Year: 2009 2008 2007 2006 2005 2004

Author: S. Dinakar J. Duitama A. Gusev J. Jun J. Kennedy J. Lindsay I.I. Mandoiu B. Pasaniuc C. Prajescu


J. Duitama and I.I. Mandoiu and P.K. Srivastava, Bioinformatics pipeline for detection of immunogenic cancer mutations by high throughput mRNA sequencing, Talk at 9th Cold Spring Harbor Laboratory/Wellcome Trust conference on Genome Informatics, Oct 27-30, 2009, ppt, abstract, url

S. Dinakar and J. Duitama and Y. Hernandez and J. Kennedy and I.I. Mandoiu and Y. Wu, Linkage Disequilibrium Based Single Individual Genotyping from Low-Coverage Short Sequencing Reads, Poster at 13th Annual International Conference on Research in Computational Molecular Biology, Tucson, AZ, May 17-21, 2009, ppt, url

J. Duitama and I.I. Mandoiu and P.K. Srivastava, Bioinformatics pipeline for detection of immunogenic cancer mutations by high throughput mRNA sequencing, Poster, 5th International Symposium on Bioinformatics Research and Applications, Ft. Lauderdale, FL, May 13-16, 2009, ppt, abstract, url

I.I. Mandoiu, Imputation-based local ancestry inference in admixed populations, DIMACS Workshop on Algorithmics in Human Population-Genomics, DIMACS Center, Rutgers University, Apr. 27-29, 2009, ppt, url

I.I. Mandoiu, Genotype and Haplotype Reconstruction from Low-Coverage Short Sequencing Reads, Invited talk, 1st International Conference on Bioinformatics and Computational Biology (BICoB 2009), New Orleans, LA, Apr. 8-10, 2009, ppt, url

S. Dinakar, J. Duitama, Y. Hernandez, J. Kennedy, I.I. Mandoiu, and Y. Wu, Algorithms for Genotype and Haplotype Inference from Low-Coverage Short Sequencing Reads, 11th INFORMS Computing Society Conference, Charleston, SC, Jan. 11-13, 2009, ppt, url

I.I. Mandoiu, LD-Based Genotype and Haplotype Inference from Low-Coverage Short Sequencing Reads, Invited talk, UCLA bioinformatics seminar series, Nov. 3, 2008, ppt, url

I.I. Mandoiu, Linkage Disequilibrium Based SNP Genotype Calling from Short Sequencing Reads, Invited talk, SoE-UCHC Bioengineering Research Forum, UCONN Health Center, Farmington, CT, Oct. 29, 2008, ppt, url

I.I. Mandoiu, Hidden Markov Models of Haplotype Diversity and Applications in Genetic Epidemiology, INFORMS Annual Meeting, Oct. 12-15, 2008, ppt, url

S. Dinakar and J. Duitama and Y. Hernandez and J. Kennedy and I.I. Mandoiu and Y. Wu, Linkage Disequilibrium Based Single Individual Genotyping from Low-Coverage Short Sequencing Reads, Poster at 2008 Personal Genomes Meeting, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, USA, Oct 9-12, 2008, ppt, url

S. Dinakar and Y. Hernandez and J. Kennedy and I.I. Mandoiu and Y. Wu, Linkage Disequilibrium Based Single Individual Genotyping from Low-Coverage Short Sequencing Reads, Poster at 2008 Meeting on Genomics of Common Diseases, The Broad Institute of MIT and Harvard, Cambridge, MA, USA, September 6-9, 2008, ppt, url

J. Kennedy, Linkage Disequilibrium Based Single Individual Genotyping from Low-Coverage Short Sequencing Reads, DIMACS Workshop on Computational Issues in Genetic Epidemiology, DIMACS Center, Rutgers University, August 21 - 22, 2008, ppt, url

J. Duitama D.M. Kumar and E. Hemphill and S. Babapoor and I.I. Mandoiu and C.E. Nelson and M. Khan , DNA Barcoding: Preliminary Studies with Avian Influenza Virus, Poster, 2008 AAAP/AVMA Annual Meeting, New Orleans, LA, July 19-23, 2008, ppt, url

J. Kennedy and I.I. Mandoiu and B. Pasaniuc, Genotype Error Detection and Imputation using Hidden Markov Models of Haplotype Diversity, Poster, 4th International Symposium on Bioinformatics Research and Applications, Atlanta, GA, May 6-9, 2008, ppt, abstract, url

J. Duitama and M. Khan and I.I. Mandoiu and D.M. Kumar and C.E. Nelson, PrimerHunter: A Primer Selection Tool for Avian Influenza Subtype Identification, Poster, 4th International Symposium on Bioinformatics Research and Applications, Atlanta, GA, May 6-9, 2008, ppt, abstract, url

I.I. Mandoiu, Computational Challenges in Whole-Genome Association Studies, SoE-UCHC Bioengineering Research Forum, University of Connecticut, Storrs, CT, April 22, 2008, ppt, url

I.I. Mandoiu, Rational DNA sequence design for molecular nanotechnology, SoE Nanotechnology Research Forum, University of Connecticut, Storrs, CT, March 5, 2008, ppt, url

