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Population diversity, admixture, and demographic trend of the Sumba Ongole cattle based on genomic data

  • Pita Sudrajad;Hartati Hartati;Bayu Dewantoro Putro Soewandi;Saiful Anwar;Angga Ardhati Rani Hapsari;Tri Satya Mastuti Widi;Sigit Bintara;Dyah Maharani
    • Animal Bioscience
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    • v.37 no.4
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    • pp.591-599
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    • 2024
  • Objective: Sumba Ongole (SO) cattle are valuable breed due to their important role in the development of Indonesian cattle. Despite rapid advances in molecular technology, no genomic studies on SO cattle have been conducted to date. The aim of this study is to provide genomic profile related to the population diversity, admixture, and demographic trends of SO cattle. Methods: Genomic information was gathered from 79 SO cattle using the Illumina Bovine SNP50 v3 Beadchip, and for comparative purposes, additional genotypes from 209 cattle populations worldwide were included. The expected and observed heterozygosity, inbreeding coefficient, pairwise fixation indices between-population, and Nei's genetic distance were examined. Multidimensional scaling, admixture, and treemix analyses were used to investigate the population structure. Based on linkage disequilibrium and effective population size calculations, the demographic trend was observed. Results: The findings indicated that the genetic diversity of SO cattle was similar to that of other indicine breeds. SO cattle were genetically related to indicines but not to taurines or Bali cattle. The study further confirmed the close relationship between SO, Ongole, and Nellore cattle. Additionally, a small portion of the Ongole mixture were identified dominant in the SO population at the moment. The study also discovered that SO and Bali cattle (Bos javanicus) could have been ancestors in the development of Ongole Grade cattle, which corresponds to the documented history of Ongolization. Our finding indicate that SO cattle have maintained stability and possess unique traits separate from their ancestors. Conclusion: In conclusion, the genetic diversity of the SO cattle has been conserved as a result of the growing significance of the present demographic trend. Consistent endeavors are necessary to uphold the fitness of the breed.

Identification of Alternative Splicing and Fusion Transcripts in Non-Small Cell Lung Cancer by RNA Sequencing

  • Hong, Yoonki;Kim, Woo Jin;Bang, Chi Young;Lee, Jae Cheol;Oh, Yeon-Mok
    • Tuberculosis and Respiratory Diseases
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    • v.79 no.2
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    • pp.85-90
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    • 2016
  • Background: Lung cancer is the most common cause of cancer related death. Alterations in gene sequence, structure, and expression have an important role in the pathogenesis of lung cancer. Fusion genes and alternative splicing of cancer-related genes have the potential to be oncogenic. In the current study, we performed RNA-sequencing (RNA-seq) to investigate potential fusion genes and alternative splicing in non-small cell lung cancer. Methods: RNA was isolated from lung tissues obtained from 86 subjects with lung cancer. The RNA samples from lung cancer and normal tissues were processed with RNA-seq using the HiSeq 2000 system. Fusion genes were evaluated using Defuse and ChimeraScan. Candidate fusion transcripts were validated by Sanger sequencing. Alternative splicing was analyzed using multivariate analysis of transcript sequencing and validated using quantitative real time polymerase chain reaction. Results: RNA-seq data identified oncogenic fusion genes EML4-ALK and SLC34A2-ROS1 in three of 86 normal-cancer paired samples. Nine distinct fusion transcripts were selected using DeFuse and ChimeraScan; of which, four fusion transcripts were validated by Sanger sequencing. In 33 squamous cell carcinoma, 29 tumor specific skipped exon events and six mutually exclusive exon events were identified. ITGB4 and PYCR1 were top genes that showed significant tumor specific splice variants. Conclusion: In conclusion, RNA-seq data identified novel potential fusion transcripts and splice variants. Further evaluation of their functional significance in the pathogenesis of lung cancer is required.

The Relationship between Health Behaviors and Oral Health Status of Male Workers in small and medium industry (중소기업 남성근로자의 건강행태와 구강건강상태의 관련성)

