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Understanding traditional Chinese medicine via statistical learning of expert-specific Electronic Medical Records 通过专家电子病历的统计学习了解中医
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-08-02 DOI: 10.1007/s40484-019-0173-x
Yang Yang, Qi Li, Zhaoyang Liu, Fang Ye, Ke Deng
{"title":"Understanding traditional Chinese medicine via statistical learning of expert-specific Electronic Medical Records","authors":"Yang Yang, Qi Li, Zhaoyang Liu, Fang Ye, Ke Deng","doi":"10.1007/s40484-019-0173-x","DOIUrl":"https://doi.org/10.1007/s40484-019-0173-x","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"210 - 232"},"PeriodicalIF":3.1,"publicationDate":"2019-08-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0173-x","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45973738","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 4
Identification of candidate disease genes in patients with common variable immunodeficiency 常见变异性免疫缺陷患者候选疾病基因的鉴定
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-07-09 DOI: 10.1007/s40484-019-0174-9
Guojun Liu, M. Bolkov, I. Tuzankina, I. Danilova
{"title":"Identification of candidate disease genes in patients with common variable immunodeficiency","authors":"Guojun Liu, M. Bolkov, I. Tuzankina, I. Danilova","doi":"10.1007/s40484-019-0174-9","DOIUrl":"https://doi.org/10.1007/s40484-019-0174-9","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"190 - 201"},"PeriodicalIF":3.1,"publicationDate":"2019-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0174-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46230614","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
A model of NSCLC microenvironment predicts optimal receptor targets 非小细胞肺癌微环境模型预测最佳受体靶点
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-06-04 DOI: 10.1007/s40484-019-0171-z
Chuang Han, Yu Wu
{"title":"A model of NSCLC microenvironment predicts optimal receptor targets","authors":"Chuang Han, Yu Wu","doi":"10.1007/s40484-019-0171-z","DOIUrl":"https://doi.org/10.1007/s40484-019-0171-z","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"147-161"},"PeriodicalIF":3.1,"publicationDate":"2019-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0171-z","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47100373","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Progress in molecular docking 分子对接研究进展
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-06-01 DOI: 10.1007/s40484-019-0172-y
Jiyu Fan, Ailing Fu, Le Zhang
{"title":"Progress in molecular docking","authors":"Jiyu Fan, Ailing Fu, Le Zhang","doi":"10.1007/s40484-019-0172-y","DOIUrl":"https://doi.org/10.1007/s40484-019-0172-y","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"83-89"},"PeriodicalIF":3.1,"publicationDate":"2019-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0172-y","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43577579","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 174
Predicting microRNA-disease association based on microRNA structural and functional similarity network 基于microRNA结构和功能相似性网络预测microRNA与疾病的关联
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-05-30 DOI: 10.1007/s40484-019-0170-0
Tao Ding, Jie Gao, Shanshan Zhu, Junhua Xu, Min Wu
{"title":"Predicting microRNA-disease association based on microRNA structural and functional similarity network","authors":"Tao Ding, Jie Gao, Shanshan Zhu, Junhua Xu, Min Wu","doi":"10.1007/s40484-019-0170-0","DOIUrl":"https://doi.org/10.1007/s40484-019-0170-0","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"138-146"},"PeriodicalIF":3.1,"publicationDate":"2019-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0170-0","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44596978","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Current challenges and solutions of de novo assembly 从头组装的当前挑战和解决方案
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-05-30 DOI: 10.1007/s40484-019-0166-9
Xingyu Liao, Min Li, You Zou, Fang-Xiang Wu, Yi Pan, Jianxin Wang
{"title":"Current challenges and solutions of de novo assembly","authors":"Xingyu Liao, Min Li, You Zou, Fang-Xiang Wu, Yi Pan, Jianxin Wang","doi":"10.1007/s40484-019-0166-9","DOIUrl":"https://doi.org/10.1007/s40484-019-0166-9","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"90-109"},"PeriodicalIF":3.1,"publicationDate":"2019-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0166-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43928303","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 36
Computational methods and applications for quantitative systems pharmacology 定量系统药理学的计算方法和应用
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-03-22 DOI: 10.1007/s40484-018-0161-6
F. Xie, Jiangyong Gu
