Center for the Study of Systems Biology

Lilya Matyunina

Senior Research Scientist

Ph.D., Russian Academy of Sciences, Moscow, Russia, 1987

Center for the Study of Systems Biology
310 Ferst Drive, Room 327
Atlanta GA, 30332, Mail Code: 0230
Tel: (404) 407-8976
Fax: (404) 385-7478
lilya@gatech.edu

Research Interests

  • Cancer genetics and genomics, including DNA- and RNA-sequencing
  • Microarrary
  • qRT-PCR
  • CRISPR-Cas9 gene editing,
  • Cell-culture techniques
  • Work with animal models

Publications

Ban, D, Housley S N, Matyunina L V, McDonald L D, Bae-Jump V L, Benigno B B, Skolnick J, and McDonald J F. Submitted. A Personalized Probabilistic Approach to Ovarian Cancer Diagnostics.

Housley SN, Nardelli P, Carrasco DI, Rotterman TM, Pfahl E, Matyunina LV, McDonald JF, Cope TC. 2020. Cancer exacerbates chemotherapy-induced sensory neuropathy. Cancer Res. 80(13):2940-2955. doi: 10.1158/0008-5472.CAN-19-2331. Epub 2020 Apr 28.

Zhou H, Cao H, Matyunina L, Shelby M, Cassels L, McDonald JF, Skolnick J. 2020. MEDICASCY: A machine learning approach for predicting small-molecule drug side effects, indications, efficacy, and modes of action. Mol Pharm. 17(5):1558-1574. doi: 10.1021/acs.molpharmaceut.9b01248. Epub 2020 Apr 13.

Zhang M, Wang Y, Matyunina LV, Akbar A, McDonald JF. 2020. The ability of miRNAs to induce mesenchymal-to-epithelial transition (MET) in cancer cells is highly dependent upon genetic background. Cancer Lett. 480:15-23. doi: 10.1016/j.canlet.2020.03.023. Epub 2020 Mar 28. PMID: 32234315

Zhang M, Jabbari N, Satpathy M, Matyunina LV, Wang Y, McDonald LD, McDonald JF. 2019. Sequence diverse miRNAs converge to induce mesenchymal-to-epithelial transition in ovarian cancer cells through direct and indirect regulatory controls. Cancer Lett. 459:168-175. doi: 10.1016/j.canlet.2019.05.039. Epub 2019 Jun 1. PMID: 31163194

Elliott B, Millena AC, Matyunina L, Zhang M, Zou J, Wang G, Zhang Q, Bowen N, Eaton V, Webb G, Thompson S, McDonald J, Khan S. 2019. Essential role of JunD in cell proliferation is mediated via MYC signaling in prostate cancer cells. Cancer Lett. 448:155-167. doi: 10.1016/j.canlet.2019.02.005. Epub 2019 Feb 11. PMID: 30763715

Huang C, Clayton EA, Matyunina LV, McDonald LD, Benigno BB, Vannberg F, McDonald JF. 2018. Machine learning predicts individual cancer patient responses to therapeutic drugs with high accuracy. Sci Rep. 8(1):16444. doi: 10.1038/s41598-018-34753-5. PMID: 30401894

Lili LN, Huang AD, Zhang M, Wang L, McDonald LD, Matyunina LV, Satpathy M, McDonald JF. 2018. Time-course analysis of microRNA-induced mesenchymal-to-epithelial transition underscores the complexity of the underlying molecular processes. Cancer Lett. 428:184-191. doi: 10.1016/j.canlet.2018.05.001. Epub 2018 May 5. PMID: 29733963

Zhang M, Matyunina LV, Walker LD, Chen W, Xiao H, Benigno BB, Wu R, McDonald JF. 2017. Evidence for the importance of post-transcriptional regulatory changes in ovarian cancer progression and the contribution of miRNAs. Sci Rep. 7(1):8171. doi: 10.1038/s41598-017-08502-z. PMID: 28811560

Mezencev R, Matyunina LV, Wagner GT, McDonald JF. 2016. Acquired resistance of pancreatic cancer cells to cisplatin is multifactorial with cell context-dependent involvement of resistance genes. Cancer Gene Ther. 23(12):446-453. doi: 10.1038/cgt.2016.71. Epub 2016 Dec 2. PMID: 27910856

