Oxford University Press (OUP)

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Genomic analyses reveal FAM84B and the NOTCH pathway are associated with the progression of esophageal squamous cell carcinoma
Oxford University Press (OUP) - Tập 5 - Trang 1-14 - 2016
Caixia Cheng, Heyang Cui, Ling Zhang, Zhiwu Jia, Bin Song, Fang Wang, Yaoping Li, Jing Liu, Pengzhou Kong, Ruyi Shi, Yanghui Bi, Bin Yang, Juan Wang, Zhenxiang Zhao, Yanyan Zhang, Xiaoling Hu, Jie Yang, Chanting He, Zhiping Zhao, Jinfen Wang, Yanfeng Xi, Enwei Xu, Guodong Li, Shiping Guo, Yunqing Chen, Xiaofeng Yang, Xing Chen, Jianfang Liang, Jiansheng Guo, Xiaolong Cheng, Chuangui Wang, Qimin Zhan, Yongping Cui
Esophageal squamous cell carcinoma (ESCC) is the sixth most lethal cancer worldwide and the fourth most lethal cancer in China. Genomic characterization of tumors, particularly those of different stages, is likely to reveal additional oncogenic mechanisms. Although copy number alterations and somatic point mutations associated with the development of ESCC have been identified by array-based techno...... hiện toàn bộ
Crowdsourcing genomic analyses of ash and ash dieback – power to the people
Oxford University Press (OUP) - Tập 2 - Trang 1-3 - 2013
Dan MacLean, Kentaro Yoshida, Anne Edwards, Lisa Crossman, Bernardo Clavijo, Matt Clark, David Swarbreck, Matthew Bashton, Patrick Chapman, Mark Gijzen, Mario Caccamo, Allan Downie, Sophien Kamoun, Diane GO Saunders
Ash dieback is a devastating fungal disease of ash trees that has swept across Europe and recently reached the UK. This emergent pathogen has received little study in the past and its effect threatens to overwhelm the ash population. In response to this we have produced some initial genomics datasets and taken the unusual step of releasing them to the scientific community for analysis without firs...... hiện toàn bộ
The 3,000 rice genomes project
Oxford University Press (OUP) - Tập 3 - Trang 1-6 - 2014
Rice, Oryza sativa L., is the staple food for half the world’s population. By 2030, the production of rice must increase by at least 25% in order to keep up with global population growth and demand. Accelerated genetic gains in rice improvement are needed to mitigate the effects of climate change and loss of arable land, as well as to ensure a stable global food supply. We resequenced a core colle...... hiện toàn bộ
Quantifying the use of bioresources for promoting their sharing in scientific research
Oxford University Press (OUP) - Tập 2 - Trang 1-8 - 2013
Laurence Mabile, Raymond Dalgleish, Gudmundur A Thorisson, Mylène Deschênes, Robert Hewitt, Jane Carpenter, Elena Bravo, Mirella Filocamo, Pierre Antoine Gourraud, Jennifer R Harris, Paul Hofman, Francine Kauffmann, Maria Angeles Muñoz-Fernàndez, Markus Pasterk, Anne Cambon-Thomsen
An increasing portion of biomedical research relies on the use of biobanks and databases. Sharing of such resources is essential for optimizing knowledge production. A major obstacle for sharing bioresources is the lack of recognition for the efforts involved in establishing, maintaining and sharing them, due to, in particular, the absence of adequate tools. Increasing demands on biobanks and data...... hiện toàn bộ
Erratum: SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
Oxford University Press (OUP) - Tập 4 - Trang 1-1 - 2015
Ruibang Luo, Binghang Liu, Yinlong Xie, Zhenyu Li, Weihua Huang, Jianying Yuan, Guangzhu He, Yanxiang Chen, Qi Pan, Yunjie Liu, Jingbo Tang, Gengxiong Wu, Hao Zhang, Yujian Shi, Yong Liu, Chang Yu, Bo Wang, Yao Lu, Changlei Han, David W. Cheung, Siu-Ming Yiu, Shaoliang Peng, Zhu Xiaoqian, Guangming Liu, Xiangke Liao, Yingrui Li, Huanming Yang, Jian Wang, Tak-Wah Lam, Jun Wang
A call for an international network of genomic observatories (GOs)
Oxford University Press (OUP) - Tập 1 Số 1 - 2012
Neil Davies, Christopher Meyer, Jack A. Gilbert, Linda Amaral‐Zettler, John Deck, Mesude Bicak, Philippe Rocca-Serra, Susanna Assunta-Sansone, Katherine J. Willis, Dawn Field
Metabolome of human gut microbiome is predictive of host dysbiosis
Oxford University Press (OUP) - Tập 4 Số 1 - 2015
Peter E. Larsen, Yang Dai
Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant
Oxford University Press (OUP) - Tập 4 - Trang 1-6 - 2015
Andreas Bremges, Irena Maus, Peter Belmann, Felix Eikmeyer, Anika Winkler, Andreas Albersmeier, Alfred Pühler, Andreas Schlüter, Alexander Sczyrba
The production of biogas takes place under anaerobic conditions and involves microbial decomposition of organic matter. Most of the participating microbes are still unknown and non-cultivable. Accordingly, shotgun metagenome sequencing currently is the method of choice to obtain insights into community composition and the genetic repertoire. Here, we report on the deeply sequenced metagenome and m...... hiện toàn bộ
Building a multi-scaled geospatial temporal ecology database from disparate data sources: fostering open science and data reuse
Oxford University Press (OUP) - Tập 4 - Trang 1-15 - 2015
Patricia A. Soranno, Edward G. Bissell, Kendra S. Cheruvelil, Samuel T. Christel, Sarah M. Collins, C. Emi Fergus, Christopher T. Filstrup, Jean-Francois Lapierre, Noah R. Lottig, Samantha K. Oliver, Caren E. Scott, Nicole J. Smith, Scott Stopyak, Shuai Yuan, Mary Tate Bremigan, John A. Downing, Corinna Gries, Emily N. Henry, Nick K. Skaff, Emily H. Stanley, Craig A. Stow, Pang-Ning Tan, Tyler Wagner, Katherine E. Webster
Although there are considerable site-based data for individual or groups of ecosystems, these datasets are widely scattered, have different data formats and conventions, and often have limited accessibility. At the broader scale, national datasets exist for a large number of geospatial features of land, water, and air that are needed to fully understand variation among these ecosystems. However, s...... hiện toàn bộ
De novo assembly of Dekkera bruxellensis: a multi technology approach using short and long-read sequencing and optical mapping
Oxford University Press (OUP) - Tập 4 - Trang 1-9 - 2015
Remi-Andre Olsen, Ignas Bunikis, Ievgeniia Tiukova, Kicki Holmberg, Britta Lötstedt, Olga Vinnere Pettersson, Volkmar Passoth, Max Käller, Francesco Vezzi
It remains a challenge to perform de novo assembly using next-generation sequencing (NGS). Despite the availability of multiple sequencing technologies and tools (e.g., assemblers) it is still difficult to assemble new genomes at chromosome resolution (i.e., one sequence per chromosome). Obtaining high quality draft assemblies is extremely important in the case of yeast genomes to better character...... hiện toàn bộ
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