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START: a system for flexible analysis of hundreds of genomic signal tracks in few lines of SQL-like queries

  • Published:2017-09-22 Issue:1 Volume:18 Page:
  • ISSN:1471-2164
  • Container-title:BMC Genomics
  • language:en
  • Short-container-title:BMC Genomics

Author:

Zhu Xinjie,Zhang Qiang,Ho Eric Dun,Yu Ken Hung-On,Liu Chris,Huang Tim H.,Cheng Alfred Sze-Lok,Kao Ben,Lo Eric,Yip Kevin Y.

Funder

HKSAR Research Grants Council

Research Committee of CUHK

Publisher

Springer Science and Business Media LLC

Subject

Genetics,Biotechnology

Reference28 articles.

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2. The ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012; 489(7414):57–74.

3. Roadmap Epigenomics Consortium, Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, Sarkar A, Quon G, Sandstrom RS, Eaton ML, Wu YC, Pfenning AR, Wang X, Claussnitzer M, Liu Y, Coarfa C, Harris RA, Shoresh N, Epstein CB, Gjoneska E, Leung D, Xie W, Hawkins RD, Lister R, Hong C, Gascard P, Mungall AJ, Moore R, Chuah E, Tam A, Canfield TK, Hansen RS, Kaul R, Sabo PJ, Bansal MS, Carles A, Dixon JR, Farh KH, Feizi S, Karlic R, Kim AR, Kulkarni A, Li D, Lowdon R, Elliott G, Mercer TR, Neph SJ, Onuchic V, Polak P, Rajagopal N, Ray P, Sallari RC, Siebenthall KT, Sinnott-Armstrong NA, Stevens M, Thurman RE, Wu J, Zhang B, Zhou X, Beaudet AE, Boyer LA, Jager PLD, Farnham PJ, Fisher SJ, Haussler D, Jones SJM, Li W, Marra MA, McManus MT, Sunyaev S, Thomson JA, Tlsty TD, Tsai LH, Wang W, Waterland RA, Zhang MQ, Chadwick LH, Bernstein BE, Costello JF, Ecker JR, Hirst M, Meissner A, Milosavljevic A, Ren B, Stamatoyannopoulos JA, Wang T, Kellis M. Integrative analysis of 111 reference human epigenomes. Nature. 2015; 518(7539):317–30.

4. Goecks J, Nekrutenko A, Taylor J, The Galaxy Team. Galaxy: A comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol. 2010; 11:86.

5. Masseroli M, Pinoli P, Venco F, Kaitoua A, Jalili V, Palluzzi F, Muller H, Ceri S. GenoMetric query language: A novel approach to large-scale genomic data management. Bioinformatics. 2015; 31:1881–8.

Cited by 5 articles. 订阅此论文施引文献 订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Processing genome-wide association studies within a repository of heterogeneous genomic datasets;BMC Genomic Data;2023-03-03

2. Genomic data integration and user-defined sample-set extraction for population variant analysis;BMC Bioinformatics;2022-09-29

3. Optimal Binning for Genomics;IEEE Transactions on Computers;2019-01-01

4. Demonstration of GenoMetric Query Language;Proceedings of the 27th ACM International Conference on Information and Knowledge Management;2018-10-17

5. Processing of big heterogeneous genomic datasets for tertiary analysis of Next Generation Sequencing data;Bioinformatics;2018-08-07
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