Artyomov Lab Publications

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2020
...coming soon. see Pubmed in the meantime.
2019
MHC-II neoantigens shape tumour immunity and response to immunotherapy. Alspach E, Lussier DM, Miceli AP, Kizhvatov I, DuPage M, Luoma AM, Meng W, Lichti CF, Esaulova E, Vomund AN, Runci D, Ward JP, Gubin MM, Medrano RFV, Arthur CD, White JM, Sheehan KCF, Chen A, Wucherpfennig KW, Jacks T, Unanue ER, Artyomov MN, Schreiber RD.
Nature 2019 Oct;574(7780):696-701.
PMID: 31645760
Dietary Intake Regulates the Circulating Inflammatory Monocyte Pool. Jordan S, Tung N, Casanova-Acebes M, Chang C, Cantoni C, Zhang D, Wirtz TH, Naik S, Rose SA, Brocker CN, Gainullina A, Hornburg D, Horng S, Maier BB, Cravedi P, LeRoith D, Gonzalez FJ, Meissner F, Ochando J, Rahman A, Chipuk JE, Artyomov MN, Frenette PS, Piccio L, Berres ML, Gallagher EJ, Merad M.
Cell 2019 Aug 22;178(5):1102-1114
PMID: 31393266
Toxoplasma gondii infection drives conversion of NK cells into ILC1-like cells. Park E, Patel S, Wang Q, Andhey P, Zaitsev K, Porter S, Hershey M, Bern M, Plougastel-Douglas B, Collins P, Colonna M, Murphy KM, Oltz E, Artyomov M, Sibley LD, Yokoyama WM.
Elife 2019 Aug 8;8.
PMID: 31442403
Autophagy genes in myeloid cells counteract IFNγ-induced TNF-mediated cell death and fatal TNF-induced shock. Orvedahl A, McAllaster MR, Sansone A, Dunlap BF, Desai C, Wang YT, Balce DR, Luke CJ, Lee S, Orchard RC, Artyomov MN, Handley SA, Doench JG, Silverman GA, Virgin HW.
Proc Natl Acad Sci USA. 2019 Aug 13;116(33):16497-16506
PMID: 31346084
Subsets of ILC3-ILC1-like cells generate a diversity spectrum of innate lymphoid cells in human mucosal tissues. Cella M, Gamini R, Sécca C, Collins PL, Zhao S, Peng V, Robinette ML, Schettini J, Zaitsev K, Gordon W, Bando JK, Yomogida K, Cortez V, Fronick C, Fulton R, Lin LL, Gilfillan S, Flavell RA, Shan L, Artyomov MN, Bowman M, Oltz EM, Jelinsky SA, Colonna M.
Nat Immunol. 2019 Aug;20(8):980-991.
PMID: 31209406
Complete deconvolution of cellular mixtures based on linearity of transcriptional signatures. Zaitsev K, Bambouskova M, Swain A, Artyomov MN^#.
Nat Commun. 2019 May 17;10(1):2209.
PMID: 31101809
Bhlhe40 mediates tissue-specific control of macrophage proliferation in homeostasis and type 2 immunity. Jarjour NN, Schwarzkopf EA, Bradstreet TR, Shchukina I, Lin CC, Huang SC, Lai CW, Cook ME, Taneja R, Stappenbeck TS, Randolph GJ, Artyomov MN, Urban JF Jr, Edelson BT.
Nat Immunol. 2019 Jun;20(6):687-700.
PMID: 31061528
LKB1 expressed in dendritic cells governs the development and expansion of thymus-derived regulatory T cells. Pelgrom LR, Patente TA, Sergushichev A, Esaulova E, Otto F, Ozir-Fazalalikhan A, van der Zande HJP, van der Ham AJ, van der Stel S, Artyomov MN, Everts B.
Cell Res. 2019 May;29(5):406-419.
PMID: 30940876
Itaconate: the poster child of metabolic reprogramming in macrophage function. O'Neill LAJ^#, Artyomov MN^#
Nat Rev Immunol. 2019 May;19(5):273-281.
PMID: 30906654
Detection of neoantigen-specific T cells following a personalized vaccine in a patient with glioblastoma. Johanns TM, Miller CA, Liu CJ, Perrin RJ, Bender D, Kobayashi DK, Campian JL, Chicoine MR, Dacey RG, Huang J, Fritsch EF, Gillanders WE, Artyomov MN, Mardis ER, Schreiber RD, Dunn GP.
Oncoimmunology. 2019 Jan 25;8(4):e1561106.
PMID: 30705422
