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Integrated genome sizing (IGS) approach for the parallelization of whole genome analysis
Sona, Peter,Hong, Jong Hui,Lee, Sunho,Kim, Byong Joon,Hong, Woon-Young,Jung, Jongcheol,Kim, Han-Na,Kim, Hyung-Lae,Christopher, David,Herviou, Laurent,Im, Young Hwan,Lee, Kwee-Yum,Kim, Tae Soon,Jung, J BioMed Central 2018 BMC bioinformatics Vol.19 No.1
<P><B>Background</B></P><P>The use of whole genome sequence has increased recently with rapid progression of next-generation sequencing (NGS) technologies. However, storing raw sequence reads to perform large-scale genome analysis pose hardware challenges. Despite advancement in genome analytic platforms, efficient approaches remain relevant especially as applied to the human genome. In this study, an Integrated Genome Sizing (IGS) approach is adopted to speed up multiple whole genome analysis in high-performance computing (HPC) environment. The approach splits a genome (GRCh37) into 630 chunks (fragments) wherein multiple chunks can simultaneously be parallelized for sequence analyses across cohorts.</P><P><B>Results</B></P><P>IGS was integrated on Maha-Fs (HPC) system, to provide the parallelization required to analyze 2504 whole genomes. Using a single reference pilot genome, NA12878, we compared the NGS process time between Maha-Fs (NFS SATA hard disk drive) and SGI-UV300 (solid state drive memory). It was observed that SGI-UV300 was faster, having 32.5 mins of process time, while that of the Maha-Fs was 55.2 mins.</P><P><B>Conclusions</B></P><P>The implementation of IGS can leverage the ability of HPC systems to analyze multiple genomes simultaneously. We believe this approach will accelerate research advancement in personalized genomic medicine. Our method is comparable to the fastest methods for sequence alignment.</P><P><B>Electronic supplementary material</B></P><P>The online version of this article (10.1186/s12859-018-2499-1) contains supplementary material, which is available to authorized users.</P>
Artificial Intelligence in Diagnostic Dermatology
( Jung-im Na ) 한국피부장벽학회 2020 한국피부장벽학회지 Vol.22 No.1
Artificial intelligence (AI) is gaining high visibility in diagnostic dermatology. Algorithms showing dermatologist-level performances or surpassing dermatologists have been reported. Most AI applications focus on differentiating malignant and benign skin lesions, however, other applications such as differentiating inflammatory and infectious skin diseases are increasingly available. Although many applications are technologically feasible, there is a strong need for clinical validation of these applications. This review summarizes research on the automated classification of skin lesions for diagnostic dermatology and discusses barriers to clinical application.
( Jung Im Na ),( Jung Won Shin ),( Sang Young Byun ),( Hye Ryung Choi ),( Kyoung Chan Park ) 대한피부과학회 2014 대한피부과학회 학술발표대회집 Vol.66 No.2
Background: There are many whitening agents for melasma treatment, but in aspects of potency and safety, few treatment agents exist. To evaluate whitening agents we previoulsy suggested a new parameter: a ratio of lesion/non-lesional melanin index (MI ratio) to compensate the seasonal effects. Objectives: In this study, we evaluated the efficacy of 4n-butyl resorcinol and resveratrol containing cream using MI ratio and compared the efficacy with other whitening agents. Methods: 21 females with melasma were enrolled. Subjects used 4n-butyl resorcinol and resveratrol containing cream for 4 weeks. Skin color of the lesional and preauricular non-lesional skin was measured with a Mexameter at baseline, week 2 and week 4, and MI ratio was obtained. To compare the efficacy with other whitening agents for melasma, MI ratio was obtained from the data of seven other clinical trials performed in Seoul National University Bundang Hospital. Results: Mean MI of lesional skin decreased from 201.1 to 189.4 at week 2 and 182.8 at week 4, and the difference was statistically significant from week 2. MI ratio decreased from 155.9% at baseline to 142.5% at week 4 (-13.4%). This result was compared with that of seven other clinical trials on whitening agents. Among eight different whitening agents, 4n-butyl resorcinol and resveratrol containing cream showed the biggest decrease of MI ratio at week 4. Conclusion: 4n-butyl resorcinol and resveratrol containing cream has fast and potent whitening effect on melasma.
