Publications

2020

Edited Books & Proceedings:


Z. Cai and I.I. Mandoiu and G. Narasimhan and P. Skums and X. Gao (Eds.), Proc. 16th International Symposium on Bioinformatics Research and Applications, Springer-Verlag Lecture Notes in Bioinformatics vol. 12304, 2020, publisher url, bibtex

I.I. Mandoiu, T. M. Murali, G. Narasimhan, S. Rajasekaran, P. Skums, and A. Zelikovsky (Eds.), Proc. 9th International Conference on Computational Advances in Bio and Medical Sciences, Springer-Verlag Lecture Notes in Bioinformatics vol. 12029, 2020, publisher url, bibtex

Journal Articles:


D.K. Wells, K. Dang, ..., E. Sherafat, ...,I.I. Mandoiu, ..., S. Al Seesi,..., and N.A.Defranoux, Key Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction, Cell (in print, available online 9 October 2020) , 2020, publisher url, bibtex

E. Sherafat and J. Force and I.I Mandoiu, Semi-Supervised Learning for Somatic Variant Calling and Peptide Identification in Personalized Cancer Immunotherapy, BMC Bioinformatics, to appear , 2020, pdf preprint, bibtex

F. Alqahtani and I.I. Mandoiu, Statistical Mitogenome Assembly with RepeaTs, Journal of Computational Biology 27, pp. 1407-1421, 2020, publisher url, bibtex

J.T. Nevin and M. Moussa and W,L. Corwin and I.I. Mandoiu and P.K. Srivastava, Sympathetic nervous tone limits the development of myeloid-derived suppressor cells, Science Immunology 5, pp. eaay9368, 2020, publisher url, bibtex

F. Alqahtani and D. Duckett and S. Pirro and I.I. Mandoiu, Complete mitochondrial genome of the water vole, Microtus richardsoni(Cricetidae, Rodentia), Mitochondrial DNA Part B 5:3, pp. 2498-2499, 2020, publisher url, bibtex

D. Lähnemann, J. Köster, E. Szczurek, ..., I.I. Mandoiu, et al., Eleven grand challenges in single-cell data science, Genome Biology 21(31), 2020, publisher url, bibtex

Conference Articles:


M. Moussa and I.I. Mandoiu, SC1: A Tool for Interactive Web-Based Single Cell RNA-Seq Data Analysis, Proc. 16th International Symposium on Bioinformatics Research and Applications, pp. 389–397, 2020, pdf preprint, publisher url, bibtex

F. Rondel and R. Hosseini and B. Sahoo and S. Knyazev and I. Mandric and F. Stewart and I.I. Mandoiu and B. Pasaniuc and A. Zelikovsky, Estimating enzyme participation in metabolic pathways for microbial communities from RNA-seq data, Proc. 16th International Symposium on Bioinformatics Research and Applications, pp. 335-343, 2020, pdf preprint, publisher url, bibtex

S. Dhar and C. Zhang and I.I. Mandoiu and M.S. Bansal, TNet: Phylogeny-Based Inference of Disease Transmission Networks Using Within-Host Strain Diversity, Proc. 16th International Symposium on Bioinformatics Research and Applications, pp. 203-216, 2020, pdf preprint, publisher url, bibtex

F. Alqahtani and I.I. Mandoiu, Mitochondrial Haplogroup Assignment for High-Throughput Sequencing Data from Single Individual and Mixed DNA Samples, Proc. 16th International Symposium on Bioinformatics Research and Applications, pp. 1-12, 2020, pdf preprint, publisher url, bibtex

F. Alqahtani and I.I. Mandoiu, SMART2: Multi-Library Statistical Mitogenome Assembly with Repeats, Proc. 9th International Conference on Computational Advances in Bio and Medical Sciences, pp. 184-198, 2020, pdf preprint, publisher url, ppt, bibtex

Ph.D. Theses:


F. Alqahtani, Algorithms for Mitochondrial Genome Assembly and Haplogroup Assignment from Low-Coverage Whole-Genome Sequencing Data, University of Connecticut, Storrs, CT, January, 2020, url, ppt, bibtex