Yupu Liang rejoined Rockefeller University as Bioinformatician within Hospital Informatics. She has extensive experience on data analysis, data visualization and pipeline development. Her expertise is on copy number analysis, RNAseq analysis and small RNA profiling.Her current research interests are in machine learning, data mining, and cloud based computing.
Yupu has a B.S in biochemistry and M.S, M.Phil and Ph.D in computer science.

SELECTED PUBLICATIONS
Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data.
Rapaport F, Khanin R, Liang Y, Pirun M, Krek A, Zumbo P, Mason CE, Socci ND, Betel D.
Genome Biol. 2013 Sep 10;14(9):R95

The mutational landscape of adenoid cystic carcinoma
Ho AS, Kannan K, Roy DM, Morris LG, Ganly I, Katabi N, Ramaswami D, Walsh LA, Eng S, Huse JT, Zhang J, Dolgalev I, Huberman K, Heguy A, Viale A, Drobnjak M, Leversha MA, Rice CE, Singh B, Iyer NG, Leemans CR, Bloemena E, Ferris RL, Seethala RR, Gross BE, Liang Y, Sinha R, Peng L, Raphael BJ, Turcan S, Gong Y, Schultz N, Kim S, Chiosea S, Shah JP, Sander C, Lee W, Chan TA
Nat Genet. 2013 May 19. doi: 10.1038/ng.2643

Genomic dissection of hurthle cell carcinoma reveals a unique class of thyroid malignancy
Ganly, I., Filho, J. R., Eng, S., Ghossein, R., Morris, L. G. T., Liang, Y., Socci, N., Kannan, K., Mo, Q., Fagin, J. A., Chan, T. A.
Journal of Clinical Endocrinology and Metabolism 2013: 98-5

Comprehensive genomic characterization of squamous cell lung cancers
The Cancer Genome Atlas Research Network
Nature 2012 489(7417)

Classification of tandem repeats in the human genome
Liang, Y., Sokol, D., Zelikovitz, S., & Levitan, S. I.
International Journal of Knowledge Discovery in Bioinformatics, 2012 3(3), 1-21.

Clustering Tandem Repeats via Trinucleotides
Yupu Liang, Dina Sokol, Sarah Zelikovitz
ICDM Workshops 2012.64-71

Clear-cell papillary renal cell carcinoma: molecular and immunohistochemical analysis with emphasis on the von HippelLindau gene and hypoxia-inducible factor pathway-related proteins
Rohan SM, Xiao Y, Liang Y, Dudas ME, Al-Ahmadie HA, Fine SW,Gopalan A, Reuter VE, Rosenblum MK, Russo P, Tickoo SK
Mod Pathol. 2011 Sep; 24(9):1207-20

Integrated genomic analyses of ovarian carcinoma
The Cancer Genome Atlas Research Networks
Memorial Sloan-Kettering Cancer Center
D. A. Levine, N. D. Socci, Y. Liang, B. S. Taylor, N. Schultz, L. Borsu, A. E. Lash, C. Brennan, A. Viale, C. Sander & M. Ladanyi
Nature 474,609-615 (30 June 2011)

Stubb: A program for discovery and analysis of cis-regulatory modules.
Saurabh Sinha, Yupu Liang, Eric Siggia
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W555-9

Study of core promoter elements on CHIP-chip and promoter of oligo- capping data.
Yupu Liang, Terry Gaasterland
2005 Mechanisms of eukaryotic transcription CSHL

Comparative alternative splice forms: DNA and RNA binding proteins in human, mouse and rat.
Bahar Taneri, Yupu Liang, Alexey Novorodovsky, Terry Gaasterland
2004 Pacific Symposium on Biocomputing Workshop on Alternative Splicing

Fusion expression of cecropin X including the cleavage of FXa in Escherichia coli
Yuan LD, Dou F, Liang YP, Xie W, Wang F, Zhang SQ, Dai ZY.
Sheng Wu Gong Cheng Xue Bao 2000 May;16(3):411-4