SNPSS; A software tool for an automatic SNPs and InDels detection in the context of PCR-based resequencing data of Brassica rapa

Hee Ju Yu,Sung Chan Lee,Soo Min Park,Man Ki Kim,Jeong Hwan Mun,Hee Bal Kim 한국육종학회 2008 한국육종학회 학술발표회 발표요지 Vol.40 No.1

Microarray Analysis of Gene Expression in the Uterine Endometrium during the Implantation Period in Pigs

Kim, Min-Goo,Seo, Hee-Won,Choi, Yo-Han,Shim, Jang-Soo,Kim, Hee-Bal,Lee, Chang-Kyu,Ka, Hak-Hyun Asian Australasian Association of Animal Productio 2012 Animal Bioscience Vol.25 No.8

During embryo implantation in pigs, the uterine endometrium undergoes dramatic morphological and functional changes accompanied with dynamic gene expression. Since the greatest amount of embryonic losses occur during this period, it is essential to understand the expression and function of genes in the uterine endometrium. Although many reports have studied gene expression in the uterine endometrium during the estrous cycle and pregnancy, the pattern of global gene expression in the uterine endometrium in response to the presence of a conceptus (embryo/fetus and associated extraembryonic membranes) has not been completely determined. To better understand the expression of pregnancy-specific genes in the endometrium during the implantation period, we analyzed global gene expression in the endometrium on day (D) 12 and D15 of pregnancy and the estrous cycle using a microarray technique in order to identify differentially expressed endometrial genes between D12 of pregnancy and D12 of the estrous cycle and between D15 of pregnancy and D15 of the estrous cycle. Results showed that the global pattern of gene expression varied with pregnancy status. Among 23,937 genes analyzed, 99 and 213 up-regulated genes and 92 and 231 down-regulated genes were identified as differentially expressed genes (DEGs) in the uterine endometrium on D12 and D15 of pregnancy compared to D12 and D15 of the estrous cycle, respectively. Functional annotation clustering analysis showed that those DEGs included genes involved in immunity, steroidogenesis, cell-to-cell interaction, and tissue remodeling. These findings suggest that the implantation process regulates differential endometrial gene expression to support the establishment of pregnancy in pigs. Further analysis of the genes identified in this study will provide insight into the cellular and molecular bases of the implantation process in pigs.

RPS 재도 도입에 따른 전기요금 변화에 관한 연구

홍희정(Hee-Jung Hong),김광모(Gwang-Mo Kim),김강원(Gang-Won Kim),한석만(Seok-Man Han),김발호(Bal-Ho Kim) 대한전기학회 2008 대한전기학회 학술대회 논문집 Vol.2008 No.11

기후변화협약 체결 당시 개발도상국으로 분류되어 있던 우리나라는 현재 온실가스 감축의무를 부담하지 않고 있으나, 우리나라의 CO2 배출량 및 배출량 증가율을 고려해 볼 때, 제2차 공약기간(2012년~2016년) 동안의 온실가스 감축의무 부담이 예견되고 있다. 온실가스 감축의무를 이행하기 위하여 정부는 2012년부터 RPS(Renewable Portfolio Standard) 제도를 도입을 고려하고 있다. 신재생에너지전원의 비중을 설비용량의 5%(발전량의 7%)까지 확대를 예상하여, 봉 연구에서는 RPS 재도를 도업을 고려할 때 전원구성의 변화를 GATE -PRO(Generation And Transmission Expansion PROgram)모형을 이용하여 알아본 후, 이로 인하여 전기를 사용하는 용도에 따라 6가지 종별로 구부하는 현행전기요금체계에 미치는 영향에 대하여 알아보고자 한다.

담석의 초음파상과 성분분석에 관한 비교 연구

송영식,김진홍,문철,이준성,이문호,김익수,김재준,김선주,이문성,조성원,심찬섭,유희,허경발,김훈식 대한소화기학회 1992 대한소화기학회지 Vol.24 No.5

