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Paper intensive reading (三十三):Use of Metatranscriptomics in Microbiome Research
Title:Use of Metatranscriptomics in Microbiome ResearchBioinformatics and Biology Insights,20 Apr 2016stavros Bashiardes, gili Zilberman-schapira and Eran ElinavDepartment of Immunology, Weiz...原创 2020-04-17 10:20:52 · 350 阅读 · 0 评论 -
Paper intensive reading (三十二):SAMSA2: a standalone metatranscriptome analysis pipeline
Title:SAMSA2: a standalone metatranscriptome analysis pipelineAuthor:Samuel T. Westreich , Michelle L. Treiber , David A. Mills , Ian Korf and Danielle G. LemayPublished: 21 May 2018University...原创 2020-04-17 09:23:57 · 367 阅读 · 0 评论 -
Paper intensive reading (三十一):Genomic diversity of SARS-CoV-2 in Coronavirus Disease 2019 patients
Title:Genomic diversity of SARS-CoV-2 in Coronavirus Disease 2019 patientsAuthor:Zijie Shen , Yan Xiao, Lu Kang, Wentai Ma...Key Laboratory of Genomic and Precision Medicine, Beijing Institute o...原创 2020-04-17 09:02:04 · 322 阅读 · 0 评论 -
Paper intensive reading (三十):Combining metagenomics, metatranscriptomics and viromics...
Title:Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiomeAuthor: Shirley Bikel, etc.Availab...原创 2020-04-16 21:13:56 · 316 阅读 · 0 评论 -
Paper intensive reading (二十九):Built Environment Considerations To Reduce Transmission
Title:2019 Novel Coronavirus (COVID-19) Pandemic: Built Environment Considerations To Reduce Transmission7 April 2020ABSTRACTWith the rapid spread of severe acute respiratory syndrome coronavir...原创 2020-04-16 20:22:07 · 192 阅读 · 0 评论 -
Paper intensive reading (二十八):5 challenges in understanding the role of the virome in health
Title: 5 challenges in understanding the role of the virome in health and diseaseDavid WangMarch 26, 2020在微生物组研究中,相比于细菌及真菌的相关研究,目前对病毒组的研究相对滞后。PLoS Pathogens上发表的一篇评论观点,列举了病毒组研究面临的5大挑战,并讨论了潜在的应对策略...原创 2020-04-16 19:59:18 · 229 阅读 · 0 评论 -
Paper intensive reading (二十七):High-resolution metatranscriptomics reveals the ecological dynamic...
Title:High-resolution metatranscriptomics reveals the ecological dynamics of mosquito-associated RNA viruses in Western AustraliaAuthor:Mang Shi7 June 2017ABSTRACTMosquitoes harbor a high div...原创 2020-04-16 18:20:02 · 215 阅读 · 0 评论 -
Paper intensive reading (二十六):Meta-transcriptomics and the evolutionary biology of RNA viruses
Title:Meta-transcriptomics and the evolutionary biology of RNA virusesMangShi ...2 January 2018HighlightsMeta-transcriptomics (bulk RNA-Seq) is a powerful new way to characterise viromes. M...原创 2020-04-16 17:50:54 · 559 阅读 · 0 评论 -
Paper intensive reading (二十五):Fecal Viral ...Virion-Enriched Metagenomics and Metatranscriptomics
Title: Fecal Viral Diversity of Captive and Wild Tasmanian Devils Characterized Using Virion-Enriched Metagenomics and MetatranscriptomicsAuthor:Mang Shi,Vanessa R. BarrsUniversity of SydneyPub...原创 2020-04-16 15:22:32 · 141 阅读 · 0 评论 -
Paper intensive reading (二十四):Characterisation of the faecal virome ...meta-transcriptomics
Title: Characterisation of the faecal virome of captive and wild Tasmanian devils using virus-like particles metagenomics and meta-transcriptomicsAuthor: Mang Shi,Vanessa R Barrs, ...University o...原创 2020-04-16 15:09:37 · 196 阅读 · 0 评论 -
