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Proton Transfer Hydrogels: Versatility and Applications
Hwang, JiHyeon,Lee, Dong G.,Yeo, Hyunki,Rao, Jingyi,Zhu, Zhiyuan,Shin, Jawon,Jeong, Keunsoo,Kim, Sehoon,Jung, Hyun Wook,Khan, Anzar American Chemical Society 2018 JOURNAL OF THE AMERICAN CHEMICAL SOCIETY - Vol.140 No.21
<P>Proton transfer polymerization between thiol and epoxide groups is shown to be an adaptable and utilitarian method for the synthesis of hydrogels. For instance, the polymerization catalyst can be organic or inorganic, and the polymerization medium can be pure water, buffer solutions, or organic solvents. The gelation mechanism can be triggered at ambient conditions, at a physiological temperature of 37 °C, or through using light as an external stimulus. The ambient and photochemical methods both allow for nanoimprint lithography to produce freestanding patterned thick films. The required thiol- and epoxide-carrying precursors can be chosen from a long list of commercially available small molecular as well as polymeric materials. The water uptake, mechanical, and biodegradation properties of the gels can, therefore, be tuned through the choice of appropriate gelation precursors and polymerization conditions. Finally, the thio-ether groups of the cross-linked networks can be functionalized through a postgelation modification reaction to access sulfonium-based cationic structures. Such structural changes endow antibacterial properties to the networks. In their pristine form, however, the gels are biocompatible and nonadhesive, allowing cancer cells to grow in a cluster formation.</P> [FIG OMISSION]</BR>
Web-based design and analysis tools for CRISPR base editing
Hwang, Gue-Ho,Park, Jeongbin,Lim, Kayeong,Kim, Sunghyun,Yu, Jihyeon,Yu, Eunchong,Kim, Sang-Tae,Eils, Roland,Kim, Jin-Soo,Bae, Sangsu BioMed Central 2018 BMC bioinformatics Vol.19 No.1
<P><B>Background</B></P><P>As a result of its simplicity and high efficiency, the CRISPR-Cas system has been widely used as a genome editing tool. Recently, CRISPR base editors, which consist of deactivated Cas9 (dCas9) or Cas9 nickase (nCas9) linked with a cytidine or a guanine deaminase, have been developed. Base editing tools will be very useful for gene correction because they can produce highly specific DNA substitutions without the introduction of any donor DNA, but dedicated web-based tools to facilitate the use of such tools have not yet been developed.</P><P><B>Results</B></P><P>We present two web tools for base editors, named BE-Designer and BE-Analyzer. BE-Designer provides all possible base editor target sequences in a given input DNA sequence with useful information including potential off-target sites. BE-Analyzer, a tool for assessing base editing outcomes from next generation sequencing (NGS) data, provides information about mutations in a table and interactive graphs. Furthermore, because the tool runs client-side, large amounts of targeted deep sequencing data (< 1 GB) do not need to be uploaded to a server, substantially reducing running time and increasing data security. BE-Designer and BE-Analyzer can be freely accessed at http://www.rgenome.net/be-designer/ and http://www.rgenome.net/be-analyzer/, respectively.</P><P><B>Conclusion</B></P><P>We develop two useful web tools to design target sequence (BE-Designer) and to analyze NGS data from experimental results (BE-Analyzer) for CRISPR base editors.</P><P><B>Electronic supplementary material</B></P><P>The online version of this article (10.1186/s12859-018-2585-4) contains supplementary material, which is available to authorized users.</P>
상용 이산사건 시뮬레이터 패키지들에 대한 선행연구 분석
박지현(Jihyeon Park),황규선(Gysun Hwang) 한국시뮬레이션학회 2023 한국시뮬레이션학회 논문지 Vol.32 No.1
스마트 팩토리 환경과 디지털 트윈 환경이 구축되며 요즘의 공장은 방대한 생산 데이터를 축적하고 공정 현황에 대해 실시간으로 사용자 편의에 맞는 시각화된 결과물로 관리되고 있다. 생산 제품의 다변화에 따른 공정의 복잡도가 증대되어 생산 일정 계획이 어려워지고, 자동화 설비가 구축되는 상황에서 납기 지연을 예방하고, 공장의 변동성에 대한 사전 예측을 위한 방안으로 생산 시뮬레이션 기법이 각광받고 있다. 디지털 트윈 환경의 발전과 함께 신규 패키지가 개발되고 기존 패키지들의 기능 업데이트가 됨에 따라 상용 제품별 특성이나 장단점이 명확히 정의되지 않아 사용자들이 어떠한 패키지를 활용하여 시뮬레이션 개발을 진행하는 지에 대한 의사결정이 어려운 상황이다. 이에 본 연구에서는 이산적으로 발생되는 사건을 기반으로 수행하는 이산사건 시뮬레이션(DES, Discrete Event Simulation)의 개념을 정의하고, 다양한 시뮬레이션 패키지에 대한 특성을 비교 분석하고자 한다. 이를 위해 10년간 이산사건 시뮬레이션 패키지를 사용하여 실제 문제를 해결한 연구들을 분석하였고, 사용 빈도가 높은 패키지 세 가지를 도출하였다. 또한, 각 패키지들의 시뮬레이션 기법, 주요 업종, 시뮬레이션을 수행한 대상, 사용한 국가 등으로 분류하여 DES 소프트웨어의 특성과 사용 현황에 대한 분석을 진행하였다. 본 연구 결과는 추후 이산사건 시뮬레이션 패키지 선택에 어려움을 겪는 기업과 사용자에게 선택의 기반을 제공하며 기초자료로 사용될 것으로 판단한다. Smart factory environments and digital twin environments are established, and today's factories accumulate vast amounts of production data and are managed in real time as visualized results suitable for user convenience. Production simulation techniques are in the spotlight as a way to prevent delays in delivery and predict factory volatility in situations where production schedule planning becomes difficult due to the diversification of production products. With the development of the digital twin environment, new packages are developed and functions of existing packages are updated, making it difficult for users to make decisions on which packages to use to develop simulations. Therefore, in this study, the concept of Discrete Event Simulation (DES) performed based on discrete events is defined, and the characteristics of various simulation packages were compared and analyzed. To this end, studies that solved real problems using discrete event simulation software for 10 years were analyzed, and three types of software used by the majority were identified. In addition, each package was classified by simulation technique, type of industry, subject of simulation, country of use, etc., and analysis results on the characteristics and usage of DES software were provided. The results of this study provide a basis for selection to companies and users who have difficulty in selecting discrete event simulation package in the future, and it is judged that they will be used as basic data.