  • An, In-Sul;Bahk, Seung-Wee;Lee, Kyeong-Soo;Jang, Eun-Jin
    • Journal of Technologic Dentistry
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    • v.34 no.1
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    • pp.25-36
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    • 2012
  • Purpose: The purpose of this study is to investigate the status of oral health behaviors and oral health status, and to analysis the association between health behavior and chronic disease and oral health status of male workers. Methods: The survey used structured self administered questionnaires from September to October in 2009 in Daegu and Gyeongsangbuk-do province, randomize thirty workplace which work more than 50 workers and carry out a survey targeting 30 to 50 age male laborers who work selected workplace. Total of 1,532 replies were analysed. Results: Age, education, monthly income, job was significantly associated with number of toothbrushing, scaling experience, number of missing teeth. Smoking, amount of smoking, frequency of drinking, number of tooth brushing, unmet need and subjective oral health condition, HBP and DM was significantly associated with the number of missing teeth. In logistic regression, age(above 40), monthly income and DM were significant factors on loss of teeth. Conclusion: In conclusion, it is important to provide education on the teeth-brushing and DM management to workers engaged in a small or medium sized workplace with many tooth loss and low educational status, and to recommend a regular scaling as well as to establish policy for creating conditions upon an oral health check-up and a tooth scaling and allow the maintenance of an oral health.

Dosimetric comparison between modulated arc therapy and static intensity modulated radiotherapy in thoracic esophageal cancer: a single institutional experience

  • Choi, Kyu Hye;Kim, Jina;Lee, Sea-Won;Kang, Young-nam;Jang, HongSeok
    • Radiation Oncology Journal
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    • v.36 no.1
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    • pp.63-70
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    • 2018
  • Purpose: The objective of this study was to compare dosimetric characteristics of three-dimensional conformal radiotherapy (3D-CRT) and two types of intensity-modulated radiotherapy (IMRT) which are step-and-shoot intensity modulated radiotherapy (s-IMRT) and modulated arc therapy (mARC) for thoracic esophageal cancer and analyze whether IMRT could reduce organ-at-risk (OAR) dose. Materials and Methods: We performed 3D-CRT, s-IMRT, and mARC planning for ten patients with thoracic esophageal cancer. The dose-volume histogram for each plan was extracted and the mean dose and clinically significant parameters were analyzed. Results: Analysis of target coverage showed that the conformity index (CI) and conformation number (CN) in mARC were superior to the other two plans (CI, p = 0.050; CN, p = 0.042). For the comparison of OAR, lung V5 was lowest in s-IMRT, followed by 3D-CRT, and mARC (p = 0.033). s-IMRT and mARC had lower values than 3D-CRT for heart $V_{30}$ (p = 0.039), $V_{40}$ (p = 0.040), and $V_{50}$ (p = 0.032). Conclusion: Effective conservation of the lung and heart in thoracic esophageal cancer could be expected when using s-IMRT. The mARC was lower in lung $V_{10}$, $V_{20}$, and $V_{30}$ than in 3D-CRT, but could not be proven superior in lung $V_5$. In conclusion, low-dose exposure to the lung and heart were expected to be lower in s-IMRT, reducing complications such as radiation pneumonitis or heart-related toxicities.

The Usefulness of Electromagnetic Neuronavigation in the Pediatric Neuroendoscopic Surgery

  • Choi, Ki Young;Seo, Bo Ra;Kim, Jae Hyoo;Kim, Soo Han;Kim, Tae Sun;Lee, Jung Kil
    • Journal of Korean Neurosurgical Society
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    • v.53 no.3
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    • pp.161-166
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    • 2013
  • Objective : Neuroendoscopy is applied to various intracranial pathologic conditions. But this technique needs informations for the anatomy, critically. Neuronavigation makes the operation more safe, exact and lesser invasive procedures. But classical neuronavigation systems with rigid pinning fixations were difficult to apply to pediatric populations because of their thin and immature skull. Electromagnetic neuronavigation has used in the very young patients because it does not need rigid pinning fixations. The usefulness of electromagnetic neuronavigation is described through our experiences of neuroendoscopy for pediatric groups and reviews for several literatures. Methods : Between January 2007 and July 2011, nine pediatric patients were managed with endoscopic surgery using electromagnetic neuronavigation (AxiEM, Medtronics, USA). The patients were 4.0 years of mean age (4 months-12 years) and consisted of 8 boys and 1 girl. Totally, 11 endoscopic procedures were performed. The cases involving surgical outcomes were reviewed. Results : The goal of surgery was achieved successfully at the time of surgery, as confirmed by postoperative imaging. In 2 patients, each patient underwent re-operations due to the aggravation of the previous lesion. And one had transient mild third nerve palsy due to intraoperative manipulation and the others had no surgery related complication. Conclusion : By using electromagnetic neuronavigation, neuroendoscopy was found to be a safe and effective technique. In conclusion, electromagnetic neuronavigation is a useful adjunct to neuroendoscopy in very young pediatric patients and an alternative to classical optical neuronavigation.

