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Predicting responses to platin chemotherapy agents with biochemically-inspired machine learning

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Signal Transduction and Targeted Therapy 2019年第1期4卷 636-647页

作者： Eliseos J.Mucaki Jonathan Z.L.Zhao Daniel J.Lizotte Peter K.rogan Department of Biochemistry Schulich School of Medicine and DentistryWestern UniversityLondonON N6A 2C1Canada Department of Computer Science Faculty of ScienceWestern UniversityLondonON N6A 2C1Canada Department of Epidemiology&Biostatistics Schulich School of Medicine and DentistryWestern UniversityLondonON N6A 2C1Canada Cytognomix Inc.LondonON N5X 3X5Canada Department of Oncology Schulich School of Medicine and DentistryWestern UniversityLondonON N6A 2C1Canada

The selection of effective genes that accurately predict chemotherapy responses might improve cancer *** compare optimized gene signatures for cisplatin,carboplatin,and oxaliplatin responses in the same cell lines and validate each signature using data from patients with *** support vector machine learning is used to derive gene sets whose expression is related to the cell line GI 50 values by backwards feature selection with *** genes and functional pathways distinguishing sensitive from resistant cell lines are identified by contrasting signatures obtained at extreme and median GI 50 *** of gene signatures at different thresholds are combined to reduce the dependence on specific GI 50 values for predicting drug *** most accurate gene signatures for each platin are:cisplatin:BARD1,BCL2,BCL2L1,CDKN2C,FAAP24,FEN1,MAP3K1,MAPK13,MAPK3,NFKB1,NFKB2,SLC22A5,SLC31A2,TLR4,and TWIST1;carboplatin:AKT1,EIF3K,ERCC1,GNGT1,GSR,MTHFR,NEDD4L,NLRP1,NRAS,RAF1,SGK1,TIGD1,TP53,VEGFB,and VEGFC;and oxaliplatin:BRAF,FCGR2A,IGF1,MSH2,NAGK,NFE2L2,NQO1,PANK3,SLC47A1,SLCO1B1,and *** from The Cancer Genome Atlas(TCGA)patients with bladder,ovarian,and colorectal cancer were used to test the cisplatin,carboplatin,and oxaliplatin signatures,resulting in 71.0%,60.2%,and 54.5%accuracies in predicting disease recurrence and 59%,61%,and 72%accuracies in predicting remission,*** cisplatin signature predicted 100%of recurrence in non-smoking patients with bladder cancer(57%disease-free;N=19),and 79%recurrence in smokers(62%disease-free;N=35).This approach should be adaptable to other studies of chemotherapy responses,regardless of the drug or cancer types.

关键词： bladder chemotherapy signature

Hybridisation in kiwi(Apteryx;Apterygidae)requires taxonomic revision for the Great Spotted Kiwi

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Avian Research 2021年第2期12卷 195-207页

作者： Lara D.Shepherd Alan J.D.Tennyson Hugh A.Robertson rogan M.Colbourne Kristina M.Ramstad Museum of New Zealand Te Papa Tongarewa Wellington 6011New Zealand Biodiversity Group Department of Conservation PO Box 10420Welling-ton 6011New Zealand Department of Biology and Geology University of South Carolina Aiken471 University ParkwayAikenSC 29801USA

Background:Kiwi(Apteryx spp.)are flightless ratites from New Zealand whose numbers and distributions have declined following human *** of the kiwi species are known to hybridise but the extent of hybridization is ***:We reviewed hybridisation in kiwi(Apteryx spp.)and present new genetic data examining the extent of hybridisation between Rowi(***)and Little Spotted Kiwi(***)at Okarito,the location of the only remaining natural population of the threatened *** also genetically examined the syntype specimens of *** Potts,1872,collected from near Okarito in the 1870s,which have unusual ***:We found evidence of recurrent hybridisation between Rowi and Little Spotted Kiwi over the last 150 years,including one F1 hybrid found in the last 15 years,despite Little Spotted Kiwi’s likely extinction on the mainland in the ***,we found little evidence of introgression of Little Spotted Kiwi alleles into the extant Rowi *** syntype specimens of *** were also found to be hybrids between Little Spotted Kiwi and ***:Our genetic analyses indicate that,although we detected multiple instances of hybridisation between Rowi and Little Spotted Kiwi,it does not appear to be an ongoing threat to *** the syntype specimens of *** are hybrids and therefore not representative of the prevailing usage of the name for the Great Spotted Kiwi(***),we resurrect the nomen oblitum *** Sclater and Hochstetter,1861 for the large spotted kiwi species.

