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Building a Classifier for Integrated Microarray Datasets through Two-Stage Approach (2 단계 접근법을 통한 통합 마이크로어레이 데이타의 분류기 생성)

  • Yoon, Young-Mi;Lee, Jong-Chan;Park, Sang-Hyun
    • Journal of KIISE:Databases
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    • v.34 no.1
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    • pp.46-58
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    • 2007
  • Since microarray data acquire tens of thousands of gene expression values simultaneously, they could be very useful in identifying the phenotypes of diseases. However, the results of analyzing several microarray datasets which were independently carried out with the same biological objectives, could turn out to be different. One of the main reasons is attributable to the limited number of samples involved in one microarry experiment. In order to increase the classification accuracy, it is desirable to augment the sample size by integrating and maximizing the use of independently-conducted microarray datasets. In this paper, we propose a novel two-stage approach which firstly integrates individual microarray datasets to overcome the problem caused by limited number of samples, and identifies informative genes, secondly builds a classifier using only the informative genes. The classifier from large samples by integrating independent microarray datasets achieves high accuracy up to 24.19% increase as against other comparison methods, sensitivity, and specificity on independent test sample dataset.

'Saenara', a New Chuseok Season Apple Cultivar (추석용(秋夕用) 고품질 사과 '새나라' 육성(育成))

  • Shin, Yong-Uk;Hwang, Jeong-Hwan;Song, Kwan-Jeong;Lee, Don-Kyun
    • Horticultural Science & Technology
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    • v.19 no.3
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    • pp.348-351
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    • 2001
  • 'Saenara' released by National Horticultural Research Institute in 1997 is a mid-season apple cultivar with attractive red skin, high quality and high productivity. This cultivar originated from the cross between 'Spur EarliBlaze' and 'Spur Golden Delicious' at Suwon in 1981. It was first selected in 1992 and named 'Wonkyo Ga-08'. The regional adaptability test was carried out for 5 years from 1993 to 1997 at 7 different sites. 'Saenara' is medium in tree vigor and has a spreading tree form. It bears abundant flower buds on many spurs. It blossoms a day earlier than 'Spur Golden Delicious', 3 days later than 'Spur EarliBlaze'. Harvesting time of 'Saenara' is September 10, 140 days after full bloom at Suwon. Fruit shape is conical and skin color is bright red. Fruit weighs about 300 g and has $14.6^{\circ}Brix$ soluble solids content. It is susceptible to alternaria leaf spot (Alternaria mali Roberts).

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A Novel Fiber Bragg Grating Sensing Interrogation Method Using Bidirectional Modulation of a Mach-Zehnder Electro-Optical Modulator (Mach-Zehnder 광변조기의 양방향 변조를 이용한 새로운 광섬유격자 센서 검출 방법)

  • Mao, Wankai;Pan, Jae-Kyung
    • Journal of the Institute of Electronics Engineers of Korea SD
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    • v.47 no.7
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    • pp.17-22
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    • 2010
  • We have proposed and experimentally demonstrated a novel fiber Bragg grating (FBG) sensing interrogation method using bidirectional modulation of a Mach-Zehnder electro-optical modulator (MZ-EOM). The proposed structure consists mainly of a broadband light source (BBS), FBG, MZ-EOM, chirped fiber Bragg grating (CFBG), and photodetector (PD). We have obtained the transfer functions of the proposed structure and calculated the time delay from the change in the free spectral range (FSR) for ten wavelengths over the frequency range of 505 MHz to 525 MHz. The results show that the time delay and the wavelength variation have a good linear relationship with a gradient of 12.9 ps/0.2 nm, which can be usefully applied to FBG strain or temperature sensors and other multiplexed sensor applications.

