Lifetech11

Book Chapters:

O. Glebova and Y. Temate-Tiagueu and A. Caciula and S. Al Seesi and A. Artyomenko and S. Mangul and J. Lindsay and I.I. Mandoiu and A. Zelikovsky, Transcriptome Quantification and Differential Expression from NGS Data, In I.I. Mandoiu and A. Zelikovsky, Computational Methods for Next Generation Sequencing Data Analysis, John Wiley & Sons, pp. 301-327, 2016, publisher url, bibtex

S. Al Seesi and S. Mangul and A. Caciula and A. Zelikovsky and I.I. Mandoiu, Transcriptome reconstruction and quantification from RNA sequencing data, In Maria Poptsova, Genome Analysis: Current Procedures and Applications, Caister Academic Press, pp. 39-60, 2014, publisher url, bibtex

I. Astrovskaya and N. Mancuso and B. Tork and S. Mangul and A. Artyomenko and P. Skums and L. Ganova-Raeva and I.I. Mandoiu and A. Zelikovsky, Inferring Viral Quasispecies Spectra from Shotgun and Amplicon Next-Generation Sequencing Reads, In Maria Poptsova, Genome Analysis: Current Procedures and Applications, Caister Academic Press, pp. 231-262, 2014, publisher url, bibtex

Journal Articles:

P. Skums and N. Mancuso and A. Artyomenko and B. Tork and I.I. Mandoiu and Y. Khudyakov and A. Zelikovsky, Reconstruction of Viral Population Structure from Next-Generation Sequencing Data Using Multicommodity Flows, BMC Bioinformatics 14(Suppl 9):S2, 2013, pdf preprint, publisher url, bibtex

N. Mancuso and B. Tork and P. Skums and L. Ganova-Raeva and I.I. Mandoiu and A. Zelikovsky, Reconstructing viral quasispecies from NGS amplicon reads, In Silico Biology 11, pp. 237-249, 2012, publisher url, bibtex

S. Mangul and A. Caciula and O. Glebova and I.I. Mandoiu and A. Zelikovsky, Improved transcriptome quantification and reconstruction from RNA-Seq reads using partial annotations, In Silico Biology 11, pp. 251-261, 2012, publisher url, bibtex

Conference Articles:

S. Mangul and A. Caciula and S. Al Seesi and D. Brinza and A. Rouf Banday and R. Kanadia and I.I. Mandoiu and A. Zelikovsky, Flexible Approach for Novel Transcript Reconstruction from RNA-Seq Data using Maximum Likelihood Integer Programming, Proc. 5th International Conference on Bioinformatics and Computational Biology, pp. 25-34, 2013, pdf preprint, publisher url, bibtex

S. Mangul and A. Caciula and S. Al Seesi and D. Brinza and A. Rouf Banday and R. Kanadia and I.I. Mandoiu and A. Zelikovsky, An Integer Programming Approach to Novel Transcript Reconstruction from Paired-End RNA-Seq Reads, Proc. ACM Conference on Bioinformatics, Computational Biology and Biomedicine, pp. 369-376, 2012, pdf preprint, publisher url, ppt, bibtex