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Sumin Oh,Yang-Hyun Baek,Sungju Jung,Sumin Yoon,Byeonggeun Kang,Su-hyang Han,Gaeul Park,Je Yeong Ko,Sang-Young Han,Jin-Sook Jeong,Jin-Han Cho,Young-Hoon Roh,Sung-Wook Lee,Gi-Bok Choi,Yong Sun Lee,Won K 대한간학회 2024 Clinical and Molecular Hepatology(대한간학회지) Vol.30 No.2
Background/Aims: Metabolic dysfunction-associated steatotic liver disease (MASLD) is characterized by fat accumulation in the liver. MASLD encompasses both steatosis and MASH. Since MASH can lead to cirrhosis and liver cancer, steatosis and MASH must be distinguished during patient treatment. Here, we investigate the genomes, epigenomes, and transcriptomes of MASLD patients to identify signature gene set for more accurate tracking of MASLD progression. Methods: Biopsy-tissue and blood samples from patients with 134 MASLD, comprising 60 steatosis and 74 MASH patients were performed omics analysis. SVM learning algorithm were used to calculate most predictive features. Linear regression was applied to find signature gene set that distinguish the stage of MASLD and to validate their application into independent cohort of MASLD. Results: After performing WGS, WES, WGBS, and total RNA-seq on 134 biopsy samples from confirmed MASLD patients, we provided 1,955 MASLD-associated features, out of 3,176 somatic variant callings, 58 DMRs, and 1,393 DEGs that track MASLD progression. Then, we used a SVM learning algorithm to analyze the data and select the most predictive features. Using linear regression, we identified a signature gene set capable of differentiating the various stages of MASLD and verified it in different independent cohorts of MASLD and a liver cancer cohort. Conclusions: We identified a signature gene set (i.e., CAPG, HYAL3, WIPI1, TREM2, SPP1, and RNASE6) with strong potential as a panel of diagnostic genes of MASLD-associated disease.
Baek, Woohyeon,Ha, Suhyeon,Hong, Sumin,Kim, Seonah,Kim, Yeongkyoo Elsevier 2018 Microporous and mesoporous materials Vol.264 No.-
<P><B>Abstract</B></P> <P>The sorption characteristics of Cs and competitive ion exchange with other alkali cations and Sr on three natural zeolites, chabazite, stilbite, and heulandite, were investigated. Chabazite showed the most rapid sorption of Cs, followed by heulandite and then stilbite, and this was closely related to its high cation exchange capacity (CEC) and low Si/Al ratio. The kinetic data for all zeolites were best explained by a pseudo-second-order rate model. The sorption process involved multiple steps and is influenced by the CEC values of the zeolites. The equilibrium adsorption isotherms of the three zeolites were best fitted by both the Langmuir and Freundlich models. The exchange isotherms of Cs and the other investigated cations clearly showed that chabazite showed higher selectivity for Cs than for the others. At lower equivalent fractions of Cs in solution, the selectivities for the other cations showed the following trend: Na > Li > Sr > K > Rb. However, for stilbite and heulandite, the selectivity for Cs is only higher at lower equivalent fractions, and isotherms show sigmoidal shapes mainly because there are more than two sorption sites for Cs while chabazite has one site. Those trends were confirmed by Kielland plots.</P> <P><B>Highlights</B></P> <P> <UL> <LI> Chabazite showed the most rapid sorption of Cs and highest selectivity for Cs. </LI> <LI> Sorption process consists of multiple steps influenced by CEC values of zeolites. </LI> <LI> Langmuir and Freundlich isotherm models fit the experimental equilibrium data. </LI> <LI> The selectivity of chabazite showed the following trend: Cs > Na > Li > Sr > K > Rb. </LI> <LI> Different sorption sites in zeolites lead to different exchange isotherms. </LI> </UL> </P> <P><B>Graphical abstract</B></P> <P>[DISPLAY OMISSION]</P>
Kwon, Ji Eon,Lee, Sumin,You, Youngmin,Baek, Kyung-Hwa,Ohkubo, Kei,Cho, Jaeheung,Fukuzumi, Shunichi,Shin, Injae,Park, Soo Young,Nam, Wonwoo American Chemical Society 2012 Inorganic Chemistry Vol.51 No.16
<P>A new fluorescent zinc sensor (HNBO–DPA) consisting of 2-(2′-hydroxy-3′-naphthyl)benzoxazole (HNBO) chromophore and a di(2-picolyl)amine (DPA) metal chelator has been prepared and examined for zinc bioimaging. The probe exhibits zinc-induced fluorescence turn-on without any spectral shifts. Its crystal structure reveals that HNBO–DPA binds a zinc ion in a pentacoordinative fashion through the DPA and HNBO moieties. Steady-state photophysical studies establish zinc-induced deprotonation of the HNBO group. Nanosecond and femtosecond laser flash photolysis and electrochemical measurements provide evidence for zinc-induced modulation of photoinduced electron transfer (PeT) from DPA to HNBO. Thus, the zinc-responsive fluorescence turn-on is attributed to suppression of PeT exerted by deprotonation of HNBO and occupation of the electron pair of DPA, a conclusion that is further supported by density functional theory and time-dependent density functional theory (DFT/TD-DFT) calculations. Under physiological conditions (pH 7.0), the probe displays a 44-fold fluorescence turn-on in response to zinc ions with a <I>K</I><SUB>d</SUB> value of 12 pM. The fluorescent response of the probe to zinc ions is conserved over a broad pH range with its excellent selectivity for zinc ions among biologically relevant metal ions. In particular, its sensing ability is not altered by divalent transition metal ions such as Fe(II), Cu(II), Cd(II), and Hg(II). Cell experiments using HNBO–DPA show its suitability for monitoring intracellular zinc ions. We have also demonstrated applicability of the probe to visualize intact zinc ions released from cells that undergo apoptosis. More interestingly, zinc-rich pools in zebrafish embryos are traced with HNBO–DPA during early developmental stages. The results obtained from the <I>in vitro</I> and <I>in vivo </I>imaging studies demonstrate the practical usefulness of the probe to detect zinc ions.</P><P>The fluorescence sensor, constructed based on an excited-state intramolecular proton transfer (ESIPT) platform, displays zinc-selective turn-on response with <I>K</I><SUB>d</SUB> = 12 pM at pH 7.0. The fluorescence zinc response is attributed to suppression of photoinduced electron transfer exerted by deprotonation and occupation of the electron pair of the metal chelator. The zinc probe is capable of detection of endogenous free zinc ions in apoptotic mammalian cells and zebrafish embryos.</P><P><B>Graphic Abstract</B> <IMG SRC='http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/inocaj/2012/inocaj.2012.51.issue-16/ic300476e/production/images/medium/ic-2012-00476e_0004.gif'></P><P><A href='http://pubs.acs.org/doi/suppl/10.1021/ic300476e'>ACS Electronic Supporting Info</A></P>
김준수(Junsu Kim),홍수민(Sumin Hong),김지현(Jihyun Kim),온정완(Jeongwan On),김찬우(Chanwoo Kim),Yihalem Yimolal Tiruneh,송지현(Jihyun Song),최선화(Sunhwa Choi),백승렬(Seungryul Baek) 대한전자공학회 2023 대한전자공학회 학술대회 Vol.2023 No.6
In this study, we address the class imbalance problem in the Real-life dataset, a challenging task due to the presence of a large number of small and visually similar objects. To mitigate the imbalance issue and improve the performance of the model, we propose a various solutions : Balanced Dataloader, CutMix, and RandomAugmentation.