Postdoctoral Researcher

Stepan Nersisyan

Postdoctoral Researcher

Short Bio

Dr. Nersisyan joined the Computational Medicine Center as a Postdoctoral Researcher in 2022. He received a Ph.D. in Biology from the Institute of Molecular Biology of the National Academy of Sciences of the Republic of Armenia (2022) and an M.Sc. in Mathematics from Lomonosov Moscow State University (2021). Dr. Nersisyan’s primary research interests lie in uncovering the roles of small non-coding RNAs (isomiRs, tRFs, rRFs, yRFs) in complex human diseases (cancer, COVID-19, neurological disorders) using computational biology methods. In particular, Dr. Nersisyan specializes in developing and applying statistical and machine-learning solutions for mining biological knowledge from small non-coding RNA and mRNA deep sequencing data.

Publications

2023

  • Nersisyan, S, Montenont, E, Loher, P, Middleton, EA, Campbell, R, Bray, P, Rigoutsos, I. Characterization of all small RNAs in and comparisons across cultured megakaryocytes and platelets of healthy individuals and COVID-19 patients. J Thromb Haemost. 2023;21 (11):3252-3267. doi: 10.1016/j.jtha.2023.07.028. PubMed PMID:37558133 .
  • Pliatsika, V, Cherlin, T, Loher, P, Vlantis, P, Nagarkar, P, Nersisyan, S, Rigoutsos, I. MINRbase: a comprehensive database of nuclear- and mitochondrial-ribosomal-RNA-derived fragments (rRFs). Nucleic Acids Res. 2023; :. doi: 10.1093/nar/gkad833. PubMed PMID:37843123 .
  • Everest-Dass, A, Nersisyan, S, Maar, H, Novosad, V, Schröder-Schwarz, J, Freytag, V, Stuke, JL, Beine, MC, Schiecke, A, Haider, MT, Kriegs, M, Elakad, O, Bohnenberger, H, Conradi, LC, Raygorodskaya, M, Krause, L, von Itzstein, M, Tonevitsky, A, Schumacher, U, Maltseva, D, Wicklein, D, Lange, T. Spontaneous metastasis xenograft models link CD44 isoform 4 to angiogenesis, hypoxia, EMT and mitochondria-related pathways in colorectal cancer. Mol Oncol. 2023; :. doi: 10.1002/1878-0261.13535. PubMed PMID:37849446 .
  • Zhiyanov, A, Engibaryan, N, Nersisyan, S, Shkurnikov, M, Tonevitsky, A. Differential co-expression network analysis with DCoNA reveals isomiR targeting aberrations in prostate cancer. Bioinformatics. 2023;39 (2):. doi: 10.1093/bioinformatics/btad051. PubMed PMID:36688696 PubMed Central PMC9901399.

2022

  • Nersisyan, S, Zhiyanov, A, Engibaryan, N, Maltseva, D, Tonevitsky, A. A novel approach for a joint analysis of isomiR and mRNA expression data reveals features of isomiR targeting in breast cancer. Front Genet. 2022;13 :1070528. doi: 10.3389/fgene.2022.1070528. PubMed PMID:36531236 PubMed Central PMC9751988.
  • Nersisyan, S, Zhiyanov, A, Zakharova, M, Ishina, I, Kurbatskaia, I, Mamedov, A, Galatenko, A, Shkurnikov, M, Gabibov, A, Tonevitsky, A. Alterations in SARS-CoV-2 Omicron and Delta peptides presentation by HLA molecules. PeerJ. 2022;10 :e13354. doi: 10.7717/peerj.13354. PubMed PMID:35502206 PubMed Central PMC9055995.
  • Nersisyan, S, Novosad, V, Galatenko, A, Sokolov, A, Bokov, G, Konovalov, A, Alekseev, D, Tonevitsky, A. ExhauFS: exhaustive search-based feature selection for classification and survival regression. PeerJ. 2022;10 :e13200. doi: 10.7717/peerj.13200. PubMed PMID:35378930 PubMed Central PMC8976470.
  • Nersisyan, S, Ahlers, AK, Lange, T, Wicklein, D, Galatenko, A, Bohnenberger, H, Elakad, O, Conradi, LC, Genduso, S, Maar, H, Schiecke, A, Maltseva, D, Raygorodskaya, M, Makarova, J, Schumacher, U, Tonevitsky, A. Low expression of CD24 is associated with poor survival in colorectal cancer. Biochimie. 2022;192 :91-101. doi: 10.1016/j.biochi.2021.10.004. PubMed PMID:34637894 .
  • Nersisyan, S, Zhiyanov, A, Shkurnikov, M, Tonevitsky, A. T-CoV: a comprehensive portal of HLA-peptide interactions affected by SARS-CoV-2 mutations. Nucleic Acids Res. 2022;50 (D1):D883-D887. doi: 10.1093/nar/gkab701. PubMed PMID:34396391 PubMed Central PMC8385993.

2021

  • Zhiyanov, A, Nersisyan, S, Tonevitsky, A. Hairpin sequence and structure is associated with features of isomiR biogenesis. RNA Biol. 2021;18 (sup1):430-438. doi: 10.1080/15476286.2021.1952759. PubMed PMID:34286662 PubMed Central PMC8677047.
  • Nersisyan, S, Galatenko, A, Galatenko, V, Shkurnikov, M, Tonevitsky, A. miRGTF-net: Integrative miRNA-gene-TF network analysis reveals key drivers of breast cancer recurrence. PLoS One. 2021;16 (4):e0249424. doi: 10.1371/journal.pone.0249424. PubMed PMID:33852600 PubMed Central PMC8046230.
  • Shkurnikov, M, Nersisyan, S, Jankevic, T, Galatenko, A, Gordeev, I, Vechorko, V, Tonevitsky, A. Association of HLA Class I Genotypes With Severity of Coronavirus Disease-19. Front Immunol. 2021;12 :641900. doi: 10.3389/fimmu.2021.641900. PubMed PMID:33732261 PubMed Central PMC7959787.

Contact Info

Email: stepan.nersisyan@jefferson.edu