Schreiber R, Mezencev R, Matyunina LV, McDonald JF. 2016. Evidence for the role of microRNA 374b in acquired cisplatin resistance in pancreatic cancer cells. Cancer Gene Ther. 23(8):241-5. doi: 10.1038/cgt.2016.23. Epub 2016 May 27. PMID: 27229158

Mezencev R, Matyunina LV, Jabbari N, McDonald JF. 2016. Snail-induced epithelial-to-mesenchymal transition of MCF-7 breast cancer cells: systems analysis of molecular changes and their effect on radiation and drug sensitivity. BMC Cancer. 16:236. doi: 10.1186/s12885-016-2274-5. PMID: 26988558

Hill CG, Jabbari N, Matyunina LV, McDonald JF. 2014. Functional and evolutionary significance of human microRNA seed region mutations. PLoS One. 9(12):e115241. doi: 10.1371/journal.pone.0115241. eCollection 2014.

Hill CG, Matyunina LV, Walker D, Benigno BB, McDonald JF. 2014. Transcriptional override: a regulatory network model of indirect responses to modulations in microRNA expression BMC Syst Biol. 8:36. doi: 10.1186/1752-0509-8-36.

Lili LN, Matyunina LV, Walker LD, Daneker GW, McDonald JF. 2014. Evidence for the importance of personalized molecular profiling in pancreatic cancer. Pancreas. 43(2):198-211. doi: 10.1097/MPA.0000000000000020.

Ghosh D, Lili L, McGrail DJ, Matyunina LV, McDonald JF, Dawson MR. 2014. Integral role of platelet-derived growth factor in mediating transforming growth factor-β1-dependent mesenchymal stem cell stiffening. Stem Cells Dev. 23(3):245-61.

Lili LN, Matyunina LV, Walker LD, Wells SL, Benigno BB, McDonald JF. Molecular profiling supports the role of epithelial-to-mesenchymal transition (EMT) in ovarian cancer metastasis. J Ovarian Res. 2013 Jul 10;6(1):49. doi: 10.1186/1757-2215-6-49.

Lili LN, Matyunina LV, Walker LD, Benigno BB, McDonald JF. 2013. Molecular profiling predicts the existence of two functionally distinct classes of ovarian cancer stroma. Biomed Res Int. 2013:846387. doi: 10.1155/2013/846387. Epub 2013 May 9.

Shahab SW, Matyunina LV, Hill CG, Wang L, Mezencev R, Walker LD, McDonald JF. 2012. The effects of MicroRNA transfections on global patterns of gene expression in ovarian cancer cells are functionally coordinated. BMC Med Genomics. 5:33. doi: 10.1186/1755-8794-5-33.

Liu Y, Bowen NJ, Matyunina L, McDonald J, Prausnitz MR. 2012. Gene transfection enhanced by ultrasound exposure combined with drug treatment guided by gene chip analysis. Int J Hyperthermia. 28(4):349-61. doi: 10.3109/02656736.2012.669513.

Wang L, Mezencev R, Bowen NJ, Matyunina LV, McDonald JF. 2012. Isolation and characterization of stem-like cells from a human ovarian cancer cell line. Mol Cell Biochem. 363(1-2):257-68. doi: 10.1007/s11010-011-1178-6. Epub 2011 Dec 9.

Shahab SW, Matyunina LV, Mezencev R, Walker LD, Bowen NJ, Benigno BB, McDonald JF. 2011. Evidence for the complexity of microRNA-mediated regulation in ovarian cancer: a systems approach. PLoS One. 6(7):e22508. doi: 10.1371/journal.pone.0022508. Epub 2011 Jul 21.

Chen J, Wang L, Matyunina LV, Hill CG, McDonald JF. 2011. Overexpression of miR-429 induces mesenchymal-to-epithelial transition (MET) in metastatic ovarian cancer cells. Gynecol Oncol. 121(1):200-5. doi: 10.1016/j.ygyno.2010.12.339. Epub 2011 Jan 28.

Liu Y, Chen Y, Momin A, Shaner R, Wang E, Bowen NJ, Matyunina LV, Walker LD, McDonald JF, Sullards MC, Merrill AH Jr. 2010. Elevation of sulfatides in ovarian cancer: an integrated transcriptomic and lipidomic analysis including tissue-imaging mass spectrometry. Mol Cancer. 9:186. doi: 10.1186/1476-4598-9-186.

