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.


Serotonin reduction in post-acute sequelae of viral infection

Wong AC, Devason AS, Umana IC, Cox TO, Dohnalová L, Litichevskiy L, Perla J, Lundgren P, Etwebi Z, Izzo LT, Kim J, Tetlak M, Descamps HC, Park SL, Wisser S, McKnight AD, Pardy RD, Kim J, Blank N, Patel S, Thum K, Mason S, Beltra JC, Michieletto MF, Ngiow SF, Miller BM, Liou MJ, Madhu B, Dmitrieva-Posocco O, Huber AS, Hewins P, Petucci C, Chu CP, Baraniecki-Zwil G, Giron LB, Baxter AE, Greenplate AR, Kearns C, Montone K, Litzky LA, Feldman M, Henao-Mejia J, Striepen B, Ramage H, Jurado KA, Wellen KE, O'Doherty U, Abdel-Mohsen M, Landay AL, Keshavarzian A, Henrich TJ, Deeks SG, Peluso MJ, Meyer NJ, Wherry EJ, Abramoff BA, Cherry S, Thaiss CA, Levy M. Cell. 2023 Oct 26; 186(22):4851-5867. doi: 10.1016/j.cell.2023.09.013. PMID: 37848036.

Read more

Mitigation of chromosome loss in clinical CRISPR-Cas9-engineered T cells

Tsuchida CA, Brandes N, Bueno R, Trinidad M, Mazumder T, Yu B, Hwang B, Chang C, Liu J, Sun Y, Hopkins CR, Parker KR, Qi Y, Hofman L, Satpathy AT, Stadtmauer EA, Cate JHD, Eyquem J, Fraietta JA, June CH, Chang HY, Ye CJ, Doudna JA. Cell. 2023 Oct 12; 186(21):4567-4585.e20. doi: 10.1016/j.cell.2023.08.041. 

Read more

TRIM11 protects against tauopathies and is down-regulated in Alzheimer's disease.

Zhang ZY, Harischandra DS, Wang R, Ghaisas S, Zhao JY, McMonagle TP, Zhu G, Lacuarta KD, Song J, Trojanowski JQ, Xu H, Lee VM, Yang X. Science. 2023 Jul 28;381(6656):eadd6696. doi: 10.1126/science.add6696. Epub 2023 Jul 28. PMID: 37499037.

Read more

In vivo hematopoietic stem cell modification by mRNA delivery

Breda L, Papp TE, Triebwasser MP, Yadegari A, Fedorky MT, Tanaka N, Abdulmalik O, Pavani G, Wang Y, Grupp SA, Chou ST, Ni H, Mui BL, Tam YK, Weissman D, Rivella S, Parhiz H. Science. 2023 Jul 28; 381(6656): 436-443. doi: 10.1126/science.ade6967. Epub 2023 Jul 27. PMID: 37499029.

Read more

HLA amino acid Mismatch-Based risk stratification of kidney allograft failure using a novel Machine learning algorithm

Dasariraju S, Gragert L, Wager GL, McCullough K, Brown NK, Kamoun M, Urbanowicz RJ. J Biomed Inform. 2023 Jun;142:104374. doi: 10.1016/j.jbi.2023.104374. Epub 2023 Apr 27.

Read more

Spatial epigenome-transcriptome co-profiling of mammalian tissues

Zhang D, Deng Y, Kukanja P, Agirre E, Bartosovic M, Dong M, Ma C, Ma S, Su G, Bao S, Liu Y, Xiao Y, Rosoklija GB, Dwork AJ, Mann JJ, Leong KW, Boldrini M, Wang L, Haeussler M, Raphael BJ, Kluger Y, Castelo-Branco G, Fan R. Nature. 2023 Apr;616(7955):113-122. doi: 10.1038/s41586-023-05795-1. Epub 2023 Mar 15.

Read more

Precision targeting of autoantigen-specific B cells in muscle-specific tyrosine kinase myasthenia gravis with chimeric autoantibody receptor T cells

Oh S, Mao X, Manfredo-Vieira S, Lee J, Patel D, Choi EJ, Alvarado A, Cottman-Thomas E, Maseda D, Tsao PY, Ellebrecht CT, Khella SL, Richman DP, O'Connor KC, Herzberg U, Binder GK, Milone MC, Basu S, Payne AS. Nat Biotechnol. 2023 Jan 19. doi: 10.1038/s41587-022-01637-z. Online ahead of print.

