2024

Ghukasyan L, Khachatryan G, Sirunyan T, Minasyan A, Hakobyan S, Chavushyan A, Hayrapetyan V, Ghazaryan H, Martirosyan G, Mkrtchyan G, Vardanyan V, Mukuchyan V, Davidyants A, Zakharyan R, Arakelyan A. Genewise detection of variants in MEFV gene using nanopore sequencing. Front Genet. 2024 Nov 29;15:1493295.
‍

Wahis J, Akkaya C, Kirunda AM, Mak A, Zeise K, Verhaert J, Gasparyan H, Hovhannisyan S, Holt MG. The astrocyte α1A-adrenoreceptor is a key component of the neuromodulatory system in mouse visual cortex. Glia. 2024 Nov;72(11):1955-1973.
‍

Martirosyan A, Ansari R, Pestana F, Hebestreit K, Gasparyan H, Aleksanyan R, Hnatova S, Poovathingal S, Marneffe C, Thal DR, Kottick A, Hanson-Smith VJ, Guelfi S, Plumbly W, Belgard TG, Metzakopian E, Holt MG. Unravelling cell type-specific responses to Parkinson’s Disease at single cell resolution Nat Commun. Mol Neurodegener. 2024 Mar 25;19(1):28.
‍

Bielefeld P, Martirosyan A, Martín-Suárez S, Apresyan A, Meerhoff GF, Pestana F, Poovathingal S, Reijner N, Koning W, Clement RA, Van der Veen I, Toledo EM, Polzer O, Durá I, Hovhannisyan S, Nilges BS, Bogdoll A, Kashikar ND, Lucassen PJ, Belgard TG, Encinas JM, Holt MG, Fitzsimons CP. Traumatic brain injury promotes neurogenesis at the cost of astrogliogenesis in the adult hippocampus of male mice. Nat Commun. 2024 Jun 18;15(1):5222.
‍

Turnbull K, Paternoga H, von der Weth E, Egorov AA, Pochopien AA, Zhang Y, et al. The ABCF ATPase New1 resolves translation termination defects associated with specific tRNAArg and tRNALys isoacceptors in the P site. Nucleic Acids Res. 2024;52:12005–20.
‍

Davitavyan S, Martirosyan G, Mkrtchyan G, Chavushyan A, Melkonyan A, Ghazaryan H, Binder H, Arakelyan A: Integrated analysis of -omic landscapes in breast cancer subtypes. F1000Research. 2024;13(564).
‍

Hakobyan A, Meyenberg M, Vardazaryan N, Hancock J, Vulliard L, Loizou JI, et al. Pan-cancer analysis of the interplay between mutational signatures and cellular signaling. iScience. 2024;27:109873.
‍

Konecny T, Asatryan A, Nikoghosyan M, Binder H. Unveiling Iso- and Aniso-Hydric Disparities in Grapevine—A Reanalysis by Transcriptome Portrayal Machine Learning. Plants 2024, 13(17):2501.
‍

Hakobyan M, Binder H, Arakelyan A. Pan-canceranalysis of telomere maintenance mechanisms. Journal of Biological Chemistry.2024;300.

Schmidt M․, Avagyan S․, Reiche K., Binder B., Loeffler-Wirth H. (2024). A Spatial Transcriptomics Browser for Discovering Gene Expression Landscapes across Microscopic Tissue Sections. Current Issues in Molecular Biology. 2024, 46(5), 4701-4720.

Arakelyan A, Avagyan S, Kurnosov A, Mkrtchyan T, Mkrtchyan G, Zakharyan R, R Mayilyan K, Binder H. Temporal changes of gene expression in health, schizophrenia, bipolar disorder, and major depressive disorder. Schizophrenia. 2024;10.

2023

Staroverov V, Nersisyan S, Galatenko A, Alekseev D, Lukashevich S, Polyakov F, Anisimov N, Tonevitsky A. Development of a novel mathematical model that explains SARS-CoV-2 infection dynamics in Caco-2 cells. PeerJ. 2023 Feb 1;11:e14828.
‍

Konecny T, Nikoghosyan M, Binder H. Machine learning extracts marks of thiamine’s role in cold acclimation in the transcriptome of Vitis vinifera. Front Plant Sci. 2023;14:1303542.

Dong Y, Duan S, Xia Q, Liang Z, Dong X, Margaryan K, Musayev M, Goryslavets S, Zdunić G, Bert PF, Lacombe T, Maul E, Nick P, Bitskinashvili K, Bisztray GD, Drori E, De Lorenzis G, Cunha J, Popescu CF, Arroyo-Garcia R, Arnold C, Ergül A, Zhu Y, Ma C, Wang S, Liu S, Tang L, Wang C, Li D, Pan Y, Li J, Yang L, Li X, Xiang G, Yang Z, Chen B, Dai Z, Wang Y, Arakelyan A, et al. Dual domestications and origin of traits in grapevine evolution. 2023 Mar 3;379(6635):892-901
‍

Everest-Dass A, Nersisyan S, Maar H, Novosad V, Schröder-Schwarz J, Freytag V, et al. Spontaneous metastasis xenograft models link CD44 isoform 4 to angiogenesis, hypoxia, EMT and mitochondria-related pathways in colorectal cancer. Mol Oncol. 2024;18.