Paper intensive reading (二十三): Mitophagy inhibits amyloid-β and tau pathology ... in Alzheimer
论文题目:Mitophagy inhibits amyloid-β and tau pathology and reverses cognitive deficits in models of Alzheimer’s diseasescholar 引用:102页数:18发表时间:2019发表刊物:nature neuroscience作者:EvandroF.Fang etc....原创 2020-03-10 15:55:07 · 536 阅读 · 0 评论 -
Paper intensive reading (二十二): Tissue-based map of the human proteome
论文题目:Tissue-based map of the human proteomescholar 引用:1510页数:11发表时间:23 Jan 2015发表刊物:Science作者:Mathias Uhlén,etc.摘要:Resolving the molecular details of proteome variation in the differen...原创 2020-03-08 11:59:26 · 330 阅读 · 0 评论 -
Paper intensive reading (二十一):Correcting for batch effects in case-control microbiome studies
论文题目:Correcting for batch effects in case-control microbiome studiesscholar 引用:23页数:18发表时间:April 23, 2018发表刊物:PLOS Computational Biology作者:Sean M. Gibbons1,2,3, Claire Duvallet1,2, Eric J. A...原创 2020-02-05 12:53:58 · 249 阅读 · 0 评论 -
Paper intensive reading (二十):Batch effects correction for microbiome data
论文题目:Batch effects correction for microbiome data with Dirichlet-multinomial regressionscholar 引用:6页数:8发表时间:23 August 2018发表刊物:Bioinformatics作者:Zhenwei Dai1,2, Sunny H. Wong1,2, Jun Yu1,2 an...原创 2020-02-05 12:13:56 · 311 阅读 · 0 评论 -
Paper intensive reading (十九):Batch effects in a multiyear sequencing study
论文题目:Batch effects in a multiyear sequencing study: False biological trends due to changes in read lengthsscholar 引用:9页数:11发表时间:1 March 2018发表刊物:Mol Ecol Resour.作者:D. M. Leigh1,2,3 | H. E. ...原创 2020-02-05 10:54:42 · 218 阅读 · 0 评论 -
Paper intensive reading (十八):the Analysis of Mass Spectrometry Data for Omics Studies
论文题目:Transformation, Normalization, and Batch Effect in the Analysis of Mass Spectrometry Data for Omics Studiesscholar 引用:8页数:294 来自book:Statistical Analysis of Proteomics, Metabolomics, and Li...原创 2020-02-05 08:41:43 · 175 阅读 · 0 评论 -
Paper intensive reading (十七):Methods that remove batch effects may lead to exaggerated confidence
论文题目:Methods that remove batch effects while retaining group differences may lead to exaggerated confidence in downstream analysesscholar 引用:100页数:11发表时间:August 13, 2015发表刊物:Biostatistics作者:...原创 2020-02-04 21:31:41 · 364 阅读 · 0 评论 -
Paper intensive reading (十六):Deep learning enables accurate clustering and batch effect removal
论文题目:Deep learning enables accurate clustering and batch effect removal in single-cell RNA-seq analysisscholar 引用:0页数:14发表时间:2019.1.25发表刊物:preprint作者:Xiangjie Li1,2, Yafei Lyu1, Jihwan Park3...原创 2020-02-04 18:16:28 · 535 阅读 · 0 评论 -
Paper intensive reading (十五):Mitigating the adverse impact of batch effects in sample detection
论文题目:Mitigating the adverse impact of batch effects in sample pattern detectionscholar 引用:6页数:8发表时间:1 March 2018发表刊物:Bioinformatics作者:Teng Fei1, Tengjiao Zhang2, Weiyang Shi3,* and Tianwei ...原创 2020-02-04 16:55:19 · 302 阅读 · 0 评论 -
Paper intensive reading (十四):Batch effects in single-cell RNA-sequencing data are corrected
论文题目:Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighborsscholar 引用:262页数:12发表时间:2 April 2018发表刊物:nature biotechnology作者:Laleh Haghverdi1,2, Aa...原创 2020-02-03 16:38:33 · 612 阅读 · 0 评论 -
