UCRF2004

Book Chapters:

A.B. Kahng and I.I. Mandoiu and S. Reda and X. Xu and A.Z. Zelikovsky, Computer-Aided Optimization of DNA Array Design and Manufacturing, In K. Chakrabarty and J. Zeng, Design Automation Methods and Tools for Microfluidics-Based Biochips, Springer Verlag, pp. 235-269, 2006, pdf preprint, publisher url, bibtex

Journal Articles:

I.I. Mandoiu and D. Trinca, Exact and Approximation Algorithms for DNA Tag Set Design, Journal of Computational Biology 13, pp. 732-744, 2006, pdf preprint, publisher url, bibtex

A.B. Kahng and I.I. Mandoiu and S. Reda and X. Xu and A. Zelikovsky, Computer-Aided Optimization of DNA Array Design and Manufacturing, IEEE Trans. on CAD 25, pp. 305-320, 2006, pdf preprint, publisher url, bibtex

B. DasGupta and K.M. Konwar and I.I. Mandoiu and A.A. Shvartsman, DNA-BAR: Distinguisher Selection for DNA Barcoding, Bioinformatics 21, pp. 3424-3426, 2005, pdf preprint, publisher url, bibtex

B. DasGupta and K.M. Konwar and I.I. Mandoiu and A.A. Shvartsman, Highly Scalable Algorithms for Robust String Barcoding, International Journal of Bioinformatics Research and Applications 1, pp. 145-161, 2005, pdf preprint, publisher url, bibtex

I.I. Mandoiu and C. Prajescu and D. Trinca, Improved Tag Set Design and Multiplexing Algorithms for Universal Arrays, LNCS Transactions on Computational Systems Biology II, pp. 124-137, 2005, pdf preprint, publisher url, bibtex

Conference Articles:

I.I. Mandoiu and C. Prajescu, High-Throughput SNP Genotyping by SBE/SBH, Proc. 6th International Conference on Computational Science, Part II, pp. 742-749, 2006, pdf preprint, publisher url, bibtex

M.T. Hajiaghayi and K. Jain and L.C. Lau and I.I. Mandoiu and A.C. Russell and V.V. Vazirani, The minimum multicolored subgraph problem in haplotyping and PCR primer set selection, Proc. 6th International Conference on Computational Science, Part II, pp. 758-766, 2006, pdf preprint, publisher url, bibtex

I.I. Mandoiu and D. Trinca, Exact and Approximation Algorithms for DNA Tag Set Design, Proc. 16th Annual Symposium on Combinatorial Pattern Matching, pp. 383-393, 2005, pdf preprint, publisher url, ppt, bibtex

I.I. Mandoiu and C. Prajescu and D. Trinca, Improved Tag Set Design and Multiplexing Algorithms for Universal Arrays, Proc. 5th International Conference on Computational Science, Part II, pp. 994-1002, 2005, pdf preprint, publisher url, ppt, bibtex

B. DasGupta and K.M. Konwar and I.I. Mandoiu and A.A. Shvartsman, Highly Scalable Algorithms for Robust String Barcoding, Proc. 5th International Conference on Computational Science, Part II, pp. 1020-1028, 2005, pdf preprint, publisher url, ppt, bibtex

K.M. Konwar and I.I. Mandoiu and A.C. Russell and A.A. Shvartsman, Improved Algorithms for Multiplex PCR Primer Set Selection with Amplification Length Constraints, Proc. 3rd Asia-Pacific Bioinformatics Conference, pp. 41-50, 2005, pdf preprint, publisher url, ppt, bibtex

Technical Reports:

I.I. Mandoiu and C. Prajescu and D. Trinca, Improved Tag Set Design and Multiplexing Algorithms for Universal Arrays, Cornell University arXiv e-print, cs/0502054, 2005, url, bibtex

B. DasGupta and K.M. Konwar and I.I. Mandoiu and A.A. Shvartsman, Highly Scalable Algorithms for Robust String Barcoding, Cornell University arXiv e-print, cs/0502065, 2005, url, bibtex

I.I. Mandoiu and D. Trinca, Exact and Approximation Algorithms for DNA Tag Set Design, Cornell University arXiv e-print, cs/0503057, 2005, url, bibtex

I.I. Mandoiu and C. Prajescu, High-Throughput SNP Genotyping by SBE/SBH, Cornell University arXiv e-print, cs/0512052, 2005, url, bibtex

K.M. Konwar and I.I. Mandoiu and A. Russell and A.A. Shvartsman, Approximation Algorithms for Minimum PCR Primer Set Selection with Amplification Length and Uniqueness Constraints, Cornell University arXiv e-print, cs.DS/0406053, 2004, url, bibtex

M.S. Theses:

C. Prajescu, Multiplexing Algorithms for High-Throughput Genomic Based Assays, University of Connecticut, Storrs, CT, December, 2005, pdf preprint, url, bibtex

D. Trinca, Exact and Approximation Algorithms for DNA Tag Set Design, University of Connecticut, Storrs, CT, December, 2005, pdf preprint, url, bibtex