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Non-small Cell Lung Cancer Epigenomes Exhibit Altered DNA Methylation in Smokers and Neversmokers

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Genomics, Proteomics & Bioinformatics 2023年第5期21卷 991-1013页

作者： Jennifer A.Karlow Erica C.Pehrsson Xiaoyun Xing mark watson Siddhartha Devarakonda Ramaswamy Govindan Ting Wang Department of Genetics Washington University School of MedicineSt.LouisMO 63110USA The Edison family Center for Genome Sciences and Systems Biology Washington University School of MedicineSt.LouisMO 63110USA Department of Pathology and Immunology Washington University School of MedicineSt.LouisMO 63110USA Department of Medicine Washington University School of MedicineSt.LouisMO 63110USA McDonnell Genome Institute Washington University School of MedicineSt.LouisMO 63108USA

Epigenetic alterations are widespread in cancer and can complement genetic alterations to influence cancer progression and treatment *** determine the potential contribution of DNA methylation alterations to tumor phenotype in non-small cell lung cancer(NSCLC)in both smoker and never-smoker patients,we performed genome-wide profiling of DNA methylation in 17 primary NSCLC tumors and 10 matched normal lung samples using the complementary assays,methylated DNA immunoprecipitation sequencing(MeDIP-seq)and methylation sensitive restric-tion enzyme sequencing(MRE-seq).We reported recurrent methylation changes in the promoters of several genes,many previously implicated in cancer,including fAM83A and SEPT9(hy-pomethylation),as well as PCDH7,NKX2-1,and SOX17(hypermethylation).Although many methylation changes between tumors and their paired normal samples were shared across patients,several were specific to a particular smoking *** example,never-smokers displayed a greater proportion of hypomethylated differentially methylated regions(hypoDMRs)and a greater number of recurrently hypomethylated promoters,including those of ASPSCRI,TOP2A,DPP9,and USP39,all previously linked to *** outside of promoters were also widespread and often recurrent,particularly methylation loss over repetitive elements,highly enriched for ERV1 *** hypoDMRs were enriched for several transcription factor binding motifs,often for genes involved in signaling and cell *** example,71%of recurrent promoter hypoDMRs contained a motif for ***,the majority of DMRs were located within an active chromatin state in tissues profiled using the Roadmap Epigenomics data,suggesting that methylation changes may contribute to altered regulatory programs through the adaptation of cell type-specific expression programs.

关键词： Non-small cell lung cancer Epigenomics M&M methylCRf DNA methylation

Improved estimation of PM_(2.5) brown carbon contributions to filter light attenuation

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Particuology 2021年第3期19卷 1-9页

作者： Judith C.Chow L.-W.Antony Chen Xiaoliang Wang mark C.Green John G.watson Division of Atmospheric Sciences Desert Research InstituteRenoNVUSA State Key Laboratory of Loess and Quaternary Geology Institute of Earth EnvironmentChinese Academy of SciencesXi’anChina Graduate faculty Department of Atmospheric SciencesUniversity of NevadaReno NevadaUSA Department of Environmental and Occupational Health School of Public HealthUniversity of NevadaLas VegasNVUSA

Multiwavelength light attenuation measurements have been acquired as part of thermal/optical carbon analysis in the *** Speciation Network(CSN)and the Interagency Monitoring of PROtected Visual Environments(IMPROVE)network beginning in *** are used to estimate PM_(2.5)brown carbon(BrC)contributions to light absorption at various wavelengths,a useful method for separating biomass burning contributions from other *** of light transmitted through the filter deviates from Beers Law as the mass of light absorbing materials *** study estimates the effects of these deviations with empirical adjustment factors applied to samples for CSN from 2016 to 2017 and for IMPROVE from 2016 to *** for the filter loading effect results in an annual average increase of∼6-7%BrC contribution to light attenuation:from 3.6%to 10.7%for the urban,more heavily loaded CSN samples;and from 23.7%to 29.5%for the non-urban IMPROVE *** alternative method is examined for BrC and black carbon(BC)adjustments by calculating the AbsorptionÅngström Exponent(AAE)for BC(i.e.,AAE_(BC))based on the ratios of 635 nm/780 nm light attenuation rather than assuming AAE_(BC)of *** paired-wavelength calculations result in a median AAE_(BC)of 0.76 for CSN and 0.8 for IMPROVE,with the majority of samples(i.e.,91%of CSN and 70%of IMPROVE)showing AAE_(BC)from BrC to AAE at longer wavelengths,the amount of light attenuation at shorter wavelengths(e.g.,405 nm)where BrC is dominant can be *** paired-wavelength method applied to the filter loading adjusted data has a greater effect on urban(fresh)than on non-urban(aged)aerosols,resulting in a factor of two increase in annual averaged BrC light attenuation(from 10.7%to 21.6%)for CSN and by a factor of 1.11(from 29.5%to 32.7%)for IMPROVE *** result demonstrates the importance of particle loading and AAE correction on quantifying BrC light attenuatio