Interferon lambda protects the female reproductive tract against Zika virus infection. Caine EA, Scheaffer SM, Arora N, Zaitsev K, Artyomov MN, Coyne CB, Moley KH, Diamond MS.
Nat Commun. 2019 Jan 17;10(1):280
PMID: 30655513
Tissue Resident CCR2- and CCR2+ Cardiac Macrophages Differentially Orchestrate Monocyte Recruitment and Fate Specification Following Myocardial Injury. Bajpai G, Bredemeyer A, Li W, Zaitsev K, Koenig AL, Lokshina I, Mohan J, Ivey B, Hsiao HM, Weinheimer C, Kovacs A, Epelman S, Artyomov M, Kreisel D, Lavine KJ.
Circ Research 2019 Jan 18;124(2):263-278.
PMID: 30582448
2018
Transcriptome Analysis Reveals Nonfoamy Rather Than Foamy Plaque Macrophages Are Proinflammatory in Atherosclerotic Murine Models. Kim K*, Shim D*, Lee JS*, Zaitsev K*, Williams JW, Kim KW, Jang MY, Seok Jang H, Yun TJ, Lee SH, Yoon WK, Prat A, Seidah NG, Choi J, Lee SP, Yoon SH, Nam JW, Seong JK, Oh GT, Randolph GJ^#, Artyomov MN^#, Cheong C^#, Choi JH^#.
Circ Research 2018 Oct 26;123(10):1127-1142
PMID: 30359200
High-Dimensional Analysis Delineates Myeloid and Lymphoid Compartment Remodeling during Successful Immune-Checkpoint Cancer Therapy. Gubin MG*, Esaulova E*, Ward JP*, Malkova ON, Runci D, Wong P, Noguchi T, Arthur CD, Meng W, Alspach E, Medrano RFV, Fronick C, Fehlings M, Newell EW, Fulton RS, Sheehan KCF, Oh ST, Schreiber RD^#, Artyomov MN^#.
Cell Cell. 2018 Nov 1;175(4):1014-1030
PMID: 30343900
Mycobacterium tuberculosis carrying a rifampicin drug resistance mutation reprograms macrophage metabolism through cell wall lipid changes. Howard NC, Marin ND, Ahmed M, Rosa BA, Martin J, Bambouskova M, Sergushichev A, Loginicheva E, Kurepina N, Rangel-Moreno J, Chen L, Kreiswirth BN, Klein RS, Balada-Llasat JM, Torrelles JB, Amarasinghe GK, Mitreva M, Artyomov MN, Hsu FF, Mathema B, Khader SA.
Nat Microbiol. 2018 Oct ;3(10):1099-1108
PMID: 30224802
LKB1 deficiency in T cells promotes the development of gastrointestinal polyposis. Poffenberger MC, Metcalfe-Roach A, Aguilar E, Chen J, Hsu BE, Wong AH, Johnson RM, Flynn B, Samborska B, Ma EH, Gravel SP, Tonelli L, Devorkin L, Kim P, Hall A, Izreig S, Loginicheva E, Beauchemin N, Siegel PM, Artyomov MN, Lum JJ, Zogopoulos G, Blagih J, Jones RG.
Science 2018 Jul 27;361(6400):406-411
PMID: 30049881
Bhlhe40 is an essential repressor of IL-10 during Mycobacterium tuberculosis infection. Huynh JP, Lin CC, Kimmey JM, Jarjour NN, Schwarzkopf EA, Bradstreet TR, Shchukina I, Shpynov O, Weaver CT, Taneja R, Artyomov MN, Edelson BT, Stallings CL.
J Exp Med. 2018 Jul 2;215(7):1823-1838
PMID: 29773644
An Immunocompetent Mouse Model of Zika Virus Infection. Gorman MJ, Caine EA, Zaitsev K, Begley MC, Weger-Lucarelli J, Uccellini MB, Tripathi S, Morrison J, Yount BL, Dinnon KH 3rd, Rückert C, Young MC, Zhu Z, Robertson SJ, McNally KL, Ye J, Cao B, Mysorekar IU, Ebel GD, Baric RS, Best SM, Artyomov MN, Garcia-Sastre A, Diamond MS.
Cell Host Microbe 2018 May 9;23(5):672-685.e6
PMID: 29746837
Electrophilic properties of itaconate and derivatives regulate the IκBζ-ATF3 inflammatory axis. Bambouskova M, Gorvel L, Lampropoulou V, Sergushichev A, Loginicheva E, Johnson K, Korenfeld D, Mathyer ME, Kim H, Huang LH, Duncan D, Bregman H, Keskin A, Santeford A, Apte RS, Sehgal R, Johnson B, Amarasinghe GK, Soares MP, Satoh T, Akira S, Hai T, de Guzman Strong C, Auclair K, Roddy TP, Biller SA, Jovanovic M, Klechevsky E, Stewart KM, Randolph GJ, Artyomov MN^#.
Nature 2018 Apr;556(7702):501-504.
PMID: 29670287