AN EXPERIMENT TO INDUCE SPAWNING OF CHINESE CARPS BY PITUITARY INJECTION (초어 및 백련의 인공 번식에 관한 연구)

  • Kim In-Bae
    • Korean Journal of Fisheries and Aquatic Sciences
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    • v.3 no.1
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    • pp.19-26
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    • 1970
  • During the summer of 1969, a series of experiments on the spawning and development of the eggs of grass carp and silver carp was performed with the following results, but the complete development of eggs Iras not accomplished: 1. The season of maturity for both species is estimated to be from the end of June to the beginning of August. 2. Pituitary glands for the use of inducing maturation should be obtained before the maturation season of its donor. 3. Silver carp as small as 40 cm in body length (48 cm in total length) with an age of 6 years were found to have reached maturity, and the number of eggs in the ovaries were from about 23 to 26 thousand for those with body lengths of 40-44.5 cm. 4. The conical-shaped net cloth incubator worked better than others, and each incubator was most effective when installed in parallel series to the water supply pipe with a valve for each incubator to control water flow. 5. During the egg development, if any cell or cells were displaced, the eggs eventually died. 6. The proper manipulation of brood fish before the egg-taking seems to be very Important, and close care should be paid to feeding them well and keeping them in a pond of proper water depth.

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Classification of Ovarian Cancer Microarray Data based on Intelligent Systems with Marker gene (선별 시스템 기반 표지 유전자를 포함한 난소암 마이크로어레이 데이터 분류)

  • Park, Su-Young;Jung, Chai-Yeoung
    • Journal of the Korea Institute of Information and Communication Engineering
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    • v.15 no.3
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    • pp.747-752
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    • 2011
  • Microarray classification typically possesses two striking attributes: (1) classifier design and error estimation are based on remarkably small samples and (2) cross-validation error estimation is employed in the majority of the papers. A Microarray data of ovarian cancer consists of the expressions of thens of thousands of genes, and there is no systematic procedure to analyze this information instantaneously. In this paper, gene markers are selected by ranking genes according to statistics, popular classification rules - linear discriminant analysis, k-nearest-neighbor and decision trees - has been performed comparing classification accuracy of data selecting gene markers and not selecting gene markers. The Result that apply linear classification analysis at Microarray data set including marker gene that are selected using ANOVA method represent the highest classification accuracy of 97.78% and the lowest prediction error estimate.

Artificial Spawning, Larval and Spat Developments of the Bay Scallop, Argopecten irradians (해만가리비, Argopecten irradians의 인공산란과 유생 및 치패의 발생)

  • Oh, Bong-Se;Jung, Choon-Goo;Kim, Sook-Yang
    • The Korean Journal of Malacology
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    • v.19 no.1
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    • pp.19-24
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    • 2003
  • Artificial spawning, larval and spat developments of the bay scallop, Argopecten irradians, which was transplanted from China on 16 August 1996, were investigated monthly until August 1997 in the Deukyang Bay, Jangheung-gun, Jeollanam-do, Korea. Sufficient amount of cultured microalgae supplemented seawater were supplied as food (6 kinds of phytoplankton) for fully grown adult individuals at 17.1-23.2$^{\circ}C$ for 44 days. A total of 45,320,000 eggs were spawned by way of 2 times of artificial spawning inductions such as exposure stimulus to the air and thermal shock (with water temperature) on 29 January and 31 January in 1997. Artificially fertilized eggs were developed to D-shaped larvae (77.5 ${\times}\;63.8\;{\mu}m)$ and metamorphosed to larvae (191.8 ${\times}\;181.2\;{\mu}m)$ 181.2 m) in the attached larval stage on the collectors. A total of 110,000 spats (average 3.04 mm in shell length) were produced at 22.8-26.3$^{\circ}C$ and 31.0-34.4 psu in the indoor rearing tank from 14 February through 7 May in 1997. In case of Argopecten irradians, if the attached larvae in the attachment stage are detached from the collector, they could not live. Accordingly, it is assumed that survival (%) of the attached larvae of A. irridians showed very low because of weak power attached to the collector due to the small number of the byssuses of the attached larva, not the short attachment period by the byssus as seen in other scallops such as Argopecten balloti.

