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Steven Zhao, AnnMarie Torres, Ryan A Henry, Sophie Trefely, Martina Wallace, Joyce V Lee, Alessandro Carrer, Arjun Sengupta, Sydney L Campbell, Yin-Ming Kuo, Alexander J Frey, Noah Meurs, John M Viola, Ian A Blair, Aalim M Weljie, Christian M Metallo, Nathaniel W Snyder, Andrew J Andrews, Kathryn E Wellen
Mechanisms of metabolic flexibility enable cells to survive under stressful conditions and can thwart therapeutic responses. Acetyl-coenzyme A (CoA) plays central roles in energy production, lipid metabolism, and epigenomic modifications. Here, we show that, upon genetic deletion of Acly, the gene coding for ATP-citrate lyase (ACLY), cells remain viable and proliferate, although at an impaired rate. In the absence of ACLY, cells upregulate ACSS2 and utilize exogenous acetate to provide acetyl-CoA for de novo lipogenesis (DNL) and histone acetylation...
October 18, 2016: Cell Reports
Sunwon Lee, Donghyeon Kim, Kyubum Lee, Jaehoon Choi, Seongsoon Kim, Minji Jeon, Sangrak Lim, Donghee Choi, Sunkyu Kim, Aik-Choon Tan, Jaewoo Kang
As the volume of publications rapidly increases, searching for relevant information from the literature becomes more challenging. To complement standard search engines such as PubMed, it is desirable to have an advanced search tool that directly returns relevant biomedical entities such as targets, drugs, and mutations rather than a long list of articles. Some existing tools submit a query to PubMed and process retrieved abstracts to extract information at query time, resulting in a slow response time and limited coverage of only a fraction of the PubMed corpus...
2016: PloS One
Ji Young Kwon, Hyun Soo Lee, Choun-Ki Joo
PURPOSE: To determine the immunologic functions of TRPA1 or TRPV1 in allergic conjunctivitis (AC). METHODS: Mice were sensitized with ovalbumin (OVA), after which TRPA1 antagonist or TRPV1 antagonist was administered before topical OVA challenge. Expression of TRPV1 or TRPA1 in AC was examined by western blotting and multicolor immunofluorescence. Clinical signs, OVA-specific IgE, infiltration of inflammatory cells into conjunctivae (CJs), and Th2 cytokine in draining lymph nodes (LNs) were evaluated by microscopy, flow cytometry, and ELISA...
October 11, 2016: Ocular Immunology and Inflammation
Chang-Hyun Lee, In Seok Han, Ji Yeoun Lee, Ji Hoon Phi, Seung-Ki Kim, Young-Eun Kim, Kyu-Chang Wang
OBJECTIVE: Although arachnoid cysts (ACs) are observed in various locations, only sylvian ACs are mainly regarded to be associated with bleeding. The reason for this selective association of sylvian ACs with bleeding is not understood well. This study is to investigate the effect of the location and shape of ACs on the risk of bleeding. METHODS: A developed finite element model of the head/brain was modified for models of sylvian, suprasellar, and posterior fossa ACs...
October 7, 2016: Child's Nervous System: ChNS: Official Journal of the International Society for Pediatric Neurosurgery
Zewang Guo, Xihua Zhao, Yuanzhi He, Tianxing Yang, Huifang Gao, Ganxi Li, Feixue Chen, Meijing Sun, Jung-Kul Lee, Liaoyuan Zhang
Acetoin (AC) is a volatile platform compound with various potential industrial applications. AC contains two stereoisomeric forms: (3S)-AC and (3R)-AC. Optically pure AC is important potential intermediate and widely used as a precursor to synthesize novel optically materials. In this study, chiral (3R)-AC production from meso-2,3-butanediol (meso-2,3-BD) was obtained using recombinant Escherichia coli cells co-expressing meso-2,3-butanediol dehydrogenase (meso-2,3-BDH), NADH oxidase (NOX) and hemoglobin protein (VHB) from Serratia sp...
October 6, 2016: Journal of Microbiology and Biotechnology
Soyeon Lee, Hyo Gyoung Kang, Jin Eun Choi, Jang Hyuck Lee, Hyo Jung Kang, Sun Ah Baek, Eungbae Lee, Yangki Seok, Won Kee Lee, Shin Yup Lee, Seung Soo Yoo, Jaehee Lee, Seung Ick Cha, Chang Ho Kim, Sukki Cho, Jae Yong Park
Vascular endothelial growth factor (VEGF) contributes to tumor angiogenesis. The role of VEGF single nucleotide polymorphisms (SNPs) in lung cancer susceptibility and its prognosis remains inconclusive and controversial. This study was performed to investigate whether VEGF polymorphisms affect survival outcomes of patients with early stage non-small cell lung cancer (NSCLC) after surgery. Three potentially functional VEGF SNPs (rs833061T>C, rs2010963G>C, and rs3025039C>T) were genotyped. A total of 782 NSCLC patients who were treated with surgical resection were enrolled...
