1. Han Y#, Yang J#, Qian X, Cheng W, Liu S, Hua X, Zhou L, Yang Y, Wu Q, Liu P*, Lu Y*. DriverML: a machine learning algorithm for identifying driver genes in cancer sequencing studies. Nucleic acids research, 2019. doi:10.1093/nar/gkz096.
2. Li X#, Li J#, Wu P, Zhou L, Lu B, Ying K, Chen E*, Lu Y*, Liu P*. Smoker and non-smoker lung adenocarcinoma is characterized by distinct tumor immune microenvironments. Oncoimmunology, 2018, 7(10): e1494677.
3. Liu P*, Liu Y, Liu H, Pan X, Li Y, Usa K, M Mishra, Nie J, Liang M*. DNA de novo (de)Methylation in the Kidney Contributes to Salt-Induced Hypertension. Hypertension. 2018, 72(5): 1160-1171.
4. Sun X, Han Y, Zhou L, Chen E, Lu B, Liu Y, Pan X, Cowley AW Jr, Liang M, Wu Q, Lu Y*, Liu P*. A comprehensive evaluation of alignment software for reduced representation bisulfite sequencing data. Bioinformatics. 2018 Aug 15;34(16):2715-2723.
5. Zhang H, Lu Y, Chen E, Li X, Lv B, Vikis HG, Liu P*. XRN2 promotes EMT and metastasis through regulating maturation of miR-10a. Oncogene. 2017 2017;36(27):3925-3933.
6. Chu C, Fang Z, Hua X, Yang Y, Chen E, Cowley AW Jr, Liang M, Liu P*, Lu Y*. deGPS is a powerful tool for detecting differential expression in RNA-sequencing studies. BMC Genomics. 2015;16(1):455.
7. Li L, Chen E, Yang C, Zhu J, Jayaraman P, De Pons J, Kaczorowski CC, Jacob HJ, Greene AS, Hodges MR, Cowley AW Jr, Liang M, Xu H, Liu P*, Lu Y*. Improved rat genome gene prediction by integration of ESTs with RNA-Seq information. Bioinformatics. 2015 Jan 1;31(1):25-32.
8. Morrison CD#*, Liu P#, Woloszynska-Read A, Zhang J, Luo W, Qin M, Bshara W, Conroy JM, Sabatini L, Vedell P, Xiong D, Liu S, Wang J, Shen H, Li Y, Omilian AR, Hill A, Head K, Guru K, Kunnev D, Leach R, Eng KH, Darlak C, Hoeflich C, Veeranki S, Glenn S, You M, Pruitt SC, Johnson CS, Trump DL. Whole Genome Sequencing Identifies Genomic Heterogeneity at a Nucleotide and Chromosomal Level in Bladder Cancer. Proc Natl Acad Sci U S A. 2014;111(6):E672-81.
9. Kelly LM#, Barila G#, Liu P#, Evdokimova VN, Trivedi S, Panebianco F, Gandhi M, Carty SE, Hodak SP, Luo J, Dacic S, Yu YP, Nikiforova MN, Ferris RL, Altschuler DL, Nikiforov YE*. Identification of the transforming STRN-ALK fusion as a potential therapeutic target in the aggressive forms of thyroid cancer. Proc Natl Acad Sci U S A. 2014;111(11):4233-8 (co-first author).
10. Wang F, Li L, Xu H, Liu Y, Yang C, Cowley AW Jr, Wang N*, Liu P*, Liang M*. Characteristics of long non-coding RNAs in the Brown Norway rat and alterations in the Dahl salt-sensitive rat. Sci Rep. 2014 Nov 21;4:7146. doi: 10.1038/srep07146.
11. Hua X, Xu H, Yang Y, Zhu J, Liu P*, Lu Y*. DrGaP: A Powerful Tool for Identifying Driver Genes and Pathways in Cancer Sequencing Studies. Am J Hum Genet. 2013 Sep 5;93(3):439-51.
12. Liu P, Yang P, Wu X, Vikis HG, Lu Y, Wang Y, Schwartz AG, Pinney SM, de Andrade M, Gazdar A, Gaba C, Mandal D, Lee J, Kupert E, Seminara D, Minna J, Bailey-Wilson JE, Spitz M, Amos CI, Anderson MW, You M*. A second genetic variant on chromosome 15q24-25.1 associates with lung cancer. Cancer Res. 2010;70:3128-35. (IF=9.241)
13. You M#, Wang D#, Liu P#, Vikis H#, James M, Lu Y, Wang Y, Wang M, Chen Q, Jia D, Liu Y, Wen W, Yang P, Sun Z, Pinney SM, Zheng W, Shu XO, Long J, Gao YT, Xiang YB, Chow WH, Rothman N, Petersen GM, de Andrade M, Wu Y, Cunningham JM, Wiest JS, Fain PR, Schwartz AG, Girard L, Gazdar A, Gaba C, Rothschild H, Mandal D, Coons T, Lee J, Kupert E, Seminara D, Minna J, Bailey-Wilson JE, Amos CI, Anderson MW*. Fine mapping of chromosome 6q23-25 region in familial lung cancer families reveals RGS17 as a likely candidate gene. Clin Cancer Res. 2009;15:2666-74.
14. Liu Y#, Liu P#, Wen W, James MA, Wang Y, Bailey-Wilson JE, Amos CI, Pinney SM, Yang P, de Andrade M, Petersen GM, Wiest JS, Fain PR, Schwartz AG, Gazdar A, Gaba C, Rothschild H, Mandal D, Kupert E, Lee J, Seminara D, Minna J, Anderson MW, You M*. Haplotype and cell proliferation analyses of candidate lung cancer susceptibility genes on chromosome 15q24-25.1. Cancer Res. 2009;69:7844-50.
15. Liu P, Vikis H, James M, Lu Y, Wang DL, Liu HB, Wen WD, Wang Y, You M*. Identification of Las2, a major modifier gene affecting the Pas1 mouse lung tumor susceptibility locus. Cancer Res. 2009;69:6290-8.
16. Liu P, Vikis HG, Wang D, Lu Y, Wang Y, Schwartz AG, Pinney SM, Yang P, de Andrade M, Petersen GM, Wiest JS, Fain PR, Gazdar A, Gaba C, Rothschild H, Mandal D, Coons T, Lee J, Kupert E, Seminara D, Minna J, Bailey-Wilson JE, Wu X, Spitz MR, Eisen T, Houlston RS, Amos CI, Anderson MW, You M*. Familial aggregation of common sequence variants on 15q24-25.1 in lung cancer. J Natl Cancer Inst. 2008;100:1326-30.
17. Liu P, Wang Y, Vikis H, Maciag A, Wang D, Lu Y, Liu Y, You M*. Candidate lung tumor susceptibility genes identified through whole-genome association analyses in inbred mice. Nat Genet. 2006;38:888-95.
