Publications below are the result of the vibrant collaboration with brilliant people from different institutions and organizations across the globe.

2024



Lethal COVID-19 associates with RAAS-induced inflammation for multiple organ damage including mediastinal lymph nodes

Reference:

M.J. Topper, J.W. Guarnieri, J.A. Haltom, A. Chadburn, H. Cope, J. Frere, J. An, A. Borczuk, S. Sinha, J. Kim, J. Park, D. Butler, C. Meydan, J. Foox, Y. Bram, S.A. Richard, N.J. Epsi, B. Agan, J.G. Chenoweth, M.P. Simons, D. Tribble, T. Burgess, C. Dalgard, M.T. Heise, N.J. Moorman, V.K. Baxter, E.A. Madden, S.A. Taft-Benz, E.J. Anderson, W.A. Sanders, R.J. Dickmander, K. Beigel, G.A. Widjaja, K.A. Janssen, T. Lie, D.G. Murdock, A. Angelin, Y.E. Soto Albrecht, A.Z. Olali, Z. Cen, J. Dybas, W. Priebe, M.R. Emmett, S.M. Best, M. Kelsey Johnson, N.S. Trovao, K.B. Clark, V. Zaksas, R. Meller, P. Grabham, J.C. Schisler, P.M. Moraes-Vieira, S. Pollett, C.E. Mason, E. Syrkin Wurtele, D. Taylor, R.E. Schwartz, A. Beheshti, D.C. Wallace, S.B. Baylin, Lethal COVID-19 associates with RAAS-induced inflammation for multiple organ damage including mediastinal lymph nodes, Proc. Natl. Acad. Sci. U.S.A. 121 (49) e2401968121, https://doi.org/10.1073/pnas.2401968121 (2024).

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sChemNET: a deep learning framework for predicting small molecules targeting microRNA function

Reference:

Galeano D, Imrat, Haltom J, Andolino C, Yousey A, Zaksas V, Das S, Baylin SB, Wallace DC, Slack FJ, Enguita FJ, Wurtele ES, Teegarden D, Meller R, Cifuentes D, Beheshti A. sChemNET: a deep learning framework for predicting small molecules targeting microRNA function. Nat Commun. 2024 Oct 23;15(1):9149. doi: 10.1038/s41467-024-49813-w. PMID: 39443444; PMCID: PMC11500171.

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Space radiation damage rescued by inhibition of key spaceflight associated miRNAs

Reference:

McDonald JT, Kim J, Farmerie L, Johnson ML, Trovao NS, Arif S, Siew K, Tsoy S, Bram Y, Park J, Overbey E, Ryon K, Haltom J, Singh U, Enguita FJ, Zaksas V, Guarnieri JW, Topper M, Wallace DC, Meydan C, Baylin S, Meller R, Muratani M, Porterfield DM, Kaufman B, Mori MA, Walsh SB, Sigaudo-Roussel D, Mebarek S, Bottini M, Marquette CA, Wurtele ES, Schwartz RE, Galeano D, Mason CE, Grabham P, Beheshti A. Space radiation damage rescued by inhibition of key spaceflight associated miRNAs. Nat Commun. 2024 Jun 11;15(1):4825. doi: 10.1038/s41467-024-48920-y. PMID: 38862542.

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Spaceflight induces changes in gene expression profiles linked to insulin and estrogen

Reference:

Mathyk BA, Tabetah M, Karim R, Zaksas V, Kim J, Anu RI, Muratani M, Tasoula A, Singh RS, Chen YK, Overbey E, Park J, Cope H, Fazelinia H, Povero D, Borg J, Klotz RV, Yu M, Young SL, Mason CE, Szewczyk N, St Clair RM, Karouia F, Beheshti A. Spaceflight induces changes in gene expression profiles linked to insulin and estrogen. Commun Biol. 2024 Jun 11;7(1):692. doi: 10.1038/s42003-023-05213-2. PMID: 38862620.

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Aging and putative frailty biomarkers are altered by spaceflight

Reference:

Camera A, Tabetah M, Castañeda V, Kim J, Galsinh AS, Haro-Vinueza A, Salinas I, Seylani A, Arif S, Das S, Mori MA, Carano A, de Oliveira LC, Muratani M, Barker R, Zaksas V, Goel C, Dimokidis E, Taylor DM, Jeong J, Overbey E, Meydan C, Porterfield DM, Díaz JE, Caicedo A, Schisler JC, Laiakis EC, Mason CE, Kim MS, Karouia F, Szewczyk NJ, Beheshti A. Aging and putative frailty biomarkers are altered by spaceflight. Sci Rep. 2024 Jun 11;14(1):13098. doi: 10.1038/s41598-024-57948-5. PMID: 38862573.

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A comprehensive SARS-CoV-2 and COVID-19 review, Part 2: host extracellular to systemic effects of SARS-CoV-2 infection

Reference:

Narayanan SA, Jamison DA Jr, Guarnieri JW, Zaksas V, Topper M, Koutnik AP, Park J, Clark KB, Enguita FJ, Leitão AL, Das S, Moraes-Vieira PM, Galeano D, Mason CE, Trovão NS, Schwartz RE, Schisler JC, Coelho-Dos-Reis JGA, Wurtele ES, Beheshti A. A comprehensive SARS-CoV-2 and COVID-19 review, Part 2: host extracellular to systemic effects of SARS-CoV-2 infection. Eur J Hum Genet. 2024 Jan;32(1):10-20. doi: 10.1038/s41431-023-01462-1. Epub 2023 Nov 8. PMID: 37938797; PMCID: PMC10772081.

