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| 1 | Virtual screening of inorganic materials synthesis parameters with deep learning显示文摘Virtual materials screening approaches have proliferated in the past decade,driven by rapid advances in first-principles computational techniques,and machine-learning algorithms.By comparison,computationally driven materials synthesis screening is still in its infancy,and is mired by the challenges of data sparsity and data scarcity:Synthesis routes exist in a sparse,highdimensional parameter space that is difficult to optimize over directly,and,for some materials of interest,only scarce volumes of literature-reported syntheses are available.In this article,we present a framework for suggesting quantitative synthesis parameters and potential driving factors for synthesis outcomes.We use a variational autoencoder to compress sparse synthesis representations into a lower dimensional space,which is found to improve the performance of machine-learning tasks.To realize this screening framework even in cases where there are few literature data,we devise a novel data augmentation methodology that incorporates literature synthesis data from related materials systems.We apply this variational autoencoder framework to generate potential SrTiO_(3) synthesis parameter sets,propose driving factors for brookite TiO_(2) formation,and identify correlations between alkali-ion intercalation and MnO_(2) polymorph selection. | Edward Kim Kevin Huang Stefanie Jegelka Elsa Olivetti | 2017 | npj Computational Materials2017，，1： | 14 |
| 2 | Management of hepatocellular carcinoma with portal vein thrombosis显示文摘Management of hepatocellular carcinoma(HCC) with portal vein thrombosis(PVT) is complex andrequires an understanding of multiple therapeutic options. PVT is present in 10%-40% of HCC at the time of diagnosis, and is an adverse prognostic factor. Management options are limited, as transplantation is generally contraindicated, and surgical resection is only rarely performed in select centers. Systemic medical therapy with sorafenib has been shown to modestly prolong survival. Transarterial chemoembolization has been performed in select cases but has shown a high incidence of complications. Emerging data on treatment of PVT with Y-90 radioembolization suggest that this modality is well-tolerated and associated with favorable overall survival. Current society guidelines do not yet specifically recommend radioembolization for patients with PVT, but this may change with the development of newer staging systems and treatment algorithms. In this comprehensive literature review, we present current and available management options with the relative advantages, disadvantages and contraindications of these treatment options with summarized data on overall survival. | Matthew Quirk Yun Hwan Kim Sammy Saab Edward Wolfgang Lee | 2015 | World Journal of Gastroenterology2015，21，12： | 12 |
| 3 | The adult human testis transcriptional cell atlas显示文摘Human adult spermatogenesis balances spermatogonial stem cell (SSC) self-renewal and differentiation,alongside complex germ cell-niche interactions,to ensure long-term fertility and faithful genome propagation. Here,we performed single-cell RNA sequencing of -6500 testicular cells from young adults. We found five niche/somatic cell types (Leydig,myoid,Sertoli,endothelial,macrophage),and observed germline-niche interactions and key human-mouse differences. Spermatogenesis,including meiosis,was reconstructed computationally,revealing sequential coding,non-coding,and repeat-element transcriptional signatures. Interestingly,we identified five discrete transcriptional/developmental spermatogonial states,including a novel early SSC state,termed State 0. Epigenetic features and nascent transcription analyses suggested developmental plasticity within