BioSMACK: a Linux Live CD for genome-wide association analyses

( Chang Bum Hong ),( Young Jin Kim ),( Sang Hoon Moon ),( Young Ah Shin ),( Min Jin Go ),( Dong Joon Kim ),( Jong Young Lee ),( Yoon Shin Cho ) 생화학분자생물학회 (구 한국생화학분자생물학회) 2012 BMB Reports Vol.45 No.1

Recent advances in high-throughput genotyping technologies have enabled us to conduct a genome-wide association study (GWAS) on a large cohort. However, analyzing millions of single nucleotide polymorphisms (SNPs) is still a difficult task for researchers conducting a GWAS. Several difficulties such as compatibilities and dependencies are often encountered by researchers using analytical tools, during the installation of software. This is a huge obstacle to any research institute without computing facilities and specialists. Therefore, a proper research environment is an urgent need for researchers working on GWAS. We developed BioSMACK to provide a research environment for GWAS that requires no configuration and is easy to use. BioSMACK is based on the Ubuntu Live CD that offers a complete Linux-based operating system environment without installation. Moreover, we provide users with a GWAS manual consisting of a series of guidelines for GWAS and useful examples. BioSMACK is freely available at http://ksnp.cdc. go.kr/biosmack. [BMB reports 2012; 45(1): 44-46]

연령대별 요추 추간판탈출증 환자의 요근과 척추주위근 단면적에 대한 분석

공덕현 ( Deok Hyun Kong ),배광호 ( Kwang Ho Bae ),고호연 ( Ho Yeon Go ),강명진 ( Myung Jin Kang ),김준수 ( Jun Su Kim ),양기영 ( Kee Young Yang ),이재훈 ( Jae Hoon Lee ),은영준 ( Young Jun Eun ) 한방재활의학과학회 2010 한방재활의학과학회지 Vol.20 No.4

Objectives :This study was designed to evaluate the correlation of the cross-sectional areas(CSA) of paraspinalis(iliocostalis lumborum, multifidus, longissimus thoracis parts lumborum) and psoas muscle and sex, age, change of the VAS(visual analogue scale) and past history of chronic low back pain in patients suffering from HIVD(herniation of intervertebral disc). Methods :Medical records of 140 subjects with HIVD were retrospectively reviewed. The MRI(magnetic resonance imaging) findings on the patients were scanned and analyzed by PiView program to find the paraspinal and psoas muscle CSA and were evaluated by the correlation of sex, age, change of the VAS, and past history of chronic low back pain. Results :There was significant difference between groups in male and female, young-adults age and middle age, middle age and old age, young-adults age and old age. But the correlation of the paraspinal and psoas muscle CSA and past history of chronic low back pain were partially significant. On the other hand, the correlation of the paraspinal and psoas muscle CSA and change of the VAS were not significant. Conclusions :These results suggest that the cross-sectional areas(CSA) of paraspinalis and psoas muscle have relevance to sex and age.

Case Reports : Esophageal Thermal Injury by Hot Adlay Tea

Hoon Go,Hyeon Woong Yang,Sung Hee Jung,Young A Park,Jung Yun Lee,Sae Hee Kim,Sin Hyung Lim 대한내과학회 2007 The Korean Journal of Internal Medicine Vol.22 No.1

Reversible thermal injury to the esophagus as the result of drinking hot liquids has been reported to generate alternating white and red linear mucosal bands, somewhat reminiscent of a candy cane. This phenomenon is associated with chest pain, dysphagia, odynophagia, and epigastric pain. Here, we report a case of thermal injury to the esophageal and oral cavity due to the drinking of hot tea, including odynophagia and dysphagia. A 69-year-old man was referred due to a difficulty in swallowing which had begun a week prior to referral. The patient, at the time of admission, was unable to swallow even liquids. He had recently suffered from hiccups, and had consumed five cups of hot adlay tea one week prior to admission, as a folk remedy for the hiccups. Upon physical examination, the patient`s oral cavity evidenced mucosal erosion, hyperemia, and mucosa covered by a whitish pseudomembrane. Nonspecific findings were detected on the laboratory and radiological exams. Upper endoscopy revealed diffuse hyperemia, and erosions with thick and whitish pseudomembraneous mucosa on the entire esophagus. The stomach and duodenum appeared normal. We diagnosed the patient with thermal esophageal injury inflicted by the hot tea. He was treated with pantoprazole, 40 mg/day, for 14 days, and evidenced significant clinical and endoscopic improvement.

