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Publications

• seeQTL: A searchable database for human eQTLs.
  K. Xia, A.A. Shabalin, et al.
  Bioinformatics, 2011, in print.
  
  Software webpage.
• Basal-like Breast Cancer DNA copy number losses identify genes involved in genomic instability, response to therapy, and patient survival.
  V.J. Weigman, H. H. Chao, A.A. Shabalin, et al.
  Breast Cancer Research and Treatment, 2 Nov 2011 pp. 1-16.
  
  Open access PDF at springerlink.com. Software webpage.
• Detection of Low Rank Signals in Noise and Fast Correlation Mining with Applications to Large Biological Data.
  A.A. Shabalin
  Ph.D. Dissertation, UNC-CH, Department of Statistics and Operations Research, 2010.
  
  Open access PDF at UNC library.
• Sex-specific Gene Expression in BXD Mouse Liver.
  D. Gatti, N. Zhao, E. Chesler, B. Bradford, A.A. Shabalin, R. Yordanova, L. Lu, and I. Rusyn.
  Physiological Genomics, August 2010 vol. 42 no. 3 pp. 456-468.
  
  Open access PDF at Physiological Genomics.
• Finding large average submatrices in high dimensional data.
  A.A. Shabalin, V.J.Weigman, C.M. Perou, and A.B. Nobel.
  Annals of Applied Statistics, 3(3), 985-1012, 2009.
  
  Limited access PDF at AoAS. Open access PDF at arxiv.org. Software webpage.
• FastMap: Fast eQTL mapping in homozygous populations.
  D.M. Gatti*, A.A. Shabalin*(co-first authors), T.C. Lam, F.A. Wright, I. Rusyn, and A.B. Nobel.
  Bioinformatics, 25(4):482, 2009.
  
  Open access PDF at Bioinformatics. Software webpage.
• The Set2/Rpd3S pathway suppresses cryptic transcription without regard to gene length or transcription frequency.
  C. Lickwar, B. Rao, A.A. Shabalin, A.B. Nobel, B.D. Strahl, and J.D. Lieb.
  PLoS ONE, 4(3), e4886, 2009.
  
  Open access PDF at PLoS ONE.
• Merging two gene-expression studies via cross-platform normalization.
  A.A. Shabalin, H. Tjelmeland, C. Fan, C.M. Perou, and A.B. Nobel.
  Bioinformatics, 24(9):1154, 2008.
  
  Open access PDF at Bioinformatics. Software webpage.

Submitted papers:

• Matrix eQTL: Ultra fast eQTL analysis via large matrix operations.
  A.A. Shabalin.
  Arxiv preprint at http://arxiv.org/abs/1105.5764.
• Computational Tools for Discovery and Interpretation of Expression Quantitative Trait Loci (eQTL).
  F.A. Wright, A.A. Shabalin, and I. Rusyn.  
  
• Reconstruction of a Low-rank Matrix in the Presence of Gaussian Noise.
  A.A. Shabalin and A.B. Nobel.
  Arxiv preprint at http://arxiv.org/abs/1007.4148. Almost submitted.

Working papers

• FastMap 2.0: Fast Association Mapping in Heterozygous Populations
  D.M. Gatti, A.A. Shabalin, M. Sypa, T.C. Lam, F.A. Wright, A.B. Nobel, and I. Rusyn.
  http://comptox.unc.edu/resources.html

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