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KoNA:Korean Nucleotide Archive as A New Data Repository for Nucleotide Sequence Data

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Genomics, Proteomics & Bioinformatics 2024年第1期22卷 161-167页

作者： Gunhwan Ko Jae Ho Lee Young Mi Sim Wangho Song Byung-Ha Yoon Iksu Byeon Bang Hyuck Lee Sang-Ok kim Jinhyuk Choi Insoo Jang Hyerin kim Jin Ok Yang Kiwon Jang sora kim Jong-Hwan kim Jongbum Jeon Jaeeun Jung Seungwoo Hwang Ji-Hwan Park Pan-Gyu kim Seon-Young kim Byungwook Lee Korea Bioinformation Center Korea Research Institute of Bioscience&BiotechnologyDaejeon 34141Republic of Korea

During the last decade,the generation and accumulation of petabase-scale high-throughput sequencing data have resulted in great challenges,including access to human data,as well as transfer,storage,and sharing of enormous amounts of *** promote data-driven biological research,the Korean government announced that all biological data generated from government-funded research projects should be deposited at the Korea BioData Station(K-BDS),which consists of multiple databases for individual data ***,we introduce the Korean Nucleotide Archive(KoNA),a repository of nucleotide sequence *** of July 2022,the Korean Read Archive in KoNA has collected over 477 TB of raw next-generation sequencing data from national genome *** ensure data quality and prepare for international alignment,a standard operating procedure was adopted,which is similar to that of the International Nucleotide Sequence Database *** standard operating procedure includes quality control processes for submitted data and metadata using an automated pipeline,followed by manual *** ensure fast and stable data transfer,a high-speed transmission system called GBox is used in ***,the data uploaded to or downloaded from KoNA through GBox can be readily processed using a cloud computing service called *** seamless coupling of KoNA,GBox,and Bio-Express enhances the data experience,including submission,access,and analysis of raw nucleotide *** not only satisfies the unmet needs for a national sequence repository in Korea but also provides datasets to researchers globally and contributes to advances in *** KoNA is available at https://***/kona/.

关键词： Korea BioData Station Nucleotide sequence Next-generation sequencing repository Genomics Deposition and access of big data

The effect of the dopant's reactivity for high-performance 2D MoS2 thin-film transistor

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Nano Research 2021年第1期14卷 198-204页

作者： Hanleem Lee sora Bak Joosung kim Hyoyoung Lee Center for Integrated Nanostructure Physics(CINAP) Institute for Basic Science(IBS)Suwon 16419Republic of Korea Department ofChem istryy Sungkyunkwan University Suwon 16419Republic of Korea Department of Energy Science Sungkyunkwan UniversitySuwon 16419Republic of Korea Department of Biophysics Sungkyunkwan UniversitySuwon 16419Republic of Korea

There are many studies on the solution-processed thin-film transistor(TFT)using transition metal dichalcogenide(TMD)***,it is hard to control the electrical property of chemically exfoliated TMD materials compared to the chemical vapor deposition *** investigation into the electrical modulation behavior of exfoliated two-dimensional(2D)material is important tofabricate weH-modulated electronic devices via solution ***,we report the effects of reactivity of organic dopants on MoS2 and investigate how the chemical doping behavior influences the electrical properties of *** band state of dopants,which is related to the electron-withdrawing and donating behavior of chemical dopant,provides a proportional shift in the threshold voltages(Vth)of their field-effect transistors(FETs).However,on/off current ratio(Ion/Ioff)and mobility(μ)are strongly influenced by the defect density depending on the reactivity of doping reaction,rather than the band state of organic *** the in-depth study on the doping reaction,we fabricate a FET and a TFT,having high mobility and a relatively high on/off ratio(10^(4))using a solution process.

关键词： 2D materials functionalization thin-film transistor doping defect

Characterization of MAGEG2 with testis-specific expression in mice

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Asian Journal of Andrology 2017年第6期19卷 659-665页

作者： Juri Jeong sora Jin Heejin Choi Jun Tae Kwon Jihye kim Jaehwan kim Zee Yong Park Chunghee Cho School of Life Sciences Gwangju Institute of Science and Technology Gwangju 61005 South Korea.

Male germ cell development is a well-defined process occurring in numerous seminiferous tubules of the testis. Uncovering testicular novel genes related to intrinsic regulation of spermatogenesis is essential for the understanding of spermatogenesis. In the present study, we investigated mouse Mageg2, which belongs to a group of melanoma-associated antigens （MAGEs）. Mageg2 is transcribed in the testis specifically, and its expression level is increased at the pachytene spermatocyte stage, indicating that Mageg2 is expressed predominantly in germ cells. We generated an antibody against mouse MAGEG2 for further characterization at the protein level. Immunoblot analysis suggested that MAGEG2 has specific testicular expression and the expression primarily occurred in pachytene spermatocytes. Proteomic analyses demonstrated that mouse MAGEG2 binded to testicular germ cell-specific serine/threonine-protein kinase 31 （STK31） and heat shock protein 9 （HSPA9）. Direct binding with both interaction partners was confirmed by co-immunoprecipitation. We found that STK31 and HSPA9 bind MAGEG2 directly but not with each other. Interestingly, MAGEG2 reduced the kinase activity of STK31. Our study suggests that mouse MAGEG2 has at least two functions, including chaperone activity related to HSPA9 and regulation of pachytene spermatocyte-specific kinase, STK31. Altogether, our results provide the first information about MAGEG2 at the transcript and protein levels and suggest its potential molecular functions.

