• Proceedings of the Korean Institute of Intelligent Systems Conference
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• 2007.11a
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• pp.149-152
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• 2007

본 논문은 바이오 인포메틱스의 분야를 간단히 소개하고 기능유전체학에서 microarray 실험에 대한 통계적 방법론을 살펴보고자 한다. 또한 DNA chip 설계와 생물학적 특정에 대해 살펴보고 각 분야에서 적용되는 통계적 방법을 연구분석 해보고자 한다.

• Proceedings of the Korea Contents Association Conference
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• 2017.05a
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• pp.313-314
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• 2017

이 논문에서는 DNA 분석단계 중 하나인 DNA 리드(Read)에 대한 중복제거 방법을 분산 병렬처리 기법을 적용하여 가속화하는 방법을 제안한다. 기존 제안된 중복제거 기법을 Spark을 기반으로 병렬처리 되도록 하는 접근방법을 취한다. 제안하는 기법은 실험을 통해서 기존 중복제거 기법과 비교하여 성능을 입증한다.

• Applied Biological Chemistry
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• v.33 no.4
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• pp.343-348
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• 1990

E. coli LE392, transformed with CDDP-treated pBR322 DNA, was plated on ampicillin containing media. The number of colonies formed on ampicillin containing agar plate was reduced to undetectable level after treat the DNA with 13.3 ${\mu}M$ CDDP. The CDDP-treated pBR322 DNA was susceptible to sing1e strand DNA specific S1 nuclease and it's migration Pattern in agarose gel electrophoresis was changed. These results suggest that CDDP adduction to pBR322 DNA resulted in denaturation of the double helix and changes in it's conformation which ultimately leads In the inactivation of the ampicillin resistant sere.

• Journal of the Korean Society for Marine Environment & Energy
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• v.9 no.4
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• pp.187-192
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• 2006

In order to know the biological effect of effluent from shipyard and the adjacent stream water on four organisms (flatfish, rockfish, sea squirt and arkshell) cultured around the shipyard, lethal rate and DNA damage were measured after 48 hr exposure and carried out by a single cell gel electrophoresis, namely comet assay. $LC_{50}$ (48 hr) could not be calculated in any organism 48 hours after exposure to effluent from shipyard and stream water, because all organism showed a lethal rate lower than 20%. Regardless of no acute toxicity, DNA damage of flatfish and rockfish was detected higher in Jang-Pyoung stream than in control, whereas sea squirt revealed higher DNA damage in laundry waste water. From these results, Jang-Pyoung stream seemed to have a relatively higher genotoxicity rather than effluent from shipyard.

• Korean Journal of Plant Tissue Culture
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• v.21 no.1
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• pp.29-34
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• 1994

The possibility that DNA could move out of the single cells isolated from geranium (Pelargonium zonale hybrids, 'PintoScarlet') callus was determined by the elechophoretic DNA analysis after treatment of low pH, various concentrations of KNO$_3$, 2,4-D, and GA$_3$ followed by the centrifugal force, all of which are hewn to and the physico-chemical properties of the cell wall. The centrifugal force of l,800 xg was need for DNA migration after the above treatment, but 7k300 xg was required without the treatments. In this experiment the optimum concentration (300 mg/L) of sodium dodecyl sulfate (SDS) used as an anion detergent to collect the negatively charged DNA was very critical not to damage the cell wall It can be concluded that the centrifugal force played a key role for the DNA migration through the cell wall, and the treatments of low pH (4.0), 0.5% KNO$_3$, 1.5 mg/L GA$_3$and 1mg/L 2,4-D further increased the DNA migration.

• Proceedings of the Korean Information Science Society Conference
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• 2006.10c
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• pp.118-123
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• 2006

DNA 시퀀스 데이터베이스 규모의 급격한 증가 추세를 고려할 때, DNA 시퀀스 검색 연산을 보다 효과적으로 지원할 수 있는 인덱싱 및 질의 처리 기술이 요구 된다. 접미어 트리는 DNA 시퀀스 검색을 위한 좋은 인덱스 구조로 알려져 왔다. 그러나 접미어 트리는 그 구조적 특성으로 인하여 저장공간, 검색 성능, DBMS와의 통합 등의 문제점을 갖는다. 본 논문에서는 이와 같은 접미어 트리의 문제점들을 해결하는 DNA 시퀀스 검색을 위한 새로운 인덱스 구조를 제안하고, 이를 기반으로 하는 효율적인 질의 처리 방식을 제안한다. 제안된 인덱스 기법은 이진 트라이를 기본 구조로 채택하며 DNA 시퀀스의 윈도우 서브 시퀀스를 인덱싱 대상으로 한다. 유사 서브 시퀀스 검색을 위한 질의 처리 알고리즘은 기본적으로 다이나믹 프로그래밍 기법에 근거하여 이진 트라이를 루트로부터 너비 우선(breadth-first) 방식으로 운행하며, 경로 상에 존재하는 모든 유사 서브 시퀀스를 검색해 낸다. 제안된 기법의 우수성을 검증하기 위하여, 기존의 접미어 트리와의 비교 실험을 통한 성능 평가를 수행하였다. 실험 결과에 의하면, 제안된 인덱스 기법은 접미어 트리에 비하여 약 30%의 작은 저장 공간을 가지고도 수배에서 수십배의 검색 성능의 개선 효과를 나타낸다.