Irg1 expression in myeloid cells prevents immunopathology during M. tuberculosis infection. Nair S, Huynh JP, Lampropoulou V, Loginicheva E, Esaulova E, Gounder AP, Boon ACM, Schwarzkopf EA, Bradstreet TR, Edelson BT, Artyomov MN, Stallings CL, Diamond MS.
J Exp Med 2018 Apr 2;215(4):1035-1045.
PMID: 29511063

Opposing Roles of Dendritic Cell Subsets in Experimental GN. Brähler S, Zinselmeyer BH, Raju S, Nitschke M, Suleiman H, Saunders BT, Johnson MW, Böhner AMC, Viehmann SF, Theisen DJ, Kretzer NM, Briseño CG, Zaitsev K, Ornatsky O, Chang Q, Carrero JA, Kopp JB, Artyomov MN, Kurts C, Murphy KM, Miner JH, Shaw AS.
J Am Soc Nephrol 2018 Jan;29(1):138-154.
PMID: 29217759
2017
Cancer immunogenomic approach to neoantigen discovery in a checkpoint blockade responsive murine model of oral cavity squamous cell carcinoma. Zolkind P, Przybylski D, Marjanovic N, Nguyen L, Lin T, Johanns T, Alexandrov A, Zhou L, Allen CT, Miceli AP, Schreiber RD, Artyomov M, Dunn GP, Uppaluri R.
Oncotarget 2017 Dec 28;9(3):4109-4119.
PMID: 29423108

Interleukin-17 limits hypoxia-inducible factor 1α and development of hypoxic granulomas during tuberculosis. Domingo-Gonzalez R, Das S, Griffiths KL, Ahmed M, Bambouskova M, Gopal R, Gondi S, Muñoz-Torrico M, Salazar-Lezama MA, Cruz-Lagunas A, Jiménez-Álvarez L, Ramirez-Martinez G, Espinosa-Soto R, Sultana T, Lyons-Weiler J, Reinhart TA, Arcos J, de la Luz Garcia-Hernandez M, Mastrangelo MA, Al-Hammadi N, Townsend R, Balada-Llasat JM, Torrelles JB, Kaplan G, Horne W, Kolls JK, Artyomov MN, Rangel-Moreno J, Zúñiga J, Khader SA.
JCI Insight 2017 Oct 5;2(19).
PMID: 28978810

