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Lee Beomki,Heo Won Young,Kim Jee Ah,Lee Hyun-Seung,Hwang Narae,Park Hyung-Doo,Sung Se In,Chang Yun Sil,Park Won Soon,Lee Soo-Youn 대한진단검사의학회 2023 Annals of Laboratory Medicine Vol.43 No.2
Background: Despite the popularity of the NeoBase 2 Non-derivatized MSMS assay (PerkinElmer, Turku, Finland), there are no reports of its comprehensive evaluation, including the ability to distinguish transient tyrosinemia of the newborn (TTN) from tyrosinemia type 1 (TYR 1) using succinylacetone (SUAC). No newborn screening (NBS) cutoffs for preterm neonates in the Korean population have been suggested. We evaluated the NeoBase 2 assay and identified analytes requiring different cutoffs in preterm neonates. Methods: Residual NBS dried blood spot samples and proficiency testing (PT) materials of the Newborn Screening Quality Assurance Program and the Korean Association of External Quality Assessment Service were used. Precision, accuracy, limit of detection (LOD), lower limit of quantification (LLOQ), linearity, recovery, carryover, and performance of SUAC were evaluated. Cutoffs were determined, and analytes requiring different cutoffs in preterm neonates were investigated. Results: Mean CVs for within-run and between-day precision were within 15%. Accuracy analysis indicated high agreement with in-house derivatized assay results and results of other PT participants. All analytes demonstrated acceptable LOD, LLOQ, and linearity. Recoveries were acceptable, except for SUAC. Carryover was negligible. Cutoffs were established for all analytes; Tyr, adenosine, and C20:0-lysophosphatidylcholine required different cutoffs in preterm neonates. Differential diagnosis of TYR 1 and TTN was successful with simultaneous Tyr and SUAC measurement. Conclusions: The NeoBase 2 assay demonstrated satisfactory performance. The additional analytes provide a wider diagnostic coverage, and the simultaneous measurement of Tyr and SUAC is efficient in excluding TYR 1. The new cutoffs for preterm neonates may decrease false-positive rates, without compromising diagnostic sensitivity.
시계열 데이타베이스에서의 효율적인 유사 검색을 위한 Polar Wavelet 기법
이범기(Beomki Lee),강성구(Seonggoo Kang),이상준(Sangjun Lee),이석호(Sukho Lee) 한국정보과학회 2004 한국정보과학회 학술발표논문집 Vol.31 No.2Ⅱ
유클리드 거리에 기반하여 유사한 시퀀스 검색을 하는 기법들은 각 시퀀스에서 특징을 추출하여 차원을 감소시킨 후, R-tree 같은 다차원 인덱싱 기법을 사용하여 검색을 수행한다. 본 논문에서는 시계열 데이터베이스에서의 유사 검색 성능 향상을 위한 새로운 특징 추출 기법인 Polar Wavelet 기법을 제안한다. 이 기법은 유사 검색시 후보 시퀀스의 개수를 줄임으로써 검색 성능을 향상시킬 수 있고, 특징 추출을 위해 시퀀스의 길이를 2ⁿ으로 만들 필요가 없는 장점을 갖고 있다.
Lee Beomki,Ko Jae-Hoon,Baek Jin Yang,Kim Haein,Huh Kyungmin,Cho Sun Young,Kang Cheol-In,Chung Doo Ryeon,Peck Kyong Ran,Kang Eun-Suk 대한의학회 2023 Journal of Korean medical science Vol.38 No.37
As nucleocapsid protein of severe acute respiratory syndrome coronavirus 2 is immunogenic but not targeted in vaccines, it could be useful in distinguishing natural infection from vaccination. We aimed to investigate the clinical utility of sero-immunological responses against the nucleocapsid protein. Nucleocapsid antibody immunoassay study with 302 coronavirus disease 2019 (COVID-19) patients showed lower titers in immunocompromised patients (P < 0.001), higher titers in higher severity (P = 0.031), and different seroconversion rates and titers according to variants of concern. Longitudinal evaluation of nucleocapsid antibodies using 513 samples from 291 COVID-19 patients revealed that it could persist up to 556 days from symptom onset. Interferon gamma release assay against the nucleocapsid protein showed poor response, precluding the deduction of a cut-off for the nucleocapsid protein. In conclusion, nucleocapsid antibody provides instructive clues about the immunogenicity of nucleocapsid proteins by different seroconversion rates and titers according to the severity of infection, host immune status, and different variants of concern.
