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.


TOX transcriptionally and epigenetically programs CD8+ T cell exhaustion

Khan O, Giles JR, McDonald S, Manne S, Ngiow SF, Patel KP, Werner MT, Huang AC, Alexander KA, Wu JE, Attanasio J, Yan P, George SM, Bengsch B, Staupe RP, Donahue G, Xu W, Amaravadi RK, Xu X, Karakousis GC, Mitchell TC, Schuchter LM, Kaye J, Berger SL, Wherry EJ. Nature. 2019 Jun 17. doi: 10.1038/s41586-019-1325-x. [Epub ahead of print]

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Cooperation between Constitutive and Inducible Chemokines Enables T Cell Engraftment and Immune Attack in Solid Tumors

Dangaj D, Bruand M, Grimm AJ, Ronet C, Barras D, Duttagupta PA, Lanitis E, Duraiswamy J, Tanyi JL, Benencia F, Conejo-Garcia J, Ramay HR, Montone KT, Powell Jr DJ, Gimotty PA, Facciabene A, Jackson DG, Weber JS, Rodig SJ, Hodi SF, Kandalaft LE, Irving M, Zhang L, Foukas P, Rusakiewicz S, Delorenzi M, Coukos G. Cancer Cell. 2019 Jun 10; 35(6):885-900.e10. doi: 10.1016/j.ccell.2019.05.004

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Computational staining of unlabelled tissue

Bakas S, Feldman MD. Nat Biomed Eng. 2019 June; 3(6):425-426. doi: 10.1038/s41551-019-0414-3.

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Gilteritinib induces differentiation in relapsed and refractory FLT3-mutated acute myeloid leukemia

McMahon CM, Canaani J, Rea B, Sargent RL, Qualtieri JN, Watt CD, Morrissette JJD, Carroll M, Perl AE. Blood Adv. 2019 May 28;3(10):1581-1585. doi: 10.1182/bloodadvances.2018029496

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Oncogenic Notch Promotes Long-Range Regulatory Interactions within Hyperconnected 3D Cliques

Petrovic J, Zhou Y, Fasolino M, Goldman N, Schwartz GW, Mumbach MR, Nguyen SC, Rome KS, Sela Y, Zapataro Z, Blacklow SC, Kruhlak MJ, Shi J, Aster JC, Joyce EF, Little SC, Vahedi G, Pear WS, Faryabi RB. Mol Cell. 2019 Mar 21;73(6): 1174-1190.e12. doi: 10.1016/j.molcel.2019.01.006

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Genetic meta-analysis of diagnosed Alzheimer’s disease identifies new risk loci and implicates Aβ, tau, immunity and lipid processing

Kunkle BW, Benjamin Grenier-Boley B, […] Trojanowski JQ, Van Deerlin VM, […] Wang LS, Schellenberg GD, Lambert JC, Pericak-Vance MA. Nat Genet. 2019 Mar;51(3):414-430. doi: 10.1038/s41588-019-0358-2. [Epub 2019 Feb 28]

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Longitudinal HIV sequencing reveals reservoir expression leading to decay which is obscured by clonal expansion

Pinzone MR, VanBelzen DJ, Weissman S, Bertuccio MP, Cannon L, Venanzi-Rullo E, Migueles S, Jones RB, Mota T, Joseph SB, Groen K, Pasternak AO, Hwang WT, Sherman B, Vourekas A, Nunnari G, O'Doherty U. Nat Commun. 2019 Feb 13;10(1):728. doi: 10.1038/s41467-019-08431-7.

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Metabolic rewiring of macrophages by CpG potentiates clearance of cancer cells and overcomes tumor-expressed CD47-mediated 'don't-eat-me' signal

Liu M, O'Connor RS, Trefely S, Graham K, Snyder N, Beatty GL. Nat Immunol. 2019 Jan 21. doi: 10.1038/s41590-018-0292-y. [Epub ahead of print]

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Loss of Phd2 cooperates with BRAF(V600E) to drive melanomagenesis

Liu S, Zhang G, Guo J, Chen X, Lei J, Ze K, Dong L, Dai X, Gao Y, Song D, Ecker BL, Yang R, Feltcher C, Peng K, Feng C, Chen H, Lee RX, Kerestes H, Niu J, Kumar S, Xu W, Zhang J,  Wei Z, Martin JS, Liu X, Mills G, Lu Y, Guo W, Sun L, Zhang L, Weeraratna A, Herlyn M, Wei W, Lee FS, Xu X. Nat Commun. 2018 Dec 21;9(1):5426. doi: 10.1038/s41467-018-07126-9.

