Publications

Espinoza-Candelaria GJ, Albert J, Sojati J, Martin JM, Michaels MG, Green M. Varicella-Zoster Virus Pretransplant Vaccination and Posttransplant Infections Among Pediatric Solid Organ Recipients in the Two-Dose Varicella Era: A Single-Center, Multi-Organ Retrospective Study. Pediatr Transplant. 2024 Aug;28(5):e14822. doi: 10.1111/petr.14822. PMID: 39054880.

Eddens T, Lue J, Sojati J, Tomani M, Dede O, Kernan K, Kietz D, Larkin A, Chong H, Coffey K. A novel splice-site mutation in NFKB1 presenting as common variable immunodeficiency and postoperative hyperinflammation responsive to anti-IL-1 therapy. J Allergy Clin Immunol Pract. 2024 Oct;12(10):2873-2876.e1. doi: 10.1016/j.jaip.2024.06.024. Epub 2024 Jun 18. PMID: 38901617; PMCID: PMC11464186.

Eddens T, Parks OB, Lou D, Fan L, Sojati J, Ramsey MJ, Schmitt L, Salgado CM, Reyes-Mugica M, Evans A, Zou HM, Oury TD, Byersdorfer C, Chen K, Williams JV. Monocyte Production of C1q Potentiates CD8⁺ T-Cell Function Following Respiratory Viral Infection. Am J Respir Cell Mol Biol. 2024 Sep;71(3):294-306. doi: 10.1165/rcmb.2024-0004OC. PMID: 38696270; PMCID: PMC11376238.

Zhang Y, Xu J, Miranda-Katz M, Sojati J, Tollefson SJ, Manni ML, Alcorn JF, Sarkar SN, Williams JV. Distinct roles for type I and type III interferons in virulent human metapneumovirus pathogenesis. PLoS Pathog. 2024 Feb 5;20(2):e1011840. doi: 10.1371/journal.ppat.1011840. PMID: 38315735; PMCID: PMC10868789.

Sojati J, Murali A, Rapsinski G, Williams JV. Do Not Throw Away Your Shot: Pilot Study in Improving Medical School Curricula Through Focused Vaccine Education. AJPM Focus. 2023 Dec 23;3(2):100178. doi: 10.1016/j.focus.2023.100178. PMID: 38312525; PMCID: PMC10835123.

Sojati J, Zhang Y, Williams JV. Clinical human metapneumovirus isolates show distinct pathogenesis and inflammatory profiles but similar CD8⁺ T cell impairment. mSphere. 2024 Jan 30;9(1):e0057023. doi: 10.1128/msphere.00570-23. Epub 2024 Jan 10. PMID: 38197640; PMCID: PMC10826344.

Sojati J, Murali A, Pressimone C, Dakroub A. A Cross-Sectional Factor Analysis of COVID-19 and Influenza Vaccination Decisions in a Racially Diverse Western Pennsylvania Community. J Prim Care Community Health. 2023 Jan-Dec;14:21501319231212287. doi: 10.1177/21501319231212287. PMID: 37994782; PMCID: PMC10668581.

Murali A, Sojati J, Levochkina M, Pressimone C, Griffith K, Fan E, Dakroub A. A Cross-Sectional Analysis of Community Perceptions of Flu and COVID-19 Vaccines at Turtle Creek Primary Care Center. Community Health Equity Res Policy. 2024 Jul;44(4):439-451. doi: 10.1177/2752535X231205665. Epub 2023 Oct 14. PMID: 37837451.

Parks OB, Eddens T, Sojati J, Lan J, Zhang Y, Oury TD, Ramsey M, Erickson JJ, Byersdorfer CA, Williams JV. Terminally exhausted CD8⁺ T cells contribute to age-dependent severity of respiratory virus infection. Immun Ageing. 2023 Aug 1;20(1):40. doi: 10.1186/s12979-023-00365-5. PMID: 37528458; PMCID: PMC10391960.

Ortega-Gonzalez P, Taylor G, Jangra RK, Tenorio R, Fernandez de Castro I, Mainou BA, Orchard RC, Wilen CB, Brigleb PH, Sojati J, Chandran K, Sachse M, Risco C, Dermody TS. Reovirus infection is regulated by NPC1 and endosomal cholesterol homeostasis. PLoS Pathog. 2022 Mar 9;18(3):e1010322. doi: 10.1371/journal.ppat.1010322. PMID: 35263388; PMCID: PMC8906592.

