PUBLICATIONS

Faculty members regularly author or co-author publications in high-tiered journals and serve in editorial board positions. Here is a selection of representative Department faculty publications that have been highlighted in the news or otherwise garnered attention.


Drug repurposing screens reveal cell-type-specific entry pathways and FDA-approved drugs active against SARS-Cov-2

Mark Dittmar, Jae Seung Lee, Kanupriya Whig, Elisha Segrist, Minghua Li, Brinda Kamalia, Lauren Castellana, Kasirajan Ayyanathan, Fabian L Cardenas-Diaz, Edward E Morrisey, Rachel Truitt, Wenli Yang, Kellie Jurado, Kirandeep Samby, Holly Ramage, David C Schultz, Sara Cherry. Drug repurposing screens reveal cell-type-specific entry pathways and FDA-approved drugs active against SARS-Cov-2. Cell Rep. 2021 Mar 23;108959. doi: 10.1016/j.celrep.2021.108959. Online ahead of print.

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Seasonal human coronavirus antibodies are boosted upon SARS-CoV-2 infection but not associated with protection

Elizabeth M Anderson, Eileen C Goodwin, Anurag Verma, Claudia P Arevalo, Marcus J Bolton, Madison E Weirick, Sigrid Gouma, Christopher M McAllister, Shannon R Christensen, JoEllen Weaver, Phillip Hicks, Tomaz B Manzoni, Oluwatosin Oniyide, Holly Ramage, Divij Mathew, Amy E Baxter, Derek A Oldridge, Allison R Greenplate, Jennifer E Wu, Cécile Alanio, Kurt D'Andrea, Oliva Kuthuru, Jeanette Dougherty, Ajinkya Pattekar, Justin Kim, Nicholas Han, Sokratis A Apostolidis, Alex C Huang, Laura A Vella, E John Wherry, Nuala J Meyer, Sara Cherry, Paul Bates, Daniel J Rader, Scott E Hensley. Cell. Available online 9 February 2021. doi: https://doi.org/10.1016/j.cell.2021.02.010

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In vitro amplification of pathogenic tau conserves disease-specific bioactive characteristics

Xu H, O'Reilly M, Gibbons GS, Changolkar L, McBride JD, Riddle DM, Zhang B, Stieber A, Nirschl J, Kim SJ, Hoxha KH, Brunden KR, Schellenberg GD, Trojanowski JQ, Lee VM. In vitro amplification of pathogenic tau conserves disease-specific bioactive characteristics. Acta Neuropathol. 2021 Feb;141(2):193-215. doi: 10.1007/s00401-020-02253-4. Epub 2021 Jan 1.

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CAR-T cell-mediated depletion of immunosuppressive tumor-associated macrophages promotes endogenous antitumor immunity and augments adoptive immunotherapy

Rodriguez-Garcia A, Lynn RC, Poussin M, Eiva MA, Shaw LC, O'Connor RS, Minutolo NG, Casado-Medrano V, Lopez G, Matsuyama T, Powell DJ Jr.  CAR-T cell-mediated depletion of immunosuppressive tumor-associated macrophages promotes endogenous antitumor immunity and augments adoptive immunotherapy. Nat Commun. 2021 Feb 9;12(1):877. doi: 10.1038/s41467-021-20893-2.

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Efficacy matters: broadening complement inhibition in COVID-19

Mastellos DC, Skendros P, Calado RT, Risitano AM, Lambris JD. Efficacy matters: broadening complement inhibition in COVID-19. Lancet Rheumatol. 2021 Feb;3(2):e95. doi: 10.1016/S2665-9913(20)30423-9. Epub 2020 Dec 14.

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ALC1 links chromatin accessibility to PARP inhibitor response in homologous recombination-deficient cells

Priyanka Verma, Yeqiao Zhou, Zhendong Cao, Peter V Deraska, Moniher Deb, Eri Arai, Weihua Li, Yue Shao, Laura Puentes, Yiwen Li, Sonali Patankar, Robert H Mach, Robert B Faryabi, Junwei Shi, Roger A Greenberg. Nat Cell Biol. 2021 Jan 18. doi: 10.1038/s41556-020-00624-3. Online ahead of print.

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Inhibitory signaling sustains a distinct early memory CD8+ T cell precursor that is resistant to DNA damage

Jonathan B Johnnidis, Yuki Muroyama, Shin Foong Ngiow, Zeyu Chen, Sasikanth Manne, Zhangying Cai, Shufei Song, Jesse M Platt, Jason M Schenkel, Mohamed Abdel-Hakeem, Jean-Christophe Beltra, Allison R Greenplate, Mohammed-Alkhatim A Ali, Kito Nzingha, Josephine R Giles, Christelle Harly, John Attanasio, Kristen E Pauken, Bertram Bengsch, Michael A Paley, Vesselin T Tomov, Makoto Kurachi, Dario A A Vignali, Arlene H Sharpe, Steven L Reiner, Avinash Bhandoola, F Bradley Johnson, E John Wherry. Sci Immunol. 2021 Jan 15;6(55):eabe3702. doi: 10.1126/sciimmunol.abe3702.

