 60^(th) day. Among all treatments PCS-I was appeared to be the best condition for composting.

황색포도구균의 균혈증에서 초기 항생제 치료가 예후에 미치는 영향

김성한,박완범,이기덕,강철인,최영주,김홍빈,박상원,김의석,오명돈,김의종,최강원 대한감염학회 2002 감염 Vol.34 No.5

한국인 환자에서 Vancomycin의 집단약동학 (Population Pharmacokinetics)에 관한 연구

유경상,배균섭,이주연,조주연,장인진,신상구,신완균 大韓臨床藥理學會 1998 臨床藥理學會誌 Vol.6 No.2

제2형 당뇨병 환자에서 비만 지수와 죽상경화증 위험인자들과의 상관성

정병천,박순홍,이주영,이신원,정성창,김정국,하승우,김보완 대한비만학회 2003 The Korean journal of obesity Vol.12 No.2

연구배경: 비만은 제2형 당뇨병의 중요한 병인이면서 죽상경화성 동맥질환의 위험인자인 인슐린 저항성, 지질대사 이상 및 고혈압의 원인으로도 인정되고 있다. 한편 비만에 의한 대사성 및 혈관 합병증은전신적 지방량의 증가보다 복강내 지방축적이 병인적 중요성을 가지고 있다고 한다 그러나 국내의 제2형 당뇨병 환자를 차상으로 비만과 이들 죽상경화증 위험인자와의 상관관계를 연구 조사한 성적은 많지않다. 이에 제2형 당뇨병 환자에서 전신적 비만과 복강내 지방 축적을 반영하는 각각의 신체계측지수들과 죽상경화증 위험인자와의 상관성을 검토함으로써 국내 제2형 당뇨병 환자의 비만도가 대사성 및 혈관성 합병증에 미치는 영향과 신체계측지수들의 임상적 가치를 평가하고자 하였다. 방법 : 제2형 당뇨병 환자 425명 (남자 196명, 여자 229명)을 차상으로 하였다 임상적 단백뇨가 있거나 인슐린 치료, 혈압강하제 또는 지질대사개선제를 복용하는 환자는 제외시켰다. 전신 비만은 체용적지수 그리고 피부두겹 두께로 산출한 체지방률을, 복강내 지방축적도는 허리둘레 및 요둔위비를 이용하였다. 죽상경화증의 위험인자로는 혈당 조절 정도를 나타내는 공복 혈당과 당화혈색소 농도, 인슐린 저항성을 나타내는 공복 인슐린 및 C-peptide 농도, 지질 대사 상태를 나타내는 총 콜레스테롤, 중성지방, 고밀도지단백 콜레스테롤 및 저밀도지단백 콜레스테롤 농도 그리고 수축기 및 이완기 혈압을 선택하였다. 전신 비만지수 및 복부 비만지수와 이들 위험인자와의 상관관계는 연령과 당뇨병 이환기간을 보정하고 편상관분석법을 사용하였다. 결과: 1 여성군에서 남성군에 비해 체용적지수(24.2 대 23.0kg/㎡, p<0.01) 및 체지방률(23.8 대13.5%, p<0.01)은 다소 높았으나 허리둘레 (87.0 대 85.8 cm)와 요둔위비 (0.96 대 0.96)는 차이가 없었다. 2. 인슐린 저항성을 반영하는 공복 인슐린 및 C-peptide 농도는 체용적지수. 체지방률, 허리둘레 및 요둔위비가 커질수록 증가하는 양의 상관관계를 보였다(상관차수 0.21∼0.42, 모두 p<0.05). 3. 혈청 지질중에는 고밀도지단백 콜레스테롤만이 남성 환자군에서 비만지수들과 약한 음의 상관성을 보이는 경향이었고, 총 콜레스테롤 및 중성지방농도는 상관성이 없었다. 4. 수축기 및 이완기 혈압은 남성군에서만 체용적지수. 체지방률, 허리둘레 및 요둔위비가 커질수록 상승하는 양의 상관관계를 보였다(상관차수 0.21∼0.33, 모두 p.0.05). 결론. 국내 제2형 당뇨병 환자들의 전신 비만도 및 복부 비만도가 서구인에 비해 심하지는 않으나 포도당 대사, 인슐린 저항성, 지질 대사 및 고혈압에 위해한 영향을 미칠 수 있는 수준에 이르고 있으며 이는 결국 죽상경화증의 위험인자로도 작용하게 될 것임을 시사한다고 하겠다. 그리고 신체계측을 통한전신 비만 및 복부 비만 지수 모두가 당뇨병 및 죽상경화증의 위험을 간접적으로 예견하는 유용한 척도가 될 수 있을 것이다. Background: Obesity is the powerful risk factor for type 2 diabetes and also associated with a significantly increased risk of insulin resistance, dyslipidemia, hypertension and atherosclerosis. Although obese individuals have these diseases, the relationship between obesity and these diseases was not certain until regional fat distribution was taken into account. Reports about the relationship between obesity and the risk factors of atherosclerosis in type 2 diabetics in Korea are very rare. To evaluate the relative importance of anthropometric indices on the development of atherosclerosis and obesity-related metabolic and vascular complications, the correlations of these indices with the risk factors for atherosclerosis were studied. Methods: Patients with type 2 diabetes mellitus (n=425, male 196, female 229) who not used antihy- pertensives or anti-lipidemic agents were investigated. Body mass index (BMI) and percentage of body fat (%BF) estimated by skinfold-thickness in assessing generalized adiposity, and waist circumference (Wc) and waist-to-hip ratio (WHR) in assessing visceral adiposity were taken as anthropometric indices. We included the indicators of glycemic control (fasting blood sugar and HbAlc), insulin resistance (fasting serum insulin and C-peptide concentrations), lipid abnormalities (serum total cholesterol, triglyceride, HDL-cholesterol, and LDL-cholesterol concentrations), and systolic and diastolic blood pressure as risk factors for the development of atherosclerosis. Partial correlations of the anthropometric indices with those risk factors were investigated with adjustment of age and duration of illness. Results: 1. BMI and %BF in female patients group were higher than those in male (24.2 vs 23.0 kg/㎡, 23.8 vs 13.5%, respectively, p<0.01 in all) although Wc and WHR were similar between both groups. In general, both body adiposity and abdominal obesity in them were much lower than in the Western. 2. Serum insulin and C-peptide levels were positively correlated with BMI, %BF, Wc and WHR (r=0.21~42, p<0.05 in all). 3. Serum total cholesterol, triglyceride and LDL- cholesterol were not correlated with any anthropometric indices. A weak negative correlation of serum HDL-cholesterol with these indices was found in male patients group. 4. Both systolic and diastolic blood pressures were positively correlated with all these indices only in male group (r=0.21~33, p<0.05 in all). Conclusion: These results suggested that the severity of both generalized and visceral adiposity in these patients with type 2 diabetes mellitus were only mild but adiposity with abdominal distribution of body fat in diabetes mellitus could be a significant risk factor of developing atherosclerosis. In clinical practice, these anthropometric indices indicating general adiposity and abdominal obesity may provide useful information for predicting disease risks, especially of diabetes and cardio- vascular disease indirectly.