Sweat SC, Cheetham CEJ. Deficits in olfactory system neurogenesis in neurodevelopmental disorders. Genesis. 2024 Apr;62(2):e23590. doi: 10.1002/dvg.23590. PMID: 38490949; PMCID: PMC10990073.

Abou-Daya KI, Tieu R, Zhao D, Rammal R, Sacirbegovic F, Williams AL, Shlomchik WD, Oberbarnscheidt MH, Lakkis FG. Resident memory T cells form during persistent antigen exposure leading to allograft rejection. Sci Immunol. 2021 Mar 19;6(57):eabc8122. doi: 10.1126/sciimmunol.abc8122. PMID: 33741656; PMCID: PMC8103522.

Hughes AD, Zhao D, Dai H, Abou-Daya KI, Tieu R, Rammal R, Williams AL, Landsittel DP, Shlomchik WD, Morelli AE, Oberbarnscheidt MH, Lakkis FG. Cross-dressed dendritic cells sustain effector T cell responses in islet and kidney allografts. J Clin Invest. 2020 Jan 2;130(1):287-294. doi: 10.1172/JCI125773. PMID: 31763998; PMCID: PMC6934226.

Wang L*, Venkatesh S*, Morris M, et al. Stratification of Alzheimer’s Disease Patients Using Knowledge-Guided Unsupervised Latent Factor Clustering with Electronic Health Record Data. medRxiv. Published online 2024:2024.12.23.24319588. doi:10.1101/2024.12.23.24319588 * share co-first authorship # preprint

Xia Z, Chikersal P, Venkatesh S, Walker E, Dey A, Goel M. Longitudinal Digital Phenotyping of Multiple Sclerosis Severity Using Passively Sensed Behaviors and Ecological Momentary Assessments. medRxiv. Published online 2024:2024.11.02.24316647. doi:10.1101/2024.11.02.24316647 # preprint

Menezes MCS, Hoffmann AF, Tan ALM, Nalbandyan M, Omenn GS, Mazzotti DR, Hernández-Arango A, Visweswaran S, Venkatesh S, Mandl KD, Bourgeois FT, Lee JWK, Makmur A, Hanauer DA, Semanik MG, Kerivan LT, Hill T, Forero J, Restrepo C, Vigna M, Ceriana P, Abu-el-rub N, Avillach P, Bellazzi R, Callaci T, Gutiérrez-Sacristán A, Malovini A, Mathew JP, Morris M, Murthy VL, Buonocore TM, Parimbelli E, Patel LP, Sáez C, Samayamuthu MJ, Thompson JA, Tibollo V, Xia Z, Kohane IS, Records C for CC of C 19 by EH. The potential of Generative Pre-trained Transformer 4 (GPT-4) to analyse medical notes in three different languages: a retrospective model-evaluation study. Lancet Digit Heal. 2025;7(1):e35-e43. doi:10.1016/s2589-7500(24)00246-2

Santini T, Chen C, Zhu W, Liou JJ, Walker E, Venkatesh S, Farhat N, Sajewski A, Alkhateeb S, Saranathan M, Xia Z, Ibrahim TS. Hippocampal subfields and thalamic nuclei associations with clinical outcomes in multiple sclerosis: An ultrahigh field MRI study. Mult Scler Relat Disord. 2024;86:105520. doi:10.1016/j.msard.2024.105520

Riley C*, Venkatesh S*, Dhand A, Doshi N, Kavak K, Levit E, Perrone C, Weinstock-Guttman B, Longbrake E, Jager PD, Xia Z. Impact of the COVID-19 Pandemic on the Personal Networks and Neurological Outcomes of People With Multiple Sclerosis: Cross-Sectional and Longitudinal Case-Control Study. JMIR Public Heal Surveill. 2024;10:e45429. doi:10.2196/45429 * share co-first authorship

Zhu W, Chen C, Zhang L, Hoyt T, Walker E, Venkatesh S, Zhang F, Qureshi F, Foley JF, Xia Z. Association between serum multi-protein biomarker profile and real-world disability in multiple sclerosis. Brain Commun. 2023;6(1):fcad300. doi:10.1093/braincomms/fcad300

Levit E, Cohen I, Dahl M, Edwards K, Weinstock-Guttman B, Ishikawa T, Kavak K, Leavitt V, Nelson K, Onomichi K, Bar-Or A, Perrone C, Riley C, Venkatesh S, Jager PLD, Xia Z, Longbrake EE, Collaborative MSR to C 19 (MSReCOV). Worsening physical functioning in patients with neuroinflammatory disease during the COVID-19 pandemic. Mult Scler Relat Disord. 2022;58:103482. doi:10.1016/j.msard.2021.103482