Lee Beomki,Park Jong Eun,Yoon Sun Joo,Park Chi-Min,Lee Nam Yong,Shin Tae Gun,Kang Eun-Suk 대한감염학회 2024 Infection and Chemotherapy Vol.56 No.1
Background CD14 recognizes lipopolysaccharide (LPS), and presepsin is a fragment of soluble CD14. Still, it remains uncertain whether Gram-negative bacteria induce higher presepsin levels than other microorganisms. To address this question, this study aimed to analyze presepsin levels based on microorganisms isolated in blood cultures. Materials and Methods This study was a single-center study comprising suspected sepsis patients enrolled from July 2020 to September 2020. A total of 95 patients with a single isolate confirmed in blood culture were analyzed to evaluate if there are any differences in presepsin levels according to microbial isolates. Plasma presepsin level was measured using PATHFAST assay kit and analyzer (LSI Medience Corporation, Tokyo, Japan). Results There were 26 Gram-positive bacteremia, 65 Gram-negative bacteremia, and 3 fungemia patients with median presepsin levels of 869, 1,439, and 11,951 pg/mL, respectively. Besides, one case of algaemia demonstrated a presepsin level of 1,231 pg/mL. Our results showed no statistically significant difference in presepsin levels among patients with Gram-positive bacteremia, Gram-negative bacteremia, and fungemia. Furthermore, presepsin levels did not differ significantly among bloodstream infections caused by bacteria that were isolated from at least three different patients. In particular, Gram-positive bacteria such as Staphylococcus aureus and Enterococcus faecalis were able to induce presepsin levels comparable to those induced by Gram-negative bacteria. Conclusion We demonstrated that there were no significant differences in plasma presepsin levels according to microbial isolates in blood culture. The major cause of the variability in presepsin levels during bloodstream infection might be the immunogenicity of each microorganism rather than the presence of LPS in the microorganism. Background CD14 recognizes lipopolysaccharide (LPS), and presepsin is a fragment of soluble CD14. Still, it remains uncertain whether Gram-negative bacteria induce higher presepsin levels than other microorganisms. To address this question, this study aimed to analyze presepsin levels based on microorganisms isolated in blood cultures. Materials and Methods This study was a single-center study comprising suspected sepsis patients enrolled from July 2020 to September 2020. A total of 95 patients with a single isolate confirmed in blood culture were analyzed to evaluate if there are any differences in presepsin levels according to microbial isolates. Plasma presepsin level was measured using PATHFAST assay kit and analyzer (LSI Medience Corporation, Tokyo, Japan). Results There were 26 Gram-positive bacteremia, 65 Gram-negative bacteremia, and 3 fungemia patients with median presepsin levels of 869, 1,439, and 11,951 pg/mL, respectively. Besides, one case of algaemia demonstrated a presepsin level of 1,231 pg/mL. Our results showed no statistically significant difference in presepsin levels among patients with Gram-positive bacteremia, Gram-negative bacteremia, and fungemia. Furthermore, presepsin levels did not differ significantly among bloodstream infections caused by bacteria that were isolated from at least three different patients. In particular, Gram-positive bacteria such as Staphylococcus aureus and Enterococcus faecalis were able to induce presepsin levels comparable to those induced by Gram-negative bacteria. Conclusion We demonstrated that there were no significant differences in plasma presepsin levels according to microbial isolates in blood culture. The major cause of the variability in presepsin levels during bloodstream infection might be the immunogenicity of each microorganism rather than the presence of LPS in the microorganism.
효율적인 반복 연산을 지원하는 정규표현식 매칭 프로세서
안범기(BeomKi Ahn),이규희(KyuHee Lee),윤상균(SangKyun Yun) 한국정보과학회 2013 정보과학회 컴퓨팅의 실제 논문지 Vol.19 No.11
정규표현식 패턴 매칭은 침입탐지 시스템 등의 응용 프로그램에 널리 사용되며 고성능 처리가 필요한 경우에 하드웨어 기반 매칭이 사용된다. 패턴이 갱신될 때에 재합성을 해야 하는 완전 하드웨어 기반 방식의 문제점을 해결하기 위해서 ReCPU라고 하는 정규표현식 매칭 프로세서가 제안되었다. 그러나 ReCPU는 정규표현식의 반복 연산을 다소 비효율적으로 처리한다. 본 논문에서는 ReCPU의 비효율적 반복처리를 개선하기 위해 새로운 명령어 집합을 제시하여 효율적으로 반복연산을 수행하는 정규표현식 매칭 프로세서 REMP를 제안한다. REMP는 특히 짧은 서브패턴의 반복 처리에 ReCPU보다 실행명령어 수가 1/2로 감소하여 매우 효율적이다. REMP는 Verilog로 설계하고 Altera FPGA로 합성하여 동작을 검증하였다. Regular expression pattern matching is widely used in applications such as intrusion detection systems. Hardware based matching is used for high speed regular expression processing. A regular expression matching processor called ReCPU has been proposed to solve the problem that full hardware solutions require re-synthesis of hardware whenever the patterns are updated. However, ReCPU has some problems including inefficient repetition processing In this paper, we propose an instruction set supporting efficient repetition and the architecture of the regular expression matching processor (REMP) to implement it. The REMP is very effective in processing repetitions of short patterns because the required number of instructions is half of that of ReCPU. The REMP is described using Verilog and synthesized on Altera FPGA.
Future experimental improvement for the search of lepton-number-violating processes in the eμ sector
Yeo, Beomki,Kuno, Yoshitaka,Lee, MyeongJae,Zuber, Kai American Physical Society 2017 Physical Review D Vol.96 No.7
<P>The conservation of lepton flavor and total lepton number are no longer guaranteed in the Standard Model after the discovery of neutrino oscillations. The mu(-)+ N(A, Z) -> e(+) N(A, Z - 2) conversion in a muonic atom is one of the most promising channels to investigate the lepton number violation processes, and measurement of the mu(-) e(+) conversion is planned in future, mu(-) - e(-) conversion experiments with a muonic atom in a muon-stopping target. This article discusses experimental strategies to maximize the sensitivity of the mu(-) - e(+) conversion experiment by introducing the new requirement of the mass relation of M(A, Z - 2) < M(A, Z - 1), where M(A, Z) is the mass of the muon-stopping target nucleus, to eliminate the backgrounds from radiative muon capture. The sensitivity of the mu(-) - e(+) conversion is expected to be improved by 4 orders of magnitude in forthcoming experiments using a proper target nucleus that satisfies the mass relation. The most promising isotopes found are Ca-40 and S-32.</P>