TREM2 Maintains Microglial Metabolic Fitness in Alzheimer's Disease. Ulland TK, Song WM, Huang SC, Ulrich JD, Sergushichev A, Beatty WL, Loboda AA, Zhou Y, Cairns NJ, Kambal A, Loginicheva E, Gilfillan S, Cella M, Virgin HW, Unanue ER, Wang Y, Artyomov MN, Holtzman DM, Colonna M.
Cell 2017 Aug 10;170(4):649-663.
PMID: 28802038

The microbial metabolite desaminotyrosine protects from influenza through type I interferon. Steed AL, Christophi GP, Kaiko GE, Sun L, Goodwin VM, Jain U, Esaulova E, Artyomov MN, Morales DJ, Holtzman MJ, Boon ACM, Lenschow DJ, Stappenbeck TS.
Science 2017 Aug 4;357(6350):498-502.
PMID: 28774928

Genomic landscape of high-grade meningiomas. Bi WL, Greenwald NF, Abedalthagafi M, Wala J, Gibson WJ, Agarwalla PK, Horowitz P, Schumacher SE, Esaulova E, Mei Y, Chevalier A, Ducar M, Thorner AR, van Hummelen P, Stemmer-Rachamimov A, Artyomov M, Al-Mefty O, Dunn GP, Santagata S, Dunn IF, Beroukhim R.
NPJ Genom Med 2017;2. pii: 15.
PMID: 28713588

Structural basis for human respiratory syncytial virus NS1-mediated modulation of host responses. Chatterjee S, Luthra P, Esaulova E, Agapov E, Yen BC, Borek DM, Edwards MR, Mittal A, Jordan DS, Ramanan P, Moore ML, Pappu RV, Holtzman MJ, Artyomov MN, Basler CF, Amarasinghe GK, Leung DW.
Nat Microbiol 2017 Jun 30;2:17101
PMID: 28665409

The islet-resident macrophage is in an inflammatory state and senses microbial products in blood. Ferris ST, Zakharov PN, Wan X, Calderon B, Artyomov MN, Unanue ER, Carrero JA.
J Exp Med 2017 Aug 7;214(8):2369-2385.
PMID:28630088

Defining the 5΄ and 3΄ landscape of the Drosophila transcriptome with Exo-seq and RNaseH-seq. Afik S, Bartok O, Artyomov MN, Shishkin AA, Kadri S, Hanan M, Zhu X, Garber M, Kadener S.
Nucleic Acids Res 2017 Jun 20;45(11):e95.
PMID:28335028
2016
Targeting dendritic cells to accelerate T-cell activation overcomes a bottleneck in tuberculosis vaccine efficacy. Griffiths KL, Ahmed M, Das S, Gopal R, Horne W, Connell TD, Moynihan KD, Kolls JK, Irvine DJ, Artyomov MN, Rangel-Moreno J, Khader SA.
Nat Commun 2016 Dec 22;7:13894.
PMID:28004802

Endogenous Neoantigen-Specific CD8 T Cells Identified in Two Glioblastoma Models Using a Cancer Immunogenomics Approach. Johanns TM, Ward JP, Miller CA, Wilson C, Kobayashi DK, Bender D, Fu Y, Alexandrov A, Mardis ER, Artyomov MN, Schreiber RD, Dunn GP.
Cancer Immunol Res. 2016 Dec;4(12):1007-1015.
PMID:27799140

Integrating immunometabolism and macrophage diversity. Artyomov MN^#, Sergushichev A, Schilling JD^#.
Semin Immunol 2016 Oct;28(5):417-424.
PMID:27771140

The miR-17~92 microRNA Cluster Is a Global Regulator of Tumor Metabolism Izreig S, Samborska B, Johnson RM, Sergushichev A, Ma EH, Lussier C, Loginicheva E, Donayo AO, Poffenberger MC, Sagan SM, Vincent EE, Artyomov MN, Duchaine TF, Jones RG.
Cell Reports 2016 Aug 16;16(7):1915-28
PMID:27498867

