Eric Shifrut, PhD

Title(s)Collaborator, Business Service Ctr
SchoolChancellor/EVC/FAS
AddressLocation Required, #001
Varies CA 00000
Phone415-502-2611
ORCID ORCID Icon0000-0001-6827-0128 Additional info
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. TIM-3, LAG-3, or 2B4 gene disruptions increase the anti-tumor response of engineered T cells. Front Immunol. 2024; 15:1315283. Cianciotti BC, Magnani ZI, Ugolini A, Camisa B, Merelli I, Vavassori V, Potenza A, Imparato A, Manfredi F, Abbati D, Perani L, Spinelli A, Shifrut E, Ciceri F, Vago L, Di Micco R, Naldini L, Genovese P, Ruggiero E, Bonini C. PMID: 38510235; PMCID: PMC10953820.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    2. Modular pooled discovery of synthetic knockin sequences to program durable cell therapies. Cell. 2023 09 14; 186(19):4216-4234.e33. Blaeschke F, Chen YY, Apathy R, Daniel B, Chen AY, Chen PA, Sandor K, Zhang W, Li Z, Mowery CT, Yamamoto TN, Nyberg WA, To A, Yu R, Bueno R, Kim MC, Schmidt R, Goodman DB, Feuchtinger T, Eyquem J, Jimmie Ye C, Carnevale J, Satpathy AT, Shifrut E, Roth TL, Marson A. PMID: 37714135; PMCID: PMC10508323.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    3. High-yield genome engineering in primary cells using a hybrid ssDNA repair template and small-molecule cocktails. Nat Biotechnol. 2023 04; 41(4):521-531. Shy BR, Vykunta VS, Ha A, Talbot A, Roth TL, Nguyen DN, Pfeifer WG, Chen YY, Blaeschke F, Shifrut E, Vedova S, Mamedov MR, Chung JJ, Li H, Yu R, Wu D, Wolf J, Martin TG, Castro CE, Ye L, Esensten JH, Eyquem J, Marson A. PMID: 36008610; PMCID: PMC10065198.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansCells
    4. RASA2 ablation in T cells boosts antigen sensitivity and long-term function. Nature. 2022 09; 609(7925):174-182. Carnevale J, Shifrut E, Kale N, Nyberg WA, Blaeschke F, Chen YY, Li Z, Bapat SP, Diolaiti ME, O'Leary P, Vedova S, Belk J, Daniel B, Roth TL, Bachl S, Anido AA, Prinzing B, Ibañez-Vega J, Lange S, Haydar D, Luetke-Eversloh M, Born-Bony M, Hegde B, Kogan S, Feuchtinger T, Okada H, Satpathy AT, Shannon K, Gottschalk S, Eyquem J, Krenciute G, Ashworth A, Marson A. PMID: 36002574; PMCID: PMC9433322.
      View in: PubMed   Mentions: 39     Fields:    Translation:HumansAnimalsCells
    5. Genome-wide CRISPR screens of T cell exhaustion identify chromatin remodeling factors that limit T cell persistence. Cancer Cell. 2022 07 11; 40(7):768-786.e7. Belk JA, Yao W, Ly N, Freitas KA, Chen YT, Shi Q, Valencia AM, Shifrut E, Kale N, Yost KE, Duffy CV, Daniel B, Hwee MA, Miao Z, Ashworth A, Mackall CL, Marson A, Carnevale J, Vardhana SA, Satpathy AT. PMID: 35750052; PMCID: PMC9949532.
      View in: PubMed   Mentions: 62     Fields:    Translation:HumansAnimalsCells
    6. A functional map of HIV-host interactions in primary human T cells. Nat Commun. 2022 04 01; 13(1):1752. Hiatt J, Hultquist JF, McGregor MJ, Bouhaddou M, Leenay RT, Simons LM, Young JM, Haas P, Roth TL, Tobin V, Wojcechowskyj JA, Woo JM, Rathore U, Cavero DA, Shifrut E, Nguyen TT, Haas KM, Malik HS, Doudna JA, May AP, Marson A, Krogan NJ. PMID: 35365639; PMCID: PMC8976027.