Read more

Chimeric antigen receptor T cells as adjuvant therapy for unresectable adenocarcinoma

Uslu U, Da T, Assenmacher CA, Scholler J, Young RM, Tchou J, June CH. Sci Adv. 2023 Jan 13;9(2):eade2526. doi: 10.1126/sciadv.ade2526. Epub 2023 Jan 11

Read more

Federated learning enables big data for rare cancer boundary detection

Pati S, Baid U, Edwards B, Sheller M, Wang SH, Reina GA, Foley P, Gruzdev A, Karkada D, Davatzikos C, Sako C, Ghodasara S, Bilello M, Mohan S, Vollmuth P, Brugnara G, Preetha CJ ... Menze B, Barnholtz-Sloan JS, Martin J, Bakas S. Nat Commun. 2022 Dec 5;13(1):7346. doi: 10.1038/s41467-022-33407-5.

Read more

Analysis of matched primary and recurrent BRCA1/2 mutation-associated tumors identifies recurrence-specific drivers

Shah JB, Pueschl D, Wubbenhorst B, Fan M, Pluta J, D'Andrea K, Hubert AP, Shilan JS, Zhou W, Kraya AA, Llop Guevara A, Ruan C, Serra V, Balmaña J, Feldman M, Morin PJ, Nayak A, Maxwell KN, Domchek SM, Nathanson KL. Nat Commun. 2022 Nov 7;13(1):6728. doi: 10.1038/s41467-022-34523-y.

Read more

Multiscale 3D genome organization underlies ILC2 ontogenesis and allergic airway inflammation

Michieletto MF, Tello-Cajiao JJ, Mowel WK, Chandra A, Yoon S, Joannas L, Clark ML, Jimenez MT, Wright JM, Lundgren P, Williams A, Thaiss CA, Vahedi G, Henao-Mejia J. Nat Immunol. 2022 Sep 1. doi: 10.1038/s41590-022-01295-y. Online ahead of print.

Read more

Diversification and shared features of tumor-binding antibody repertoires in tumor, sentinel lymph node and blood of three patients with breast cancer

Pero SC, Rosenfeld AM, Shukla GS, Mei L, Sun Y,  Meng W, Fournier DJ, Harlow SP, Robinson MK, Krag DN, Luning Prak ET, Harman BT. Clin Transl Immunology; 23 August 2022. doi: 10.1002/cti2.1409

Read the Immunome press release

Read more

HRS phosphorylation drives immunosuppressive exosome secretion and restricts CD8 + T-cell infiltration into tumors

Guan L, Wu B, Li T, Beer LA, Sharma G, Li M, Lee CN, Liu S, Yang C, Huang L, Frederick DT, Boland GM, Shao G, Svitkina TM, Cai KQ, Chen F, Dong MQ, Mills GB, Schuchter LM, Karakousis GC, Mitchell TC, Flaherty KT, Speicher DW, Chen YH, Herlyn M, Amaravadi RK, Xu X, Guo W. Nat Commun. 2022 Jul 14;13(1):4078. doi: 10.1038/s41467-022-31713-6.

Read more

Spatiotemporal multiplexed immunofluorescence imaging of living cells and tissues with bioorthogonal cycling of fluorescent probes

Ko J, Wilkovitsch M, Oh J, Kohler RH, Bolli E, Pittet MJ, Vinegoni C, Sykes DB, Mikula H, Weissleder R, Carlson JCT. Nat Biotechnol. 2022 Jun 2. doi: 10.1038/s41587-022-01339-6. Online ahead of print.

Read more

Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease

Liu H, Doke T, Guo D, Sheng X, Ma Z, Park J, Vy HMT, Nadkarni GN, Abedini A, Miao Z, Palmer M, Voight BF, Li H, Brown CD, Ritchie MD, Shu Y, Susztak K. Nat Genet. 2022 Jun 16. doi: 10.1038/s41588-022-01097-w. Online ahead of print.