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2023



Core mitochondrial genes are down-regulated during SARS-CoV-2 infection of rodent and human hosts

Reference:

Guarnieri JW, Dybas JM, Fazelinia H, Kim MS, Frere J, Zhang Y, Soto Albrecht Y, Murdock DG, Angelin A, Singh LN, Weiss SL, Best SM, Lott MT, Zhang S, Cope H, Zaksas V, Saravia-Butler A, Meydan C, Foox J, Mozsary C, Bram Y, Kidane Y, Priebe W, Emmett MR, Meller R, Demharter S, Stentoft-Hansen V, Salvatore M, Galeano D, Enguita FJ, Grabham P, Trovao NS, Singh U, Haltom J, Heise MT, Moorman NJ, Baxter VK, Madden EA, Taft-Benz SA, Anderson EJ, Sanders WA, Dickmander RJ, Baylin SB, Wurtele ES, Moraes-Vieira PM, Taylor D, Mason CE, Schisler JC, Schwartz RE, Beheshti A, Wallace DC. Core mitochondrial genes are down-regulated during SARS-CoV-2 infection of rodent and human hosts. Sci Transl Med. 2023 Aug 9;15(708):eabq1533. doi: 10.1126/scitranslmed.abq1533. Epub 2023 Aug 9. PMID: 37556555.

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Pharmacotherapy and pulmonary fibrosis risk after SARS-CoV-2 infection – response to Guangting Zeng and Yuchi Zhou

Reference:

Adegunsoye A, Baccile R, Best TJ, Zaksas V, Zhang H, Karnik R, Patel BK, Solomonides AE, Parker WF, Solway J. Pharmacotherapy and pulmonary fibrosis risk after SARS-CoV-2 infection-response to Guangting Zeng and Yuchi Zhou. Lancet Reg Health Am. 2023 Oct 5;26:100611. doi: 10.1016/j.lana.2023.100611. PMID: 37829195; PMCID: PMC10565760.

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Pharmacotherapy and pulmonary fibrosis risk after SARS-CoV-2 infection: a prospective nationwide cohort study in the United States

Reference:

Adegunsoye A, Baccile R, Best TJ, Zaksas V, Zhang H, Karnik R, Patel BK, Solomonides AE, Parker WF, Solway J; N3C Consortium. Pharmacotherapy and pulmonary fibrosis risk after SARS-CoV-2 infection: a prospective nationwide cohort study in the United States. Lancet Reg Health Am. 2023 Aug 2;25:100566. doi: 10.1016/j.lana.2023.100566. PMID: 37564420; PMCID: PMC10410516.

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2022



Analysis of bronchoalveolar lavage fluid metatranscriptomes among patients with COVID-19 disease

Reference:

Jochum M, Lee MD, Curry K, Zaksas V, Vitalis E, Treangen T, Aagaard K, Ternus KL. Analysis of bronchoalveolar lavage fluid metatranscriptomes among patients with COVID-19 disease. Sci Rep. 2022 Dec 7;12(1):21125. doi: 10.1038/s41598-022-25463-0. PMID: 36476670; PMCID: PMC9729217.

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A comprehensive SARS-CoV-2 and COVID-19 review, Part 1: Intracellular overdrive for SARS-CoV-2 infection

Reference:

Jamison DA Jr, Anand Narayanan S, Trovão NS, Guarnieri JW, Topper MJ, Moraes-Vieira PM, Zaksas V, Singh KK, Wurtele ES, Beheshti A. A comprehensive SARS-CoV-2 and COVID-19 review, Part 1: Intracellular overdrive for SARS-CoV-2 infection. Eur J Hum Genet. 2022 Aug;30(8):889-898. doi: 10.1038/s41431-022-01108-8. Epub 2022 May 16. PMID: 35577935; PMCID: PMC9108708.

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The interplay between lncRNAs, RNA-binding proteins and viral genome during SARS-CoV-2 infection reveals strong connections with regulatory events involved in RNA metabolism and immune response

Reference:

Enguita FJ, Leitão AL, McDonald JT, Zaksas V, Das S, Galeano D, Taylor D, Wurtele ES, Saravia-Butler A, Baylin SB, Meller R, Porterfield DM, Wallace DC, Schisler JC, Mason CE, Beheshti A. The interplay between lncRNAs, RNA-binding proteins and viral genome during SARS-CoV-2 infection reveals strong connections with regulatory events involved in RNA metabolism and immune response. Theranostics. 2022 May 9;12(8):3946-3962. doi: 10.7150/thno.73268. PMID: 35664076; PMCID: PMC9131284.

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2021



Role of miR-2392 in driving SARS-CoV-2 infection

Reference:

McDonald JT, Enguita FJ, Taylor D, Griffin RJ, Priebe W, Emmett MR, Sajadi MM, Harris AD, Clement J, Dybas JM, Aykin-Burns N, Guarnieri JW, Singh LN, Grabham P, Baylin SB, Yousey A, Pearson AN, Corry PM, Saravia-Butler A, Aunins TR, Sharma S, Nagpal P, Meydan C, Foox J, Mozsary C, Cerqueira B, Zaksas V, Singh U, Wurtele ES, Costes SV, Davanzo GG, Galeano D, Paccanaro A, Meinig SL, Hagan RS, Bowman NM; UNC COVID-19 Pathobiology Consortium; Wolfgang MC, Altinok S, Sapoval N, Treangen TJ, Moraes-Vieira PM, Vanderburg C, Wallace DC, Schisler JC, Mason CE, Chatterjee A, Meller R, Beheshti A. Role of miR-2392 in driving SARS-CoV-2 infection. Cell Rep. 2021 Oct 19;37(3):109839. doi: 10.1016/j.celrep.2021.109839. Epub 2021 Sep 30. PMID: 34624208; PMCID: PMC8481092.

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