spermatogonial States. To understand the or丨gin of State 0,we profiled testicular cells from infants,and identified distinct similarities between adult State 0 and infant SSCs. Overall,our datasets describe key transcriptional and epigenetic signatures of the normal adult human testis,and provide new insights into germ cell developmental transitions and plasticity. | Jingtao Guo Edward J. Grow Hana Mlcochova Geoffrey J. Maher Cecilia Lindskog Xichen Nie Yixuan Guo Yodai Takei Jina Yun Long Cai Robin Kim Douglas T. Carrell Anne Goriely James M. Hotaling Bradley R. Cairns | 2018 | Cell Research2018，28，12： | 12 |
| 4 | The significance of clinical practice guidelines on adult varicocele detection and management显示文摘精索静脉曲张是男因素不孕的最普通的可改正的病原学。然而,精索静脉曲张的察觉和管理没被标准化。这在男不孕上关于精索静脉曲张的效果导致了争论的十年,随后,是否修理,导致改进富饶地位。调查精索静脉曲张和 varicocelectomy 的角色的证据的当前的身体弱、冲突。AUA 和 ASRM 拿的位置建议有不够的结果数据支持基于证据的指南,引用过去常提供建议通常具有低优秀水平的电流的证据。在另一方面, EAU 指南为临床上摸得出的精索静脉曲张的管理给水平证据的 1a,与低于正常的精液分析和有的不同 unexplained 富饶联系了。除与临床的精索静脉曲张察觉和管理帮助以外,临床的实践意见陈述和指南试图指导并且加强未来研究的基础结构。我们在实践与他们的申请的焦点在精索静脉曲张和管理察觉考察意见陈述和指南的当前的地位。 | Anand Shridharani Ryan C Owen Osama O Elkelany Edward D Kim | 2016 | Asian Journal of Andrology2016，18，2： | 11 |
| 5 | Effects of Bacillus subtilis CSL2 on the composition and functional diversity of the faecal microbiota of broiler chickens challenged with Salmonella Gallinarum显示文摘Background: The chicken gastrointestinal tract contains a diverse microbiota whose composition and structure play important roles in gut functionality. In this study, microbial shifts resulting from feed supplementation with Bacillus subtilis CSL2 were evaluated in broilers challenged and unchallenged with Salmonella Gallinarum. To analyse bacterial community composition and functionality, 454 GS-FLX pyrosequencing of 16 S r RNA gene amplicons was performed.Results: The Quantitative Insights into Microbial Ecology(QIIME) pipeline was used to analyse changes in the faecal microbiota over a 24-h period. A total of 718,204 sequences from broiler chickens were recorded and analysed. At the phylum level, Firmicutes, Bacteroidetes, and Proteobacteria were the predominant bacterial taxa. In Salmonellainfected chickens(SC), Bacteroidetes were more highly abundant compared to control(NC) and Bacillus-treated(BT)chickens. At the genus level, in the NC and BT groups, Lactobacil us was present at high abundance, and the abundance of Turicibacter, unclassified Enterobacteriaceae, and Bacteroides increased in SC broilers. Furthermore, taxon-independent analysis showed that the SC and BT groups were compositional y distinct at the end of the 24-h period. Further analysis of functional properties showed that B. subtilis CSL2 administration increased gut-associated energy supply mechanisms(i.e. carbohydrate transport and metabolism) to maintain a stable microbiota and protect gut integrity.Conclusions: This study demonstrated that S. Gallinarum infection and B. subtilis CSL2 supplementation in the diet of broiler chickens influenced the diversity, composition, and functional diversity of the faecal microbiota. Moreover, the findings offer significant insights to understand potential mechanisms of Salmonel a infection and the mode of action of probiotics in broiler chickens. | Ju Kyoung Oh Edward Alain B.Pajarillo Jong Pyo Chae In Ho Kim Dong Soo Yang Dae-Kyung Kang | 2017 | Journal of Animal Science and Biotechnology2017，8，2： | 6 |