Read more

Implicating effector genes at COVID-19 GWAS loci using promoter-focused Capture-C in disease-relevant immune cell types

Pahl MC, Le Coz C, Su C, Sharma P, Thomas RM, Pippin JA, Cruz Cabrera E, Johnson ME, Leonard ME, Lu S, Chesi A, Sullivan KE, Romberg N, Grant SFA, Wells AD. Genome Biol. 2022 Jun 3;23(1):125. doi: 10.1186/s13059-022-02691-1.

Read more

Partial ORF1ab Gene Target Failure with Omicron BA.2.12.1

Rodino KG, Peaper DR, Kelly BJ, Bushman F, Marques A, Adhikari H, Tu ZJ, Marrero Rolon R, Westblade LF, Green DA, Berry GJ, Wu F, Annavajhala MK, Uhlemann AC, Parikh BA, McMillen T, Jani K, Babady NE, Hahn AM, Koch RT, Grubaugh ND; Yale SARS-CoV-2 Genomic Surveillance Initiative, Rhoads DD. J Clin Microbiol. 2022 May 18:e0060022. doi: 10.1128/jcm.00600-22. Online ahead of print. PMID: 35582905

Read more

PSMA-targeting TGFβ-insensitive armored CAR T cells in metastatic castration-resistant prostate cancer: a phase 1 trial

Narayan V, Barber-Rotenberg JS, Jung IY, Lacey SF, Rech AJ, Davis MM, Hwang WT, Lal P, Carpenter EL, Maude SL, Plesa G, Vapiwala N, Chew A, Moniak M, Sebro RA, Farwell MD, Marshall A, Gilmore J, Lledo L, Dengel K, Church SE, Hether TD, Xu J, Gohil M, Buckingham TH, Yee SS, Gonzalez VE, Kulikovskaya I, Chen F, Tian L, Tien K, Gladney W, Nobles CL, Raymond HE; Prostate Cancer Cellular Therapy Program Investigators, Hexner EO, Siegel DL, Bushman FD, June CH, Fraietta JA, Haas NB. Nat Med. 2022 Mar 21. doi: 10.1038/s41591-022-01726-1. Online ahead of print.

Read more

No increase in inflammation in late-life major depression screened to exclude physical illness

Luning Prak ET, Brooks T, Makhoul W, Beer JC, Zhao L, Girelli T, Skarke C, Sheline YI. Transl Psychiatry. 2022 Mar 24;12(1):118. doi: 10.1038/s41398-022-01883-4.

Read more

Potent suppression of neuroendocrine tumors and gastrointestinal cancers by CDH17CAR T cells without toxicity to normal tissues

Feng Z, He X, Zhang X, Wu Y, Xing B, Knowles A, Shan Q, Miller S, Hojnacki T, Ma J, Katona BW, Gade TPF, Schrader J, Metz DC, June CH, Hua X. Nat Cancer. 2022 Mar 21. doi: 10.1038/s43018-022-00344-7. Online ahead of print.

Read more

Single-cell multi-omics analysis of human pancreatic islets reveals novel cellular states in type 1 diabetes

Fasolino M, Schwartz GW, Patil AR, Mongia A, Golson ML, Wang YJ, Morgan A, Liu C, Schug J, Liu J, Wu M, Traum D, Kondo A, May CL, Goldman N, Wang W, Feldman M, Moore JH, Japp AS, Betts MR, Faryabi RB, Naji A, Kaestner KH, Vahedi G. Nat Metab; 4, 284–299. Published online: 28 February 2022. doi: 10.1038/s42255-022-00531-x

Read more

Rapid manufacturing of non-activated potent CAR T cells

Ghassemi S, Durgin JS, Nunez-Cruz S, Patel J, Leferovich J, Pinzone M, Shen F, Cummins KD, Plesa G, Cantu VA, Reddy S, Bushman FD, Gill SI, O'Doherty U, O'Connor RS, Milone MC. Nat Biomed Eng. 2022 Feb;6(2):118-128. doi: 10.1038/s41551-021-00842-6. Epub 2022 Feb 21.

Read more

EBF1 nuclear repositioning instructs chromatin refolding to promote therapy resistance in T leukemic cells

Zhou Y, Petrovic J, Zhao J, Zhang W, Bigdeli A, Zhang Z, Berger SL, Pear WS, Faryabi RB. Mol Cell. Available online 18 February 2022. doi: 10.1016/j.molcel.2022.01.015

Read more