      View in: PubMed   Mentions: 19     Fields:    Translation:HumansCells
    7. Hypoxia Is a Dominant Remodeler of the Effector T Cell Surface Proteome Relative to Activation and Regulatory T Cell Suppression. Mol Cell Proteomics. 2022 04; 21(4):100217. Byrnes JR, Weeks AM, Shifrut E, Carnevale J, Kirkemo L, Ashworth A, Marson A, Wells JA. PMID: 35217172; PMCID: PMC9006863.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    8. Efficient generation of isogenic primary human myeloid cells using CRISPR-Cas9 ribonucleoproteins. Cell Rep. 2021 05 11; 35(6):109105. Hiatt J, Cavero DA, McGregor MJ, Zheng W, Budzik JM, Roth TL, Haas KM, Wu D, Rathore U, Meyer-Franke A, Bouzidi MS, Shifrut E, Lee Y, Kumar VE, Dang EV, Gordon DE, Wojcechowskyj JA, Hultquist JF, Fontaine KA, Pillai SK, Cox JS, Ernst JD, Krogan NJ, Marson A. PMID: 33979618; PMCID: PMC8188731.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansAnimalsCells
    9. XYZeq: Spatially resolved single-cell RNA sequencing reveals expression heterogeneity in the tumor microenvironment. Sci Adv. 2021 04; 7(17). Lee Y, Bogdanoff D, Wang Y, Hartoularos GC, Woo JM, Mowery CT, Nisonoff HM, Lee DS, Sun Y, Lee J, Mehdizadeh S, Cantlon J, Shifrut E, Ngyuen DN, Roth TL, Song YS, Marson A, Chow ED, Ye CJ. PMID: 33883145; PMCID: PMC8059935.
      View in: PubMed   Mentions: 28     Fields:    Translation:AnimalsCells
    10. Functional CRISPR dissection of gene networks controlling human regulatory T cell identity. Nat Immunol. 2020 11; 21(11):1456-1466. Schumann K, Raju SS, Lauber M, Kolb S, Shifrut E, Cortez JT, Skartsis N, Nguyen VQ, Woo JM, Roth TL, Yu R, Nguyen MLT, Simeonov DR, Nguyen DN, Targ S, Gate RE, Tang Q, Bluestone JA, Spitzer MH, Ye CJ, Marson A. PMID: 32989329; PMCID: PMC7577958.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansCells
    11. Layilin augments integrin activation to promote antitumor immunity. J Exp Med. 2020 09 07; 217(9). Mahuron KM, Moreau JM, Glasgow JE, Boda DP, Pauli ML, Gouirand V, Panjabi L, Grewal R, Luber JM, Mathur AN, Feldman RM, Shifrut E, Mehta P, Lowe MM, Alvarado MD, Marson A, Singer M, Wells J, Jupp R, Daud AI, Rosenblum MD. PMID: 32539073; PMCID: PMC7478725.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsCells
    12. CRISPR screen in regulatory T cells reveals modulators of Foxp3. Nature. 2020 06; 582(7812):416-420. Cortez JT, Montauti E, Shifrut E, Gatchalian J, Zhang Y, Shaked O, Xu Y, Roth TL, Simeonov DR, Zhang Y, Chen S, Li Z, Woo JM, Ho J, Vogel IA, Prator GY, Zhang B, Lee Y, Sun Z, Ifergan I, Van Gool F, Hargreaves DC, Bluestone JA, Marson A, Fang D. PMID: 32499641; PMCID: PMC7305989.
      View in: PubMed   Mentions: 94     Fields:    Translation:HumansAnimalsCells
    13. Pooled Knockin Targeting for Genome Engineering of Cellular Immunotherapies. Cell. 2020 Apr 30; 181(3):728-744.e21. Roth TL, Li PJ, Blaeschke F, Nies JF, Apathy R, Mowery C, Yu R, Nguyen MLT, Lee Y, Truong A, Hiatt J, Wu D, Nguyen DN, Goodman D, Bluestone JA, Ye CJ, Roybal K, Shifrut E, Marson A. PMID: 32302591; PMCID: PMC7219528.
      View in: PubMed   Mentions: 94     Fields:    Translation:HumansAnimalsCells
    14. Polymer-stabilized Cas9 nanoparticles and modified repair templates increase genome editing efficiency. Nat Biotechnol. 2020 Jan; 38(1):44-49. Nguyen DN, Roth TL, Li PJ, Chen PA, Apathy R, Mamedov MR, Vo LT, Tobin VR, Goodman D, Shifrut E, Bluestone JA, Puck JM, Szoka FC, Marson A. PMID: 31819258; PMCID: PMC6954310.