End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data. Derr A, Yang C, Zilionis R, Sergushichev A, Blodgett DM, Redick S, Bortell R, Luban J, Harlan DM, Kadener S, Greiner DL, Klein A, Artyomov MN, Garber M.
Genome Res 2016 Oct;26(10):1397-1410.
PMID:27470110

Itaconate Links Inhibition of Succinate Dehydrogenase with Macrophage Metabolic Remodeling and Regulation of Inflammation. Lampropoulou V, Sergushichev A, Bambouskova M, Nair S, Vincent EE, Loginicheva E, Cervantes-Barragan L, Ma X, Huang SC, Griss T, Weinheimer CJ, Khader S, Randolph GJ, Pearce EJ, Jones RG, Diwan A, Diamond MS, Artyomov MN^#.
Cell Metabolism 2016 Jul 12;24(1):158-66.
PMID:27374498

Type 1 Interferons Induce Changes in Core Metabolism that Are Critical for Immune Function. Wu D, Sanin DE, Everts B, Chen Q, Qiu J, Buck MD, Patterson A, Smith AM, Chang CH, Liu Z, Artyomov MN, Pearce EL, Cella M, Pearce EJ.
Immunity 2016 Jun 21;44(6):1325-36.
PMID:27332732

Distinct patterns of somatic genome alterations in lung adenocarcinomas and squamous cell carcinomas. Campbell JD, Alexandrov A, Kim J, Wala J, Berger AH, Pedamallu CS, Shukla SA, Guo G, Brooks AN, Murray BA, Imielinski M, Hu X, Ling S, Akbani R, Rosenberg M, Cibulskis C, Ramachandran A, Collisson EA, Kwiatkowski DJ, Lawrence MS, Weinstein JN, Verhaak RG, Wu CJ, Hammerman PS, Cherniack AD, Getz G; Cancer Genome Atlas Research Network, Artyomov MN, Schreiber R, Govindan R, Meyerson M.
Nat Genet 2016 Jun;48(6):607-16.
PMID:27158780

GAM: a web-service for integrated transcriptional and metabolic network analysis. Sergushichev AA, Loboda AA, Jha AK, Vincent EE, Driggers EM, Jones RG, Pearce EJ, Artyomov MN^#.
Nucleic Acids Res 2016 Jul 8;44(W1):W194-200.
PMID:27098040

IL-1-induced Bhlhe40 identifies pathogenic T helper cells in a model of autoimmune neuroinflammation. Lin CC, Bradstreet TR, Schwarzkopf EA, Jarjour NN, Chou C, Archambault AS, Sim J, Zinselmeyer BH, Carrero JA, Wu GF, Taneja R, Artyomov MN, Russell JH, Edelson BT.
J Exp Med 2016 Feb 8;213(2):251-71.
PMID:26834156

Homeostatic Control of Innate Lung Inflammation by Vici Syndrome Gene Epg5 and Additional Autophagy Genes Promotes Influenza Pathogenesis. Lu Q, Yokoyama CC, Williams JW, Baldridge MT, Jin X, DesRochers B, Bricker T, Wilen CB, Bagaitkar J, Loginicheva E, Sergushichev A, Kreamalmeyer D, Keller BC, Zhao Y, Kambal A, Green DR, Martinez J, Dinauer MC, Holtzman MJ, Crouch EC, Beatty W, Boon AC, Zhang H, Randolph GJ, Artyomov MN, Virgin HW.
Cell Host Microbe 2016 Jan 13;19(1):102-13.
PMID:26764600