{"title":"Computational methods and applications for quantitative systems pharmacology","authors":"F. Xie, Jiangyong Gu","doi":"10.1007/s40484-018-0161-6","DOIUrl":"https://doi.org/10.1007/s40484-018-0161-6","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"3-16"},"PeriodicalIF":3.1,"publicationDate":"2019-03-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-018-0161-6","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42029626","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Pharmacodynamics simulation of HOEC by a computational model of arachidonic acid metabolic network 花生四烯酸代谢网络计算模型对HOEC的药效学模拟
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-03-22 DOI: 10.1007/s40484-018-0163-4
Wen Yang, Xia Wang, Kenan Li, Yuanru Liu, Y. Liu, Rui Wang, Honglin Li
{"title":"Pharmacodynamics simulation of HOEC by a computational model of arachidonic acid metabolic network","authors":"Wen Yang, Xia Wang, Kenan Li, Yuanru Liu, Y. Liu, Rui Wang, Honglin Li","doi":"10.1007/s40484-018-0163-4","DOIUrl":"https://doi.org/10.1007/s40484-018-0163-4","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"30-41"},"PeriodicalIF":3.1,"publicationDate":"2019-03-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-018-0163-4","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44228337","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
High-throughput quantification of microbial birth and death dynamics using fluorescence microscopy. 使用荧光显微镜对微生物出生和死亡动态进行高通量量化。
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-03-01 Epub Date: 2019-01-04 DOI: 10.1007/s40484-018-0160-7
Samuel F M Hart, David Skelding, Adam J Waite, Justin C Burton, Wenying Shou
{"title":"High-throughput quantification of microbial birth and death dynamics using fluorescence microscopy.","authors":"Samuel F M Hart,&nbsp;David Skelding,&nbsp;Adam J Waite,&nbsp;Justin C Burton,&nbsp;Wenying Shou","doi":"10.1007/s40484-018-0160-7","DOIUrl":"https://doi.org/10.1007/s40484-018-0160-7","url":null,"abstract":"<p><strong>Background: </strong>Microbes live in dynamic environments where nutrient concentrations fluctuate. Quantifying fitness in terms of birth rate and death rate in a wide range of environments is critical for understanding microbial evolution and ecology.</p><p><strong>Methods: </strong>Here, using high-throughput time-lapse microscopy, we have quantified how <i>Saccharomyces cerevisiae</i> mutants incapable of synthesizing an essential metabolite (auxotrophs) grow or die in various concentrations of the required metabolite. We establish that cells normally expressing fluorescent proteins lose fluorescence upon death and that the total fluorescence in an imaging frame is proportional to the number of live cells even when cells form multiple layers. We validate our microscopy approach of measuring birth and death rates using flow cytometry, cell counting, and chemostat culturing.</p><p><strong>Results: </strong>For lysine-requiring cells, very low concentrations of lysine are not detectably consumed and do not support cell birth, but delay the onset of death phase and reduce the death rate compared to no lysine. In contrast, in low hypoxanthine, hypoxanthine-requiring cells can produce new cells, yet also die faster than in the absence of hypoxanthine. For both strains, birth rates under various metabolite concentrations are better described by the sigmoidal-shaped Moser model than the well-known Monod model, while death rates can vary with metabolite concentration and time.</p><p><strong>Conclusions: </strong>Our work reveals how time-lapse microscopy can be used to discover non-intuitive microbial birth and death dynamics and to quantify growth rates in many environments.</p>","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"69-81"},"PeriodicalIF":3.1,"publicationDate":"2019-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-018-0160-7","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41215610","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 16
A survey of web resources and tools for the study of TCM network pharmacology 中医网络药理学研究的网络资源和工具综述
IF 3.1 4区 生物学
Quantitative Biology Pub Date : 2019-03-01 DOI: 10.1007/s40484-019-0167-8
Jing Zhao, Jian Yang, Saisai Tian, Weidong Zhang
{"title":"A survey of web resources and tools for the study of TCM network pharmacology","authors":"Jing Zhao, Jian Yang, Saisai Tian, Weidong Zhang","doi":"10.1007/s40484-019-0167-8","DOIUrl":"https://doi.org/10.1007/s40484-019-0167-8","url":null,"abstract":"","PeriodicalId":45660,"journal":{"name":"Quantitative Biology","volume":"7 1","pages":"17-29"},"PeriodicalIF":3.1,"publicationDate":"2019-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s40484-019-0167-8","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43333568","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 25
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