title: On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase.
abstract: 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.
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Hans
authors.initials: H
authors.lastname: Ienasescu
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Department of Mathematical Sciences, University of Copenhagen, Universitetsparken 5, Copenhagen Ø, DK2100, Denmark.
authors.forename: Kang
authors.initials: K
authors.lastname: Li
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Robin
authors.initials: R
authors.lastname: Andersson
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Morana
authors.initials: M
authors.lastname: Vitezic
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Sarah
authors.initials: S
authors.lastname: Rennie
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Yun
authors.initials: Y
authors.lastname: Chen
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Kristoffer
authors.initials: K
authors.lastname: Vitting-Seerup
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Emil
authors.initials: E
authors.lastname: Lagoni
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Mette
authors.initials: M
authors.lastname: Boyd
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Jette
authors.initials: J
authors.lastname: Bornholdt
authors.affiliation: RIKEN Center for Life Science Technologies (Division of Genomic Technologies), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.
authors.forename: Michiel J L
authors.initials: MJ
authors.lastname: de Hoon
authors.affiliation: RIKEN Center for Life Science Technologies (Division of Genomic Technologies), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.|RIKEN Preventive Medicine and Diagnosis Innovation Program, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.
authors.forename: Hideya
authors.initials: H
authors.lastname: Kawaji
authors.affiliation: RIKEN Center for Life Science Technologies (Division of Genomic Technologies), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.|Telethon Kids Institute, The University of Western Australia, 100 Roberts Road, Subiaco, 6008, Australia Western Australia.
authors.forename: Timo
authors.initials: T
authors.lastname: Lassmann
authors.affiliation: RIKEN Center for Life Science Technologies (Division of Genomic Technologies), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.|RIKEN Preventive Medicine and Diagnosis Innovation Program, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.
authors.forename: Yoshihide
authors.initials: Y
authors.lastname: Hayashizaki
authors.affiliation: RIKEN Center for Life Science Technologies (Division of Genomic Technologies), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.|Harry Perkins Institute of Medical Research, QEII Medical Centre and Centre for Medical Research, the University of Western Australia, Nedlands, Western Australia, Australia.
authors.forename: Alistair R R
authors.initials: AR
authors.lastname: Forrest
authors.affiliation: RIKEN Center for Life Science Technologies (Division of Genomic Technologies), 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.
authors.forename: Piero
authors.initials: P
authors.lastname: Carninci
authors.affiliation: Department of Biology, The Bioinformatics Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark albin@binf.ku.dk.|Biotech Research and Innovation Centre, University of Copenhagen, Ole Maaloes Vej 5, Copenhagen N, DK2200, Denmark.
authors.forename: Albin
authors.initials: A
authors.lastname: Sandelin
mesh_terms: D030541:Databases, Genetic; D004742:Enhancer Elements, Genetic; D015894:Genome, Human; D016045:Human Genome Project; D006801:Humans; D035683:MicroRNAs / Q000235:genetics*; D011506:Proteins / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D035683:MicroRNAs; D011506:Proteins