Autophagy Genes Enhance Murine Gammaherpesvirus 68 Reactivation from Latency by Preventing Virus-Induced Systemic Inflammation. Park S, Buck MD, Desai C, Zhang X, Loginicheva E, Martinez J, Freeman ML, Saitoh T, Akira S, Guan JL, He YW, Blackman MA, Handley SA, Levine B, Green DR, Reese TA, Artyomov MN, Virgin HW.
Cell Host Microbe 2016 Jan 13;19(1):91-101.
PMID:26764599
2015
Mitochondrial Phosphoenolpyruvate Carboxykinase Regulates Metabolic Adaptation and Enables Glucose-Independent Tumor Growth. Vincent EE, Sergushichev A, Griss T, Gingras MC, Samborska B, Ntimbane T, Coelho PP, Blagih J, Raissi TC, Choinière L, Bridon G, Loginicheva E, Flynn BR, Thomas EC, Tavaré JM, Avizonis D, Pause A, Elder DJ, Artyomov MN^#, Jones RG^#.
Mol Cell. 2015 Oct 15;60(2):195-207.
PMID:26474064
Check out our cover image for October Issue of Molecular Cell!

Tumor neoantigens: building a framework for personalized cancer immunotherapy. Gubin MM, Artyomov MN, Mardis ER, Schreiber RD.
J Clin Invest. 2015 Sep;125(9):3413-21.
PMID:26258412

Modular expression analysis reveals functional conservation between human Langerhans cells and mouse cross-priming dendritic cells. Artyomov MN, Munk A, Gorvel L, Korenfeld D, Cella M, Tung T, Klechevsky E.
J Exp Med. 2015 May 4;212(5):743-57
PMID:25918340

Network Integration of Parallel Metabolic and Transcriptional Data Reveals Metabolic Modules that Regulate Macrophage Polarization. Jha AK, Huang SC, Sergushichev A, Lampropoulou V, Ivanova Y, Loginicheva E, Chmielewski K, Stewart KM, Ashall J, Everts B, Pearce EJ, Driggers EM, Artyomov MN^#.
Immunity. 2015 Mar 17;42(3):419-30
PMID:25786174
Check out commentary by Luke O'Neill
..and our cover image for March Issue of Immunity!

Commensal microbes and interferon-λ determine persistence of enteric murine norovirus infection. Baldridge MT, Nice TJ, McCune BT, Yokoyama CC, Kambal A, Wheadon M, Diamond MS, Ivanova Y, Artyomov MN, Virgin HW.
Science. 2015 Jan 16;347(6219):266-9
PMID:25431490

Interferon-λ cures persistent murine norovirus infection in the absence of adaptive immunity. Nice TJ, Baldridge MT, McCune BT, Norman JM, Lazear HM, Artyomov MN, Diamond MS, Virgin HW.
Science. 2015 Jan 16;347(6219):269-73
PMID:25431489
2014
Checkpoint blockade cancer immunotherapy targets tumour-specific mutant antigens. Gubin MM, Zhang X, Schuster H, Caron E, Ward JP, Noguchi T, Ivanova Y, Hundal J, Arthur CD, Krebber WJ, Mulder GE, Toebes M, Vesely MD, Lam SS, Korman AJ, Allison JP, Freeman GJ, Sharpe AH, Pearce EL, Schumacher TN, Aebersold R, Rammensee HG, Melief CJ, Mardis ER, Gillanders WE, Artyomov MN, Schreiber RD.
Nature. 2014 Nov 27;515(7528):577-81
PMID:25086775

Cell-intrinsic lysosomal lipolysis is essential for alternative activation of macrophages. Huang SC, Everts B, Ivanova Y, O'Sullivan D, Nascimento M, Smith AM, Beatty W, Love-Gregory L, Lam WY, O'Neill CM, Yan C, Du H, Abumrad NA, Urban JF Jr, Artyomov MN, Pearce EL, Pearce EJ.
Nat Immunol. 2014 Sep;15(9):846-55
PMID:25086775

Gata6 regulates aspartoacylase expression in resident peritoneal macrophages and controls their survival. Gautier EL, Ivanov S, Williams JW, Huang SC, Marcelin G, Fairfax K, Wang PL, Francis JS, Leone P, Wilson DB, Artyomov MN, Pearce EJ, Randolph GJ.
J Exp Med. 2014 Jul 28;211(8):1525-31
PMID:25024137