Although the treatment of gallbladder stones is mainly dependent on surgical intervention, recently medical treatment such as oral bill acid therapy, dissolution therapy with MTBE or extracorpareal shock wave lithotripy have been also performd. For the auccess, of these medical therapy. the composition of gallbaddser stones is a important factor. So, to predict the comical composition, we examined 100 cases of the surgically removed gallblraldder stoned by ultrasonaraphy. And we compared the ultrasonograplic findings of gallbladder stones with the chemical compotions and the features of cut surface. Alan we compared the presence of the calcification on the simple abdominal X-ray. The chemical components of gallbladder stones were analysed by ultrared spectrometer. Ultrasonographic findings were claesafied into five characeristic types; the shooting-star (SS) type, the crescent (C) type the half-moon (HM) kype, the full-moon (FM) type anal the star-dust (SD) type. The roved as fallows. In chemical compositions of gallstones, 67 cases (67%) were cholesterol stones with 26 eases (2^%) of pure cholesterol stones, and 30 cases (30%) of cholesterol-bilirubinate stones, bilruastnate stone were 25 cases (25%), calcium-carbanate stones were 7 cases (7%), and calcium pltcasphate stone was 1 case (1%). In ultrasonograhic fielding of gallstones, the SS types were 24 cases (24%), the C types 43 cases (43%), the FM types 16 uses (16%), the HM types 14 cases (14%) and the SD types were 3 cases (3%). In the relationship between tcltrasonographic findings and cheat composition, tine SS type itrcluded cholestro stones with 21 cases (88%). The C type included cholesterol stones with 30 cases (70%) and bilirubinate stones with 13 cases (13%). The HM types included chstrol stones with 9 cases (64%), bilruinate stones with 3 gases (24%) and calcium carbonate stones with 2 cases (14%). The FM types inch cholesterol stones with 5 cases (31%), bilirubinate stone with 6 cases (38%), calcium carbons a stones with 4 canes (25%), and calcium phosphate stone with 1 case (6%). The SD types incitude cholesterol stone with 2 cases (67%) and hilirubinatie stone with 1 case (33%). Cholesterol stone were found mainly in the C type (45%) and the SS type (31%). Bilirubinate stones were found mainly in the C type (52%) and the FM type (24%). In comparison between the presence of calcification on the simple abdominal X-ray and the chemical composition with ultrasonographic findings, 9 of 100 cases of gallbladder stones showed calcification on the simple abdominal X-ray with 2 choleBterol stonecs; 5 bilirulalnabe stone, 2 calciim carbonate stones. Non-cholesterol stones showed more frequent calcification finding than eholeacrol stones. In the features of the cut surfaces of the 100 gallbladder stones, the concenteric types were 64 cases (64%), the homogenous types were cases (26%), and to radiating types were 10 cases (10%). And there was no correlation between the features of the cutsurfaces of gallbladder stones and the ultrarsorographic findings. , In conclusion, the classification of ultrasonographic findings are useful to predict, the chemical compositions of gallblardder stones and to decide on the therapeutic method of gallbladder stones.

Functional Prediction of Imprinted Genes in Chicken Based on a Mammalian Comparative Expression Network

Kim, Hyo-Young,Moon, Sun-Jin,Kim, Hee-Bal Korea Genome Organization 2008 Genomics & informatics Vol.6 No.1

Little evidence supports the existence of imprinted genes in chicken. Imprinted genes are thought to be intimately connected with the acquisition of parental resources in mammals; thus, the predicted lack of this type of gene in chicken is not surprising, given that they leave their offspring to their own heritance after conception. In this study, we identified several imprinted genes and their orthologs in human, mouse, and zebrafish, including 30 previously identified human and mouse imprinted genes. Next, using the HomoloGene database, we identified six orthologous genes in human, mouse, and chicken; however, no orthologs were identified for SLC22A18, and mouse Ppp1r9a was not included in the HomoloGene database. Thus, from our analysis, four candidate chicken imprinted genes (IGF2, UBE3A, PHLDA2, and GRB10) were identified. To expand our analysis, zebrafish was included, but no probe ID for UBE3A exists in this species. Thus, ultimately, three candidate imprinted genes (IGF2, PHLDA2, and GRB10) in chicken were identified. GRB10 was not significant in chicken and zebrafish based on the Wilcoxon-Mann-Whitney test, whereas a weak correlation between PHLDA2 in chicken and human was identified from the Spearman's rank correlation coefficient. Significant associations between human, mouse, chicken, and zebrafish were found for IGF2 and GRB10 using the Friedman's test. Based on our results, IGF2, PHLDA2, and GRB10 are candidate imprinted genes in chicken. Importantly, the strongest candidate was PHLDA2.