Hakobyan S, Stepanyan A, Nersisyan L, Binder H, Arakelyan A. PSF toolkit: an R package for pathway curation and topology-aware analysis. Front Genet. 2023;14:1264656.

Ashekyan O, Shahbazyan N, Bareghamyan Y, Kudryavzeva A, Mandel D, Schmidt M,...Binder H. Transcriptomic Maps of Colorectal Liver Metastasis: Machine Learning of Gene Activation Patterns and Epigenetic Trajectories in Support of Precision Medicine. Cancers 2023, Vol 15, Page 3835. 2023;15:3835.

Avagyan S, Binder H. Subtyping or not subtyping—Quo vadis for precision medicine of colorectal cancer. Transl Cancer Res. 2023;12:1067–72.

Huch S, Nersisyan L, Ropat M, Barrett D, Wu M, Wang J, et al. Atlas of mRNA translation and decay for bacteria. Nature Microbiology 2023 8:6. 2023;8:1123–36.

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. https://doi.org/10.1093/BIOINFORMATICS/BTAD051.

Magaryan K, Nikogհosyan M, Baloyan A, Gasoyan H, Hovhannisyan E, Galstyan L, ... Binder H, Machine learned-based visualization of the diversity of grapevine genomes worldwide and in Armenia using SOMmelier. BIO Web Conf. 2023, 68, 01009.

Shkurnikov M, Nersisyan S, Averinskaya D, Chekova M, Polyakov F, Titov A, et al. HLA-A*01:01 allele diminishing in COVID-19 patients population associated with non-structural epitope abundance in CD8+ T-cell repertoire. PeerJ. 2023;11:e14707.

2022

Avetyan D, Hakobyan S, Nikoghosyan M, Ghukasyan L, Khachatryan G, Sirunyan T, Muradyan N, Zakharyan R, Chavushyan A, Hayrapetyan V, Hovhannisyan A, Mohamed Bakhash SA, Jerome KR, Roychoudhury P, Greninger AL, Niazyan L, Davidyants M, Melik-Andreasyan G, Sargsyan S, Nersisyan L, Arakelyan A. Molecular Analysis of SARS-CoV-2 Lineages in Armenia Viruses. 2022 May 17;14(5):1074.

Nersisyan S, Gorbonos A, Makhonin A, Zhiyanov A, Shkurnikov M, Tonevitsky A. isomiRTar: a comprehensive portal of pan-cancer 50-isomiR targeting. PeerJ. 2022;10:e14205.

Loeffler-Wirth H, Rade M, Arakelyan A, Kreuz M, Loeffler M, Koehl U, Reiche K, Binder H. Transcriptional states of CAR-T infusion relate to neurotoxicity – lessons from high-resolution single-cell SOM expression portraying. Front Immunol. 2022;13:5395.

Binder H, Schmidt M, Hopp L, Davitavyan S, Arakelyan A, Loeffler-Wirth H. Integrated Multi-Omics Maps of Lower-Grade Gliomas. Cancers 2022, Vol 14, Page 2797. 2022;14:2797.

Nersisyan S, Zhiyanov A, Zakharova M, Ishina I, Kurbatskaia I, Mamedov A, et al. Alterations in SARS-CoV-2 Omicron and Delta peptides presentation by HLA molecules. PeerJ. 2022;10:e13354.

Nikoghosyan M, Loeffler-Wirth H, Davidavyan S, Binder H, Arakelyan A. Projection of High-Dimensional Genome-Wide Expression on SOM Transcriptome Landscapes. BioMedInformatics 2022, Vol 2, Pages 62-76. 2022;2:62–76.

Loeffler-Wirth H, Hopp L, Schmidt M, Zakharyan R, Arakelyan A, Binder H. The Transcriptome and Methylome of the Developing and Aging Brain and Their Relations to Gliomas and Psychological Disorders. Cells 2022, Vol 11, Page 362. 2022;11:362.

Goukassian D, Arakelyan A, Brojakowska A, Bisserier M, Hakobyan S, Hadri L, et al. Space flight associated changes in astronauts’ plasma-derived small extracellular vesicle microRNA: Biomarker identification. Clin Transl Med. 2022;12:e845.

2021

Schmidt M, Arshad M, Bernhart SH, Hakobyan S, Arakelyan A, Loeffler-Wirth H, Binder H. The Evolving Faces of the SARS-CoV-2 Genome. Viruses 2021, Vol 13, Page 1764. 2021;13:1764.

Willscher E, Hopp L, Kreuz M, Schmidt M, Hakobyan S, Arakelyan A... Binder H. High-Resolution Cartography of the Transcriptome and Methylome Landscapes of Diffuse Gliomas. Cancers 2021, Vol 13, Page 3198. 2021;13:3198.

Al-Sanea MM, Chilingaryan G, Abelyan N, Sargsyan A, Hovhannisyan S, Gasparyan H, et al. Identification of Novel Potential VEGFR-2 Inhibitors Using a Combination of Computational Methods for Drug Discovery. Life 2021, Vol 11, Page 1070. 2021;11:1070.

PUBLICATIONS

2024

2023

2022

2021