J. Kennedy, Genotype Error Detection using Hidden Markov Models of Haplotype Diversity, 3rd RECOMB Satellite Workshop on Computational Methods for SNPs and Haplotypes, Los Angeles, CA, Jan. 27-28, 2007, ppt, url

R. Garfinkel and I.I. Mandoiu and B. Pasaniuc and A. Zelikovsky, Optimal Testing of Digital Microfluidic Biochips: A Multiple Traveling Salesman Problem, INFORMS Annual Meeting, Seattle, WA, Nov. 4-7, 2007, ppt, url

I.I. Mandoiu, Algorithms for Biochip Design and Optimization, Adjacency Lecture, Cadence Research Laboratories, Berkeley, CA, Nov. 1, 2007, ppt, url

A. Gusev and S. Kentros and J. Lindsay and I.I. Mandoiu and B. Pasaniuc, A Comparison of Algorithms for Species Identification Based on DNA Barcodes, Invited talk, 2nd International Barcode of Life Conference, Academia Sinica, Taipei, Taiwan, Sept. 17-21, 2007, ppt, url

B. Dasgupta and J. Jun and I.I. Mandoiu, Primer selection methods for detection of genomic inversions and deletions via PAMP, 1st RECOMB Satellite Workshop on Computational Cancer Biology, San Diego, CA, Sept. 18-20, 2007, ppt, url

B. Pasaniuc, Model-based species identification using DNA barcodes, Invited talk, 39th Symposium on the Interface: Computing Science and Statistics, Philadelphia, PA, May 23-26, 2007, ppt, url

I.I. Mandoiu, Scalable Algorithms for Genotype and Haplotype Analysis, Tutorial, 3rd International Symposium on Bioinformatics Research and Applications, Atlanta, GA, May 7-10, 2007, ppt, url

I.I. Mandoiu, Genotype Error Detection using Hidden Markov Models of Haplotype Diversity, Invited talk, 21st New England Statistics Symposium, Storrs, CT, April 21, 2007, ppt, url

I.I. Mandoiu, Algorithms for SNP Data Collection and Analysis, Invited colloquium, Department of Computer Science, University of Rhode Island, Nov. 10, 2006, ppt, url

I.I. Mandoiu, Design and Optimization of Universal DNA Arrays, Invited talk, Affymetrix, Inc., Santa Clara, CA, July 26, 2006, ppt, url

B. Pasaniuc, Boosting Assignment Accuracy by Combining Distance- and Character-Based Classifiers, The DNA Barcode Data Analysis Initiative (DBDAI): Developing Tools for a New Generation of Biodiversity Data, Paris, France, July 6-8, 2006, ppt, url

I.I. Mandoiu, Combinatorial algorithms for maximum likelihood tag SNP selection and haplotype inference, Invited talk, 3rd International Workshop on Applied Probability, May 15-18, 2006, ppt, url

I.I. Mandoiu, Design and Optimization of Universal DNA Arrays, Invited talk, DATE Workshop on Emerging CAD Challenges for Biochip Design, Munich, Germany, March 10, 2006, ppt, url

I.I. Mandoiu and C. Prajescu, High-Throughput SNP Genotyping by SBE/SBH, Poster, 2nd SECABC Fall Workshop on Biocomputing, Atlanta, GA, Oct. 27, 2005, ppt

I.I. Mandoiu and B. Pasaniuc, Trio Phasing by Entropy Minimization, Poster, 2nd SECABC Fall Workshop on Biocomputing, Atlanta, GA, Oct. 27, 2005, ppt

I.I. Mandoiu, Design and Optimization of Universal DNA Arrays, Invited talk, 2nd SECABC Fall Workshop on Biocomputing, Atlanta, GA, Oct. 27, 2005, ppt

J. Jun and I.I. Mandoiu, Optimal Tag SNP Selection for Haplotype Reconstruction, Poster, 13th Annual International Conference on Intelligent Systems for Molecular Biology, Detroit, MI, June 25-29, 2005, ppt, url

I.I. Mandoiu and B. Pasaniuc, Haplotype Inference by Entropy Minimization, Poster, 9th Annual International Conference on Research in Computational Molecular Biology, Boston, MA, May 14-18, 2005, ppt, url

N. Hundewale and I.I. Mandoiu and C. Prajescu and A. Zelikovsky, Integrated Design Flow for Universal DNA Tag Arrays, Poster, 9th Annual International Conference on Research in Computational Molecular Biology, Boston, MA, May 14-18, 2005, ppt, url

I.I. Mandoiu, Algorithms for universal DNA tag array design and optimization, Invited colloquium, Department of Computer Science Colloquium, Kent State University, Feb. 25, 2005, ppt, url

K.M. Konwar and I.I. Mandoiu and A.C. Russell and A.A. Shvartsman, Optimization Methods for Reliable Genomic-Based Pathogen Detection Systems, Poster, 2nd International Conference on Advanced Technologies for Homeland Security, Storrs, CT, Aug. 12-13, 2004, ppt, url

I.I. Mandoiu, Minimum PCR Primer Set Selection with Amplification Length and Uniqueness Constraints, Invited talk, 2nd Georgia State Biotech Symposium, Atlanta, GA, May 25, 2004, ppt