November 2016: Journal of Korean Medical Science
Oh Kwang Kwon, Sun Joo Kim, Sangkyu Lee
Lysine acetylation is an important post-translational modification. Since the development of mass spectrometry (MS)-based proteomics technology, important roles of lysine acetylation beyond histones have focused on chromatin remodeling during the cell cycle and regulation of nuclear transport, metabolism, and translation. Zebrafish (Danio rerio) is a widely used vertebrate model in genetics and biologic studies. Although studies in several mammalian species have been performed, the mechanism of lysine acetylation in D...
October 2, 2016: Electrophoresis
Young Cheol Song, Tai Gyu Lee
This study aimed to develop a mercury (Hg) adsorption trap, which can be used to measure the concentration of elemental Hg in emissions from a Hg discharge facility, and evaluate its adsorption efficiency. The Hg spiking efficiency was compared by impregnating metallic and halogen materials that have high affinity for Hg into activated carbon (AC) to determine an accurate spiking method for Hg on AC. The Hg spiking efficiency was compared according to the type and content of the impregnated substances. AC impregnated with Cl and Au had a 15-20% higher Hg spiking efficiency compared to virgin AC...
December 2016: Chemosphere
J Tay, L Foo, C McEniery, I Wilkinson, C Lees
INTRODUCTION: This pilot study aims to compare cardiac output (CO) and total peripheral resistance (TPR) in pregnancies with fetal growth restriction (FGR) with healthy normal third trimester of pregnancies. Most studies previously done on cardiac parameters in pregnancy focused mainly on pre-eclampsia (PE) and FGR with PE, but not in normotensive FGR women. METHODS: Eight pregnancies with FGR (AC < 10th percentile with raised umbilical PI) in the third trimester (27-35 weeks gestation) compared with 42 uncomplicated ongoing pregnancies within similar gestation bands...
August 2016: Journal of Maternal-fetal & Neonatal Medicine
J Tay, L Foo, C McEniery, I Wilkinson, C Lees
INTRODUCTION: Studies in pre-eclampsia have demonstrated that central haemodynamic changes give more insight than peripheral measures into maternal cardiac and vascular physiology. This study aims to investigate augmentation index (AIX) and pulse wave velocity (PWV) in pregnancies affected by fetal growth restriction (FGR) and compare them to healthy women in the third trimester of pregnancy. Augmentation index (AIx) is a measure of systemic arterial stiffness derived from the ascending aortic pressure waveform...
August 2016: Journal of Maternal-fetal & Neonatal Medicine
W Victoria Lee, Jeffrey Shaman
There has been little research into the thermal condition of the sleeping environment. Even less well documented and understood is how the sleeping thermal environment is affected by occupant behaviors such as the use of air-conditioning (AC) and electric fans, or window operations. In this paper we present results from a questionnaire survey administered to assess summertime bedroom thermal satisfaction and heat-coping strategies among New York City (NYC) residents. Specifically, we investigated current AC usage in bedrooms and examined alternate cooling strategies, cooling appliance usage patterns, and the motivations that drove these patterns during the 2015 summer...
September 22, 2016: Science of the Total Environment
Wonjun Choi, Baeksoo Kim, Hyejin Cho, Doheon Lee, Hyunju Lee
BACKGROUND: Plants are natural products that humans consume in various ways including food and medicine. They have a long empirical history of treating diseases with relatively few side effects. Based on these strengths, many studies have been performed to verify the effectiveness of plants in treating diseases. It is crucial to understand the chemicals contained in plants because these chemicals can regulate activities of proteins that are key factors in causing diseases. With the accumulation of a large volume of biomedical literature in various databases such as PubMed, it is possible to automatically extract relationships between plants and chemicals in a large-scale way if we apply a text mining approach...
2016: BMC Bioinformatics
Chuncheng Gong, Kuang He, Gun-Do Lee, Qu Chen, Alex W Robertson, Euijoon Yoon, Suklyun Hong, Jamie H Warner
An in situ heating holder inside an aberration-corrected transmission electron microscope (AC-TEM) is used to investigate the real-time atomic level dynamics associated with heterogeneous nucleation and growth of graphene from Au nanoparticle seeds. Heating monolayer graphene to an elevated temperature of 800 °C removes the majority of amorphous carbon adsorbates and leaves a clean surface. The aggregation of Au impurity atoms into nanoparticle clusters that are bound to the surface of monolayer graphene causes nucleation of secondary graphene layers from carbon feedstock present within the microscope chamber...