P124 : The efficacy and safety of cryo fat reduction in the treatment of pseudogynecomastia
( Jung Tae Park ),( Bori Kim ),( Sang Young Byun ),( Soon Hyo Kwon ),( Jung Won Shin ),( Kyoung Chan Park ),( Jung Im Na ),( Chang Hun Huh ) 대한피부과학회 2014 대한피부과학회 학술발표대회집 Vol.66 No.2
Background: Options for the treatment of pseudogynecomastia, a condition of enlarged male breast primarily due to the accumulation of adipose tissue, have been limited, including weight reduction and surgical liposuction. Cryo fat reduction provides noninvasive, selective, localized subcutaneous adipocyte destruction without epidermal or dermal injury by inducing adipocyte apoptosis. Objectives: This study was designed to evaluate the efficacy of cryo fat reduction in the treatment of pseudogynecomastia. Methods: In this prospective, 28-week trial, 12 male patients with psudogynecomastia were treated with cryo fat reduction twice bimonthly. Efficacy was determined by breast circumference measurement, ultrasonographic measurement of subcutaneous layer thickness, physician’s global photographic assessment, and patient’s satisfaction at baseline at week 4, week 8, week 16 and week 28. Safety was evaluated by questionnaire at each visit. Results: For the 11 subjects completing the trial, breast circumference and thickness of fat layer determined by ultasonography significantly improved at week 8, andgradually reduced until week 28. Physician’s photographic assessment and patient’s satisfaction showed significant improvement at each visit. No adverse event was observed except transient pain immediately after the treatment and bruise at the treated site. Conclusion: Cryo fat reduction is a safe and effective therapeutic option of the treatment of pseudogynecomastia.
Erosive Effect of Salad Dressing on Flowable Composite Resin Surfaces
Na-Hyun Kwon,Im-Hee Jung (공동1),Ye-Jin Kim,Jin-Yeong Lee,Na-Sun Jung,Hyun-Woong Jeong,Do-Seon Lim 한국치위생과학회 2023 치위생과학회지 Vol.23 No.1
Background: The purpose of this study was to investigate the effect of salad dressings on the flowable composite resin surface and the erosion-inhibitory effect of calcium.Methods: The experiment included six groups: oriental dressing, balsamic dressing, lemon-garlic dressing, lemon-garlic dressing supplemented with 3% calcium, mineral water as a negative control group, and orange juice as a positive control group. pH and titratable acidity were measured. The prepared specimens were immersed in the experimental solutions for 1, 3, 5, 15, and 30 minutes. The surface microhardness was measured using the Vickers hardness number before and after the treatment, and the surface of the specimens was observed using a scanning electron microscope (SEM). Results: The pH values of the experimental groups in increasing order were as follows: lemon-garlic dressing (2.49±0.03), balsamic dressing (3.12±0.06), lemon-garlic dressing +3% calcium (3.27±0.09), oriental dressing (3.75±0.03), orange juice (3.82±0.02), and mineral water (7.32±0.16). The largest surface hardness reduction value was shown in lemon-garlic dressing (−9.61±1.16), followed by balsamic dressing (−9.17±1.63), oriental dressing (−8.62±1.09), orange juice (−8.19±1.36), lemon-garlic dressing +3% calcium (−6.76±1.23), and mineral water (−1.63±2.47). According to the SEM findings, the experimental and positive control groups showed rough surfaces and micropores, whereas the negative control group showed a smooth surface. Moreover, the lemon-garlic dressing with +3% calcium showed fewer micropores and a smoother surface than the lemon-garlic dressing. Conclusion: The intake of salad dressings at a low pH could weaken the surface microhardness of the flowable composite resin. However, adding calcium to these salad dressings can reduce the risk of microhardness reduction on the flowable composite resin surface.
Artificial Intelligence in Diagnostic Dermatology
( Jung-im Na ) 한국피부장벽학회 2020 한국피부장벽학회지 Vol.22 No.1
Recent advancement of deep learning technologies enabled expert-level image classification. Artificial intelligence (AI) algorithms showing dermatologist-level performances or surpassing dermatologists have been reported. Most AI studies have been focused to binary classification of malignant versus benign skin tumors, especially melanoma versus nevi, either from standard digital photographs or dermoscopic images. Recent AI studies are expanding to multiclass-classification of various skin diseases including infectious and inflammatory conditions. Studies for dermatopathology are also increasing. However, the use of AI in real practices still requires further substantiation by data and prospective studies. Cinicians need to understand benefits and limitations of current AI algorithms.