关键词： Apteryx Apteryx haastii DNA Hybridisation Kiwi Taxonomy

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雅思精选试题解析·口语 2

爱尔兰烟酒消费的需求分析 ——基于AIDS和QUAIDS模型

丛书名：朗阁IELTS应试系列丛书

2006年

作者：陈瑜 (英)Timothy rogan编

朗阁IELTS应试系列丛书。本书包括十八个章节，第一章详细介绍了雅思口语考试的答题策略，另十七章囊插了近年来雅思口语考试的十七个基本话题，使读者在读每章节中所学到的答题技巧在后面的具体话题中得到应用。所有话题章节都是根据... 详细信息

ISBN: (数字)7313034555

ISBN: (纸本)9787313034557

朗阁IELTS应试系列丛书。本书包括十八个章节，第一章详细介绍了雅思口语考试的答题策略，另十七章囊插了近年来雅思口语考试的十七个基本话题，使读者在读每章节中所学到的答题技巧在后面的具体话题中得到应用。所有话题章节都是根据雅思口语考试的规定流程编写的，分为词汇、问题、卡片陈述和讨论四个部分，所列举的考题贴近雅思真题，再现了雅思口语考试的场景和内容。本书可以作雅思考生的口语考试指导用书，也可以作为广大英语口语学习爱好者的参考用书。

关键词：英语英语

来源：畅想之星图书光盘版（南... 畅想之星图书光盘版（南... 评论

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爱尔兰烟酒消费的需求分析 ——基于AI...

作者： Sophie rogan 厦门大学

学位级别：硕士

依据2002-2015年爱尔兰烟酒消费支出和价格数据,本文运用AIDS模型和QUAIDS模型测算了烟酒的自我价格和交叉价格弹性。研究结果表明,葡萄酒和烟草的整体需求是缺乏价格弹性,啤酒和烈酒则有较高的价格弹性。从其交叉价格弹性可以看出:（1... 详细信息

依据2002-2015年爱尔兰烟酒消费支出和价格数据,本文运用AIDS模型和QUAIDS模型测算了烟酒的自我价格和交叉价格弹性。研究结果表明,葡萄酒和烟草的整体需求是缺乏价格弹性,啤酒和烈酒则有较高的价格弹性。从其交叉价格弹性可以看出:（1）烈酒与葡萄酒、啤酒和烟草的关系是互补,但是这后三者与烈酒的关系则是替代;（2）葡萄酒、啤酒与烟草的关系是替代,而烈酒与烟草的关系是互补。本文基于AIDS和QUAIDS模型对爱尔兰烟酒消费的需求分析不仅对爱尔兰的饮料和烟草行业,而且对政府在制定有效的烟酒消费政策方面具有特别的意义。

关键词：酒精烟草需求价格弹性 AIDS模型 QUAIDS模型

Interpretation, Stratification and Evidence for Sequence Variants Affecting mRNA Splicing in Complete Human Genome Sequences

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Genomics, Proteomics & Bioinformatics 2013年第2期11卷 77-85页

作者： Ben C.Shirley Eliseos J.Mucaki Tyson Whitehead Paul I.Costea Pelin Akan Peter K.rogan Department of Computer Science Middlesex CollegeThe University of Western Ontario Department of Biochemistry Schulich School of Medicine and DentistryThe University of Western Ontario SHARCNET Royal Institute of Technology Science for Life Laboratory Cytognomix Inc.

