| Genomic and bioinformatic profiling of mutational neoepitopes reveals new rules to predict anticancer immunogenicity F Duan, J Duitama, S Al Seesi, CM Ayres, SA Corcelli, AP Pawashe, ... Journal of Experimental Medicine 211 (11), 2231-2248, 2014 | 458 | 2014 |
| Key parameters of tumor epitope immunogenicity revealed through a consortium approach improve neoantigen prediction DK Wells, MM van Buuren, KK Dang, VM Hubbard-Lucey, KCF Sheehan, ... Cell 183 (3), 818-834. e13, 2020 | 437 | 2020 |
| Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates S Al Seesi, YT Tiagueu, A Zelikovsky, II Măndoiu BMC genomics 15, 1-10, 2014 | 65 | 2014 |
| Minor spliceosome inactivation causes microcephaly, owing to cell cycle defects and death of self-amplifying radial glial cells M Baumgartner, AM Olthof, GS Aquino, KC Hyatt, C Lemoine, K Drake, ... Development 145 (17), dev166322, 2018 | 61 | 2018 |
| Fast bootstrapping-based estimation of confidence intervals of expression levels and differential expression from RNA-Seq data I Mandric, Y Temate-Tiagueu, T Shcheglova, S Al Seesi, A Zelikovsky, ... Bioinformatics 33 (20), 3302-3304, 2017 | 57 | 2017 |
| Determination of dosage compensation of the mammalian X chromosome by RNA-seq is dependent on analytical approach NK Jue, MB Murphy, SD Kasowitz, SM Qureshi, CJ Obergfell, S Elsisi, ... BMC genomics 14, 1-14, 2013 | 43 | 2013 |
| An unbiased approach to defining bona fide cancer neoepitopes that elicit immune-mediated cancer rejection CA Brennick, MM George, MM Moussa, AT Hagymasi, S Al Seesi, ... The Journal of clinical investigation 131 (3), 2021 | 32 | 2021 |
| Replication-dependent histone genes are actively transcribed in differentiating and aging retinal neurons AR Banday, M Baumgartner, S Al Seesi, DKP Karunakaran, A Venkatesh, ... Cell cycle 13 (16), 2526-2541, 2014 | 26 | 2014 |
| Minor splicing sn RNA s are enriched in the developing mouse CNS and are crucial for survival of differentiating retinal neurons M Baumgartner, C Lemoine, S Al Seesi, DKP Karunakaran, N Sturrock, ... Developmental neurobiology 75 (9), 895-907, 2015 | 25 | 2015 |
| An integer programming approach to novel transcript reconstruction from paired-end RNA-Seq reads S Mangul, A Caciula, S Al Seesi, D Brinza, AR Banday, R Kanadia Proceedings of the ACM Conference on Bioinformatics, Computational Biology …, 2012 | 24 | 2012 |
| Transcriptome assembly and quantification from Ion Torrent RNA-Seq data S Mangul, A Caciula, S Al Seesi, D Brinza, I Mӑndoiu, A Zelikovsky BMC genomics 15, 1-11, 2014 | 22 | 2014 |
| Inferring metabolic pathway activity levels from RNA-Seq data Y Temate-Tiagueu, SA Seesi, M Mathew, I Mandric, A Rodriguez, K Bean, ... BMC genomics 17, 493-503, 2016 | 16 | 2016 |
| Effects of maternal nutrition on the expression of genomic imprinted genes in ovine fetuses J Duan, M Zhang, K Flock, SA Seesi, I Mandoiu, A Jones, E Johnson, ... Epigenetics 13 (8), 793-807, 2018 | 13 | 2018 |
| Network-based bioinformatics analysis of spatio-temporal RNA-Seq data reveals transcriptional programs underpinning normal and aberrant retinal development DKP Karunakaran, S Al Seesi, AR Banday, M Baumgartner, A Olthof, ... BMC genomics 17, 477-492, 2016 | 12 | 2016 |
| Dosage compensation and gene expression of the X chromosome in sheep J Duan, K Flock, N Jue, M Zhang, A Jones, SA Seesi, I Mandoiu, S Pillai, ... G3: Genes, Genomes, Genetics 9 (1), 305-314, 2019 | 10 | 2019 |
| Improved algorithms for parsing ESLTAGs: A grammatical model suitable for RNA pseudoknots S Rajasekaran, S Al Seesi, RA Ammar IEEE/ACM Transactions on Computational Biology and Bioinformatics 7 (4), 619-627, 2010 | 8 | 2010 |
| Pseudoknot Identification through Learning TAGRNA SA Seesi, S Rajasekaran, R Ammar Pattern Recognition in Bioinformatics: Third IAPR International Conference …, 2008 | 5 | 2008 |
| Genomics-guided immunotherapy of human epithelial ovarian cancer S Al Seesi, F Duan, II Mandoiu, PK Srivastava, A Kueck Translational Cardiometabolic Genomic Medicine, 237-250, 2016 | 4 | 2016 |
| Transcriptome reconstruction and quantification from RNA sequencing Data S Al Seesi, S Mangul, A Caciula, A Zelikovsky, I Măndoiu Genome analysis: current procedures and applications, 39, 2014 | 3 | 2014 |
| GeNeo: A bioinformatics toolbox for genomics-guided neoepitope prediction S Al Seesi, A Al-Okaily, TV Shcheglova, E Sherafat, FH Alqahtani, ... Journal of Computational Biology 30 (4), 538-551, 2023 | 2 | 2023 |
Ion MandoiuUniversity of ConnecticutVerified email at engr.uconn.edu