关键词： heat shock proteins serine/threonine kinase spermatogenesis testis

Differentiation of hepatocellular carcinoma from its variousmimickers in liver magnetic resonance imaging:What arethe tips when using hepatocyte-specific agents?

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World Journal of Gastroenterology 2016年第1期22卷 284-299页

作者： Yang Shin Park Chang Hee Lee Jeong Woo kim sora Shin Cheol Min Park Department of Radiology Korea University Guro HospitalKorea University College of MedicineSeoul 152-703South Korea Korea University College of Medicine Anam-dong 5-gaSeongbuk-GuSeoul 136-701South Korea

Hepatocellular carcinoma is the most common primary hepatic malignant *** widespread use of liver imaging,various cirrhosis-related nodules are frequently detected in patients with chronic liver disease,while diverse hypervascular hepatic lesions are incidentally detected but undiagnosed on dynamic computed tomography and magnetic resonance imaging(MRI).However,use of hepatocyte-specific MR contrast agents with combined perfusion and hepatocyte-selective properties have improved diagnostic performance in detection and characterization of focal liver ***,the enhancement patterns observed during dynamic phases using hepatocyte-specific agents may be different from those observed during MRI using conventional extracellular fluid agents,leading to confusion in ***,we discuss useful tips for the differentiation of hepatocellular carcinoma from similar lesions in patients with and without chronic liver disease using liver MRI with hepatocyte-specific agents.

关键词： Hepatocellular carcinoma Gadoxetic acid Magnetic resonance imaging Liver cirrhosis

Acupuncture ameliorates atopic dermatitis by modulating gut barrier function in a gut microbiota-dependent manner in mice

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Journal of Integrative Medicine 2024年第5期22卷 600-613页

作者： Mijung Yeom sora Ahn Dae-Hyun Hahm Sun-Young Jang Se Hoon Jang Su-Yang Park Jae-Hwan Jang Jihan Park Ju-Young Oh In-Seon Lee Kyuseok kim Soon-Kyeong Kwon Hi-Joon Park Acupuncture and Meridian Science Research Center College of Korean MedicineKyung Hee UniversitySeoul 02447Republic of Korea Department of Physiology School of MedicineKyung Hee UniversitySeoul 02447Republic of Korea BioNanocomposite Research Center Kyung Hee UniversitySeoul 02447Republic of Korea Department of Science in Korean Medicine College of Korean MedicineGraduate SchoolKyung Hee UniversitySeoul 02447Republic of Korea College of Korean Medicine Kyung Hee UniversitySeoul 02447Republic of Korea Department of Ophthalmology Otorhinolaryngology and Dermatology of Korean MedicineCollege of Korean MedicineKyung Hee UniversitySeoul 02447Republic of Korea Division of Applied Life Science(BK21) Gyeongsang National UniversityJinju 52828Republic of Korea Department of Anatomy&Information Sciences College of Korean MedicineKyung Hee UniversitySeoul 02447Republic of Korea

Objective Atopic dermatitis(AD)is a chronic inflammatory skin disease that may be linked to changes in the gut *** has been proven to be effective in reducing AD symptoms without serious adverse events,but its underlying mechanism is not completely *** purpose of this study was to investigate whether the potential effect of acupuncture on AD is gut *** AD-like skin lesions were induced by applying MC903 topically to the cheek of the *** was done at the Gok-Ji(LI11)***-like symptoms were assessed by lesion scores,scratching behavior,and histopathological changes;intestinal barrier function was measured by fecal output,serum lipopolysaccharide levels,histopathological changes,and mRNA expression of markers involved in intestinal permeability and *** microbiota was profiled using 16S rRNA gene sequencing from fecal *** Acupuncture effectively improved chronic itch as well as the AD-like skin lesions with epidermal thickening,and also significantly altered gut microbiota structure as revealed byβ-diversity indices and analysis of *** beneficial effects were eliminated by antibiotic depletion of gut microbiota,but were reproduced in gut microbiota-depleted mice that received a fecal microbiota transplant from acupuncture-treated ***,AD mice had intestinal barrier dysfunction as indicated by increased intestinal permeability,atrophy of the mucosal structure(reduced villus height and crypt depth),decreased expression of tight junctions and mucus synthesis genes,and increased expression of inflammatory mediators in the *** attenuated these abnormalities,which was gut *** Acupuncture ameliorates AD-like phenotypes in a gut microbiota-dependent manner and some of these positive benefits are explained by modulation of the intestinal barrier,providing new perspective for non-pharmacological strategies for

关键词： Atopic dermatitis Acupuncture Gut microbiota Intestinal barrier function