Notes : Functional Characteristics of Cyclodextrin Glucanotransferase from Alkalophilic Bacillus sp. BL-31 Highly Specific for Intermolecular Transglycosylation of Bioflavonoids

( Young Hoon Go ),( Tae Kwon Kim ),( Kwang Woo Lee ),( Yong Hyun Lee ) 한국미생물 · 생명공학회 2007 Journal of microbiology and biotechnology Vol.17 No.9

IS <i>6110</i> -Restriction Fragment Length Polymorphism and Spoligotyping Analysis of <i>Mycobacterium tuberculosis</i> Clinical Isolates for Investigating Epidemiologic Distribution in Korea

Choi, Go Eun,Jang, Mi Hee,Song, Eun Ju,Jeong, Seok Hoon,Kim, Jae-Seok,Lee, Wee Gyo,Uh, Young,Roh, Kyoung Ho,Lee, Hye Soo,Shin, Jong Hee,Ryoo, Nam Hee,Kim, Young Ree,Jeong, Joseph,Kim, Jee Hee,Lee, Sun The Korean Academy of Medical Sciences 2010 JOURNAL OF KOREAN MEDICAL SCIENCE Vol.25 No.12

<P>The Beijing family of <I>Mycobacterium tuberculosis</I> has been emerging in the world. However, there are few nationwide data of genotypic distribution in Korea. This study aimed to identify the genotypic diversity of clinical isolates of <I>M. tuberculosis</I> and to demonstrate the population of Beijing family in Korea. We collected 96 clinical <I>M. tuberculosis</I> isolates from 11 university hospitals nationwide in Korea from 2008 to 2009. We observed 24 clusters in IS<I>6110</I>-RFLP analysis and 19 patterns in spoligotyping. Seventy-five isolates were confirmed to be Beijing family. Two isolates of the K strain and 12 isolates of the K family strain were also found. We found that drug resistance phenotypes were more strongly associated with Beijing family than non-Beijing family (<I>P</I>=0.003). This study gives an overview of the distribution of genotypes of <I>M. tuberculosis</I> in Korea. These findings indicate that we have to pay more attention to control of <I>M. tuberculosis</I> strains associated with the Beijing family.</P>

일개 공공병원 종사자의 공공보건의료에 대한 인식과 기능수행에 대한 조사연구

조영혜(Young Hye Cho),이상엽(Sang Yeoup Lee),정동욱(Dong Wook Jeong),최은정(Eun Jung Choi),김윤진(Yun Jin Kim),이정규(Jeong Gyu Lee),고유영(Yu Young Go),이유현(Yu Hyone Lee),배미진(Mi Jin Bae),김창훈(Chang Hoon Kim) 한국농촌의학 지역보건학회 2012 농촌의학·지역보건 Vol.37 No.2

최근, 정부차원의 공공보건의료 개선을 위한 노력이 진행 중이지만 실제 의사, 간호사, 보건직 등 의료기관 종사자들의 공공보건의료에 대한 역할의 필요성에 대한 인식과 책임감에 대한 조사는 부족한 실정이며 성공적인 공공보건의료의 역할수행을 위해서는 모든 의료 종사자들의 역할 인식과 직종간의 유기적인 협력이 필요하다. 이에 일개 국립병원 의료 종사자들을 대상으로 공공보건의료에 대한 역할 인식과 기능수행에 대한 조사를 시행하였다. 일개 국립대학병원 직원을 직종별로 20%를 무작위 추출하여 323명을 대상으로 설문 조사를 시행하였다. 의사직 103명(38.9%), 간호직 98명(37.0%), 기타직 64명(24.1%) 등 총 265명(80.2%)이 참여하였다. 의료 종사자들은 공공보건의료시책의 수립ㆍ시행 및 평가 지원사업, 국가 또는 지방자치단체의 보건의료 활동에의 참여 및 지원사업, 민간보건의료기관에 대한 기술지원 및 교육사업, 취약계층에 대한 보건의료, 노인, 장애인, 정신 질환자 등 타분야와의 연계가 필수적인 보건의료, 아동과 모성에 대한 보건의료 등 공공보건의료의 필수적인 6가지 항목에 대하여 공공보건의료 기관으로서의 역할 인식이 부족하였다. 반면 주요 질병관리사업, 공공보건의료에 관한 전문적인 연구 및 검사사업, 보건의료인의 교육훈련사업, 전염병 예방 및 관리, 응급환자의 진료, 민간보건의료기관이 담당하기 어려운 예방보건의료 등 6 가지 항목에 대해서는 중요하게 인식하고 있었다. 대체적으로 보건의료기관 종사자의 공공보건의료기관으로서 역할과 책임의식에 대한 인식이 부족하며 앞으로 공공병원의 공공성 강화를 위하여 공공보건의료 전담인력 확보와 계획적인 공공보건사업에 대한 교육이 필요할 것으로 사료된다. Objectives: While there have recently been efforts to improve public health service at a governmental level, there is actually insufficient research on awareness of the roles related to public health service among hospital employees. This study examined role perception and function performance related to public health service among the medical staff in a national hospital. Methods: 15% were randomly sampled from each type of occupation among the medical staff in a national university hospital, a survey was conducted in 323 persons, and there were a total of 265 participants (80.2%): 103 doctors(38.9%), 98 nurses (37.0%), and 64 others (24.1%). Results: The hospital employees had insufficient awareness of their roles as public health service providers in terms of six required items for public health service: 1) services for supporting establishment, implementation, and assessment of public health service policies, 2) participation in the health service activities and support services by central or local governments, 3) technological support and educational services for private health service institutions, 4) health service for unprivileged brackets, 5) health service that requires association with other areas dealing with geriatric, disabled, and mentally-disordered people, and 6) health service for children and mothers. Conclusions: In general, since the hospital employees had insufficient awareness of their roles and responsibilities as public health service providers, it is necessary to secure manpower exclusively in charge of public health service and provide education about strategic public health service.