Paper intensive reading (十三):Removing batch effects in analysis of expression microarray data
论文题目:Removing batch effects in analysis of expression microarray data: an evaluation of six batch adjustment methodsscholar 引用:258页数:10发表时间:February 28, 2011发表刊物:PLOS ONE作者:Chao Chen1,2, Kay...原创 2020-02-03 11:31:17 · 331 阅读 · 0 评论 -
Paper intensive reading (十二):Batch Effect Correction of RNA-seq Data
论文题目:Batch Effect Correction of RNA-seq Data through Sample 2 Distance Matrix Adjustmentscholar 引用:0页数:25发表时间:June 2019发表刊物:preprint作者:Teng Feiand Tianwei YuEmory University摘要:Batch e...原创 2020-02-01 20:31:48 · 1028 阅读 · 0 评论 -
Paper intensive reading (十一):Nuclear localization of Zika virus NS5 contributes to suppression
论文题目:Nuclear localization of Zika virus NS5 contributes to suppression of type I interferon production and responsescholar 引用:0页数:10发表时间:20 December 2019发表刊物:JOURNAL OF GENERAL VIROLOGY,IF 2.8...原创 2020-01-15 23:19:21 · 1265 阅读 · 0 评论 -
Paper intensive reading (十):Zika virus infection reprograms global transcription of host cells
论文题目:Zika virus infection reprograms global transcription of host cells to allow sustained infectionscholar 引用:100页数:11发表时间:15 Jan 2019发表刊物:Emerging Microbes & Infections作者:Shashi Kant T...原创 2020-01-10 13:20:44 · 173 阅读 · 0 评论 -
Paper intensive reading (九):Toll-Like Receptor 7 Agonist GS-9620 Induces Prolonged Inhibition of HBV
论文题目:Toll-Like Receptor 7 Agonist GS-9620 Induces Prolonged Inhibition of HBV via a Type I Interferon-Dependent Mechanismscholar 引用:3页数:11发表时间:13 December 2017发表刊物:Journal of Hepatology作者:Co...原创 2020-01-10 10:42:35 · 264 阅读 · 0 评论 -
Paper intensive reading (八):rna sequencing of Murine norovirus-infected cells
论文题目:rna sequencing of Murine norovirus-infected cells reveals Transcriptional alteration of genes important to Viral recognition and antigen Presentationscholar 引用:6页数:15发表时间:11 August 2017发表...原创 2020-01-09 21:20:06 · 301 阅读 · 0 评论 -
Paper intensive reading (七):Dengue virus and the host innate immune response
论文题目:Dengue virus and the host innate immune responsescholar 引用:13页数:12发表时间:10 Oct 2018发表刊物:Emerging Microbes & Infections作者:Naoko Uno & Ted M. Ross摘要:Dengue virus (DENV, 登革热病毒) ...原创 2020-01-09 18:41:21 · 234 阅读 · 0 评论 -
Paper intensive reading (六):Altered Interactions between the GM and Colonic Mucosa Precede Polyposis
论文题目:Altered Interactions between the Gut Microbiome and Colonic Mucosa Precede Polyposis in Micelink:https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0127985Google citation: 26...原创 2019-12-06 16:22:04 · 551 阅读 · 0 评论 -
Paper intensive reading (五):A Review on Role of Microbiome in Obesity and Antiobesity Properties
论文题目:A Review on Role of Microbiome in Obesity and Antiobesity Properties of Probiotic SupplementsPublished 9 May 2019Bhagavathi Sundaram Sivamaruthi, Periyanaina Kesika, Natarajan Suganthy, and C...原创 2019-12-01 16:35:19 · 375 阅读 · 0 评论 -
Paper intensive reading (四):Establishing What Constitutes a Healthy Human Gut Microbiome
论文题目:Establishing What Constitutes a Healthy Human Gut Microbiome: State of the Science, Regulatory Considerations, and Future DirectionsPublished: 02 August 2019McBurney, ..., Jens Latulippe, Mar...原创 2019-11-30 23:13:37 · 354 阅读 · 0 评论 -
