• Journal of Information Processing Systems
• /
• 제3권1호
• /
• pp.38-42
• /
• 2007

Microarray data includes tens of thousands of gene expressions simultaneously, so it can be effectively used in identifying the phenotypes of diseases. However, the retrieval of functional information from a large corpus of gene expression data is still a time-consuming task. In this paper, we propose an efficient method for identifying functional categories of differentially expressed genes from a micro-array experiment by using Gene Ontology (GO). Our method is as follows: (1) The expression data set is first filtered to include only genes with mean expression values that differ by at least 3-fold between the two groups. (2) The genes are then ranked based on the t-statistics. The 100 most highly ranked genes are selected as informative genes. (3) The t-value of each informative gene is imposed as a score on the associated GO terms. High-scoring GO terms are then listed with their associated genes and represent the functional category information of the micro-array experiment. A system called HMDA (Hallym Micro-array Data analysis) is implemented on publicly available micro-array data sets and validated. Our results were also compared with the original analysis.

• Genomics & Informatics
• /
• 제11권3호
• /
• pp.135-141
• /
• 2013

Gene set analysis is a powerful tool for interpreting a genome-wide association study result and is gaining popularity these days. Comparison of the gene sets obtained for a variety of traits measured from a single genetic epidemiology dataset may give insights into the biological mechanisms underlying these traits. Based on the previously published single nucleotide polymorphism (SNP) genotype data on 8,842 individuals enrolled in the Korea Association Resource project, we performed a series of systematic genome-wide association analyses for 49 quantitative traits of basic epidemiological, anthropometric, or blood chemistry parameters. Each analysis result was subjected to subsequent gene set analyses based on Gene Ontology (GO) terms using gene set analysis software, GSA-SNP, identifying a set of GO terms significantly associated to each trait ($p_{corr}$ < 0.05). Pairwise comparison of the traits in terms of the semantic similarity in their GO sets revealed surprising cases where phenotypically uncorrelated traits showed high similarity in terms of biological pathways. For example, the pH level was related to 7 other traits that showed low phenotypic correlations with it. A literature survey implies that these traits may be regulated partly by common pathways that involve neuronal or nerve systems.

• Asian-Australasian Journal of Animal Sciences
• /
• 제31권8호
• /
• pp.1110-1118
• /
• 2018

Objective: This study was intended to identify genes positively selected in Thoroughbred horses (THBs) that potentially contribute to their running performances. Methods: The genomes of THB and Jeju horses (JH, Korean native horse) were compared to identify genes positively selected in THB. We performed cross-population extended haplotype homozygosity (XP-EHH) and cross-population composite likelihood ratio test (XP-CLR) statistical methods for our analysis using whole genome resequencing data of 14 THB and 6 JH. Results: We identified 98 (XP-EHH) and 200 (XP-CLR) genes that are under positive selection in THB. Gene enrichment analysis identified 72 gene ontology biological process (GO BP) terms. The genes and GO BP terms explained some of THB's characteristics such as immunity, energy metabolism and eye size and function related to running performances. GO BP terms that play key roles in several cell signaling mechanisms, which affected ocular size and visual functions were identified. GO BP term Eye photoreceptor cell differentiation is among the terms annotated presumed to affect eye size. Conclusion: Our analysis revealed some positively selected candidate genes in THB related to their racing performances. The genes detected are related to the immunity, ocular size and function, and energy metabolism.

• 운동영양학회지
• /
• 제25권4호
• /
• pp.38-44
• /
• 2021

[Purpose] Exercise can prevent conditions such as atrophy and degenerative brain diseases. However, owing to individual differences in athletic ability, exercise supplements can be used to improve a person's exercise capacity. Schisandra chinensis (SC) is a natural product with various physiologically active effects. In this study, we analyzed SC using a pharmacological network and determined whether it could be used as an exercise supplement. [Methods] The active compounds of SC and target genes were identified using the Traditional Chinese Medicine Database and Analysis Platform (TCMSP). The active compound and target genes were selected based on pharmacokinetic (PK) conditions (oral bioavailability (OB) ≥ 30%, Caco-2 permeability (Caco-2) ≥ -0.4, and drug-likeness (DL) ≥ 0.18). Gene ontology (GO) was analyzed using the Cytoscape software. [Results] Eight active compounds were identified according to the PK conditions. Twenty-one target genes were identified after excluding duplicates in the eight active compounds. The top 10 GOs were analyzed using GO-biological process analysis. GO was subsequently divided into three representative categories: postsynaptic neurotransmitter receptor activity (53.85%), an intracellular steroid hormone receptor signaling pathway (36.46%), and endopeptidase activity (10%). SC is related to immune function. [Conclusion] According to the GO analysis, SC plays a role in immunity and inflammation, promotes liver metabolism, improves fatigue, and regulates the function of steroid receptors. Therefore, we suggest SC as an exercise supplement with nutritional and anti-fatigue benefits.

