Efficacy of reduced-size short tandem repeat PCR analysis for degraded DNA samples

Jeongyong Kim,Hyojeong Kim,Youn‑Hyoung Nam,Ja Hyun Lee,Hyo Sook Kim,Eungsoo Kim 한국유전학회 2021 Genes & Genomics Vol.43 No.7

Background Short tandem repeats (STR) typing is an essential analysis method for human identifcation in forensic feld. When DNAs obtained from the feld as evidences are severely degraded or in too small amounts, STR analysis often shows allele drop-out. Objective To improve STR analysis for degraded DNA or trace DNA, reduced-size STR (rSTR) polymerase chain reaction (PCR) system was devised by selecting relatively large-size STR loci. Methods The rSTR PCR system consisted of 8 loci (amelogenin, SE33, CSF1PO, D7S820, D13S317, D2S1338, TPOX, and FGA). The size of PCR product was reduced by designing new primers in the fanking region. The efciency of this system was verifed against existing kits through concordance study, sensitivity study, efciency study, and casework sample study. Results The size of PCR product in the rSTR PCR system was reduced to be less than 322 bp. The amplicon of each locus was reduced by about 100 bp on average. Results of this rSTR PCR system were confrmed using 146 Korean samples and other commercial kits. The rSTR PCR system was capable of analyzing DNA samples with a minimum amount of DNA of 16 pg and a degradation index of 4.215. Conclusion The rSTR PCR system was more efective than other PCR kits for obtaining genetic profles from a small amount of DNA or degraded DNA. The combination of this new system and other commercial kits is more efective than existing systems. This combination is expected to be helpful for the identifcation of unidentifed bodies and skeletal samples.

Mutation Cases in the Korean Population using 23 Autosomal STR Loci Analysis

Jeongyong Kim,Hyojeong Kim,Ja Hyun Lee,Hyo Sook Kim,Eungsoo Kim 대한의생명과학회 2021 Biomedical Science Letters Vol.27 No.2

Validation of Reduced-volume Reaction in the PowerQuant<SUP>®</SUP> System for human DNA Quantification

Hyojeong Kim,Yoonjung Cho,Jeongyong Kim,Ja Hyun Lee,Hyo Sook Kim,Eungsoo Kim 대한의생명과학회 2020 Biomedical Science Letters Vol.26 No.4

Since its introduction in the forensic field, quantitative PCR (qPCR) has played an essential role in DNA analysis. Quality of DNA should be evaluated before short tandem repeat (STR) profiling to obtain reliable results and reduce unnecessary costs. To this end, various human DNA quantification kits have been developed. Among these kits, the PowerQunat<SUP>®</SUP> System was designed not only to determine the total amount of human DNA and human male DNA from a forensic evidence item, but also to offer data about degradation of DNA samples. However, a crucial limitation of the PowerQunat<SUP>®</SUP> System is its high cost. Therefore, to minimize the cost of DNA quantification, we evaluated kit performance using a reduced volume of reagents (1/2-volume) using DNA samples of varying types and concentrations. Our results demonstrated that the low-volume method has almost comparable performance to the manufacturer"s method for human DNA quantification, human male DNA quantification, and DNA degradation index. Furthermore, using a reduced volume of regents, it is possible to run 2 times more reactions per kit. We expect the proposed low-volume method to cut costs in half for laboratories dealing with large numbers of DNA samples.

Dynamics of neural net model with arbitry connectivity and time delay

Kim, EungSoo 선문대학교 첨단과학기술연구소 1996 첨단과학기술연구소 논문집 Vol.1 No.1

지연층으로부터 임의의 연결도를 가지는 계열연상 신경회로망 모델의 다이나믹스에 관하여 논한다. 다양한 연결도의 변화로부터 신경회로망의 특성이 변해감을 수치실험을 통해 확인할 수 있었다. 부하율로 볼 때 임의의 연결도 c가 감소함에 따라 메모리 용량은 증가하는데, 이것은 부하율의 관점에서 볼 때 회로망이 낮은 연결도에서 잘 동작한다는 것을 나타낸다. 한편, 상기특성은 c가 감소함에 따라 감소하는 특성을 보인다. 이렇듯 다양한 연결도를 가지는 지연 신경회로망의 계열상기특성을 통계학적 신경역학 방법으로 해석하였다. 이론에서 도출된 결과는 수치실험에서 나타난 여러 가지 현상들을 잘 설명해주고 있다. The dynamics of a sequential associative neural network model with arbitrary connectivity from delay layer arc discussed. For the varied arbitrary connectivity, I can find various characteristics from the simulations. The memory capacity increases as arbitrary connectivity c is decreased in the sense of the loading ratio. This say that the network works better with lower connectivity in the sense of the loading ratio (the loading ratio represents a loading per connection). The retrieval ability of the network decrease as c is decreased. The method of statistical neurodynamical method is used for analyzing the retrieval dynamics of a sequential associative neural network model with multi delayed synapses which has a various connectivity. The theory explains dynamical behaviors in retrieval processes which arc observed by computer simulations. The method is based only on probability and approximation calculations also. The theory explains the non-trivial behavior of the network observed in computer simulations.

