Interpreting pathways to discover cancer driver genes with Moonlight

Research output: Contribution to journalJournal articleResearchpeer-review

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Interpreting pathways to discover cancer driver genes with Moonlight. / Colaprico, Antonio; Olsen, Catharina; Bailey, Matthew H.; Odom, Gabriel J.; Terkelsen, Thilde; Silva, Tiago C.; Olsen, André V.; Cantini, Laura; Zinovyev, Andrei; Barillot, Emmanuel; Noushmehr, Houtan; Bertoli, Gloria; Castiglioni, Isabella; Cava, Claudia; Bontempi, Gianluca; Chen, Xi Steven; Papaleo, Elena.

In: Nature Communications, Vol. 11, 69, 2020.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Colaprico, A, Olsen, C, Bailey, MH, Odom, GJ, Terkelsen, T, Silva, TC, Olsen, AV, Cantini, L, Zinovyev, A, Barillot, E, Noushmehr, H, Bertoli, G, Castiglioni, I, Cava, C, Bontempi, G, Chen, XS & Papaleo, E 2020, 'Interpreting pathways to discover cancer driver genes with Moonlight', Nature Communications, vol. 11, 69. https://doi.org/10.1038/s41467-019-13803-0

APA

Colaprico, A., Olsen, C., Bailey, M. H., Odom, G. J., Terkelsen, T., Silva, T. C., ... Papaleo, E. (2020). Interpreting pathways to discover cancer driver genes with Moonlight. Nature Communications, 11, [69]. https://doi.org/10.1038/s41467-019-13803-0

Vancouver

Colaprico A, Olsen C, Bailey MH, Odom GJ, Terkelsen T, Silva TC et al. Interpreting pathways to discover cancer driver genes with Moonlight. Nature Communications. 2020;11. 69. https://doi.org/10.1038/s41467-019-13803-0

Author

Colaprico, Antonio ; Olsen, Catharina ; Bailey, Matthew H. ; Odom, Gabriel J. ; Terkelsen, Thilde ; Silva, Tiago C. ; Olsen, André V. ; Cantini, Laura ; Zinovyev, Andrei ; Barillot, Emmanuel ; Noushmehr, Houtan ; Bertoli, Gloria ; Castiglioni, Isabella ; Cava, Claudia ; Bontempi, Gianluca ; Chen, Xi Steven ; Papaleo, Elena. / Interpreting pathways to discover cancer driver genes with Moonlight. In: Nature Communications. 2020 ; Vol. 11.

Bibtex

@article{64f2a719b6ed4482b7cfeb579421c260,
title = "Interpreting pathways to discover cancer driver genes with Moonlight",
abstract = "Cancer driver gene alterations influence cancer development, occurring in oncogenes, tumor suppressors, and dual role genes. Discovering dual role cancer genes is difficult because of their elusive context-dependent behavior. We define oncogenic mediators as genes controlling biological processes. With them, we classify cancer driver genes, unveiling their roles in cancer mechanisms. To this end, we present Moonlight, a tool that incorporates multiple -omics data to identify critical cancer driver genes. With Moonlight, we analyze 8000+ tumor samples from 18 cancer types, discovering 3310 oncogenic mediators, 151 having dual roles. By incorporating additional data (amplification, mutation, DNA methylation, chromatin accessibility), we reveal 1000+ cancer driver genes, corroborating known molecular mechanisms. Additionally, we confirm critical cancer driver genes by analysing cell-line datasets. We discover inactivation of tumor suppressors in intron regions and that tissue type and subtype indicate dual role status. These findings help explain tumor heterogeneity and could guide therapeutic decisions.",
author = "Antonio Colaprico and Catharina Olsen and Bailey, {Matthew H.} and Odom, {Gabriel J.} and Thilde Terkelsen and Silva, {Tiago C.} and Olsen, {Andr{\'e} V.} and Laura Cantini and Andrei Zinovyev and Emmanuel Barillot and Houtan Noushmehr and Gloria Bertoli and Isabella Castiglioni and Claudia Cava and Gianluca Bontempi and Chen, {Xi Steven} and Elena Papaleo",
year = "2020",
doi = "10.1038/s41467-019-13803-0",
language = "English",
volume = "11",
journal = "Nature Communications",
issn = "2041-1723",
publisher = "nature publishing group",

}

RIS

TY - JOUR

T1 - Interpreting pathways to discover cancer driver genes with Moonlight

AU - Colaprico, Antonio

AU - Olsen, Catharina

AU - Bailey, Matthew H.

AU - Odom, Gabriel J.

AU - Terkelsen, Thilde

AU - Silva, Tiago C.

AU - Olsen, André V.

AU - Cantini, Laura

AU - Zinovyev, Andrei

AU - Barillot, Emmanuel

AU - Noushmehr, Houtan

AU - Bertoli, Gloria

AU - Castiglioni, Isabella

AU - Cava, Claudia

AU - Bontempi, Gianluca

AU - Chen, Xi Steven

AU - Papaleo, Elena

PY - 2020

Y1 - 2020

N2 - Cancer driver gene alterations influence cancer development, occurring in oncogenes, tumor suppressors, and dual role genes. Discovering dual role cancer genes is difficult because of their elusive context-dependent behavior. We define oncogenic mediators as genes controlling biological processes. With them, we classify cancer driver genes, unveiling their roles in cancer mechanisms. To this end, we present Moonlight, a tool that incorporates multiple -omics data to identify critical cancer driver genes. With Moonlight, we analyze 8000+ tumor samples from 18 cancer types, discovering 3310 oncogenic mediators, 151 having dual roles. By incorporating additional data (amplification, mutation, DNA methylation, chromatin accessibility), we reveal 1000+ cancer driver genes, corroborating known molecular mechanisms. Additionally, we confirm critical cancer driver genes by analysing cell-line datasets. We discover inactivation of tumor suppressors in intron regions and that tissue type and subtype indicate dual role status. These findings help explain tumor heterogeneity and could guide therapeutic decisions.

AB - Cancer driver gene alterations influence cancer development, occurring in oncogenes, tumor suppressors, and dual role genes. Discovering dual role cancer genes is difficult because of their elusive context-dependent behavior. We define oncogenic mediators as genes controlling biological processes. With them, we classify cancer driver genes, unveiling their roles in cancer mechanisms. To this end, we present Moonlight, a tool that incorporates multiple -omics data to identify critical cancer driver genes. With Moonlight, we analyze 8000+ tumor samples from 18 cancer types, discovering 3310 oncogenic mediators, 151 having dual roles. By incorporating additional data (amplification, mutation, DNA methylation, chromatin accessibility), we reveal 1000+ cancer driver genes, corroborating known molecular mechanisms. Additionally, we confirm critical cancer driver genes by analysing cell-line datasets. We discover inactivation of tumor suppressors in intron regions and that tissue type and subtype indicate dual role status. These findings help explain tumor heterogeneity and could guide therapeutic decisions.

U2 - 10.1038/s41467-019-13803-0

DO - 10.1038/s41467-019-13803-0

M3 - Journal article

C2 - 31900418

AN - SCOPUS:85077479923

VL - 11

JO - Nature Communications

JF - Nature Communications

SN - 2041-1723

M1 - 69

ER -

ID: 235774080