Isolation, Identification, and Characterization of Pichia guilliermondii K123-1 and Candida fermentati SI, Producing Isoflavone β-Glycosidase to Hydrolyze Isoflavone Glycoside Efficiently, from the Korean Traditional Soybean Paste

Kim, Won-Chan,So, Jai-Hyun,Kim, Sang-In,Shin, Jae-Ho,Song, Kyung-Sik,Yu, Choon-Bal,Kho, Yung-Hee,Rhee, In-Koo The Korean Society for Applied Biological Chemistr 2009 Journal of Applied Biological Chemistry (J. Appl. Vol.52 No.4

A total of 155 microbial strains were isolated from the Korean traditional soybean paste based on their morphological features on the growth of agar plate. Among the isolated strains, a total of 28 strains were capable of hydrolyzing isoflavone glycoside to isoflavone aglycone efficiently in the soybean paste. Finally, two strains, K123-1 and SI, were selected because of their resistance to 15% NaCl and ability to convert isoflavone glycoside to isoflavone aglycone efficiently during the fermentation of soybean paste. The isolated strains K123-1 and SI were identified to be Pichia guilliermondii and Candida fermentati, respectively, using the partial 26S rDNA sequence analysis and phylogenic analysis. Pichia guilliermondii K123-1 and Candida fermentati SI converted daidzin to daidzein up to 96% and 95%, respectively, and genistin to genistein up to 92% when soybean pastes were fermented at $30^{\circ}C$ for 20 days with a single isolated strain. Pichia guilliermondii K123-1 and Candida fermentati SI were able to grow in the presence of 15% NaCl on both liquid medium and agar plate. We think that Pichia guilliermondii K123-1 and Candida fermentati SI might be one of good candidates for making functional soybean paste because they are isolated from the Korean traditional soybean paste and have a good ability to convert isoflavone glycosides to isoflavone aglycones and a high salt tolerance.

Expression of Fusion Protein of Dengue Synthetic Consensus Envelope Domain III through Cell Surface Display on Saccharomyces cerevisiae for Use as Oral Vaccine

Hee-Young JUNG,Ngoc Luong NGUYEN,Jyotiranjan BAL,Jung-Mi KIM,Dae-Hyuk KIM 한국생물공학회 2015 한국생물공학회 학술대회 Vol.2015 No.10

Immunogenicity of an Oral Vaccine against Dengue Virus Generated in Saccharomyces cerevisiae

Jyotiranjan BAL,Nguyen Ngoc LUONG,Hee-Young JUNG,Yong-Suk JANG,Dae-Hyuk KIM 한국생물공학회 2015 한국생물공학회 학술대회 Vol.2015 No.10

RPS(Renewable Portfolio Standard) 제도 도입을 고려한 전기요금변화에 관한 연구

홍희정(Hee-jung Hong),한석만(Soek-man Han),김발호(Bal-ho Kim) 대한전기학회 2009 전기학회논문지 Vol.58 No.4

Recently, Korea government decided to introduce RPS (Renewable Portfolio Standard) mechanism which requires electricity providers to gradually increase the amount of renewable energy sources such as wind, solar, bioenergy, and geothermal. As a consequence, it is expected that the long-term fuel mix would be changed to result in more expensive production and the increased production costs would be distributed to the rate payers via electricity tariffs. This paper presents the change in long-term fuel mix in year 2020 with the four RPS scenarios of 3%, 5%, 10% and 20%, and the methodologies for collecting the increased production costs through new tariff schedule. The studies on long-term fuel mix have been carried out with the GATE-PRO (Generation And Transmission Expansion PROgram) optimization package, a mixed-integer program developed by the Korea Energy Economics Institute and Hongik university. Three methodologies for distributing the production costs to the rate payers have also been demonstrated.

Improved Statistical Testing of Two-class Microarrays with a Robust Statistical Approach

Oh, Hee-Seok,Jang, Dong-Ik,Oh, Seung-Yoon,Kim, Hee-Bal Korean Society for Bioinformatics 2010 Interdisciplinary Bio Central (IBC) Vol.2 No.2

The most common type of microarray experiment has a simple design using microarray data obtained from two different groups or conditions. A typical method to identify differentially expressed genes (DEGs) between two conditions is the conventional Student's t-test. The t-test is based on the simple estimation of the population variance for a gene using the sample variance of its expression levels. Although empirical Bayes approach improves on the t-statistic by not giving a high rank to genes only because they have a small sample variance, the basic assumption for this is same as the ordinary t-test which is the equality of variances across experimental groups. The t-test and empirical Bayes approach suffer from low statistical power because of the assumption of normal and unimodal distributions for the microarray data analysis. We propose a method to address these problems that is robust to outliers or skewed data, while maintaining the advantages of the classical t-test or modified t-statistics. The resulting data transformation to fit the normality assumption increases the statistical power for identifying DEGs using these statistics.