| 6 | Murine lung eosinophil activation and chemokine production in allergic airway inflammation显示文摘Eosinophils play important roles in asthma and lung infections.Murine models are widely used for assessing the functional significance and mechanistic basis for eosinophil involvements in these diseases.However,little is known about tissue eosinophils in homeostasis.In addition,little data on eosinophil chemokine production during allergic airway inflammation are available.In this study,the properties and functions of homeostatic and activated eosinophils were compared.Eosinophils from normal tissues expressed costimulation and adhesion molecules B7-1,B7-2 and ICAM-1 for Ag presentation but little major histocompatibility complex(MHC)class II,and were found to be poor stimulators of T-cell proliferation.However,these eosinophils expressed high levels of chemokine mRNA including C10,macrophage inflammatory protein(MIP)-1a,MIP-1c,MIP-2,eotaxin and monocyte chemoattractant protein-5(MCP-5),and produced chemokine proteins.Eosinophil intracellular chemokines decreased rapidly with concomitant surface marker downregulation upon in vitro culturing consistent with piecemeal degranulation.Lung eosinophils from mice with induced allergic airway inflammation exhibited increased chemokines mRNA expression and chemokines protein production and upregulated MHC class II and CD11c expression.They were also found to be the predominant producers of the CCR1 ligands CCL6/C10 and CCL9/MIP-1c in inflamed lungs.Eosinophil production of C10 and MIP-1c correlated with the marked influx of CD11bhigh lung dendritic cells during allergic airway inflammation and the high expression of CCR1 on these dendritic cells(DCs).The study provided baseline information on tissue eosinophils,documented the upregulation of activation markers and chemokine production in activated eosinophils,and indicated that eosinophils were a key chemokine-producing cell type in allergic lung inflammation. | C Edward Rose Jr Joanne A Lannigan Paul Kim James J Lee Shu Man Fu Sun-sang J Sung | 2010 | Cellular & Molecular Immunology2010，7，5： | 6 |
| 7 | A multi‐institutional phase 2 study of neoadjuvant gemcitabine and oxaliplatin with radiation therapy in patients with pancreatic cancer显示文摘 | Edward J. Kim Edgar Ben‐Josef Joseph M. Herman Tanios Bekaii‐Saab Laura A. Dawson Kent A. Griffith Isaac R. Francis Joel K. Greenson Diane M. Simeone Theodore S. Lawrence Daniel Laheru Christopher L. Wolfgang Terence Williams Mark Bloomston Malcolm J. Moo | 2013 | Cancer2013，，15： | 3 |
| 8 | Treatment of hypogonadotropic male hypogonadism: Case-based scenarios显示文摘The aim of this study is to review four case-based scenarios regarding the treatment of symptomatic hypogonadism in men. The article is designed as a review of published literature. We conducted a Pub Med literature search for the time period of 1989-2014, concentrating on 26 studies investigating the efficacy of various therapeutic options on semen analysis, pregnancy outcomes, time to recovery of spermatogenesis, as well as serum and intratesticular testosterone levels. Our results demonstrated that exogenous testosterone suppresses intratesticular testosterone production, which is an absolute prerequisite for normal spermatogenesis. Cessation of exogenous testosterone should be recommended for men desiring to maintain their fertility. Therapies that protect the testis involve human chorionic gonadotropin(h CG) therapy or selective estrogen receptor modulators(SERMs), but may also include low dose h CG with exogenous testosterone. Off-label use of SERMs, such as clomiphene citrate, are effective for maintaining testosterone production long-term and offer the convenience of representing a safe, oral therapy. At present, routine use of aromatase inhibitors is not recommended based on a lack of longterm data. We concluded that exogenous testosterone supplementation decreases sperm production. It was determined that clomiphene citrate is a safe and effective therapy for men who desire to maintain fertility. Although less frequently used in the general population, h CG therapy with or without testosterone supplementation represents an alternative treatment. | Lindsey E Crosnoe-Shipley Osama O Elkelany Cyrus D Rahnema Edward D Kim | 2015 | World Journal of Nephrology2015，4，2： | 3 |