Factors Associated with Perticipation in a Walking Campaign (걷기행사 참가의 결정요인)

  • Jo, Heui-Sug;Song, Yea-Li-A;Hong, Seon-Young;Yoo, Seung-Hyun;Lee, Jeong-Reol
    • Korean Journal of Health Education and Promotion
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    • v.24 no.3
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    • pp.73-86
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    • 2007
  • Objective: The purposes of this study are to understand the characteristics of the participants in a community walking campaign and to analyze the factors related to their participation based on the Transtheoretical Model (TTM). Methods: The study composed of the description of participant characteristics and comparison of them with non-participant characteristics in a walking campaign in K province. The data were collected through a survey of 2,590 participants and 258 non-participants from the same community. The survey instrument included questions about stages of walking and exercise, knowledge and attitude toward walking, and environmental condition for walking. Results: A majority of the walking campaign participants were in the action(24.8%) and maintenance(43.6%) stages of walking and exercise behavior. The non-participant group was split between maintenance(51.6%) and precontemplation (30.6%) stages. Among the participants, effective campaign promotion channels differed by age group while motivation for participation and participation patterns were associated with both age and gender. Favorable physical environment was a significant factor of participating in walking campaign(OR=1.396, CI=1.149-1.696). Although the campaign participants scored higher than the non-participants in most attitude toward walking questions, differences in knowledge scores between two groups were less significant. Conclusion: In conclusion, further social marketing to increase the awareness and to increase the concern of population in the community is needed based on the survey result. Transtheoretical model seems appropriate to apply to the evaluation and the planning the program of the behavior change in the community. Also, more organized and sustainable support in need to maintain the good habit of walking for the participants in walking campaign.

Clothing Design Preference of Silver Generation Women - Focus on Age 60 and More - (실버세대 여성의 의복 디자인 선호도 - 60대 이상을 중심으로 -)

  • Chang, An-Hua
    • Fashion & Textile Research Journal
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    • v.8 no.5
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    • pp.496-504
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    • 2006
  • This study was conducted for silver generation women, age 60 and more. Questionnaire was answered by the total 291 of women. Frequency analysis, t-test, ANOVA and Duncon-Test have been completed by using SPSS 12.0 tool. The conclusion of the study is below. First, silver generation women live in Seoul and South Gyeongsang Province. The data shows huge academic background gab among regions. Second, the following is the preferences found by 15 stimulants which expert groups identified based on demography. People in South Gyeongsang Province like default, tailored, three-button jacket more. People in South Gyeongsang Province prefer to Chanel jackets and people in their 70s prefer to it than in 60s, stand collar casual jacket for color and material, and the less they are educated, the more they like the jackets. And those who have less personal expenses tend to prefer to it. South Gyeongsang Province shows preference for semi polo-neck sweater. Highly educated did not show any preference for it. Women in their 70s tend to like blouses with round neckline. The data shows there is significant difference of preference for design, color and material for coloration vest between education levels. The less educated tends to like it. People in South Gyeongsang Province and those who live with their children are in favor with half sleeve jackets for colors and materials. All in Seoul and South Gyeongsang Province do not like three-quarter-length sleeve jackets because those jacket have wide and deep plunging neckline. The study showed people living in Seoul, in their 60s, highly-educated tend to favor polo shirts significantly. Seoul favor basic straight pants and people with any level of education excluding elementary prefer to it. The highly-educated and those who have a bigger allowance tend not to prefer to baggy trousers. In conclusion, Fifteen incentives (clothing design) for semi polo-neck sweaters, polo t-shirts, basic straight pants are more proper to silver generation women in their 60s, living in Seoul. Other designs are desirably applicable to customers on a national scale at middle prices.

Clinical Application of $^{18}F-FDG$ PET in Bile Duct Cancer (담도암에서 $^{18}F-FDG$ PET의 임상 이용)