Relationship between various weight strengths and association capabilities of the neural network

Kim, EungSoo 선문대학교 ·중소기업기술지원연구소 1996 선문공대 연구/기술 논문집 Vol.1 No.1

신경회로망의 이론적 해석에 있어서 지금까지는 주로 고정된 파라메터값들을 지닌 경우에 대해 그 특성들이 조사 연구되었다. 그러나 신경회로망의 가장 중요한 특징 중의 하나가 스스로 환경에 적응해 가는 능력에 있음을 인식한다면, 균일하지 않은 여러 가지 상황으로 신경망을 구성하여 그 때의 동작이나 능력을 평가하고 이해하는 것은 신경망 연구에 있어서 대단히 중요한 접근이다. 이러한 입장에서 본 논문에서는 지연층을 가지며 가변적 시냅스 값을 가진 신경회로망을 대상으로 그 능력을 해석적으로 평가한다. Theoretical studies on neural network models focus very often on the situation where relevant parameters are fixed precisely. For example, the thresholds and/or the output amplitudes of neurons, or the synaptic connections, are precise. To discuss the robustness of neural networks, which is the most important characteristic of adaptive systems, I have to take various non-uniformities into account, and see what happens to theoretical results in an ideal situation. The nature of neural network systems could only be understood by studying various kind of trade-offs. With these things in mind, I study the dynamics of an sequential associative neural network model with varied weight strength from delay layer.

Implementation of communication system using signals originating from facial muscle constructions

Kim, EungSoo,Eum, TaeWan Korean Institute of Intelligent Systems 2004 INTERNATIONAL JOURNAL of FUZZY LOGIC and INTELLIGE Vol.4 No.2

A person does communication between each other using language. But, In the case of disabled person, cannot communicate own idea to use writing and gesture. We embodied communication system using the EEG so that disabled person can do communication. After feature extraction of the EEG included facial muscle signals, it is converted the facial muscle into control signal, and then did so that can select character and communicate idea.

Implementation of communication system using signals originating from facial muscle constructions

EungSoo Kim,TaeWan Eum 한국지능시스템학회 2004 INTERNATIONAL JOURNAL of FUZZY LOGIC and INTELLIGE Vol.4 No.2

A person does communication between each other using language. But, In the case of disabled person, cannot communicate own idea to use writing and gesture. We embodied communication system using the EEG so that disabled person can do communication. After feature extraction of the EEG included facial muscle signals, it is converted the facial muscle into control signal, and then did so that can select character and communicate idea.

정상인의 다양한 자극에 대한 뇌파의 상관차원 분석

김웅수(EungSoo Kim),이유정(Youjung Lee),조덕연(DukYun Cho) 한국지능시스템학회 2000 한국지능시스템학회 학술발표 논문집 Vol.10 No.1

잡파가 섞인 뇌파의 비선형 및 독립성분 분석

김응수(EungSoo Kim),신동선(Dongsun Shin) 한국지능시스템학회 2002 한국지능시스템학회논문지 Vol.12 No.5

뇌 기능의 연구수단으로써 널리 사용되고 있는 뇌파(Electroencephalogram, EEG)는 측정시에 노이즈(noise)나 잡파 (artifact)가 섞여서 측정되기 쉽다. 본 연구에서는 뇌파에 포함된 잡파들을 분리하기 위해서 독립성분분석(ICA)을 뇌파신호에 적용하였다. 먼저 정상인의 안구운동(Eye Movement)과 관련된 잡파가 나타나는 뇌파 신호에 대해서 독립성분분석을 적용하여 소스로 추정되는 각각의 독립성분들을 분리해 내었다. 분리된 신호에 대하여 잡파로 보이는 신호를 제거하고 재구성된 뇌파 신호와 잡파가 제거되기 전인 원래의 신호에 대하여 각각 상관차원(correlation dimension) 및 리아프노프지수(lyapunov exponent)등과 같은 비선형 분석법을 적용하여 두 신호의 유의한 차이점을 밝히고, 분리된 독립 신호들의 해부학적 발생위치 및 분포를 추정하였다. 시각적으로 복잡한 뇌파신호에 대하여 독립성분분석을 통하여 뇌 활동의 시각적, 공간적 분석이 가능함을 나타내었을 뿐만 아니라 비선형 분석을 통한 뇌파 신호의 정량적 분석을 통하여 시각적으로 복잡한 뇌파의 유의미한 변화를 관찰할 수 있었다. In measuring EEG, which is widely used for studying brain function, EEG is frequently mixed with noise and artifact. In this study, the signals relevant to the artifact were distracted by applying ICA to EEG signal. First, each independent component which was assumed to be the source was separated by applying ICA to EEG which involved artifact relevant to the eye movement of a normal person. Next, the signal which was assumed to be artifact was removed from the separated 18 independent components, and the nonlinear analysis method such as correlation dimension and the lyapunov exponent was applied to each reconstructed EEG signal and the original signal including artifact in order to find meaningful difference between the two signals and infer the anatomical localization of its source and distribution. This study shows it is possible not only to analyze the brain function visually and spatially for visually complex EEG signal, but also to observe its meaningful change through the quantitative analysis of EEG by means of the nonlinear analysis.

안구운동 EEG의 비선형 및 독립성분 분석

김응수(EungSoo Kim),신동선(DongSun Shin) 한국지능시스템학회 2001 한국지능시스템학회 학술발표 논문집 Vol.11 No.2