Helminth infection reactivates latent γ-herpesvirus via cytokine competition at a viral promoter. Reese TA, Wakeman BS, Choi HS, Hufford MM, Huang SC, Zhang X, Buck MD, Jezewski A, Kambal A, Liu CY, Goel G, Murray PJ, Xavier RJ, Kaplan MH, Renne R, Speck SH, Artyomov MN, Pearce EJ, Virgin HW.
Science. 2014 Aug 1;345(6196):573-7
PMID:24968940

Tissue-resident natural killer (NK) cells are cell lineages distinct from thymic and conventional splenic NK cells. Sojka DK, Plougastel-Douglas B, Yang L, Pak-Wittel MA, Artyomov MN, Ivanova Y, Zhong C, Chase JM, Rothman PB, Yu J, Riley JK, Zhu J, Tian Z, Yokoyama WM.
Elife. 2014 Jan 1;3:e01659
PMID:24714492

TLR-driven early glycolytic reprogramming via the kinases TBK1-IKKɛ supports the anabolic demands of dendritic cell activation Everts B, Amiel E, Huang SC, Smith AM, Chang CH, Lam WY, Redmann V, Freitas TC, Blagih J, van der Windt GJ, Artyomov MN, Jones RG, Pearce EL, Pearce EJ.
Nat Immunol. 2014 Apr;15(4):323-32
PMID:24562310

Comparing the biological impact of glatiramer acetate with the biological impact of a generic Towfic F, Funt JM, Fowler KD, Bakshi S, Blaugrund E, Artyomov MN, Hayden MR, Ladkani D, Schwartz R, Zeskind B.
PLoS One. 2014 Jan 8;9(1):e83757
PMID:24421904

Targeted Chromatin Profiling Reveals Novel Enhancers in Immunoglobulin Heavy and Light Chain Loci Predeus A*, Gopalakrishnan S*, Huang Y, Tung J, Feeney AJ, Oltz EM*, Artyomov MN^#.
J Immunol. 2014 Feb 1;192(3):1064-70
PMID:24353267
Additional Online Material
2013
Unifying model for molecular determinants of the preselection Vβ repertoire Gopalakrishnan S, Majumder K, Predeus A, Huang Y, Koues OI, Verma-Gaur J, Loguercio S, Su AI, Feeney AJ, Artyomov MN, Oltz EM.
Proc Natl Acad Sci U S A. 2013 Aug 20;110(34):E3206-15. doi: 10.1073/pnas.1304048110. Epub 2013 Aug 5.
PMID:23918392

Deep sequencing of the murine IgH repertoire reveals complex regulation of nonrandom v gene rearrangement frequencies Choi NM, Loguercio S, Verma-Gaur J, Degner SC, Torkamani A, Su AI, Oltz EM, Artyomov M, Feeney AJ.
J Immunol. 2013 Sep 1;191(5):2393-402. doi: 10.4049/jimmunol.1301279. Epub 2013 Jul 29.
PMID:23898036

Defining the transcriptional and cellular landscape of type 1 diabetes in the NOD mouse Carrero JA, Calderon B, Towfic F, Artyomov MN, Unanue ER.
PLoS One. 2013;8(3):e59701. doi: 10.1371/journal.pone.0059701. Epub 2013 Mar 26.
PMID:23555752

Coreceptor affinity for MHC defines peptide specificity requirements for TCR interaction with coagonist peptide-MHC Hoerter JA, Brzostek J, Artyomov MN, Abel SM, Casas J, Rybakin V, Ampudia J, Lotz C, Connolly JM, Chakraborty AK, Gould KG, Gascoigne NR.
J Exp Med. 2013 Aug 26;210(9):1807-21. doi: 10.1084/jem.20122528. Epub 2013 Aug 12
PMID:23940257
2011
Interaction of streptavidin-based peptide-MHC oligomers (tetramers) with cell-surface TCRs Stone JD*, Artyomov MN*, Chervin AS, Chakraborty AK, Eisen HN, Kranz DM.
J Immunol. 2011 Dec 15;187(12):6281-90. doi: 10.4049/jimmunol.1101734. Epub 2011 Nov 18.
PMID:22102724