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Clinical Implications of Plasma-Based Genotyping With the Delivery of Personalized Therapy in Metastatic Non-Small Cell Lung Cancer

Aggarwal C, Thompson JC, Black TA, Katz SI, Fan R, Yee SS, Chien AL, Evans TL, Bauml JM, Alley EW, Ciunci CA, Berman AT, Cohen RB, Lieberman DB, Majmundar KS, Savitch SL, Morrissette JJD, Hwang WT, Elenitoba-Johnson KSJ, Langer CJ, Carpenter EL. JAMA Oncol. 2018 Oct 11. doi: 10.1001/jamaoncol.2018.4305.

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Exosomal PD-L1 contributes to immunosuppression and is associated with anti-PD-1 response

Chen G, Huang AC, Zhang W, Zhang G, Wu M, Xu W, Yu Z, Yang J, Wang B, Sun H, Xia H, Man Q, Zhong W, Antelo LF, Wu B, Xiong X, Liu X, Guan L, Li T, Liu S, Yang R, Lu Y, Dong L, McGettigan S, Somasundaram R, Radhakrishnan R, Mills G, Lu Y, Kim J, Chen YH, Dong H, Zhao Y, Karakousis GC, Mitchell TC, Schuchter LM, Herlyn M, Wherry EJ, Xu X, Guo W.
Nature. 2018 Aug 8. doi: 10.1038/s41586-018-0392-8. [Epub ahead of print]

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Determinants of response and resistance to CD19 chimeric antigen receptor (CAR) T cell therapy of chronic lymphocytic leukemia

Fraietta JA, Lacey SF, Orlando EJ, Pruteanu-Malinici I, Gohil M, Lundh S, Boesteanu AC, Wang Y, O'Connor RS, Hwang WT, Pequignot E, Ambrose DE, Zhang C, Wilcox N, Bedoya F, Dorfmeier C, Chen F, Tian L, Parakandi H, Gupta M, Young RM, Johnson FB, Kulikovskaya I, Liu L, Xu J, Kassim SH, Davis MM, Levine BL, Frey NV, Siegel DL, Huang AC, Wherry EJ, Bitter H, Brogdon JL, Porter DL, June CH, Melenhorst JJ. Nat Med. 2018 May;24(5):563-571. doi: 10.1038/s41591-018-0010-1.

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Cellular milieu imparts distinct pathological α-synuclein strains in α-synucleinopathies

Peng C, Gathagan RJ, Covell DJ, Medellin C, Stieber A, Robinson JL, Zhang B, Pitkin RM, Olufemi MF, Luk KC, Trojanowski JQ, Lee VM. Nature 10 May 2018. doi:10.1038/s41586-018-0104-4

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Personalized cancer vaccine effectively mobilizes antitumor T cell immunity in ovarian cancer

Tanyi JL, Bobisse S, Ophir E, Tuyaerts S, Roberti A, Genolet R, Baumgartner P, Stevenson BJ, Iseli C, Dangaj D, Czerniecki B, Semilietof A, Racle J, Michel A, Xenarios I, Chiang C, Monos DS, Torigian DA, Nisenbaum HL, Michielin O, June CH, Levine BL, et al. Sci Transl Med. 2018 10(436). pii: eaao5931. doi: 10.1126/scitranslmed.aao5931.

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Ribothrypsis, a novel process of canonical mRNA decay, mediates ribosome-phased mRNA endonucleolysis

Ibrahim F, Maragkakis M, Alexiou P, Mourelatos Z. Nat Struct Mol Biol. 2018 Mar 5. doi: 10.1038/s41594-018-0042-8. [Epub ahead of print]

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Commensal Microbes Induce Serum IgA Responses that Protect against Polymicrobial Sepsis

Wilmore JR, Gaudette BT, Gomez Atria D, Hashemi T, Jones DD, Gardner CA, Cole SD, Misic AM, Beiting DP, Allman D. Cell Host Microbe. 2018 Feb 7. pii: S1931-3128(18)30040-4. doi: 10.1016/j.chom.2018.01.005. [Epub ahead of print]

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The Milan System for Reporting Salivary Gland Cytopathology

Faquin WC, Rossi ED, Baloch Z, Barkan GA, Foschini M, Kurtycz DFI, Pusztaszeri M, Vielh P. (eds.). The Milan System for Reporting Salivary Gland Cytopathology. 2018: Springer International Publishing. doi: 10.1007/978-3-319-71285-7

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Lineage-Determining Transcription Factor TCF-1 Initiates the Epigenetic Identity of T Cells

Johnson JL, Georgakilas G, Petrovic J, Kurachi M, Cai S, Harly C, Pear WS, Bhandoola A, Wherry EJ, Vahedi G. Immunity. 2018 Feb 20;48(2):243-257.e10. doi: 10.1016/j.immuni.2018.01.012.