关键词： Organic carbon Brown carbon Elemental carbon Black carbon AbsorptionÅngström Exponent

How is Germany approaching Industrie 4.0 And what influence is it having on other regions?

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可编程控制器与工厂自动化（PLC fA） 2015年第8期 24-25页

作者： mark watson Discrete Automation Industrial Communications & Switchgear

A number of associations,including DfKI,Bitkom,VDMA,and ZVEI,are leading the charge to smarter manufacturing in *** goal is to promote Germany’s expertise as an industrial automation technology,machine design and man... 详细信息

关键词：德国智能制造工业自动化技术发展现状

MicroRNA signatures in chemotherapy resistant esophageal cancer cell lines

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World Journal of Gastroenterology 2014年第40期20卷 14904-14912页

作者： Richard Hummel Corina Sie David I watson Tingting Wang Alfiya Ansar Michael Z Michael mark Van der Hoek Joerg Haier Damian J Hussey Department of Surgery Flinders University Bedford Park South Australia 5042 Australia Department of General and Visceral Surgery University of Muenster 48149 Muenster Germany Department of Gastroenterology and Hepatology Flinders University 5042 Bedford Park South Australia Australia Adelaide Microarray Centre SA Pathology 5000 Adelaide South Australia Australia Comprehensive Cancer Centre University of Muenster 48149 Muenster Germany

AIM: To investigate expression of microRNA (miRNA) and potential targets in chemotherapy resistant esophageal cancer cell lines.

关键词： Esophageal cancer MicroRNA Chemotherapy Resistance Target

Source apportionment of atmospheric particulate carbon in Las Vegas,Nevada,USA

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Particuology 2013年第1期11卷 110-118页

作者： mark C.Green Judith C.Chow M.-C.Oliver Chang L.-W.Antony Chen Hampden D.Kuhns Vicken R.Etyemezian John G.watson Division of Atmospheric Sciences Desert Research Institute2215 Raggio ParkwayRenoNV 89512USA Division of Atmospheric Sciences Desert Research Institute.2215 Raggio ParkwayRenoNV 89512USA State Key Laboratory of Loess and Quaternary Geology Institute of Earth EnvironmentChinese Academy of SciencesXi'anChina California Air Resources Board 9528 Telstar Ave.El MonteCA 91731USA

A study was conducted to quantify wintertime contributions of source types to carbonaceous PM2.5 at four urban sites in the Las Vegas Valley, one of the most rapidly growing urban areas in the southwestern United States. Twenty-four hour average ambient samples were collected for mass, ions, elements, organic carbon （OC）, elemental carbon （EC）, and trace organic markers analysis. Additional measurements were made to determine diurnal patterns in light-absorbing black carbon （BC） as a marker for combustion sources. Carbonaceous PM sources of on-road gasoline vehicles, on-road diesel vehicles, and off-road diesel engines were characterized with their chemical profiles, as well as fuel-based emission factors, using an In-Plume Sampling System. The Effective Variance Chemical Mass Balance （EV-CMB） source apportionment model was applied to the ambient samples collected, using source profiles developed in this study as well as profiles from other relevant studies. four main sources contributed to PM2.5 carbon within the Las Vegas Valley：（1） paved road dust, （2） on-road gasoline vehicles, （3） residential wood combustion, and （4） on-road diesel vehicles. CMB estimated that on-road mixed fleet gasoline vehicles are the largest source for OC and EC at all the sites. The contribution of paved road dust to both OC and EC was 5-10% at the four sites. On-road diesel vehicles contribute 22% of the OC and 34% of the EC at a site near the city center, which is located immediately downwind of a major freeway. Residential wood combustion is a more important source than on-road diesel vehicles for two residential neighborhood sites, These results are consistent with our conceptual model, and the research methodology may be applied to studying other urban areas.