| 9 | 腔内介入治疗血管性勃起功能障碍显示文摘过去一个世纪里,勃起功能障碍(ED)的治疗一直是一件引人关注的事情,涉及到泌尿、心血管以及手术领域的多个学科。随着ED与心血管疾病的相关性被充分证实,血管造影技术已被用来鉴别血管性阳痿。由于腔内血管药物洗脱支架植入术在治疗冠状动脉疾病获得成功,采用该技术来治疗血管性ED已激起了医务人员的浓厚兴趣。最近报道了针对阴茎流入血管狭窄的男性,植入药物洗脱支架绕过病变处动脉已获得了较高的成功率。同样,血管内栓塞治疗静脉闭塞功能障碍也取得了惊人的手术成功率。然而,查阅文献发现动脉介入只推荐应用于治疗年轻的孤立性血管损伤的患者,通常为那些先前经历过创伤的患者。该手术的短期功能恢复没有达到最佳,长期疗效也有待进一步观察。总之,用微创方法治疗勃起功能障碍的希望仍然存在,但是在获得普遍认可之前仍需要进一步的研究。 | Edward D Kim Ryan C Owen Gregory S White Osama O Elkelany Cyrus D Rahnema | 2015 | Asian Journal of Andrology2015，17，1： | 3 |
| 10 | Dietary supplementation of Bacillus subtilis influenced intestinal health of weaned pigs experimentally infected with a pathogenic E. coli显示文摘Background: There is growing evidence to support the beneficial effects of supplementing direct-fed microbials(DFM) on performance, health status, and immune responses of weaned pigs. Therefore, the objective of this study was to investigate dietary supplementation of Bacillus subtilis(DSM 25841) on growth performance, diarrhea, gut permeability and immunity of weaned pigs experimentally infected with a pathogenic F-18 Escherichia coli(E. coli).Results: The F18 E. coli infection reduced(P < 0.05) growth performance and intestinal villi height, whereas increased(P < 0.05) diarrhea and transcellular and paracellular permeability in the jejunum compared with non-challenged control. Supplementation of Bacillus subtilis linearly enhanced average daily gain of E. coli infected pigs from d 0 to 5 post-inoculation(PI)(P < 0.05) and d 0 to 11 PI(P = 0.058). Supplementation of high dose of Bacillus subtilis reduced(P < 0.05) both transcellular and paracellular permeability on d 5 and d11 PI compared with the E. coli infected pigs fed with control diet. E. coli infection up-regulated(P < 0.05)the m RNA expression of SLC5 A10(soluble carrier family 5 member 10) and MUC2(mucin 2) on d 5 PI, but down-regulated(P < 0.05) expression of SLC5 A10, MUC2, and CLDN1 on d 11 PI in jejunal mucosa when pigs were fed with the control diet. Supplementation of Bacillus subtilis linearly up-regulated(P < 0.05) the m RNA expression of CFTR and ZO1 on d 5 PI and SLC5 A10 and MUC2 on d 11 PI in jejunal mucosa of E. coli infected pigs. In addition, E. coli infection increased(P < 0.05) the m RNA expression of several immune genes(IL1 A, IL1 B, and IL7 on d 5 PI, and IL1 B, IL6, IL7, and TNF on d 11 PI) in the ileal mucosa of weaned pigs. Inclusion of Bacillus subtilis to control diet linearly down-regulated gene expression of IL1 A on d 5 PI(P = 0.07) and IL6 on d 11 PI(P < 0.05) in ileal mucosa of E. coli infected pigs.Conclusions: Supplementation of Bacillus subtilis(DSM 25841) enhanced growth rate and improved gut barrier function of weaned pigs experimentally infected with a pathogenic E. coli. | Kwangwook Kim Yijie He Xia Xiong Amy Ehrlich Xunde Li Helen Raybould Edward R.Atwill Elizabeth A.Maga Jens JΦrgensen Yanhong Liu | 2019 | Journal of Animal Science and Biotechnology2019，10，4： | 3 |
| 11 | Model for end-stage liver disease (MELD) and allocation of donor livers显示文摘 | Russell Wiesner Erick Edwards Richard Freeman Ann Harper Ray Kim Patrick Kamath Walter Kremers John Lake Todd Howard Robert M. Merion Robert A. Wolfe Ruud Krom | 2003 | Gastroenterology2003，，1： | 2 |
| 12 | Appropriateness of systemic treatments in unresectable metastatic well-differentiated pancreatic neuroendocrine tumors显示文摘AIM:To evaluate systemic treatment choices in unresectable metastatic well-differentiated pancreatic neuroendocrine tumors(PNETs)and provide consensus treatment recommendations.METHODS:Systemic treatment options for pancreatic neuroendocrine tumors have expanded in recent years to include somatostatin analogs,angiogenesis inhibitors,inhibitors of mammalian target of rapamycinand cytotoxic agents.At this time,there is little data to guide treatment selection and