• 한국식품영양학회지
• /
• 제28권6호
• /
• pp.1026-1032
• /
• 2015

본 연구는 ${\beta}$-galactosidase와 효모 발효에 의해 고순도 갈락토올리도당(HP-GOS)의 제조를 위한 효율적인 방법을 찾고자 수행하였다. 6종의 상업용 ${\beta}$-galactosidase를 이용해 효소반응 전후의 구성당을 각각 비교한 결과, Lactozym 3000L을 이용하여 제조한 GOS에서 효소반응을 통해 생성된 total GOS의 양이 가장 높은 것으로 나타났다. 생성된 GOS의 농도는 초기 lactose로부터 51%의 전환율을 나타냈다. 또한 GOS의 수율은 효모(Saccharomyces cerevisiae)의 발효에 의해 더욱 높아졌는데, 효모를 8% 첨가하여 36시간 발효 후 생성된 GOS의 농도는 71%까지 도달했음을 확인하였다. HPLC를 이용한 구성당 분석 결과, S. cerevisiae에 의한 발효를 통해 제조한 HP-GOS에는 발효 전에 존재했던 glucose의 함량이 급감되었을 뿐 아니라, 4'/6'-galactosyllactose와 total GOS의 양은 유의적으로 증가되었다. HP-GOS는 상업용 GOS보다 Lactobacillus 속(L. acidophilus and L. casei) 및 Bifidobacterium 속(B. longum and B. bifidum)의 성장을 촉진시키는 것으로 확인되었다. 이러한 결과를 종합해 볼 때, 효소 처리 및 효모 발효를 통해 고순도의 GOS가 제조되었으며, 제조된 HP-GOS는 상업용 GOS에 비해 장내 유용균으로 알려진 Bifidobacterium 속과 Lactobacillus 속의 생육을 증가시킴으로써 인간의 장내 건강에도 유익한 영향을 미칠 것으로 사료된다.

• Korean Chemical Engineering Research
• /
• 제52권6호
• /
• pp.781-788
• /
• 2014

Polyaniline modified graphene oxide (PANI/GO) composites were synthesized by dilute polymerization technique and were characterized by Fourier transformed infrared spectroscopy (FTIR), Raman spectroscopy, and scanning electron microscopy (SEM). The characterization results indicated that polyaniline molecules were successfully grafted on GO surfaces. The application of PANI/GO composites to the adsorption of heavy metals from aqueous solutions was investigated under ambient conditions. The maximum adsorption capacities of Co(II), Ni(II), Pb(II) and U(VI) ions on PANI/GO composites calculated from Langmuir models are 22.28, 25.67, 65.40 and 1552.31 mg/g, respectively. The excellent adsorption capacity suggests that PANI/GO composites can be applied as a promising adsorbent in heavy metal pollution cleanup in environmental pollution management.

• 대한한방내과학회지
• /
• 제21권1호
• /
• pp.108-115
• /
• 2000

Objective : To investigate the hepatoprotective effects of Gami-oryungsan on the liver damage induced by bromobenzene. Method : The development of fibrosis and acute liver injury was examined by the chemical analysis of AST, AL T, ${\gamma}$-GTP . and epoxide hydrolase glutathione S-transferase glutathione peroxidase enzyme activity, lipidoperoxide levels, glutathione levels were measured and oberved. Results : The increasing levels of lipidoperoxide was decreased proportionally according to dose of extract GO. Epoxide hydrolase glutathioneS-transferase glutathione peroxidase enzyme activity highly increased in GO pre-acupunctured group compared with the group treated with only bromobenzene. The increase of serum AST, AL T, ${\gamma}$-GTP enzyme activity of mice by bromobenzene was inhibited by the administration of GO. Lipidoperoxide levels in rat's liver decreased compared to the case of bromobenzene-treated group. The levels of Glutathione decreased by bromo benzene were increased highly in GO pre-acupunctured group. Conclusion : These results suggest that GO extract recovers the damage of liver due to bromobenzene intoxication by decreasing the lipid peroxidation AST AL T ${\gamma}$-GTP enzyme activity and increasing epoxide hydrolase glutathioneS-transferase glutathione peroxidase enzyme activity, glutathione levels.

