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2025 Computational Sciences Publications

2025 Publications:

  1. Chari A, Hernan AE, Mahoney JM, Thornton R, Tahir MZ, Tisdall MM, Scott RC. Single unit-derived connectivity networks in tuberous sclerosis complex reveal propensity for network hypersynchrony driven by tuber-tuber interactions. Sci Rep. 2024;14(1):31654. PMID: 39738230; PMCID: PMC11686100.
    https://libkey.io/libraries/3075/39738230
  2. Saadaoui M, Djekidel MN, Murugesan S, Kumar M, Elhag D, Singh P, Kabeer BSA, Marr AK, Kino T, Brummaier T, McGready R, Nosten F, Chaussabel D, Terranegra A, Al Khodor S. Exploring the composition of placental microbiome and its potential origin in preterm birth. Front Cell Infect Microbiol. 2024;14:1486409. PMID: 39885963; PMCID: PMC11779731.
    https://libkey.io/libraries/3075/39885963
  3. Abraham DJ, Black CM, Denton CP, Distler JHW, Domsic R, Feghali-Bostwick C, Gourh P, Hinchcliff M, Kolling Ft, Kuwana M, Lafyatis R, Landegren U, Mahoney JM, Martin J, Matucci-Cerinic M, McMahan ZH, Mora AL, Mouthon L, Rabinovitch M, Rojas M, Rubin K, Trojanowska M, Varga J, Whitfield ML, Gabrielli A, Krieg T. An international perspective on the future of systemic sclerosis research. Nat Rev Rheumatol. 2025;21(3):174-87. PMID: 39953141. https://libkey.io/libraries/3075/39953141

  4. Adli M, Przybyla L, Burdett T, Burridge PW, Cacheiro P, Chang HY, Engreitz JM, Gilbert LA, Greenleaf WJ, Hsu L, Huangfu D, Hung LH, Kundaje A, Li S, Parkinson H, Qiu X, Robson P, Schürer SC, Shojaie A, Skarnes WC, Smedley D, Studer L, Sun W, Vidović D, Vierbuchen T, White BS, Yeung KY, Yue F, Zhou T, The MorPhiC Consortium. MorPhiC Consortium: towards functional characterization of all human genes. Nature. 2025;638(8050):351-9. PMID: 39939790. https://libkey.io/libraries/3075/39939790

  5. Delorme AE, Poirion OB, Lebreton L, le Gac PY, Kāne K, Royer SJ. A year-long field study of buried plastics reveals underestimation of plastic pollution on Hawaiian beaches. Mar Pollut Bull. 2025;214:117712. PMID: 40020394. https://libkey.io/libraries/3075/40020394

  6. Leclair NK, Brugiolo M, Park S, Devoucoux M, Urbanski L, Angarola BL, Yurieva M, Anczuków O. Antisense oligonucleotide-mediated TRA2β poison exon inclusion induces the expression of a lncRNA with anti-tumor effects. Nat Commun. 2025;16(1):1670. PMID: 39955311; PMCID: PMC11829967. https://libkey.io/libraries/3075/39955311

  7. Kabeer BAK, Subba B, Rinchai D, Toufiq M, Khan T, Yurieva M, Chaussabel D. From gene modules to gene markers: an integrated AI-human approach selects CD38 to represent plasma cell-associated transcriptional signatures. Front Med (Lausanne). 2025;12:1510431. PMID: 40144871; PMCID: PMC11936944. https://libkey.io/libraries/3075/40144871

  8. Khalife MR, Villarin C, Ruiz JM, McClelland SA, Rabbo KA, Mahoney JM, Scott RC, Hernan AE. Melanocortin 4 Receptor-Dependent Mechanism of ACTH in Preventing Anxiety-Like Behaviors and Normalizing Astrocyte Proteins after Early Life Seizures. eNeuro. 2025;12(3):ENEURO.0564-24.2025. PMID: 40015967; PMCID: PMC11897861. https://libkey.io/libraries/3075/40015967

  9. Alfaki M, Toufiq M, Kaavya S, Mathayan M, Palaniappan AN, Deenadayalan A, Bethunaickan R, Boughorbel S, Zerbib Y, Rinchai D, Garand M, Chaussabel D, Kabeer BSA. Deciphering the Role of Kruppel-like Factor 9 in Sepsis and Immunity: Perspectives from Joint Collective Omics Data and a Literature Review. Texila Int J Public Health. 2025;13(1). PMID: 10.21522/TIJPH.2013.13.01.Art092. https://libkey.io/libraries/3075/10.21522/TIJPH.2013.13.01.Art092

  10. Gunes I, Bernstein EJ, Cowper SE, Panse G, Pradhan N, Camacho LD, Page N, Bundschuh E, Williams A, Carns M, Aren K, Fantus S, Volkmann ER, Bukiri H, Correia C, Kolachalama VB, Wilson FP, Mawe S, Mahoney JM, Hinchcliff M. Neural network analysis as a novel skin outcome in a trial of belumosudil in patients with systemic sclerosis. Arthritis Res Ther. 2025;27(1):85. PMID: 40217251; PMCID: PMC11987334. https://libkey.io/libraries/3075/40217251

  11. Ahmad F, Uzair SA, Lakshmanan AP, Alabduljabbar S, Ahmed SH, Kabeer BSA, Marr AK, Kino T, Brummaier T, McGready R, Nosten F, Chaussabel D, Khodor SA, Terranegra A. Placental and Cord Blood DNA Methylation Changes Associated With Gestational Diabetes Mellitus in a Marginalized Population: The Untold Role of Saturated Fats. Mol Nutr Food Res. 2025;69(12):e70058. PMID: 40270325; PMCID: PMC12189174. https://libkey.io/libraries/3075/40270325

  12. Cabel CR, Guzman BA, Alizadeh E, Li S, Holberg C, Wichaidit C, Cusanovich DA, Paek AL, Thatcher GRJ, Van Doorslaer K, Nargi RS, Sutton RE, Suryadevara N, Crowe JE, Jr., Carnahan RH, Campos SK, Thorne CA. Cell-based high-content approach for SARS-CoV-2 neutralization identifies unique monoclonal antibodies and PI3K pathway inhibitors. Front Cell Dev Biol. 2025;13:1538934. PMID: 40486909; PMCID: PMC12142043. https://libkey.io/libraries/3075/40486909

  13. Ravera F, Dameri M, Lombardo I, Stabile M, Becherini P, Fallani N, Scarsi C, Cigolini B, Gentilcore G, Domnich A, Zullo L, Cella E, Francia G, Montanari E, Orsi A, Bellodi A, Ferrando F, Rinchai D, Ballerini F, Bruzzone B, Chaussabel D, Grivel JC, Genova C, Lemoli RM, Bedognetti D, Ballestrero A, Ferrando L, Zoppoli G. Biological modifications of the immune response to COVID-19 vaccine in patients treated with rituximab and immune checkpoint inhibitors. Cell Rep. 2025;44(7):115838. PMID: 40543041. https://libkey.io/libraries/3075/40543041

  14. Scott RC, Hsieh J, McTague A, Mahoney JM, Christian-Hinman CA. Merritt-Putnam Symposium | Developmental and Epileptic Encephalopathies-Current Concepts and Novel Approaches. Epilepsy Curr. 2025;25(3):229-35. PMID: 40161506; PMCID: PMC11948268. https://libkey.io/libraries/3075/40161506

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