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Effects of Bagging Periods on Pericarp Characteristics and Berry Cracking in 'Kyoho' Grape (Vitis sp.) (괘대시기가 '거봉' 포도의 과피 특성과 열과에 미치는 영향)

  • Son, In-Chang;Kim, Dae-Il
    • Horticultural Science & Technology
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    • v.28 no.3
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    • pp.381-386
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    • 2010
  • The berry growth and pericarp characteristics were characterized to confirm the effects of bagging periods on berry cracking during berry development in 'Kyoho' grape. The berry weight was the highest at 13.4 g in late period of bagging treated at 7 to 9 weeks after full bloom (WAFB) as compared with the lowest of 12.3 g in total period bagging. The berry cracking rate under critical turgor pressure in the non-bagging control was 53.3%, while those of bagging treatments were decreased in the order of 42.7%, 37.3%, 33.3%, and 18.7% in bagged during 3 to 9, 3 to 5, 5 to 7, and 7 to 9 WAFB, respectively. In the results of observation on histological characteristics of pericarp, berry lenticels of whole bagging treatments had smaller and normal shape compared with non-bagging control treatment. Especially on the pericarp of late period bagged during 7 to 9 WAFB, suberization around stomata and micro-cracking were not observed and structural strength of pericarp was increased with thicker sub-epidermal layer and cell wall. Therefore, the results indicate that bagging treatment for two weeks just before the veraison when the day length and daylight is relatively longer and stronger can effectively reduce berry cracking by strengthening structure of pericarp in 'Kyoho' grape.

Influence of Leaf Number on Berry Quality of 'Campbell Early' Grape (포도 '캠벨얼리' 품종의 엽수 조절에 따른 과실 품질변화)

  • Park, Seo-Jun;Kim, Jin-Gook;Jung, Sung-Min;Noh, Jung-Ho;Hur, Youn-Young;Park, Kyo-Sun
    • Journal of Bio-Environment Control
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    • v.20 no.3
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    • pp.211-215
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    • 2011
  • This study aimed to determine optimum leaves per shoot in 'Campbell Early' grape through investigating changes of fruit quality after veraison 70~75 berries of first cluster and 35~40 berries of second cluster at 30 days after full bloom. Soluble solids content (SSC) increased dramatically during 28 days after veraison and afterwards it was stabilized. 15 leaves per shoot treatment showed fast increase of SSC from early veraison and reached to over 16.0oBx at 28 days after veraison. No considerable increase of SSC were occurred on either 5 or 0 leaves per shoot treatments after veraison. Titratable acidity (TA) was decreased continuously during 28 days of berry ripening in the all treatments. In 15 leaves per shoot treatment, TA decreased fast during first 7 days after veraison and continuously decreased to 0.5% by harvest time. While, 5 and 0 leaves per shoot treatments showed TA decrease slightly only at the early veraison. Hunter L and b values of 15 leaves per shoot treatment decreased fast during first 7 days of veraison, and gradually decreased by 14 days, whereas Hunter a value increased fast during the first 7 days from veraison. Total anthocyanin content in 15 leaves per shoot treatment increased fast from 7 days of veraison and the increase became slow after 28 days of veraison. Other treatments showed no significant difference from veraison to harvest time.