Boorgu DSSK, Venkatesh S, Lakhani CM, Walker E, Aguerre IM, Riley C, Patel CJ, Jager PLD, Xia Z. The impact of socioeconomic status on subsequent neurological outcomes in multiple sclerosis. Mult Scler Relat Disord. 2022;65:103994. doi:10.1016/j.msard.2022.103994

Jakimovski D, Kavak KS, Longbrake EE, Levit E, Perrone CM, Bar-Or A, Benedict RH, Riley CS, Jager PLD, Venkatesh S, Walker ELS, Xia Z, Weinstock-Guttman B, Collaborative MSR to C 19 (MSReCOV). Impact of resilience, social support, and personality traits in patients with neuroinflammatory diseases during the COVID-19 pandemic. Mult Scler Relat Disord. 2022;68:104235. doi:10.1016/j.msard.2022.104235

Chikersal P, Venkatesh S, Masown K, Walker E, Quraishi D, Dey A, Goel M, Xia Z. Predicting Multiple Sclerosis Outcomes During the COVID-19 Stay-at-home Period: Observational Study Using Passively Sensed Behaviors and Digital Phenotyping. JMIR Ment Heal. 2022;9(8):e38495. doi:10.2196/38495

Wang MB, Rahmani F, Benzinger TLS, Raji CA. Edge Density Imaging Identifies White Matter Biomarkers of Late-Life Obesity and Cognition. Aging Dis. 2024 Aug 1;15(4):1899-1912. doi: 10.14336/AD.2022.1210. PMID: 37196133; PMCID: PMC11272213.

Wang M, G'Sell M, Castellano JF, Richardson RM, Ghuman A. A week in the life of the human brain: stable states punctuated by chaotic transitions. Res Sq [Preprint]. 2024 Jan 15:rs.3.rs-2752903. doi: 10.21203/rs.3.rs-2752903/v1. PMID: 37034705; PMCID: PMC10081438.

Wang MB, Boring MJ, Ward MJ, Richardson RM, Ghuman AS. Deep brain stimulation for parkinson's disease induces spontaneous cortical hypersynchrony in extended motor and cognitive networks. Cereb Cortex. 2022 Oct 8;32(20):4480-4491. doi: 10.1093/cercor/bhab496. PMID: 35136991; PMCID: PMC9574237.

Payabvash S, Palacios EM, Owen JP, Wang MB, Tavassoli T, Gerdes M, Brandes-Aitken A, Mukherjee P, Marco EJ. White Matter Connectome Correlates of Auditory Over-Responsivity: Edge Density Imaging and Machine-Learning Classifiers. Front Integr Neurosci. 2019 Mar 29;13:10. doi: 10.3389/fnint.2019.00010. PMID: 30983979; PMCID: PMC6450221.

Payabvash S, Palacios EM, Owen JP, Wang MB, Tavassoli T, Gerdes M, Brandes-Aitken A, Cuneo D, Marco EJ, Mukherjee P. White Matter Connectome Edge Density in Children with Autism Spectrum Disorders: Potential Imaging Biomarkers Using Machine-Learning Models. Brain Connect. 2019 Mar;9(2):209-220. doi: 10.1089/brain.2018.0658. PMID: 30661372; PMCID: PMC6444925.

Liu AW, Zhang YR, Chen CS, Edwards TN, Ozyaman S, Ramcke T, McKendrick LM, Weiss ES, Gillis JE, Laughlin CR, Randhawa SK, Phelps CM, Kurihara K, Kang HM, Nguyen SN, Kim J, Sheahan TD, Ross SE, Meisel M, Sumpter TL, Kaplan DH. Scratching promotes allergic inflammation and host defense via neurogenic mast cell activation. Science. 2025 Jan 31;387(6733):eadn9390. doi: 10.1126/science.adn9390. Epub 2025 Jan 31. PMID: 39883751.

Hoang SM, Kaminski N, Bhargava R, Barroso-González J, Lynskey ML, García-Expósito L, Roncaioli JL, Wondisford AR, Wallace CT, Watkins SC, James DI, Waddell ID, Ogilvie D, Smith KM, da Veiga Leprevost F, Mellacharevu D, Nesvizhskii AI, Li J, Ray-Gallet D, Sobol RW, Almouzni G, O'Sullivan RJ. Regulation of ALT-associated homology-directed repair by polyADP-ribosylation. Nat Struct Mol Biol. 2020 Dec;27(12):1152-1164. doi: 10.1038/s41594-020-0512-7. Epub 2020 Oct 12. PMID: 33046907.