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isoCirc catalogs full-length circular RNA isoforms in human transcriptomes

Xin R, Gao Y, Gao Y, Wang R, Kadash-Edmondson KE, Liu B, Wang Y, Lin L, Xing Y. isoCirc catalogs full-length circular RNA isoforms in human transcriptomes. Nat Commun. 2021 Jan 12;12(1):266. doi: 10.1038/s41467-020-20459-8.

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Real-world integration of genomic data into the electronic health record: the PennChart Genomics Initiative

Kelsey S Lau-Min, Stephanie Byers Asher, Jessica Chen, Susan M Domchek, Michael Feldman, Steven Joffe, Jeffrey Landgraf, Virginia Speare, Lisa A Varughese, Sony Tuteja, Christine VanZandbergen, Marylyn D Ritchie, Katherine L Nathanson. Genet Med. 2020 Dec 10. doi: 10.1038/s41436-020-01056-y. Online ahead of print.

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Targeted massively parallel sequencing of mature lymphoid neoplasms: assessment of empirical application and diagnostic utility in routine clinical practice

Davis AR, Stone SL, Oran AR, Sussman RT, Bhattacharyya S, Morrissette JJD, Bagg A. Targeted massively parallel sequencing of mature lymphoid neoplasms: assessment of empirical application and diagnostic utility in routine clinical practice. Mod Pathol. 2020 Dec 12. doi: 10.1038/s41379-020-00720-7. Online ahead of print.

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Cytokine storm

Fajgenbaum DC, June CH. Cytokine storm. N Engl J Med. 2020 Dec 3;38(23):2255-2273.

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Neuronal activity modulates alpha-synuclein aggregation and spreading in organotypic brain slice cultures and in vivo

Wu Q, Shaikh MA, Meymand ES, Zhang B, Luk KC, Trojanowski JQ, Lee VM. Neuronal activity modulates alpha-synuclein aggregation and spreading in organotypic brain slice cultures and in vivo. Acta Neuropathol. 2020 Dec;140(6):831-849. doi: 10.1007/s00401-020-02227-6. Epub 2020 Oct 6.

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Acquired Cystic Kidney Disease-associated Renal Cell Carcinoma (ACKD-RCC) Harbor Recurrent Mutations in KMT2C and TSC2 Genes

Shah A, Lal P, Toorens E, Palmer MB, Schwartz L, Vergara N, Guzzo T, Nayak A. Acquired Cystic Kidney Disease-associated Renal Cell Carcinoma (ACKD-RCC) Harbor Recurrent Mutations in KMT2C and TSC2 Genes. Am J Surg Pathol. 2020 Nov;44(11):1479-1486. doi: 10.1097/PAS.0000000000001530.

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Helicobacter pylori Antigen But Not the Organism Is Occasionally Present Within Germinal Centers: Implications for Patient Management and Biology

Nelson ND, Tondon R, Fortuna D, Westerhoff M, Swanson PE, Furth E. Helicobacter pylori Antigen But Not the Organism Is Occasionally Present Within Germinal Centers: Implications for Patient Management and Biology. Am J Surg Pathol. 2020 Nov;44(11):1528-1534. doi: 10.1097/PAS.0000000000001542.

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APOE and TREM2 regulate amyloid-responsive microglia in Alzheimer's disease

Nguyen AT, Wang K, Hu G, Wang X, Miao Z, Azevedo JA, Suh E, Van Deerlin VM, Choi D, Roeder K, Li M, Lee EB. APOE and TREM2 regulate amyloid-responsive microglia in Alzheimer's disease. Acta Neuropathol. 2020 Oct;140(4):477-493. doi: 10.1007/s00401-020-02200-3. Epub 2020 Aug 25.

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Thorn-shaped astrocytes in the depth of cortical sulci in Western Pacific ALS/Parkinsonism-Dementia complex

Kovacs GG, Robinson JL, Perl DP, Lee VM, Trojanowski JQ. Thorn-shaped astrocytes in the depth of cortical sulci in Western Pacific ALS/Parkinsonism-Dementia complex. Acta Neuropathol. 2020 Oct;140(4):591-593. doi: 10.1007/s00401-020-02192-0. Epub 2020 Jul 13.

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Transdifferentiation of lymphoma into sarcoma associated with profound reprogramming of the epigenome

Zhang Q, Orlando EJ, Wang HY, Bogusz AM, Liu X, Lacey SF, Strauser HT, Nunez-Cruz S, Nejati R, Zhang P, Brooks S, Watt C, Melenhorst JJ, June CH, Schuster SJ, Wasik MA. Transdifferentiation of lymphoma into sarcoma associated with profound reprogramming of the epigenome. Blood. 2020 Oct 22;136(17):1980-1983. doi: 10.1182/blood.2020005123.