sequence.We therefore assembled a panel of expert physicians to evaluate systemic treatment choices and provide consensus treatment recommendations.Treatment appropriateness ratings were collected using the RAND/UCLA modified Delphi process.After studying the literature,a multidisciplinary panel of 10 physicians assessed the appropriateness of various medical treatment scenarios on a 1-9 scale.Ratings were done both before and after an extended discussion of the evidence.Quantitative measurements of agreement were made and consensus statements developed from the second round ratings.RESULTS:Specialties represented were medical and surgical oncology,interventional radiology,and gastroenterology.Panelists had practiced for a mean of15.5 years(range:6-33).Among 202 rated scenarios,disagreement decreased from 13.2%(26 scenarios)before the face-to-face discussion of evidence to 1%(2)after.In the final ratings,46.5%(94 scenarios)were rated inappropriate,21.8%(44)were uncertain,and30.7%(62)were appropriate.Consensus statements from the scenarios included:(1)it is appropriate to use somatostatin analogs as first line therapy in patients with hormonally functional tumors and may be appropriate in patients who are asymptomatic;(2)it is appropriate to use everolimus,sunitinib,or cytotoxic chemotherapy therapy as first line therapy in patients with symptomatic or progressive tumors;and(3)beyond first line,these same agents can be used.In patients with uncontrolled secretory symptoms,octreotide LAR doses can be titrated up to 60 mg every4 wk or up to 40 mg every 3 or 4 wk.CONCLUSION:Using the Delphi process allowed physician experts to systematically obtain a consensus on the appropriateness of a variety of medical therapies in patients with PNETs. | Jonathan R Strosberg George A Fisher Al B Benson Lowell B Anthony Bulent Arslan John F Gibbs Edward Greeno Renuka V Iyer Michelle K Kim William J Maples Philip A Philip Edward M Wolin Dasha Cherepanov Michael S Broder | 2015 | World Journal of Gastroenterology2015，21，8： | 2 |
| 13 | The reference genetic linkage map for the multinational Brassica rapa genome sequencing project显示文摘 | Su Ryun Choi Graham R. Teakle Prikshit Plaha Jeong Hee Kim Charlotte J. Allender Elena Beynon Zhong Yun Piao Pilar Soengas Tae Ho Han Graham J. King Guy C. Barker Paul Hand Derek J. Lydiate Jacqueline Batley David Edwards Dal Hoe Koo Jae Wook Bang Beom-Se | 2007 | Theoretical and Applied Genetics2007，，6： | 2 |
| 14 | Sentinel Lymph Node Mapping of the Gastrointestinal Tract by Using Invisible Light显示文摘 | Edward G. Soltesz Sungjee Kim Sang-Wook Kim Rita G. Laurence Alec M. De Grand Cherie P. Parungo Lawrence H. Cohn Moungi G. Bawendi John V. Frangioni | 2006 | Annals of Surgical Oncology2006，，3： | 2 |
| 15 | OPTN/SRTR 2011 Annual Data Report: Liver显示文摘 | W. R. Kim P. G. Stock J. M. Smith J. K. Heimbach M. A. Skeans E. B. Edwards A. M. Harper J. J. Snyder A. K. Israni B. L. Kasiske | 2012 | American Journal of Transplantation2012，，： | 2 |
| 16 | Cytoreductive Surgery and Intraperitoneal Hyperthermic Chemotherapy With Mitomycin C for Peritoneal Carcinomatosis from Nonappendiceal Colorectal Carcinoma显示文摘 | Perry Shen MD Jason Hawksworth MD James Lovato PhD Brian W. Loggie MD Kim R. Geisinger MD Ronald A. Fleming PharmD Edward A. Levine MD | 2004 | Annals of Surgical Oncology2004，，2： | 2 |
| 17 | Elevated Aortic Pulse Wave Velocity, a Marker of Arterial Stiffness, Predicts Cardiovascular Events in Well-Functioning Older Adults显示文摘 | Kim Sutton-Tyrrell Samer S. Najjar Robert M. Boudreau Lakshmi Venkitachalam Varant Kupelian Eleanor M. Simonsick Richard Havlik Edward G Lakatta Harold Spurgeon Stephen Kritchevsky Marco Pahor Douglas Bauer Anne Newman | 2005 | Circulation2005，，25： | 2 |