Prokhorova E, Agnew T, Wondisford AR, Tellier M, Kaminski N, Beijer D, Holder J, Groslambert J, Suskiewicz MJ, Zhu K, Reber JM, Krassnig SC, Palazzo L, Murphy S, Nielsen ML, Mangerich A, Ahel D, Baets J, O'Sullivan RJ, Ahel I. Unrestrained poly-ADP-ribosylation provides insights into chromatin regulation and human disease. Mol Cell. 2021 Jun 17;81(12):2640-2655.e8. doi: 10.1016/j.molcel.2021.04.028. Epub 2021 May 20. PMID: 34019811; PMCID: PMC8221567.

Kaminski N, Wondisford AR, Kwon Y, Lynskey ML, Bhargava R, Barroso-González J, García-Expósito L, He B, Xu M, Mellacheruvu D, Watkins SC, Modesti M, Miller KM, Nesvizhskii AI, Zhang H, Sung P, O'Sullivan RJ. RAD51AP1 regulates ALT-HDR through chromatin-directed homeostasis of TERRA. Mol Cell. 2022 Nov 3;82(21):4001-4017.e7. doi: 10.1016/j.molcel.2022.09.025. Epub 2022 Oct 19. PMID: 36265488; PMCID: PMC9713952.

Lehrich BM, Delgado ER, Yasaka TM, Liu S, Cao C, Liu Y, Taheri M, Guan X, Koeppen H, Singh S, Liu JJ, Singh-Varma A, Krutsenko Y, Poddar M, Hitchens TK, Foley LM, Liang B, Rialdi A, Rai RP, Patel P, Riley M, Bell A, Raeman R, Dadali T, Luke JJ, Guccione E, Ebrahimkhani MR, Lujambio A, Chen X, Maier M, Wang Y, Broom W, Tao J, Monga SP. Precision targeting of β-catenin induces tumor reprogramming and immunity in hepatocellular cancers. Res Sq [Preprint]. 2024 Dec 12:rs.3.rs-5494074. doi: 10.21203/rs.3.rs-5494074/v1. PMID: 39711542; PMCID: PMC11661417.

Lehrich BM, Tao J, Liu S, Hirsch TZ, Yasaka TM, Cao C, Delgado ER, Guan X, Lu S, Pan L, Liu Y, Singh S, Poddar M, Bell A, Singhi AD, Zucman-Rossi J, Wang Y, Monga SP. Development of mutated β-catenin gene signature to identify CTNNB1 mutations from whole and spatial transcriptomic data in patients with HCC. JHEP Rep. 2024 Aug 20;6(12):101186. doi: 10.1016/j.jhepr.2024.101186. PMID: 39583094; PMCID: PMC11582745.

Mongia M, Yasaka TM, Liu Y, Guler M, Lu L, Bhagwat A, Behsaz B, Wang M, Dorrestein PC, Mohimani H. Fast mass spectrometry search and clustering of untargeted metabolomics data. Nat Biotechnol. 2024 Nov;42(11):1672-1677. doi: 10.1038/s41587-023-01985-4. Epub 2024 Jan 2. PMID: 38168990.

Buck TM, Zeng X, Cantrell PS, Cattley RT, Hasanbasri Z, Yates ME, Nguyen D, Yates NA, Brodsky JL. The Capture of a Disabled Proteasome Identifies Erg25 as a Substrate for Endoplasmic Reticulum Associated Degradation. Mol Cell Proteomics. 2020 Nov;19(11):1896-1909. doi: 10.1074/mcp.RA120.002050. Epub 2020 Aug 31. PubMed PMID: 32868373; PubMed Central PMCID: PMC7664122.

Koppes EA, Redel BK, Johnson MA, Skvorak KJ, Ghaloul-Gonzalez L, Yates ME, Lewis DW, Gollin SM, Wu YL, Christ SE, Yerle M, Leshinski A, Spate LD, Benne JA, Murphy SL, Samuel MS, Walters EM, Hansen SA, Wells KD, Lichter-Konecki U, Wagner RA, Newsome JT, Dobrowolski SF, Vockley J, Prather RS, Nicholls RD. A porcine model of phenylketonuria generated by CRISPR/Cas9 genome editing. JCI Insight. 2020 Oct 15;5(20). doi: 10.1172/jci.insight.141523. PubMed PMID: 33055427; PubMed Central PMCID: PMC7605535.