On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase | Zendy

Hans Ienasescu | Zendy; Kang Li | Zendy; Robin Andersson | Zendy; Morana Vitezic | Zendy; Sarah Rennie | Zendy; Yun Chen | Zendy; Kristoffer VittingSeerup | Zendy; Emil Lagoni | Zendy; Mette Boyd | Zendy; Jette Bornholdt | Zendy; Michiel de Hoon | Zendy; Hideya Kawaji | Zendy; Timo Lassmann | Zendy; Yoshihide Hayashizaki | Zendy; Alistair R. R. Forrest | Zendy; Piero Carninci | Zendy; Albin Sandelin | Zendy

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On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase

Author(s) -

Hans Ienasescu,

Kang Li,

Robin Andersson,

Morana Vitezic,

Sarah Rennie,

Yun Chen,

Kristoffer VittingSeerup,

Emil Lagoni,

Mette Boyd,

Jette Bornholdt,

Michiel de Hoon,

Hideya Kawaji,

Timo Lassmann,

Yoshihide Hayashizaki,

Alistair R. R. Forrest,

Piero Carninci,

Albin Sandelin

Publication year - 2016

Publication title -

database

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 1.406

H-Index - 62

ISSN - 1758-0463

DOI - 10.1093/database/baw144

Subject(s) - enhancer , computational biology , gene , genomics , biology , microrna , on the fly , functional genomics , human genome , computer science , human cell , gene expression , genetics , genome , operating system

Genomics consortia have produced large datasets profiling the expression of genes, micro-RNAs, enhancers and more across human tissues or cells. There is a need for intuitive tools to select subsets of such data that is the most relevant for specific studies. To this end, we present SlideBase, a web tool which offers a new way of selecting genes, promoters, enhancers and microRNAs that are preferentially expressed/used in a specified set of cells/tissues, based on the use of interactive sliders. With the help of sliders, SlideBase enables users to define custom expression thresholds for individual cell types/tissues, producing sets of genes, enhancers etc. which satisfy these constraints. Changes in slider settings result in simultaneous changes in the selected sets, updated in real time. SlideBase is linked to major databases from genomics consortia, including FANTOM, GTEx, The Human Protein Atlas and BioGPS.Database URL: http://slidebase.binf.ku.dk.

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