Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

Younghee Lee; Xinan Yang; Yong Huang; Hanli Fan; Qingbei Zhang; Youngfei Wu; Jianrong Li; Rifat Hasina; Chao Cheng; Mark W. Lingen; Mark B. Gerstein; Ralph R. Weichselbaum; H. Rosie Xing; Yves A. Lussier

doi:10.1371/journal.pcbi.1000730

Loading metrics

Open Access

Peer-reviewed

Research Article

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

Younghee Lee ,

Contributed equally to this work with: Younghee Lee, Xinan Yang, Yong Huang, Hanli Fan

Affiliation Section of Genetic Medicine and Center for Biomedical Informatics, Department of Medicine, The University of Chicago, Chicago, Illinois, United States of America
⨯
Xinan Yang ,

Contributed equally to this work with: Younghee Lee, Xinan Yang, Yong Huang, Hanli Fan

Affiliation Section of Genetic Medicine and Center for Biomedical Informatics, Department of Medicine, The University of Chicago, Chicago, Illinois, United States of America
⨯
Yong Huang ,

Contributed equally to this work with: Younghee Lee, Xinan Yang, Yong Huang, Hanli Fan

Affiliation Section of Genetic Medicine and Center for Biomedical Informatics, Department of Medicine, The University of Chicago, Chicago, Illinois, United States of America
⨯
Hanli Fan ,

Contributed equally to this work with: Younghee Lee, Xinan Yang, Yong Huang, Hanli Fan

Affiliation Department of Pathology, The University of Chicago, Chicago, Illinois, United States of America
⨯
Qingbei Zhang,

Affiliation Department of Pathology, The University of Chicago, Chicago, Illinois, United States of America
⨯
Youngfei Wu,

Affiliation Department of Pathology, The University of Chicago, Chicago, Illinois, United States of America
⨯
Jianrong Li,

Affiliation Section of Genetic Medicine and Center for Biomedical Informatics, Department of Medicine, The University of Chicago, Chicago, Illinois, United States of America
⨯
Rifat Hasina,

Affiliation Department of Pathology, The University of Chicago, Chicago, Illinois, United States of America
⨯
Chao Cheng,

Affiliation Department of Genetics, Yale University School of Medicine, New Haven, Connecticut, United States of America
⨯
Mark W. Lingen,

Affiliations Department of Pathology, The University of Chicago, Chicago, Illinois, United States of America, Department of Cellular and Radiation Oncology, The University of Chicago, Chicago, Illinois, United States of America
⨯
Mark B. Gerstein,

Affiliation Department of Genetics, Yale University School of Medicine, New Haven, Connecticut, United States of America
⨯
Ralph R. Weichselbaum,

Affiliations Department of Cellular and Radiation Oncology, The University of Chicago, Chicago, Illinois, United States of America, Ludwig Center for Metastasis Research, The University of Chicago, Chicago, Illinois, United States of America
⨯
H. Rosie Xing ,

* E-mail: hxing@bsd.uchicago.edu (HRX); yLussier@medicine.bsd.uchicago.edu (YAL)

¶These authors are joint senior authors on this work.

Affiliations Department of Pathology, The University of Chicago, Chicago, Illinois, United States of America, Department of Cellular and Radiation Oncology, The University of Chicago, Chicago, Illinois, United States of America, Ludwig Center for Metastasis Research, The University of Chicago, Chicago, Illinois, United States of America
⨯
Yves A. Lussier

* E-mail: hxing@bsd.uchicago.edu (HRX); yLussier@medicine.bsd.uchicago.edu (YAL)

¶These authors are joint senior authors on this work.

Affiliations Section of Genetic Medicine and Center for Biomedical Informatics, Department of Medicine, The University of Chicago, Chicago, Illinois, United States of America, Ludwig Center for Metastasis Research, The University of Chicago, Chicago, Illinois, United States of America, Institute for Genomics and Systems Biology, The University of Chicago, Chicago, Illinois, United States of America
⨯

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

Younghee Lee,
Xinan Yang,
Yong Huang,
Hanli Fan,
Qingbei Zhang,
Youngfei Wu,
Jianrong Li,
Rifat Hasina,
Chao Cheng,
Mark W. Lingen

Published: April 1, 2010
https://doi.org/10.1371/journal.pcbi.1000730

Reader Comments

Post a new comment on this article

Benjamini-Hochberg correction

Posted by gotgenes on 05 May 2011 at 16:26 GMT

Šidák single-step adjusted P-value for multiple comparisons
http://ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1000730#article1.body1.sec4.sec4.p3

Bonferroni-type corrections can be very conservative. An alternative, less conservative correction method to consider would be the Benjamini-Hochberg correction.

No competing interests declared.

RE: Benjamini-Hochberg correction

Lussier replied to gotgenes on 05 May 2011 at 18:29 GMT

We agree that the predictions could be extended using the B-H corrections. This proof of concept manuscript was designed to validate the most conservative predictions.

No competing interests declared.

Subject Areas
?

For more information about PLOS Subject Areas, click here.
We want your feedback. Do these Subject Areas make sense for this article? Click the target next to the incorrect Subject Area and let us know. Thanks for your help!

MicroRNAs
Is the Subject Area "MicroRNAs" applicable to this article?

Thanks for your feedback.
Head and neck cancers
Is the Subject Area "Head and neck cancers" applicable to this article?

Thanks for your feedback.
Lung and intrathoracic tumors
Is the Subject Area "Lung and intrathoracic tumors" applicable to this article?

Thanks for your feedback.
Tumor suppressor genes
Is the Subject Area "Tumor suppressor genes" applicable to this article?

Thanks for your feedback.
Protein interaction networks
Is the Subject Area "Protein interaction networks" applicable to this article?

Thanks for your feedback.
Gene expression
Is the Subject Area "Gene expression" applicable to this article?

Thanks for your feedback.
Head and neck squamous cell carcinoma
Is the Subject Area "Head and neck squamous cell carcinoma" applicable to this article?

Thanks for your feedback.
Genetic networks
Is the Subject Area "Genetic networks" applicable to this article?

Thanks for your feedback.

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis

Reader Comments

Post Your Discussion Comment

Why should this posting be reviewed?

Thank You!

Benjamini-Hochberg correction

Posted by gotgenes on 05 May 2011 at 16:26 GMT

RE: Benjamini-Hochberg correction

Lussier replied to gotgenes on 05 May 2011 at 18:29 GMT