  • Yun, Mi-Jin;Kim, Tae-Sung;Hwang, Hee-Sung
    • Nuclear Medicine and Molecular Imaging
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    • v.42 no.sup1
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    • pp.66-70
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    • 2008
  • Reports about FDG PET in biliary tumor are limited and there are almost no reports regarding its efficacy. Biliary tumor is divided to intrahepatic and extrahepatic bile duct cancer, and intrahepatic bile duct cancer can be further divided to peripheral type which occurs at lobular duct and hilar type which occurs at hepatic hilum. Surgical resection is the only curative method for bile duct tumor, and accurate staging plays an important role in deciding treatment modality. Among intrahepatic bile duct tumors, peripheral type and hilar type have the same histological characteristics, but different clinical manifestations and tumor growth pattern. On PET image, FDG uptake is also different between peripheral type and hilar type. Most of the former shows high FDG uptake at primary and metastasis site so it is very useful for determining stage and changing treatment plans. However, the later is diversified among low uptake and very high uptake. The FDG uptake pattern of hilar type is similar to that of extrahepatic bile duct cancer, and mucinous component is an important factor, which affects FOG uptake. When tumor cells are scattered in desmoplatsic stroma, then FDG uptake is low as well. In contrast, when FDG uptake is high, it is likely to be tubular type which has high tumor density. Tumor growth pattern also affects FDG uptake. Nodular type mostly takes higher FDG compared to infiltrative type. There are many cases where benign inflammatory diseases take high FDG that PET alone can not distinguish malignant lesion from benign lesion. In conclusion, studies about PET using FDG are still limited. Thus, it is hard to make accurate conclusion about the roles of PET or PET/CT in biliary cancers, but peripheral type intrahepatic bile duct cancers and mass forming hilar and extrahepatic bile duct cancers appear to be good indications performing FDG PET or PET/CT.

Study of Gidaebang on the T cells activation using dendritic cells (수지상세포에서 지대방(止帶方)의 T 세포 활성화에 미치는 영향)

  • Kim, Ji-Ryang;Jeong, Ji-Hye;Cheong, Hyun-Cheol;Choe, Chang-Min;Cho, Han-Baek;Kim, Song-Baeg
    • The Journal of Korean Obstetrics and Gynecology
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    • v.23 no.2
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    • pp.57-70
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    • 2010
  • Purpose: In this study, we investigated the effects of GDB(Gidaebang) on the immune response to establish the treatment mechanism of vaginitis. Methods: We examined the effects of GDB on the DCs(Dendritic cells) phenotypic and functional maturation. iDCs were cultured in the presence of GM-CSF and the generated iDCs were respectively stimulated by GDB or LPS as the control group for 24 hours. To evaluate the DCs phenotypic and functional maturation, we used flow cytometric analysis, RT-PCR and ELISA. Results: 1. GDB upregulated the expression of class II MHC and CD40 on DCs. 2. GDB upregulated the expression of CD80 and CD86 on DCs. 3. GDB induced cytokine IL-12 production and mRNA expression in DCs. Conclusion: These results suggest that GDB is able to improve the antigen-presenting capacity of DCs through the upregulation of their maturation, and might induce proliferation of T cells. In conclusion, this immunomodulatory properties of GDB may be useful in the treatment of vaginitis.

Factors Associated with Persistent Sputum Positivity at the End of the Second Month of Tuberculosis Treatment in Lithuania

  • Diktanas, Saulius;Vasiliauskiene, Edita;Polubenko, Katazyna;Danila, Edvardas;Celedinaite, Indre;Boreikaite, Evelina;Misiunas, Kipras
    • Tuberculosis and Respiratory Diseases
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    • v.81 no.3
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    • pp.233-240
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    • 2018
  • Background: Non-conversion of sputum smear and culture prolongs the infectivity of the patient and has been associated with unfavorable outcomes. We aimed to evaluate factors associated with persistent sputum positivity at the end of two months of treatment of new case pulmonary tuberculosis (TB). Methods: Data of 87 human immunodeficiency virus-negative patients with culture-positive drug-susceptible pulmonary TB admitted to local university hospital between September 2015 and September 2016 were reviewed. Factors associated with sputum smear and/or culture positivity at the end of the second month of treatment were analyzed. Results: Twenty-two patients (25.3%) remained smear and/or culture-positive. Male sex, lower body mass index (BMI), unemployment, alcohol abuse, higher number of lobes involved and cavities on chest X-rays, shorter time to detection (TTD) on liquid cultures, higher respiratory sample smear grading and colony count in solid cultures, higher C-reactive protein, erythrocyte sedimentation rate, leukocytosis, thrombocytosis, and anemia were all significantly associated with persistent sputum positivity. However, in the logistic regression analysis only male sex, lower BMI, alcohol abuse, higher radiological involvement, cavitation, higher smear grading, higher colony count in solid cultures and shorter TTD were determined as independent factors associated with persistent sputum positivity at the end of 2 months of treatment. Conclusion: In conclusion, higher sputum smear and culture grading at diagnosis, shorter TTD, higher number of lobes involved, cavitation, male sex, alcohol abuse, and lower BMI were independently associated with persistent sputum positivity. These factors should be sought when distinguishing which patients will remain infectious longer and possibly have worse outcomes.