Breeding of the Scab-Resistant Pear Cultivar 'Greensis' (배 검은별무늬병 저항성 품종 '그린시스' 육성)

  • Kim, Yoon-Kyeong;Kang, Sam-Seok;Won, Kyung-Ho;Shin, Il-Sheob;Cho, Kwang-Sik;Ma, Kyeong-Bok;Kim, Myung-Su;Choi, Jang-Jeon;Choi, Jin-Ho
    • Horticultural Science & Technology
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    • v.34 no.4
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    • pp.655-661
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    • 2016
  • To develop scab-resistant pear (Pyrus spp.) varieties with fruits that are as crisp and juicy as Asian pears, a cross was made between 'Whangkeumbae' and 'Bartlett' varieties (P. pyrifolia ${\times}$ P. communis) at the Pear Research Institute of the National Institute of Horticultural & Herbal Science, Rural Development Administration, in 1994. Among the 285 seedlings, 'Greensis' was first selected in 2006 for its good eating quality and named in 2012 after regional adaptation tests in nine regions and ten experimental plots from 2007 to 2012. The tree showed a vigorous growth habit and semi-spreading characteristics, like 'Whangkeumbae'. The optimum fruit harvest date was also around Sept. 26 and fruit was round in shape and green in skin color at maturity. Average fruit weight was 470g, and the soluble solids content was $12.4^{\circ}Brix$. The flesh was very crisp and juicy, and had good eating quality. Its' leaf size was similar with 'Bartlett' and smaller than 'Whangkeumbae'. The average of full bloom date of 'Greensis' was determined as Apr. 26, which was six days later than 'Whangkeumbae' and similar with 'Bartlett'. S genotypes of 'Greensis' were identified as $S_4S_e$ by S-allele PCR product sequencing analysis. It seems that the $S_4$ allele was inherited from 'Whangkeumbae' and the Se allele from 'Bartlett'. 'Greensis' displayed strong resistance to scab disease caused by Venturia nashicola, similar to European pear cultivars like 'Beurre Hardy' and, 'Conference'. 'Greensis' was also highly resistant to black leaf spot (Alternaria kikuchiana) in the field

Effect of Fermented Brown Seaweed Waste (FBSW) on Milk Production, Composition and Physiological Responses in Holstein Dairy Cows (발효미역부산물의 첨가가 Holstein 비유우의 비유성적 및 생리반응에 미치는 영향)

  • Hong, Zhong-Shan;Lee, Zhe-Hu;Xu, Cheng-Xiong;Yin, Jin-Long;Jin, Young-Cheng;Lee, Hyun-Jun;Lee, Sang-Bum;Choi, Yun-Jaie;Lee, Hong-Gu
    • Journal of Animal Science and Technology
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    • v.52 no.4
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    • pp.287-296
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    • 2010
  • This study was conducted to determine effects of fermented brown seaweed waste (FBSW) on milk production, composition and physiological responses as functional feed for 60 days in Holstein dairy cows. A total of 24 Holstein dairy cows (average age 49.33 months, average lactation days 175, Reproduction 2.0) were randomly allocated into control(basal diet), 1% FBSW (180g in basal diet) and 2% FBSW (360g in basal diet) groups with 8 replications for 60 days. Daily milk yield and composition (fat, protein, SNF, MUN) were not affected by FBSW supplementation, but Ca level in milk was significantly increased 4.29 mg/dl and 2.91 mg/dl in 1% and 2% groups compared to control group (p<0.05) at the end of the experiment, respectively. The somatic cell count (SCC) in milk was not significant. The plasma $T_4$ level (concentration) were increased in 1% and 2% FBSW compared to control group at the end of the experiment (p<0.05), but between triiodothyronine ($T_3$) and thyroxin ($T_4$) levels were not significant. Concentrations of plasma glucose in control, 1% FBSW and 2% FBSW groups were 64. 37mg/dl, 66.15mg/dl and 73.02 mg/dl and plasma NEFA level was 0.30~0.32 mEq/dl. Concentrations of BUN tended to be higher for FBSW group than control group. Although WBC, RBC, Hb, Hct, T-B, ALP, and GPT levels were not affected by FBSW supplementation, GOT level was significantly decreased in cows fed 1% FBSE diet compared to control group (P<0.05). Therefore we strongly suggest that the 1% FBSW supplementation in basal diet increases the milk yield and Ca level in Holstein dairy cows.