Information theory-based methods have been shown to be sensitive and specific for pre- dicting and quantifying the effects of non-coding mutations in Mendelian diseases. We present the Shannon pipeline software for genome-scale mutation analysis and provide evidence that the soft- ware predicts variants affecting mRNA splicing. Individual information contents （in bits） of refer- ence and variant splice sites are compared and significant differences are annotated and prioritized. The software has been implemented for CLC-Bio Genomics platform. Annotation indicates the context of novel mutations as well as common and rare SNPs with splicing effects. Potential natural and cryptic mRNA splicing variants are identified, and null mutations are distinguished from leaky mutations. Mutations and rare SNPs were predicted in genomes of three cancer cell lines （U2OS, U251 and A431）, which were supported by expression analyses. After filtering, tractable numbers of potentially deleterious variants are predicted by the software, suitable for further laboratory investigation. In these cell lines, novel functional variants comprised 6-17 inactivating mutations, 1 5 leaky mutations and 6-13 cryptic splicing mutations. Predicted effects were validated by RNA-seq analysis of the three aforementioned cancer cell lines, and expression microarray analysis of SNPs in HapMap cell lines.

关键词： Mutation mRNA splicing Information theory Next-generation sequencing Genome interpretation

Web-service Available for the Shannon Human Splicing Pipeline for inRNA Splicing Mutation Analysis

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Genomics,Proteomics & Bioinformatics 2014年第3期 151-151页

作者： Peter K.rogan Department of Biochemistry Schulich School of Medicine and Dentistry University of Western Ontario

The Shannon Human Splicing Pipeline for mRNA Splicing Mutation Analysis,the software described previously[1],is now available as a web-service at http://***-ins to the CLC bio Genomics workbench and server are also su... 详细信息

关键词： Web-service Available for the Shannon Human Splicing Pipeline for inRNA Splicing Mutation Analysis

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Clarkson 研究报告——集装箱市场

中国远洋航务公告 2004年第4期 13-14页

作者： rogan McLellan

对于多数集装箱船来说,2003年是业绩卓著的一年.货主们普遍认识到船舶运力的不足,因此接受必须支付更高运费的事这.船东们,为能在长期结构性下滑的运费趋势中保持领先地位,历经30年的时间运行集装箱化运输以降低其运营成本.随着客户们... 详细信息

对于多数集装箱船来说,2003年是业绩卓著的一年.货主们普遍认识到船舶运力的不足,因此接受必须支付更高运费的事这.船东们,为能在长期结构性下滑的运费趋势中保持领先地位,历经30年的时间运行集装箱化运输以降低其运营成本.随着客户们屈服于市场的供需法则,承运人瞬间获得了多年来节约成本所带来的价值.

关键词：世界航运市场集装箱船运输 Clarkson报告市场调查运力结构运输价格

Meta-Learning of Evolutionary Strategy for Stock Trading

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Journal of Data Analysis and Information Processing 2020年第2期8卷 86-98页

作者： Erik Sorensen Ryan Ozzello Rachael rogan Ethan Baker Nate Parks Wei Hu Department of Computer Science Houghton College Houghton NY USA

Meta-learning algorithms learn about the learning process itself so it can speed up subsequent similar learning tasks with fewer data and iterations. If achieved, these benefits expand the flexibility of traditional machine learning to areas where there are small windows of time or data available. One such area is stock trading, where the relevance of data decreases as time passes, requiring fast results on fewer data points to respond to fast-changing market trends. We, to the best of our knowledge, are the first to apply meta-learning algorithms to an evolutionary strategy for stock trading to decrease learning time by using fewer iterations and to achieve higher trading profits with fewer data points. We found that our meta-learning approach to stock trading earns profits similar to a purely evolutionary algorithm. However, it only requires 50 iterations during test, versus thousands that are typically required without meta-learning, or 50% of the training data during test.

关键词： Meta-Learning MAML Reptile Machine Learning Natural Evolutionary Strategy Stock Trading

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买车

大学英语 2003年第2期 -页

作者： Craig rogan

Two American buddies are going to buy anew *** names are Joe and ***: Hey Steve, are you free today? I need to check out the car lots. It's time I get a new set of ***: Sure. Let's go! What are you in the market for?

关键词：口语口头语言

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