귀리 중 살균제 Hexaconazole 및 Mydobutanil의 잔류성평가

고영호 ( Young-ho Go ),박주언 ( Joo-un Park ),임선영 ( Sun-young Lm ),조민정 ( Min-jeong Jo ),송병훈 ( Byung-hoon Song ),이동진 ( Dong-jin Lee ) 한국환경농학회 2020 한국환경농학회 학술대회집 Vol.2020 No.-

귀리고(Avena sativa L)는 화본과 작물로 곡류에 속하며 최근 세계 10대 슈퍼푸드로 선정되어 국내 소비와 생산량이 증가하고 있는 작물이다. 본 연구는 귀리에 대한 Hexaconaole 및 Myclobutanil의 잔류성을 구명하여 생산물의 안정성 평가를 위한 기초자료로 활용하고자 수행하였다. 시험품종으로는 봄 파종용 품종으로 중만생종인 조풍을 선정하여, 단국대학교 생명자원과학대학의 실습 포 장에서 경종방법에 준하여 재배하고 시험약제를 다음과 같이 살포하여 시험을 실시하였다. Hexaconazole 2% 입상수화제 및 Mydobutanil 6% 수화제를 수확 전 50, 40, 30, 21, 14, 7일을 살포일로하고 각 3회씩 처리한 후 일시수확으로 시료를 수확하였다. 수확한 시료는 그늘에서 12 일간 건조 후 탈곡하여 겉껍질을 제거한 알곡을 분쇄하여 분석시료로 사용하였다. 귀리 알곡에 증류수를 가하여 습윤화를 한 후 Acetone을 가하여 진탕추출한 후 Dichloromethane으로 2회 분배 한 다음, Florisil SPE(1g) cartridge를 이용하여 정제한 후 GC/ECD로 분석하였다. Hexaconazole의 회수율은 73.3 ~ 102.5%이었고, Mydobutanil의 회수율은 91.2 ~ 116.3 % 이었으며 검출한계는 모두 0.05 mg/kg이었고, 최소 검출량은 모두 0.5 ng이었다. Hexaconazole의 잔류량은〈0.05 ~ 0.054 mg/kg이었고 Mydobutanil의 잔류량은〈0.05 ~ 0.26 mg/kg이었다. 이 결과를 바탕으로 귀리 중 잔류농약의 잔류성을 평가하여 안전사용기준과 잔류허용기준 설정의 기초자료로 활용될 수 있을 것으로 사료된다.