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Microglia-mediated recovery from ALS-relevant motor neuron degeneration in a mouse model of TDP-43 proteinopathy

Spiller KJ, Restrepo CR, Khan T, Dominique MA, Fang TC, Canter RG, Roberts CJ, Miller KR, Ransohoff RM, Trojanowski JQ, Lee VM. Nat Neurosci. 2018 Feb 20. doi: 10.1038/s41593-018-0083-7. [Epub ahead of print]

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Aggressive triple negative breast cancers have unique molecular signature on the basis of mitochondrial genetic and functional defects

Guha M, Srinivasan S, Raman P, Jiang Y, Kaufman BA, Taylor D, Dong D, Chakrabarti R, Picard M, Carstens RP, Kijima Y, Feldman M, Avadhani NG. Biochim Biophys Acta. 2018 Jan 5. pii: S0925-4439(18)30003-6. doi: 10.1016/j.bbadis.2018.01.002. [Epub ahead of print]

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Chimeric Antigen Receptor T Cells in Refractory B-Cell Lymphomas

Schuster SJ, Svoboda J, Chong EA, Nasta SD, Mato AR, Anak Ö, Brogdon JL, Pruteanu-Malinici I, Bhoj V, Landsburg D, Wasik M, Levine BL, Lacey SF, Melenhorst JJ, Porter DL, June CH. N Engl J Med. 2017 Dec 10. doi: 10.1056/NEJMoa1708566. [Epub ahead of print]

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Amyloid-β plaques enhance Alzheimer's brain tau-seeded pathologies by facilitating neuritic plaque tau aggregation

He Z, Guo JL, McBride JD, Narasimhan S, Kim H, Changolkar L, Zhang B, Gathagan RJ, Yue C, Dengler C, Stieber A, Nitla M, Coulter DA, Abel T, Brunden KR, Trojanowski JQ, Lee VM. Nat Med. 2017 Dec 4. doi: 10.1038/nm.4443. [Epub ahead of print]

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Actionable mutations in canine hemangiosarcoma

Wang G, Wu M, Maloneyhuss MA, Wojcik J, Durham AC, Mason NJ, Roth DB. PLoS One. 2017 Nov 30;12(11):e0188667. doi: 10.1371/journal.pone.0188667. eCollection 2017.

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Loci associated with skin pigmentation identified in African populations

Crawford NG, Kelly DE, Hansen MEB, Beltrame MH, Fan S, Bowman SL, Jewett E, Ranciaro A, Thompson S, Lo Y, Pfeifer SP, Jensen JD, Campbell MC, Beggs W, Hormozdiari F, Mpoloka SW, Mokone GG, Nyambo T, Meskel DW, Belay G, Haut J; NISC Comparative Sequencing Program, Rothschild H, Zon L, Zhou Y1, Kovacs MA, Xu M, Zhang T, Bishop K, Sinclair J, Rivas C, Elliot E, Choi J, Li SA, Hicks B, Burgess S, Abnet C, Watkins-Chow DE, Oceana E, Song YS, Eskin E, Brown KM, Marks MS, Loftus SK, Pavan WJ, Yeager M, Chanock S, Tishkoff SA. Science. 2017 Nov 17;358(6365). pii: eaan8433. doi: 10.1126/science.aan8433. Epub 2017 Oct 12.

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High grade serous ovarian carcinomas originate in the fallopian tube

Labidi-Galy SI, Papp E, Hallberg D, Niknafs N, Adleff V, Noe M, Bhattacharya R, Novak M, Jones S, Phallen J, Hruban CA, Hirsch MS, Lin DI, Schwartz L, Maire CL, Tille JC, Bowden M, Ayhan A, Wood LD, Scharpf RB, Kurman R, Wang TL, Shih IM, Karchin R, Drapkin R, Velculescu VE. Nat Commun. 2017 Oct 23;8(1):1093. doi: 10.1038/s41467-017-00962-1.

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