Songjian Lu, PhD

Room 512
5607 Baum Boulevard
Phone: 
412-648-9543
Fax: 
412-624-5310

Publications

 

S. Lu, K. Lu, X. Ma, N. Nystrom, X. Lu, Identifying driver genomic alterations in cancers by searching minimum-weight, mutually exclusive sets, PLOS Computational Biology 2015; DOI: 10.1371 /journal.pcbi.100425.

S. Lu, X. Lu. Using graph model to find transcription factor modules: the hitting set problem and an exact algorithm. Algorithms for Molecular Biology. 2013; 8(2).

S. Lu, B. Jin, L. Cowart, X. Lu. From data towards knowledge: Revealing the architecture of signaling systems by unifying knowledge mining and data mining of systematic perturbation data. PLOS One. 2013; 8(4).

D. Montefusco, L. Chen, N. Matmati, S. Lu, B. Newcomb, G. Cooper, Y. Hannun, X. Lu. Distinct signaling roles of ceramide species in yeast revealed through systematic perturbation and systems biology analyses. Since Signaling. 2013; 6(229).

S. Lu, X. Lu. Integrating Genome and Functional Genomics Data to Reveal Perturbed Signaling Pathways in Ovarian Cancers. In: Proc. 2012 AMIA Joint Summits on Translational Science (AMIA-TBI); 2012 Mar 19-23; San Francisco, CA.

H. Feng, B. Hu, K. Liu, Y. Li, X. Lu, T. Cheng, J. Yiin, S. Lu, S. Keezer, T. Fenton, F. Furnari, R. Hamilton, K. Vuori, J. Sarkaria, M. Nagane, R. Nishikawa, W. Cavenee, S. Cheng. Activation of Rac1 by Src-dependent phosphorylation of Dock180Y1811 mediates PDGFRa-stimulated glioma tumorigenesis in mice and humans. The Journal of Clinical Investigation. 2011; 121 (12):4670-4684.

S. Lu, X. Lu. A graph model and an exact algorithm for finding transcription factor modules. In: Proc. 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM-BCB); 2012 Jul 31-Aug 3; Chicago, IL. 355-359.
 
Chen J, Kneis J, Lu S, Mölle D, Richter S, Rossmanith P, Sze S, Zhang F. Divide-and-Conquer for Path and Packing Problems. SIAM Journal on Computing. 2009; 38 (6):2526-47.

Chen J, Liu Y, Lu S, O’Sullivan B, Razgon I. A Fixed-Parameter Algorithm for the Directed Feedback Vertex Set Problem. Journal of the ACM. 2008; 55 (5). doi: 10.1145/1411509.1411511.
 
Chen J, Fomin F, Liu S, Lu S, Villanger Y. Improved Algorithms for the Feedback Vertex Set Problems. J Comp Sys Sci. 2008; 74 (7):1188-98.

 
Research Interests: 
  • Using computational method to search for driver somatic genome alterations, such as somatic mutations, copy number alterations, that are related to cancer development.
  • Formulating the biological problems into graph or statistical problems.
  • Designing efficient exact algorithms for the hard computational problems.
Assistant Professor, Department of Biomedical Informatics
University of Pittsburgh School of Medicine
Selected Publications: 

Lu, S., Jin, B., Cowart, LA., and Lu, X (2013) From data towards knowledge: Revealing the architecture of signaling systems by unifying knowledge mining and data mining of systematic perturbation data. PLoS One 8(4): e61134  PMID: 23637789 PMCID: PMC3634064

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