• 한국게임학회 논문지
• /
• 제14권6호
• /
• pp.39-48
• /
• 2014

바둑은 단순한 규칙에도 불구하고 매우 복잡한 전략보드 게임이다. 몬테카를로 트리탐색을 이용하여 컴퓨터 바둑 프로그램들이 접바둑으로 프로기사를 제압해 왔다. 몬테카를로 트리탐색은 전략의 개념보다는 몬테카를로 시뮬레이션에 의해 계산된 승률에 근간을 한다. 반면에 적절한 적합도 함수로 된 유전 알고리즘은 게임 내 최적 해를 찾아낼 수 있다. 삼목 게임(또는 ${\bigcirc}{\times}$게임)은 가장 대중적인 게임 중의 하나이다. 저자는 삼목 게임에서의 최선의 전략을 찾고자 했다. 실험 결과로 유전 알고리즘은 효율적인 전략들을 찾을 수가 있으며, 바둑과 서양장기와 같은 여타 보드게임들에 적용할 수 있음을 보였다.

• Asian-Australasian Journal of Animal Sciences
• /
• 제27권2호
• /
• pp.179-186
• /
• 2014

This study aimed to investigate the diversity of the Butyrivibrio group bacteria in goat rumen and its response to garlic oil (GO) supplementation as revealed by molecular analysis of cloned 16S rRNA genes. Six wethers fitted with ruminal fistulas were assigned to two groups for a cross-over design with 28-d experimental period and 14-d interval. Goats were fed a basal diet without (control) or with GO ruminal infusion (0.8 g/d). Ruminal contents were used for DNA extraction collected before morning feeding on d 28. A total bacterial clone library was firstly constructed by nearly full-length 16S rRNA gene cloned sequences using universal primers. The resulting plasmids selected by Butyrivibrio-specific primers were used to construct a Butyrivibrio group-specific bacterial clone library. Butyrivibrio group represented 12.98% and 10.95% of total bacteria in control and GO group, respectively. In libraries, clones were classified to the genus Pseudobutyrivibrio, Butyrivibrio and others within the family Lachnospiraceae. Additionally, some specific clones were observed in GO group, being classified to the genus Ruminococcus and others within the family Ruminococcaceae. Based on the criterion that the similarity was 97% or greater with database sequences, there were 29.73% and 18.42% of clones identified as known isolates (i.e. B. proteoclasticus and Ps. ruminis) in control and GO groups, respectively. Further clones identified as B. fibrisolvens (5.41%) and R. flavefaciens (7.89%) were specifically found in control and GO groups, respectively. The majority of clones resembled Ps. ruminis (98% to 99% similarity), except for Lachnospiraceae bacteria (87% to 92% similarity) in the two libraries. The two clone libraries also appeared different in Shannon diversity index (control 2.47 and GO group 2.91). Our results indicated that the Butyrivibrio group bacteria had a complex community with considerable unknown species in the goat rumen.

• 한방재활의학과학회지
• /
• 제30권3호
• /
• pp.117-127
• /
• 2020

Objectives The purpose of this study was to compare the effect of herb medication based on 'Go-bang' treatment, 'Huse-bang' treatment for patients with acute neck pain caused by traffic accidents. Methods We studied 40 patients with acute neck pain after traffic accidents who had admitted to Department of Korean Medicine Rehabilitation, College of Korean Medicine, Daejeon University from November 25, 2018 to November 25, 2019. 20 patients had received Herb Medication Based on 'Go-bang' and 20 patients had received herb medication based on 'Huse-bang' three times a day. The study was conducted as a retrospective observation study which analyze the patient's medical records. We used visual analogue scale (VAS) to evaluate pain reduction and neck disability index (NDI) to evaluate function improvement twice (hospitalization day and 5 days later). Statistical analysis was performed using the IBM SPSS statistics 25 program. Result The VAS scores, NDI scores decreased statistically significantly after treatment in all patients. Both 'Go-bang' and 'Huse-bang'groups showed a statistically significant VAS reduction and improvement of NDI on the fifth day of hospitalization. In the 'Huse-bang' group, there was a statistically significant improvement of NDI than in the 'Go-bang' group. Conclusion We found that both types of herbal-medication were significantly effective on acute neck pain and neck disability after traffic accident. Further study is needed about the comparison of effectiveness between Go-bang' and 'Huse-bang'groups.