| 18 | Photosynthesis,Metabolite Composition and Anatomical Structure of Oryza sativa and Two Wild Relatives,O.grandiglumis and O.alta显示文摘Photosynthesis, enzyme activities and metabolite pools associated with primary carbon metabolism in leaves were studied in O. grandiglumis and O. alta(wild relatives of rice which produce high biomass) versus O. sativa(a japonica cultivar and a indica-japonica hybrid) to assess their potential for identifying traits which might be utilized to enhance rice productivity. The wild relatives had higher rates of photosynthesis on a fresh weight basis, and higher water use efficiency than the O. sativa lines. There were no striking differences in activities of a number of key enzymes in carbon and nitrogen metabolism between the wild relatives and cultivated rice lines. Along with higher rates of photosynthesis on a fresh weight basis, the leaves of the two wild species had higher nitrate content, higher levels of starch, glucose and fructose, and higher levels of organic acids(malate, succinate and acetate), compared to the O. sativa lines. The results suggested that O. grandiglumis and O. alta have differences in physiology and primary metabolism which might be exploited to improve growth and productivity of cultivated rice. | Jwakyung SUNG Suyeon LEE Jong-Wook CHUNG Gerald EDWARDS Hojin RYU Taewan KIM | 2017 | Rice science2017，24，4： | 2 |
| 19 | Variable phenotypes of enterocolitis in interleukin 10-deficient mice monoassociated with two different commensal bacteria显示文摘 | Sandra C. Kim Susan L. Tonkonogy Carol A. Albright Julia Tsang Edward J. Balish Jonathon Braun Mark M. Huycke R. Balfour Sartor | 2005 | Gastroenterology2005，，4： | 2 |
| 20 | Strategies to tackle the challenges of external beam radiotherapy for liver tumors显示文摘Primary and metastatic liver cancer is an increasingly common and difficult to control disease entity.Radiation offers a non-invasive treatment alternative for these patients who often have few options and a poor prognosis.However,the anatomy and aggressiveness of liver cancer poses significant challenges such as accurate localization at simulation and treatment,management of motion and appropriate selection of dose regimen.This article aims to review the options available and provide information for the practical implementation and/or improvement of liver cancer radiation programs within the context of stereotactic body radiotherapy and image-guided radiotherapy guidelines.Specific patient inclusion and exclusion criteria are presented given the significant toxicity found in certain sub-populations treated with radiation.Indeed,certain sub-populations,such as those with tumor thrombosis or those with larger lesions treated with transarterial chemoembolization,have been shown to have significant improvements in outcome with the addition of radiation and merit special consideration.Implementing a liver radiation programrequires three primary challenges to be addressed:(1) immobilization and motion management;(2) localization;and(3) dose regimen and constraint selection.Strategies to deal with motion include simple internal target volume(ITV) expansions,non-gated ITV reduction strategies,breath hold methods,and surrogate marker methods to enable gating or tracking.Localization of the tumor and organs-at-risk are addressed using contrast infusion techniques to take advantage of different normal liver and cancer vascular anatomy,imaging modalities,and margin management.Finally,a dose response has been demonstrated and dose regimens appear to be converging.A more uniform approach to treatment in terms of technique,dose selection and patient selection will allow us to study liver radiation in larger and,hopefully,multicenter randomized studies. | Michael I Lock Jonathan Klein Hans T Chung Joseph M Herman Edward Y Kim William Small Nina A Mayr Simon S Lo | 2017 | World Journal of Hepatology2017，9，14： | 2 |
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