Paper intensive reading (三):Interactions Between Food and Gut Microbiota: Impact on Human Health
论文题目:Interactions Between Food and Gut Microbiota: Impact on Human HealthVolume publication date March 2019YanbeiWu, JiaweiWan,..., Thomas T.Y.WangPublished in Annual Review of Food Science and ...原创 2019-11-29 09:58:43 · 2050 阅读 · 0 评论 -
Paper intensive reading (二):Role of the gut microbiota in nutrition and health
论文题目:Role of the gut microbiota in nutrition and healthPublished 13 June 2018Ana M Valdes, associate professor12, Jens Walter, CAIP chair for nutrition, microbes, and gastrointestinal health3,...原创 2019-11-27 22:06:45 · 1034 阅读 · 0 评论 -
Paper intensive reading (一):Your microbiome is what you eat
论文题目:Your microbiome is what you eat论文简介:这篇论文是2019年10月17日发表在Nature Reviews Microbiology上的一篇综述。three recent studies highlight how the gut microbiome responds to dietary change, with potential conse...原创 2019-11-27 16:42:41 · 156 阅读 · 0 评论 -
Paper reading (一百):Effects of oral supplementation with probiotics or synbiotics in obese adults
论文题目:Effects of oral supplementation with probiotics or synbiotics in overweight and obese adults: a systematic review and meta-analyses of randomized trialsscholar 引用:1页数:21发表时间:28 March 2019...原创 2019-11-21 17:03:50 · 107 阅读 · 0 评论 -
Paper reading (九十九):Effects of probiotics in subjects with overweight or obesity
论文题目:Effects of probiotics on body weight, body mass index, fat mass and fat percentage in subjects with overweight or obesity: a systematic review and meta‐analysis of randomized controlled trialss...原创 2019-11-21 13:29:23 · 120 阅读 · 0 评论 -
Paper reading (九十八):Endothelial dysfunction: what is the role of the microbiota?
论文题目:Endothelial dysfunction: what is the role of the microbiota?scholar 引用:3页数:3发表时间:08January 2018发表刊物:Gut作者:Erwin G Zoetendal, Hauke Smidt作者单位:Wageningen University & Research摘要:...原创 2019-11-21 11:25:16 · 207 阅读 · 0 评论 -
Paper reading (九十七):Modulating the microbiome to improve therapeutic response in cancer
论文题目:Modulating the microbiome to improve therapeutic response in cancerscholar 引用:20页数:16发表时间:1 February 2019发表刊物:The Lancet Oncology作者:Jennifer L McQuade, Carrie R Daniel, Beth A Helmink, ...原创 2019-11-21 09:41:32 · 188 阅读 · 0 评论 -
Paper reading (九十六):Safety of Lactobacillus Reuteri DSM 17938 in Healthy Children 2–5 Years of Age
论文题目:Safety of Lactobacillus Reuteri DSM 17938 in Healthy Children 2–5 Years of Agescholar 引用:0页数:11发表时间:1August 2019发表刊物:The Pediatric Infectious Disease Journal作者:Kosek,Margaret N. MD,......原创 2019-11-20 20:14:09 · 227 阅读 · 0 评论 -
Paper reading (九十五):Effect of prebiotic and probiotic supplementation on major depressive disorder
论文题目:Effect of prebiotic and probiotic supplementation on circulating pro-inflammatory cytokines and urinary cortisol levels in patients with major depressive disorder: A double-blind, placebo-control...原创 2019-11-20 18:45:05 · 167 阅读 · 0 评论 -
Paper reading (九十四):Genomic and epidemiological evidence of bacterial transmission from probiotic
论文题目:Genomic and epidemiological evidence of bacterial transmission from probiotic capsule to blood in ICU patientsscholar 引用:0页数:16发表时间:07 November 2019发表刊物:Nature Medicine作者:Idan Yelin, Ke...原创 2019-11-20 16:24:31 · 200 阅读 · 0 评论