关键词： Source characterization Mobile sources Elemental carbon Source apportionment Organic marker

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校本功能性行为评价教育工作者指南

Growth and differentiation factor-11 is developmentally regulated in skeletal muscle and inhibits myoblast differentiation

丛书名：学校心理系列

2004年

作者：（美）T.Steuart watson （美）mark W.Steege 孙瑾译

万千心理:本书介绍了在典型的学校情境中实施功能性行为评价的具体步骤和可用的工具以及应如何以评价结果为基础制定针对每个儿童的、个体化的行为干预方案。

ISBN: (纸本)7501944881

关键词：学生课堂行为评价

来源：汇雅图书（南通市图书馆... 评论

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Open Journal of Molecular and Integrative Physiology 2012年第4期2卷 127-138页

作者： ferenc Jeanplong Shelley J. falconer mark Thomas Kenneth G. Matthews Jenny M. Oldham Trevor watson Christopher D. McMahon AgResearch Ltd. Ruakura Research Centre Hamilton New Zealand

Growth and differentiation factor-11 (GDf-11) is a secreted protein that is closely related to myostatin, a known inhibitor of skeletal muscle development. The role of GDf-11 in regulating skeletal muscle growth remains unclear and the pattern of expression during post-natal growth has not been reported. Therefore, we sought to determine the expression of GDf-11 during post-natal growth and its effect on myoblast proliferation and differentiation. We collected gastrocnemius muscles from male and female mice at 2, 3, 4, 6, 12, 20 and 32 weeks of age (n = 6 per sex and age). In addition, gastrocnemius muscles were col- lected from male wild-type and myostatin knockout mice at 4, 6, 12 and 20 weeks of age (n = 6 per age and genotype). RNA was extracted and reverse tran- scribed. Northern analysis identified an expected 4.4 kb mRNA transcript for GDf-11 in gastrocnemius muscles of mice. The concentration of GDf-11 mRNA, as determined by quantitative PCR, was increased in gastrocnemius muscles from 2 to 6 weeks—a period of rapid postnatal muscle growth—and remained higher in male than female mice from 4 to 20 weeks of age (P gastrocnemius muscles of myostatin knockout compared with wild-type mice (P for the lack of myostatin. In support, recombi- nant GDf-11 inhibited differentiation of C2C12 mur- ine myoblasts and those isolated from myostatin knockout and wild-type mice (P f-ferentiation of C2C12 myoblasts was associated with decreased mRNA expression of early and late mo- lecular markers of differentiation (MyoD, myogenin, IGf-II, desmin and MyHC, P f-11 regulates growth of skeletal muscles by inhibiting myoblast differentiation in an autocrine/paracrine manner and, perhaps, also plays a role in regulating sexually dimorphic growth.

关键词： GDf-11 Developmental Expression Post-Natal Muscle Growth Sexual Dimorphism Myoblast Differentiation

LSTM-in-LSTM for generating long descriptions of images

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Computational Visual Media 2016年第4期2卷 379-388页

作者： Jun Song Siliang Tang Jun Xiao fei Wu Zhongfei(mark)Zhang College of Computer Science and Technology Zhejiang UniversityHangzhou 310027China Department of Computer Science Watson School of Engineering and Applied SciencesBinghamton UniversityBinghamtonNYUSA

In this paper, we propose an approach for generating rich fine-grained textual descriptions of images. In particular, we use an LSTM-in-LSTM(long short-term memory) architecture, which consists of an inner LSTM and an outer LSTM. The inner LSTM effectively encodes the long-range implicit contextual interaction between visual cues(i.e., the spatiallyconcurrent visual objects), while the outer LSTM generally captures the explicit multi-modal relationship between sentences and images(i.e., the correspondence of sentences and images). This architecture is capable of producing a long description by predicting one word at every time step conditioned on the previously generated word, a hidden vector(via the outer LSTM),and a context vector of fine-grained visual cues(via the inner LSTM). Our model outperforms state-of-theart methods on several benchmark datasets(flickr8k,flickr30 k, MSCOCO) when used to generate long rich fine-grained descriptions of given images in terms of four different metrics(BLEU, CIDEr, ROUGE-L, and METEOR).

关键词： long short-term memory(LSTM) image description generation computer vision neural network

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经济计量学