September 19, 2016: ACS Nano
Hye Sook Kim, Suk Young Lee, Ju Won Kim, Yoon Ji Choi, In Hae Park, Keun Seok Lee, Jae Hong Seo, Sang Won Shin, Yeul Hong Kim, Jun Suk Kim, Kyong Hwa Park
OBJECTIVE: This retrospective study was undertaken to assess the incidence of and risk factors for febrile neutropenia (FN) during adjuvant chemotherapy for early-stage breast cancer (ESBC). METHODS: A multicenter survey of three tertiary hospitals was conducted, with data extracted from the records of ESBC patients treated with adjuvant chemotherapy containing AC (doxorubicin, 60 mg/m2 and cyclophosphamide, 600 mg/m2 every 21 days). Assessments included clinical characteristics, chemotherapy dose modifications, and incidence of FN...
September 14, 2016: Oncology
Lee Whitmore, Andrew John Miles, Lazaros Mavridis, Robert W Janes, B A Wallace
The Protein Circular Dichroism Data Bank (PCDDB) has been in operation for more than 5 years as a public repository for archiving circular dichroism spectroscopic data and associated bioinformatics and experimental metadata. Since its inception, many improvements and new developments have been made in data display, searching algorithms, data formats, data content, auxillary information, and validation techniques, as well as, of course, an increase in the number of holdings. It provides a site (http://pcddb...
September 8, 2016: Nucleic Acids Research
Jin-Young Jang, Taesung Park, Selyeong Lee, Yongkang Kim, Seung Yeoun Lee, Sun-Whe Kim, Song-Cheol Kim, Ki-Byung Song, Masakazu Yamamoto, Takashi Hatori, Seiko Hirono, Sohei Satoi, Tsutomu Fujii, Satoshi Hirano, Yasushi Hashimoto, Yashuhiro Shimizu, Dong Wook Choi, Seong Ho Choi, Jin Seok Heo, Fuyuhiko Motoi, Ippei Matsumoto, Woo Jung Lee, Chang Moo Kang, Ho-Seong Han, Yoo-Seok Yoon, Masayuki Sho, Hiroaki Nagano, Goro Honda, Sang Geol Kim, Hee Chul Yu, Jun Chul Chung, Yuichi Nagakawa, Hyung Il Seo, Hiroki Yamaue
OBJECTIVES: This study evaluated individual risks of malignancy and proposed a nomogram for predicting malignancy of branch duct type intraductal papillary mucinous neoplasms (BD-IPMNs) using the large database for IPMN. BACKGROUND: Although consensus guidelines list several malignancy predicting factors in patients with BD-IPMN, those variables have different predictability and individual quantitative prediction of malignancy risk is limited. METHODS: Clinicopathological factors predictive of malignancy were retrospectively analyzed in 2525 patients with biopsy proven BD-IPMN at 22 tertiary hospitals in Korea and Japan...
September 6, 2016: Annals of Surgery
Minsuk Kim, Gwanggyu Sun, Dong-Yup Lee, Byung-Gee Kim
MOTIVATION: Modulation of regulatory circuits governing the metabolic processes is a crucial step for developing microbial cell factories. Despite the prevalence of in silico strain design algorithms, most of them are not capable of predicting required modifications in regulatory networks. Although a few algorithms may predict relevant targets for transcriptional regulator (TR) manipulations, they have limited reliability and applicability due to their high dependency on the availability of integrated metabolic/regulatory models...
September 7, 2016: Bioinformatics
Wook Ahn, Dong Un Lee, Ge Li, Kun Feng, Xiaolei Wang, Aiping Yu, Gregory Lui, Zhongwei Chen
Highly oriented rGO sponge (HOG) can be easily synthesized as an effective anode for application in high-capacity lithium ion hybrid capacitors. X-ray diffraction and morphological analyses show that successfully exfoliated rGO sponge on average consists of 4.2 graphene sheets, maintaining its three-dimensional structure with highly oriented morphology even after the thermal reduction procedure. Lithium-ion hybrid capacitors (LIC) are fabricated in this study based on a unique cell configuration which completely eliminates the predoping process of lithium ions...
September 28, 2016: ACS Applied Materials & Interfaces
Jaehoon Lee, Young Jin Kim, Juyoung Lee, Bong-Jo Kim, Seungyeoun Lee, Taesung Park
MOTIVATION: Recently, many methods have been developed for conducting rare-variant association studies for sequencing data. These methods have primarily been based on gene-level associations but have not been proven to be as effective as expected. Gene-set-level tests have shown great advantages over gene-level tests in terms of power and robustness, because complex diseases are often caused by multiple genes that comprise of biological gene sets. RESULTS: Here, we propose several novel gene-set tests that employ rapid and efficient dimensionality reduction...
September 1, 2016: Bioinformatics
Wenbao Yu, Seungyeoun Lee, Taesung Park
MOTIVATION: Gene-gene interaction (GGI) is one of the most popular approaches for finding and explaining the missing heritability of common complex traits in genome-wide association studies. The multifactor dimensionality reduction (MDR) method has been widely studied for detecting GGI effects. However, there are several disadvantages of the existing MDR-based approaches, such as the lack of an efficient way of evaluating the significance of multi-locus models and the high computational burden due to intensive permutation...
September 1, 2016: Bioinformatics
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