      View in: PubMed   Mentions: 118     Fields:    Translation:Humans
    15. Large dataset enables prediction of repair after CRISPR-Cas9 editing in primary T cells. Nat Biotechnol. 2019 Sep; 37(9):1034-1037. Leenay RT, Aghazadeh A, Hiatt J, Tse D, Roth TL, Apathy R, Shifrut E, Hultquist JF, Krogan N, Wu Z, Cirolia G, Canaj H, Leonetti MD, Marson A, May AP, Zou J. PMID: 31359007; PMCID: PMC7388783.
      View in: PubMed   Mentions: 50     Fields:    Translation:HumansCells
    16. Molecular constraints on CDR3 for thymic selection of MHC-restricted TCRs from a random pre-selection repertoire. Nat Commun. 2019 03 04; 10(1):1019. Lu J, Van Laethem F, Bhattacharya A, Craveiro M, Saba I, Chu J, Love NC, Tikhonova A, Radaev S, Sun X, Ko A, Arnon T, Shifrut E, Friedman N, Weng NP, Singer A, Sun PD. PMID: 30833553; PMCID: PMC6399321.
      View in: PubMed   Mentions: 31     Fields:    Translation:AnimalsCells
    17. Genome-wide CRISPR Screens in Primary Human T Cells Reveal Key Regulators of Immune Function. Cell. 2018 12 13; 175(7):1958-1971.e15. Shifrut E, Carnevale J, Tobin V, Roth TL, Woo JM, Bui CT, Li PJ, Diolaiti ME, Ashworth A, Marson A. PMID: 30449619; PMCID: PMC6689405.
      View in: PubMed   Mentions: 225     Fields:    Translation:HumansCells
    18. Predicting CD4 T-cell epitopes based on antigen cleavage, MHCII presentation, and TCR recognition. PLoS One. 2018; 13(11):e0206654. Schneidman-Duhovny D, Khuri N, Dong GQ, Winter MB, Shifrut E, Friedman N, Craik CS, Pratt KP, Paz P, Aswad F, Sali A. PMID: 30399156; PMCID: PMC6219782.
      View in: PubMed   Mentions: 14     Fields:    Translation:HumansCells
    19. Reprogramming human T cell function and specificity with non-viral genome targeting. Nature. 2018 07; 559(7714):405-409. Roth TL, Puig-Saus C, Yu R, Shifrut E, Carnevale J, Li PJ, Hiatt J, Saco J, Krystofinski P, Li H, Tobin V, Nguyen DN, Lee MR, Putnam AL, Ferris AL, Chen JW, Schickel JN, Pellerin L, Carmody D, Alkorta-Aranburu G, Del Gaudio D, Matsumoto H, Morell M, Mao Y, Cho M, Quadros RM, Gurumurthy CB, Smith B, Haugwitz M, Hughes SH, Weissman JS, Schumann K, Esensten JH, May AP, Ashworth A, Kupfer GM, Greeley SAW, Bacchetta R, Meffre E, Roncarolo MG, Romberg N, Herold KC, Ribas A, Leonetti MD, Marson A. PMID: 29995861; PMCID: PMC6239417.
      View in: PubMed   Mentions: 351     Fields:    Translation:HumansAnimalsCells
    20. McPAS-TCR: a manually curated catalogue of pathology-associated T cell receptor sequences. Bioinformatics. 2017 Sep 15; 33(18):2924-2929. Tickotsky N, Sagiv T, Prilusky J, Shifrut E, Friedman N. PMID: 28481982.
      View in: PubMed   Mentions: 159     Fields:    Translation:HumansAnimals
    21. T cell receptor repertoires of mice and humans are clustered in similarity networks around conserved public CDR3 sequences. Elife. 2017 07 21; 6. Madi A, Poran A, Shifrut E, Reich-Zeliger S, Greenstein E, Zaretsky I, Arnon T, Laethem FV, Singer A, Lu J, Sun PD, Cohen IR, Friedman N. PMID: 28731407; PMCID: PMC5553937.
      View in: PubMed   Mentions: 77     Fields:    Translation:HumansAnimalsCells
    22. Specificity, Privacy, and Degeneracy in the CD4 T Cell Receptor Repertoire Following Immunization. Front Immunol. 2017; 8:430. Sun Y, Best K, Cinelli M, Heather JM, Reich-Zeliger S, Shifrut E, Friedman N, Shawe-Taylor J, Chain B. PMID: 28450864; PMCID: PMC5390035.