가축분뇨를 이용한 SCP 생산 균주의 분리 및 균체 단백질 생산

한석균,고유석,안태영,배동훈 한국미생물생명공학회 ( 구 한국산업미생물학회 ) 1996 한국미생물·생명공학회지 Vol.24 No.6

질소원으로서 계분을 이용하는 균주를 선별하고 계분배지에서 균체의 생육속도가 다른 균주에 비하여 우수한 균주를 분리하였다. 형태·생리학적 특성을 기초로 하여 yeast의 분류 기준과 비교하여 본 균주를 Candida sp.로 동정하였으며 본 균주를 Candida sp. D116으로 명명하였다. Poultry feces extract medium에서 4% 농도의 glucose 첨가가 균체 생육에 효과적이었다. D116 균주를 액체 발효하여 균체생산능, 요산 그리고 가용성 단백질의 변화를 조사하였다. 그 결과 약 60시간이 경과하면 액체 발효 배지내의 거의 모든 가용성 단백질 및 요산의 감소를 보였으며 균체생육은 약 36시간 배양하였을 때 최고조에 도달하였고 그 후에는 점차 감소하는 경향을 보였다. SCP의 대량생산의 결과 50%의 계분혼합 배지와 30℃의 배양 온도에서 36시간 배양하여 균주의 생육수준이 3.8×10^9 CFU/ml 농도의 균체를 생산하였고 200 L의 배양액중 약 870 g-dw의 균체를 얻었으며 생산된 군체의 조단백질 함량은 67%이었다. Production of Single Cell Protein from Poultry Feces. Suk-kyun Han, You-Suk Go, Tae-Young Ahn and Dong-Hoon Bal^1*. Deparment of Microbioligy, College of Natural Sciences, Dankook Univerity, Cheonan 330-714 and Research Center for Molecular Microbiology, Seoul Nationa University, Seoul 151-742, Korea, ^1Department of Food Engineering. College of Engineering, Dankook University, Cheonan 330-714 and Bioproducts Research Center of Yonsei University, Seoul 120-749, Korea - From the soil collected form provincial area of South Korea, a microorganisms which have been shown good growth in the minimal poultry feces extract medium was isolated. Supplement of glucose to the poultry feces extract medium helped the complete degraded during the microbial growth. Maximum cell growth (3.8×10^9 CFU/ml) obtained at 36 hours of incubation after inoculation. Uric acid was degraded faster in minimal medium that in the glucose complement medium. VFA (volatile fatty acid), which are known as major compounds of poultry feces odor, were almost removed from the minimal poultry feces extract medium. Glucose supplement to the minimal medium enhanced the growth of microbial cells. Addition of 4% of glucose and 4% of neopeptone to the minimal poultry feces extract medium helped the maximal growth of cells.

외부 형태와 Chromatographic Fingerprint를 이용한 전호류 약재 비교 연구

김정훈 ( Jung Hoon Kim ),이금산 ( Guem San Lee ),최고야 ( Go Ya Choi ),김영식 ( Young Sik Kim ),이승호 ( Seung Ho Lee ),김홍준 ( Hong Jun Kim ),정승일 ( Seung Il Jeong ),주영승 ( Young Sung Ju ) 대한본초학회 2012 大韓本草學會誌 Vol.27 No.3

Objective: This study aimed to compare the difference between Angelica decursiva, P eucedanum praeruptorum and Anthriscus sylvestris which have been used as herbal medicine, Jeonho (Angelicae Decursivae Radix) in Korea and provided the evidence to exclude A. sylvestris not to use as Joenho. Methods : The similarities of original medicinal herb with samples from local market were evaluated including morphological appearance and chromatographic fingerprint. In addition, relation between original medicinal herb and local samples were analyzed using statistical clustering methods. Results: A. decursiva, P. praeruptorum and A. sylvestris represented different morphological appearances and chromatographic fingerprint. Several samples from China exhibited similar morphological and chromatographic appearance with A. decursiva or P. praeruptorum. Eleven samples from Korea showed identical similarity to A. sylvestris. Conclusions: Since A. sylvestris represented obvious differences compared to A. decursiva and Ppraeruptorum, it is required not to use A. sylvestris as medicinal herb, Jeonho. Additionally, exact identification and quality control must be applied to A. decursiva or P. praeruptorum from China in order to maintain therapeutical efficacy.

Genome-wide Survey of Copy Number Variants Associated with Blood Pressure and Body Mass Index in a Korean Population

Moon, Sang-Hoon,Kim, Young-Jin,Kim, Yun-Kyoung,Kim, Dong-Joon,Lee, Ji-Young,Go, Min-Jin,Shin, Young-Ah,Hong, Chang-Bum,Kim, Bong-Jo Korea Genome Organization 2011 Genomics & informatics Vol.9 No.4

Hypertension is the major factor of most death and high blood pressure (BP) can lead to stroke, myocardial infarction and cardiac failure. Moreover, hypertension is strongly correlated with body mass index (BMI). Although the exact causes of hypertension are still unclear, some of genetic loci were discovered from genome-wide association study (GWAS). Therefore, it is essential to study genetic variation for finding more genetic factor affecting hypertension. The purpose of our study is to conduct a CNV association study for hypertension-related traits, BP and BMI, in Korean individuals. We identified 2,206 CNV regions from 3,274 community-based Korean participants using the Affymetrix Genome-Wide Human SNP Array 6.0 platform and performed a logistic regression analysis of CNVs with two hypertension-related traits, BP and BMI. Moreover, the 4,692 participants in an independent cohort were selected for respective replication analyses. GWAS of CNV identified two loci encompassing previously known hypertension-related genes: LPA (lipoprotein) on 6q26, and JAK2 (Janus kinase 2) on 9p24, with suggestive p-values (0.0334 for LPA and 0.0305 for JAK2 ). These two positive findings, however, were not evaluated in the replication stage. Our result confirmed the conclusion of CNV study from the WTCCC suggesting weak association with common diseases. This is the first study of CNV association study with BP and BMI in Korean population and it provides a state of CNV association study with common human diseases using SNP array.