Bowen NJ, Walker LD, Matyunina LV, Logani S, Totten KA, Benigno BB, McDonald JF. 2009. Gene expression profiling supports the hypothesis that human ovarian surface epithelia are multipotent and capable of serving as ovarian cancer initiating cells. BMC Med Genomics. 2:71. doi: 10.1186/1755-8794-2-71.

Matyunina LV, Bowen NJ, McDonald JF. 2008. LTR retrotransposons and the evolution of dosage compensation in Drosophila. BMC Mol Biol. 9:55. doi: 10.1186/1471-2199-9-55.

Menendez L, Walker LD, Matyunina LV, Totten KA, Benigno BB, McDonald JF. 2008. Epigenetic changes within the promoter region of the HLA-G gene in ovarian tumors. Mol Cancer. 7:43. doi: 10.1186/1476-4598-7-43.

Moreno CS, Matyunina L, Dickerson EB, Schubert N, Bowen NJ, Logani S, Benigno BB, McDonald JF. 2007. Evidence that p53-mediated cell-cycle-arrest inhibits chemotherapeutic treatment of ovarian carcinomas. PLoS ONE 2:e441.

Menendez L, Walker D, Matyunina L.V., Dickerson E.B., Bowen N.J., Polavarapu N., Benigno B.B, McDonald J.F. 2007. Identification of candidate methylation-responsive genes in ovarian cancer. Mol Cancer. Jan 25;6:10.

Jordan IK, Matyunina LV, McDonald JF. 1999. Evidence for the recent horizontal transfer of long terminal repeat retrotransposon. Proc. Natl. Acad. Sci 96:12621-12625.

Wilson S., Matyunina LV, McDonald JF. 1998. An enhancer-like region withing the copia untraslated leader which is variable in natural populations contains binding sites for Drosophila regulatory proteins. Gene, 209:239-246.

McDonald JF, Matyunina LV, Wilson S, Jordan IK, Bowen NJ, and Miller WJ. 1997. LTR retrotransposons and the evolution of eukaryotic enhancers in evolution and the role of transposable elements. Genetica, 100: 3-13.

Matyunina LV, Jordan IK, and McDonald JF. 1996. Naturally occurring variation in copia expression is due to both element (cis) and host (trans) regulatory variation. Proc. Natl. Acd. Sci. 93: 7097-7102.

Gerasimova TI, Matyunina LV, Mizrokhi LY, Georgiev GP. 1985 Successive transposition explosion in Drosophila melanogaster and reverse transposition of mobile dispersed genetic elements. The EMBO Journal, 4: 3773-3779.

Matyunina LV, Gerasimova TI. 1984 Study of spontaneous sex-linked lethal mutations in the unstable line ctMR2 of Drosophila melanogaster. DIS, 61: 119-120

Gerasimova TI, Matyunina LV. 1984 Unstable mutations at the locus yellow induced by the mobile element MDG2. DIS, 61: 78.

Gerasimova TI, Matyunina LV. 1984 Simultaneous reversion of three unstable alleles at loci yellow, white, singed. DIS, 61: 77.

Matyunina LV, Mizrokhi LY, Gerasimova TI, Georgiev GP. 1984 Transposition explosions in series of mutational transposition in Drosophila melanogaster unstable strains. Genetika, 21: 1608-1617. (in Russian).

Gerasimova TI, Matyunina LV, Ilyin YV, Georgiev GP. 1983 Simultaneous transpositions of different mobile elements: relation to multiple mutagenesis in Drosophila melanogaster. MGG, 194: 517-522.

Gerasimova TI, Matyunina LV, Mizrokhi LY, Ilyin YV, Georgiev GP. 1983 Multiple transposition events in separate germ cells in unstable strains of Drosophila melanogaster. Genetika, 21: 1434-1443. (in Russian).

Gerasimova TI, Ilyin YV, Mizrokhi LY, Semeonova LV. 1982 Mobilization of transposable element MDG4 by hybrid dysgenesis and resulting in appearance of unstable alleles at cut locus in Drosophila melanogaster. MGG, 193:488-492.

Gerasimova TI, Ilyin YV, Mizrokhi LY, Semeonova LV. 1982 The direct demonstration a mobile element MDG4 movement and its role in unstable mutations arising in Drosophila. Doclady AN SSSR (Proc. of Russian Ac. of Sci.) 271: 977-980. (in Russian).