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Distinct and competitive regulatory patterns of tumor suppressor genes and oncogenes in ovarian cancer.

Zhao M, Sun J, Zhao Z.

PLoS One. 2012;7(8):e44175. doi: 10.1371/journal.pone.0044175. Epub 2012 Aug 30.


Oncogenes and tumor suppressor genes: comparative genomics and network perspectives.

Zhu K, Liu Q, Zhou Y, Tao C, Zhao Z, Sun J, Xu H.

BMC Genomics. 2015;16 Suppl 7:S8. doi: 10.1186/1471-2164-16-S7-S8. Epub 2015 Jun 11.


Synergetic regulatory networks mediated by oncogene-driven microRNAs and transcription factors in serous ovarian cancer.

Zhao M, Sun J, Zhao Z.

Mol Biosyst. 2013 Dec;9(12):3187-98. doi: 10.1039/c3mb70172g. Epub 2013 Oct 16.


Tumor suppressor genes associated with drug resistance in ovarian cancer (review).

Yin F, Liu X, Li D, Wang Q, Zhang W, Li L.

Oncol Rep. 2013 Jul;30(1):3-10. doi: 10.3892/or.2013.2446. Epub 2013 May 9. Review.


Network analysis of microRNAs and their regulation in human ovarian cancer.

Schmeier S, Schaefer U, Essack M, Bajic VB.

BMC Syst Biol. 2011 Nov 3;5:183. doi: 10.1186/1752-0509-5-183.


MicroRNA and transcription factor mediated regulatory network for ovarian cancer: regulatory network of ovarian cancer.

Ying H, Lv J, Ying T, Li J, Yang Q, Ma Y.

Tumour Biol. 2013 Oct;34(5):3219-25. doi: 10.1007/s13277-013-0892-y. Epub 2013 Aug 29.


Trimming of mammalian transcriptional networks using network component analysis.

Tran LM, Hyduke DR, Liao JC.

BMC Bioinformatics. 2010 Oct 13;11:511. doi: 10.1186/1471-2105-11-511.


Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data.

Zhang Y, Xuan J, de los Reyes BG, Clarke R, Ressom HW.

BMC Bioinformatics. 2008 Apr 21;9:203. doi: 10.1186/1471-2105-9-203.


Screening candidate genes associated with bladder cancer using DNA microarray.

Xu A, Wang C, Sun S.

Mol Med Rep. 2014 Dec;10(6):3087-91. doi: 10.3892/mmr.2014.2667. Epub 2014 Oct 15.


ChIP-seq defined genome-wide map of TGFβ/SMAD4 targets: implications with clinical outcome of ovarian cancer.

Kennedy BA, Deatherage DE, Gu F, Tang B, Chan MW, Nephew KP, Huang TH, Jin VX.

PLoS One. 2011;6(7):e22606. doi: 10.1371/journal.pone.0022606. Epub 2011 Jul 25.


Selective gene expression profiling of mTOR-associated tumor suppressor and oncogenes in ovarian cancer.

Laudański P, Kowalczuk O, Klasa-Mazurkiewicz D, Milczek T, Rysak-Luberowicz D, Garbowicz M, Baranowski W, Charkiewicz R, Szamatowicz J, Chyczewski L.

Folia Histochem Cytobiol. 2011;49(2):317-24.


Uncovering MicroRNA and Transcription Factor Mediated Regulatory Networks in Glioblastoma.

Sun J, Gong X, Purow B, Zhao Z.

PLoS Comput Biol. 2012;8(7):e1002488. doi: 10.1371/journal.pcbi.1002488. Epub 2012 Jul 19.


Regulatory network structure as a dominant determinant of transcription factor evolutionary rate.

Coulombe-Huntington J, Xia Y.

PLoS Comput Biol. 2012;8(10):e1002734. doi: 10.1371/journal.pcbi.1002734. Epub 2012 Oct 18.


Dynamic network of transcription and pathway crosstalk to reveal molecular mechanism of MGd-treated human lung cancer cells.

Shao L, Wang L, Wei Z, Xiong Y, Wang Y, Tang K, Li Y, Feng G, Xing Q, He L.

PLoS One. 2012;7(5):e31984. doi: 10.1371/journal.pone.0031984. Epub 2012 May 31.


Expression of genes related to apoptosis, cell cycle and signaling pathways are independent of TP53 status in urinary bladder cancer cells.

da Silva GN, Evangelista AF, Magalhães DA, Macedo C, Búfalo MC, Sakamoto-Hojo ET, Passos GA, Salvadori DM.

Mol Biol Rep. 2011 Aug;38(6):4159-70. doi: 10.1007/s11033-010-0536-x. Epub 2010 Nov 30.


Global transcriptional program of p53 target genes during the process of apoptosis and cell cycle progression.

Mirza A, Wu Q, Wang L, McClanahan T, Bishop WR, Gheyas F, Ding W, Hutchins B, Hockenberry T, Kirschmeier P, Greene JR, Liu S.

Oncogene. 2003 Jun 5;22(23):3645-54.


A modulator based regulatory network for ERα signaling pathway.

Wu HY, Zheng P, Jiang G, Liu Y, Nephew KP, Huang TH, Li L.

BMC Genomics. 2012;13 Suppl 6:S6. doi: 10.1186/1471-2164-13-S6-S6. Epub 2012 Oct 26.


In silico regulatory analysis for exploring human disease progression.

Holloway DT, Kon M, DeLisi C.

Biol Direct. 2008 Jun 18;3:24. doi: 10.1186/1745-6150-3-24.


TF-centered downstream gene set enrichment analysis: Inference of causal regulators by integrating TF-DNA interactions and protein post-translational modifications information.

Liu Q, Tan Y, Huang T, Ding G, Tu Z, Liu L, Li Y, Dai H, Xie L.

BMC Bioinformatics. 2010 Dec 14;11 Suppl 11:S5. doi: 10.1186/1471-2105-11-S11-S5.


Reconstruction of gene regulatory modules in cancer cell cycle by multi-source data integration.

Zhang Y, Xuan J, de los Reyes BG, Clarke R, Ressom HW.

PLoS One. 2010 Apr 21;5(4):e10268. doi: 10.1371/journal.pone.0010268.

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