• The Korean Journal of Zoology
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• v.26 no.3
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• pp.171-179
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• 1983

Amounts of DNA single strand breaks and unscheduled DNA synthesis in CHO cells exposed to MMS were increased in the presence of 3-aminobenzamide, a potent inhibitor of poly (ADP-ribose) polymerase. However, those in cells irradiated with UV-light were decreased. These results suggest that poly (ADP-ribose) polymerase acts negatively on the MMS-induced base excision repair but positively on the UV-induced nucleotide excision repair. In the combined treatment with MMS and UV-light in the presence of this inhibitor, amounts of strand breaks were just the same as those in the absence of the inhibitor. But those of unscheduled DNA synthesis were increased up to the amount induced by UV-light alone. These results may suggest that poly (ADP-ribose) polymerase affects the incision step of excision repair induced by MMS and UV-light independently, and that it may potentiate the complete cleaving of UV-induced pyrimidine dimers possibly by the repair enzymes which might have been partially inactivated by MMS.

• Korean Journal of Fisheries and Aquatic Sciences
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• v.8 no.1
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• pp.37-45
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• 1975

The present study was ,conducted to evaluate the effects of condensed phosphates on the refeezing damage of Alaska pollack muscle. The fillets were dipped in such solution as 5 and $10\%$ sodium polyphosphate, 1 and $5\%$ mixture of sodium polyphosphate and sodium pyrophosphate (1:1, w/w) for 1 and 5 minutes, respectively, before refreezing. And fillets were frozen at $27^{\circ}C\~28^{\circ}C$ and stored for 15 days at $-18^{\circ}\~-20^{\circ}$. The degree of denaturation was estimated by determining amounts of drip relased, content of total solids, nitrogen, and DNA in the drip an cooking-weight-loss. Phosphorus absorbed in the muscle was also determined. Phosphorus absorbed in the fillets treated with loft solution of sodium polyphosphate for 5 minutes amounted to 101 mg/100g muscle as $P_2O_5$. The absorption was dependent on tile concentration of treating solution rather than on the dipping time. The increase of phosphorus absorption seemed to affect to reduction of drip. Among the treating conditions, $10\%$, 5 minutes and $10\%$ 1 minute with sodium polyphosphate appeared most effective ones on drip reduction. The effect of $5\%$, minutes with the mixture of sodium polyphosphate and sodium pyrophosphate did not show so benefitable effect in refrozen fillets. As a tendency total solids, nitrogen, and DNA in tile drip varied proportionally to the amount of drip released. And the content of DNA was lower than the amount. Treatment, at higher the concentration and longer the dipping time, resulted in the lower cooking-weight-loss and the better quality on organoleptic test of thawed fillets.

• Korean Journal of Food Science and Technology
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• v.25 no.1
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• pp.46-51
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• 1993

The inactivating effect of iron(II)-ascorbate complex (Fe-Asc) on various phages was previously reported. This paper describes the molecular target in the phage virion attacked by Fe-Asc. The effect of Fe-Asc on protein was investigated with bovine serum albumin and the structural protein of phage J1. There were no differences in the SDS-polyacrylamide gel electrophoresis (patterns of these two proteins when either they were treated) with Fe-Asc or not. Also, there were no changes in the amino acid composition and ultraviolet spectrum of the proteins. The effects of Fe-Asc on DNA was investigated with pUC18 DNA, M13mpB DNA and ${\lambda}$ DNA as well as DNA from phage J1. Fe-Asc caused initially nicking of the subsequently form of pUC18 DNA to yield the open circular form and then subsequently the linear form. Strand breaks were also confirmed with M13mp8 DNA and ${\lambda}$ DNA as well as J1 DNA. The results indicate that the strand breaks in phage DNA could be responsible for the inactivation of phages by Fe-Asc.

• Journal of Life Science
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• v.17 no.6 s.86
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• pp.748-755
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• 2007

The in vitro activity of ST1571, an inhibitor of the Abl group of protein-tyrosine kinases, alone or in combination with camptothecin (CPT), a specific topoisomerase I inhibitor, was evaluated against human cancer cells with different metastatic capacity and drug resistance potency. These cell lines showed different sensitivity to ST157 on growth inhibition, and the expression of DNA-dependent protein kinase (DNA-PK), which interacts constitutively with c-Abl, was significantly decreased in drug sensitive CEM and MCF-7 cells and poorly metastatic PC3 and KMl2 cells as compared with that of multidrug resistant CEM/MDR and MCF-7/MDR cells and highly metastatic PC3-MM2 and KM/L4a cells, respectively. These results suggest differential modulation of DNA-PK by ST1571 treatment in drug resistance and metastatic degree dependent manner. We showed that CPT as well as ST1571 significantly inhibits the expression of DNA-PK. The combined treatment with ST15fl and CPT revealed synergistic effect, and the effect was accompanied by inhibition of cell proliferation due to significant reduced expression of DNA-PK components, which resulted in CPT sensitizes human cancer cells resistant to ST1571. Therefore, the results of our study suggested that the suppression of DNA-PK using combination of ST1571 and CPT could be a novel molecular target for against drugresistant and metastatic cancer cells.