MEXPRESS update 2019

Alexander Koch; Jana Jeschke; Wim Van Criekinge; Manon van Engeland; Tim De Meyer

doi:10.1093/nar/gkz445

MEXPRESS update 2019

Alexander Koch^*, Jana Jeschke, Wim Van Criekinge, Manon van Engeland, Tim De Meyer

^*Corresponding author for this work

Research output: Contribution to journal › Article › Academic › peer-review

Abstract

The recent growth in the number of publicly available cancer omics databases has been accompanied by the development of various tools that allow researchers to visually explore these data. In 2015, we built MEXPRESS, an online tool for the integration and visualization of gene expression, DNA methylation and clinical data from The Cancer Genome Atlas (TCGA), a large collection of publicly available multi-omics cancer data. MEXPRESS addresses the need for an easy-to-use, interactive application that allows researchers to identify dysregulated genes and their clinical relevance in cancer. Furthermore, while other tools typically do not support integrated visualization of expression and DNA methylation data in combination with the precise genomic location of the methylation, MEXPRESS is unique in how it depicts these diverse data types together. Motivated by the large number of users MEXPRESS has managed to attract over the past 3 years and the recent migration of all TCGA data to a new data portal, we developed a new version of MEXPRESS (https://mexpress.be). It contains the latest TCGA data, additional types of omics and clinical data and extra functionality, allowing users to explore mechanisms of gene dysregulation beyond expression and DNA methylation.

Original language	English
Pages (from-to)	W561-W565
Number of pages	5
Journal	Nucleic Acids Research
Volume	47
Issue number	W1
DOIs	https://doi.org/10.1093/nar/gkz445
Publication status	Published - 2 Jul 2019

Keywords

GENE
METHYLATION
CANCER

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10.1093/nar/gkz445Licence: CC BY-NC

Cite this

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title = "MEXPRESS update 2019",

abstract = "The recent growth in the number of publicly available cancer omics databases has been accompanied by the development of various tools that allow researchers to visually explore these data. In 2015, we built MEXPRESS, an online tool for the integration and visualization of gene expression, DNA methylation and clinical data from The Cancer Genome Atlas (TCGA), a large collection of publicly available multi-omics cancer data. MEXPRESS addresses the need for an easy-to-use, interactive application that allows researchers to identify dysregulated genes and their clinical relevance in cancer. Furthermore, while other tools typically do not support integrated visualization of expression and DNA methylation data in combination with the precise genomic location of the methylation, MEXPRESS is unique in how it depicts these diverse data types together. Motivated by the large number of users MEXPRESS has managed to attract over the past 3 years and the recent migration of all TCGA data to a new data portal, we developed a new version of MEXPRESS (https://mexpress.be). It contains the latest TCGA data, additional types of omics and clinical data and extra functionality, allowing users to explore mechanisms of gene dysregulation beyond expression and DNA methylation.",

keywords = "GENE, METHYLATION, CANCER",

author = "Alexander Koch and Jana Jeschke and {Van Criekinge}, Wim and {van Engeland}, Manon and {De Meyer}, Tim",

note = "Funding Information: SU2C-DCS International Translational Cancer Research Dream Team Grant [Stand Up To Cancer (SU2C)-AACR-DT1415, MEDOCC]. Funding for open access charge: SU2C-DCS International Translational Cancer Research Dream Team Grant [Stand Up To Cancer (SU2C)-AACR-DT1415, MEDOCC]. Conflict of interest statement. None declared. Funding Information: This work was supported by a SU2C-DCS International Translational Cancer Research Dream Team Grant (Stand Up To Cancer (SU2C)-AACR-DT1415, MEDOCC). Publisher Copyright: {\textcopyright} 2019 The Author(s).",

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AU - van Engeland, Manon

AU - De Meyer, Tim

N1 - Funding Information: SU2C-DCS International Translational Cancer Research Dream Team Grant [Stand Up To Cancer (SU2C)-AACR-DT1415, MEDOCC]. Funding for open access charge: SU2C-DCS International Translational Cancer Research Dream Team Grant [Stand Up To Cancer (SU2C)-AACR-DT1415, MEDOCC]. Conflict of interest statement. None declared. Funding Information: This work was supported by a SU2C-DCS International Translational Cancer Research Dream Team Grant (Stand Up To Cancer (SU2C)-AACR-DT1415, MEDOCC). Publisher Copyright: © 2019 The Author(s).

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N2 - The recent growth in the number of publicly available cancer omics databases has been accompanied by the development of various tools that allow researchers to visually explore these data. In 2015, we built MEXPRESS, an online tool for the integration and visualization of gene expression, DNA methylation and clinical data from The Cancer Genome Atlas (TCGA), a large collection of publicly available multi-omics cancer data. MEXPRESS addresses the need for an easy-to-use, interactive application that allows researchers to identify dysregulated genes and their clinical relevance in cancer. Furthermore, while other tools typically do not support integrated visualization of expression and DNA methylation data in combination with the precise genomic location of the methylation, MEXPRESS is unique in how it depicts these diverse data types together. Motivated by the large number of users MEXPRESS has managed to attract over the past 3 years and the recent migration of all TCGA data to a new data portal, we developed a new version of MEXPRESS (https://mexpress.be). It contains the latest TCGA data, additional types of omics and clinical data and extra functionality, allowing users to explore mechanisms of gene dysregulation beyond expression and DNA methylation.

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