ClickGene: an open cloud-based platform for big pan-cancer data genome-wide association study, visualization and exploration
| العنوان: | ClickGene: an open cloud-based platform for big pan-cancer data genome-wide association study, visualization and exploration |
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| المؤلفون: | Xing Feng Yang, Jia Hao Bi, Kai Song, John D. Minna, Yi Fan Tong, Adi F. Gazdar, Zhe Wei Qiu |
| المصدر: | BioData Mining, Vol 12, Iss 1, Pp 1-15 (2019) BioData Mining |
| بيانات النشر: | BMC, 2019. |
| سنة النشر: | 2019 |
| مصطلحات موضوعية: | Web server, Computer science, Big data, Genomics, Cloud computing, lcsh:Analysis, computer.software_genre, lcsh:Computer applications to medicine. Medical informatics, Biochemistry, Manhattan plot, law.invention, Business process discovery, 03 medical and health sciences, law, Genetics, Molecular Biology, 030304 developmental biology, 0303 health sciences, business.industry, 030302 biochemistry & molecular biology, lcsh:QA299.6-433, Mouse button, Data science, Software Article, Computer Science Applications, Visualization, Computational Mathematics, Computational Theory and Mathematics, lcsh:R858-859.7, business, computer |
| الوصف: | Tremendous amount of whole-genome sequencing data have been provided by large consortium projects such as TCGA (The Cancer Genome Atlas), COSMIC and so on, which creates incredible opportunities for functional gene research and cancer associated mechanism uncovering. While the existing web servers are valuable and widely used, many whole genome analysis functions urgently needed by experimental biologists are still not adequately addressed. A cloud-based platform, named CG (ClickGene), therefore, was developed for DIY analyzing of user’s private in-house data or public genome data without any requirement of software installation or system configuration. CG platform provides key interactive and customized functions including Bee-swarm plot, linear regression analyses, Mountain plot, Directional Manhattan plot, Deflection plot and Volcano plot. Using these tools, global profiling or individual gene distributions for expression and copy number variation (CNV) analyses can be generated by only mouse button clicking. The easy accessibility of such comprehensive pan-cancer genome analysis greatly facilitates data mining in wide research areas, such as therapeutic discovery process. Therefore, it fills in the gaps between big cancer genomics data and the delivery of integrated knowledge to end-users, thus helping unleash the value of the current data resources. More importantly, unlike other R-based web platforms, Dubbo, a cloud distributed service governance framework for ‘big data’ stream global transferring, was used to develop CG platform. After being developed, CG is run on an independent cloud-server, which ensures its steady global accessibility. More than 2 years running history of CG proved that advanced plots for hundreds of whole-genome data can be created through it within seconds by end-users anytime and anywhere. CG is available at http://www.clickgenome.org/. Electronic supplementary material The online version of this article (10.1186/s13040-019-0202-3) contains supplementary material, which is available to authorized users. |
| اللغة: | English |
| تدمد: | 1756-0381 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::53a3db693e4c9080dc576f7f15b0bc1c http://link.springer.com/article/10.1186/s13040-019-0202-3 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....53a3db693e4c9080dc576f7f15b0bc1c |
| قاعدة البيانات: | OpenAIRE |
Find this article in full text from Springer Verlag. | تدمد: | 17560381 |
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