고속주축 모니터링용 광파이버 변위센서의 파이버 특성에 따른 센서 성능 연구

박찬규,신우철,배완성,홍준희,이동주 한국공작기계학회 2003 한국공작기계학회 추계학술대회논문집 Vol.2003 No.-

To make high speed spindle system work properly, sensors with outstanding resolution and dynamic characteristics are essential. An optical fiber displacement sensor is based on simple principles. Electrical signal responds to the optical flux change due to the displacement change between a target and a sensor probe. In this paper, the performance of optical fiber displacement sensor has been investigated according to properties of optical fiber. Firstly, optical loss has been measured before and after polishing optical fiber endface. Secondly, allowance of optical fiber bending has been tested. thirdly sensitivity and linear range of the sensor has been found out according to the shape of cross section of optical fiber.

성인원외폐렴의 원인미생물에대한 전향적 다기관 연구 : 성인원외폐렴의 원인으로 세균의 역할을 중심으로

우준희,강재명,김양수,신완식,류진홍,최정현,김양리,정희진,어수택,박춘식,정문현,정기석,이찬주,류지소 대한감염학회 2001 감염 Vol.33 No.1

Background : Communite-acquired peumonia (CAP) is one of the leading causes of mortality and morbidity. Despite progress in diagnostic techniques and treatments, management of pneumonia remains challenging, because the precise etiology remains uncertain in as many as 49% of cases. The limitaions of identifying etiologic agents make it necessary to use empiric antibiotics in almost all patients, and furthermore emergence of antibiotic-resistant organisms pose difficulties to the selection of an empiric antibiotic regimen. For the optimal choice of empirical antibiotics, we should know the frequency of etiologic agents and antimicrobial resistance rates in the community. Methods : A prospective multicenter study of community-acquired pneumonia in Korea was carried out between May 1997 and April 2000. The microbiologic diagnosis was based on the results of sputum culture, blood culture and pleural culture. Results : Five hundred eighty eight cases of community-acquired peumonia in 562 patients admitted to the hospitals. The mean age was 59.9 with male predominance (58.3%), and 370 (63%) had underlyin gillness. The etiologic agents were identified in 38.3%, and the list of individual agents, in decreasing order, was Streprococcus pneumoniae (21.7%), Klebsiella pneumoniae (14.8%) Pseudomonas aeruginosa (9.8%), Staphylococcus aureus (9.5%), viridans group streptococci (5.7%), Enterobacter cloacae (4.2%), Hemophillus Influenza (3.8%), The rates of admission to the intensive care unit was 10.4%. The motality was 7.1%. Susceptible rates of S. pneumoniae to penicillin was 36.6% and showed multidrug resistant. Forty percents of S. aureus were methicillin-resistant S. aureus. K. penumoniae were susceptible to cephalosporin and quinolone. Conclusion : In Korea, S.pneumoniae is the most important agent causing community-acquired pneumonia. Susceptible rates of S. pneumoniae to penicillin was 36.6% and showed multidrug resistant. Gram negative bacteria such as K. pneumoniae, P. aeruginosa showed high incidence when compared with that of other countries. Most of them had underlying diseases including bronchiectasis and chronic obstructive pulmonary diseases. (Korean J Infect Dis 33:1∼7, 2001)