      View in: PubMed   Mentions: 27     Fields:    
    23. Feature selection using a one dimensional naïve Bayes' classifier increases the accuracy of support vector machine classification of CDR3 repertoires. Bioinformatics. 2017 04 01; 33(7):951-955. Cinelli M, Sun Y, Best K, Heather JM, Reich-Zeliger S, Shifrut E, Friedman N, Shawe-Taylor J, Chain B. PMID: 28073756; PMCID: PMC5860388.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansAnimalsCells
    24. Perforin-Positive Dendritic Cells Exhibit an Immuno-regulatory Role in Metabolic Syndrome and Autoimmunity. Immunity. 2015 Oct 20; 43(4):776-87. Zlotnikov-Klionsky Y, Nathansohn-Levi B, Shezen E, Rosen C, Kagan S, Bar-On L, Jung S, Shifrut E, Reich-Zeliger S, Friedman N, Aharoni R, Arnon R, Yifa O, Aronovich A, Reisner Y. PMID: 26384546.
      View in: PubMed   Mentions: 27     Fields:    Translation:AnimalsCells
    25. Tracking global changes induced in the CD4 T-cell receptor repertoire by immunization with a complex antigen using short stretches of CDR3 protein sequence. Bioinformatics. 2014 Nov 15; 30(22):3181-8. Thomas N, Best K, Cinelli M, Reich-Zeliger S, Gal H, Shifrut E, Madi A, Friedman N, Shawe-Taylor J, Chain B. PMID: 25095879; PMCID: PMC4221123.
      View in: PubMed   Mentions: 57     Fields:    Translation:AnimalsCellsPHPublic Health
    26. T-cell receptor repertoires share a restricted set of public and abundant CDR3 sequences that are associated with self-related immunity. Genome Res. 2014 Oct; 24(10):1603-12. Madi A, Shifrut E, Reich-Zeliger S, Gal H, Best K, Ndifon W, Chain B, Cohen IR, Friedman N. PMID: 25024161; PMCID: PMC4199372.
      View in: PubMed   Mentions: 94     Fields:    Translation:AnimalsCells
    27. CD4(+) T Cell-Receptor Repertoire Diversity is Compromised in the Spleen but Not in the Bone Marrow of Aged Mice Due to Private and Sporadic Clonal Expansions. Front Immunol. 2013; 4:379. Shifrut E, Baruch K, Gal H, Ndifon W, Deczkowska A, Schwartz M, Friedman N. PMID: 24312094; PMCID: PMC3832891.
      View in: PubMed   Mentions: 18     Fields:    
    28. CNS-specific immunity at the choroid plexus shifts toward destructive Th2 inflammation in brain aging. Proc Natl Acad Sci U S A. 2013 Feb 05; 110(6):2264-9. Baruch K, Ron-Harel N, Gal H, Deczkowska A, Shifrut E, Ndifon W, Mirlas-Neisberg N, Cardon M, Vaknin I, Cahalon L, Berkutzki T, Mattson MP, Gomez-Pinilla F, Friedman N, Schwartz M. PMID: 23335631; PMCID: PMC3568380.
      View in: PubMed   Mentions: 130     Fields:    Translation:AnimalsCells
    29. Monitoring the dynamics of primary T cell activation and differentiation using long term live cell imaging in microwell arrays. Lab Chip. 2012 Dec 07; 12(23):5007-15. Zaretsky I, Polonsky M, Shifrut E, Reich-Zeliger S, Antebi Y, Aidelberg G, Waysbort N, Friedman N. PMID: 23072772.
      View in: PubMed   Mentions: 34     Fields:    Translation:AnimalsCells
    30. Dynamic response diversity of NFAT isoforms in individual living cells. Mol Cell. 2013 Jan 24; 49(2):322-30. Yissachar N, Sharar Fischler T, Cohen AA, Reich-Zeliger S, Russ D, Shifrut E, Porat Z, Friedman N. PMID: 23219532.
      View in: PubMed   Mentions: 61     Fields:    Translation:AnimalsCells
    31. Chromatin conformation governs T-cell receptor Jβ gene segment usage. Proc Natl Acad Sci U S A. 2012 Sep 25; 109(39):15865-70. Ndifon W, Gal H, Shifrut E, Aharoni R, Yissachar N, Waysbort N, Reich-Zeliger S, Arnon R, Friedman N. PMID: 22984176; PMCID: PMC3465372.
      View in: PubMed   Mentions: 49     Fields:    Translation:AnimalsCells