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Autosomal dominant VCP hypomorph mutation impairs disaggregation of PHF-tau

Nabil F Darwich, Jessica M Phan, Boram Kim, EunRan Suh, John D Papatriantafyllou, Lakshmi Changolkar, Aivi T Nguyen, Caroline M O'Rourke, Zhuohao He, Sílvia Porta, Garrett S Gibbons, Kelvin C Luk, Sokratis G Papageorgiou, Murray Grossman, Lauren Massimo, David J Irwin, Corey T McMillan, Ilya M Nasrallah, Camilo Toro, Geoffrey K Aguirre, Vivianna M Van Deerlin, Edward B Lee. Science; 2020 Oct 1;eaay8826. doi: 10.1126/science.aay8826. Online ahead of print.

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An integrated multi-omics approach identifies epigenetic alterations associated with Alzheimer’s disease

Raffaella Nativio, Yemin Lan, Greg Donahue, Simone Sidoli, Amit Berson, Ananth R Srinivasan, Oksana Shcherbakova, Alexandre Amlie-Wolf, Ji Nie, Xiaolong Cui, Chuan He, Li-San Wang, Benjamin A Garcia, John Q Trojanowski, Nancy M Bonini, Shelley L Berger. Nat Genet. 2020 Oct;52(10):1024-1035. doi: 10.1038/s41588-020-0696-0. Epub 2020 Sep 28.

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Stable HLA antibodies following sustained CD19+ cell depletion implicate a long-lived plasma cell source

Zhang Z, Schuster SJ, Lacey SF, Milone MC, Monos D, Bhoj VG. Stable HLA antibodies following sustained CD19+ cell depletion implicate a long-lived plasma cell source. Blood Adv. 2020 Sep 22;4(18):4292-4295. doi: 10.1182/bloodadvances.2020002435.

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Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors

Shaffer SM, Emert BL, Reyes Hueros RA, Cote C, Harmange G, Schaff DL, Sizemore AE, Gupte R, Torre E, Singh A, Bassett DS, Raj A. Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors. Cell. 2020 Aug 20;182(4):947-959.e17. doi: 10.1016/j.cell.2020.07.003. Epub 2020 Jul 30.

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Developing an interactive and illustrative laboratory management curriculum for cytopathology trainees

Marcos Lepe, Christopher Preciado, Sharon J Song, Zubair W Baloch. Diagn Cytopathol. 2020 Jul 22. doi: 10.1002/dc.24448. Online ahead of print.

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Deep immune profiling of COVID-19 patients reveals distinct immunotypes with therapeutic implications

Mathew D, Giles JR, Baxter AE, Oldridge DA, Greenplate AR, Wu JE, Alanio C, Kuri-Cervantes L, Pampena MB, D'Andrea K, Manne S, Chen Z, Huang YJ, Reilly JP, Weisman AR, Ittner CAG, Kuthuru O, Dougherty J, Nzingha K, Han N, Kim J, Pattekar A, Goodwin EC, Anderson EM, Weirick ME, Gouma S, Arevalo CP, Bolton MJ, Chen F, Lacey SF, Ramage H, Cherry S, Hensley SE, Apostolidis SA, Huang AC, Vella LA; UPenn COVID Processing Unit, Betts MR, Meyer NJ, Wherry EJ. Science. 2020 Jul 15;eabc8511. doi: 10.1126/science.abc8511. Online ahead of print.
Penn Medicine news release

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Comprehensive mapping of immune perturbations associated with severe COVID-19

Leticia Kuri-Cervantes, M Betina Pampena, Wenzhao Meng, Aaron M Rosenfeld, Caroline A G Ittner, Ariel R Weisman, Roseline S Agyekum, Divij Mathew, Amy E Baxter, Laura A Vella, Oliva Kuthuru, Sokratis A Apostolidis, Luanne Bershaw, Jeanette Dougherty, Allison R Greenplate, Ajinkya Pattekar, Justin Kim, Nicholas Han, Sigrid Gouma, Madison E Weirick, Claudia P Arevalo, Marcus J Bolton, Eileen C Goodwin, Elizabeth M Anderson, Scott E Hensley, Tiffanie K Jones, Nilam S Mangalmurti, Eline T Luning Prak, E John Wherry, Nuala J Meyer, Michael R Betts. Sci Immunol. 2020 Jul 15;5(49):eabd7114. doi: 10.1126/sciimmunol.abd7114.
Penn Medicine news release

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Mapping effector genes at lupus GWAS loci using promoter Capture-C in follicular helper T cells

Su C, Johnson ME, Torres A, Thomas RM, Manduchi E, Sharma P, Mehra P, Le Coz C, Leonard ME, Lu S, Hodge KM, Chesi A, Pippin J, Romberg N, Grant SFA, Wells AD. Mapping effector genes at lupus GWAS loci using promoter Capture-C in follicular helper T cells. Nat Commun. 2020 Jul 3;11(1):3294. doi: 10.1038/s41467-020-17089-5.

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