Systematic discovery of TLR signaling components delineates viral-sensing circuits Chevrier N, Mertins P, Artyomov MN, Shalek AK, Iannacone M, Ciaccio MF, Gat-Viks I, Tonti E, DeGrace MM, Clauser KR, Garber M, Eisenhaure TM, Yosef N, Robinson J, Sutton A, Andersen MS, Root DE, von Andrian U, Jones RB, Park H, Carr SA, Regev A, Amit I, Hacohen N.
Cell. 2011 Nov 11;147(4):853-67. doi: 10.1016/j.cell.2011.10.022.
PMID:22078882
2010
Polyreactivity increases the apparent affinity of anti-HIV antibodies by heteroligation. Mouquet H, Scheid JF, Zoller MJ, Krogsgaard M, Ott RG, Shukair S, Artyomov MN, Pietzsch J, Connors M, Pereyra F, Walker BD, Ho DD, Wilson PC, Seaman MS, Eisen HN, Chakraborty AK, Hope TJ, Ravetch JV, Wardemann H, Nussenzweig MC.
Nature. 2010 Sep 30;467(7315):591-5. doi: 10.1038/nature09385.
PMID:20882016

CD4 and CD8 binding to MHC molecules primarily acts to enhance Lck delivery. Artyomov MN, Lis M, Devadas S, Davis MM, Chakraborty AK.
Proc Natl Acad Sci U S A. 2010 Sep 28;107(39):16916-21. doi: 10.1073/pnas.1010568107. Epub 2010 Sep 13.
PMID:20837541

A model for genetic and epigenetic regulatory networks identifies rare pathways for transcription factor induced pluripotency. Artyomov MN, Meissner A, Chakraborty AK.
PLoS Comput Biol. 2010 May 13;6(5):e1000785. doi: 10.1371/journal.pcbi.1000785.
PMID:20485562
2009
Stochastic bimodalities in deterministically monostable reversible chemical networks due to network topology reduction. Artyomov MN, Mathur M, Samoilov MS, Chakraborty AK.
J Chem Phys. 2009 Nov 21;131(19):195103. doi: 10.1063/1.3264948.
PMID:19929080

Efficient stochastic simulation of reaction-diffusion processes via direct compilation. Lis M, Artyomov MN, Devadas S, Chakraborty AK.
Bioinformatics. 2009 Sep 1;25(17):2289-91. doi: 10.1093/bioinformatics/btp387. Epub 2009 Jul 3.
PMID:19578038
2008
T cell sensing of antigen dose governs interactive behavior with dendritic cells and sets a threshold for T cell activation. Henrickson SE, Mempel TR, Mazo IB, Liu B, Artyomov MN, Zheng H, Peixoto A, Flynn MP, Senman B, Junt T, Wong HC, Chakraborty AK, von Andrian UH.
Nat Immunol. 2008 Mar;9(3):282-91. doi: 10.1038/ni1559. Epub 2008 Jan 20.
PMID:18204450

Molecular motors interacting with their own tracks Artyomov MN, AY Morozov, Kolomeisky AB.
Physical Review E, 2008 77 (4), 040901
2007
Purely stochastic binary decisions in cell signaling models without underlying deterministic bistabilities. Artyomov MN, Das J, Kardar M, Chakraborty AK.
Proc Natl Acad Sci U S A. 2007 Nov 27;104(48):18958-63. Epub 2007 Nov 19.
PMID:18025473

Solutions of burnt-bridge models for molecular motor transport. Morozov AY, Pronina E, Kolomeisky AB, Artyomov MN.
Phys Rev E Stat Nonlin Soft Matter Phys. 2007 Mar;75(3 Pt 1):031910. Epub 2007 Mar 21.
PMID:17500729

Actin polymerization under pressure: a theoretical study. Artyomov MN, Freed KF.
J Chem Phys. 2007 Jan 14;126(2):024908.
PMID:17228974

Dynamic properties of molecular motors in burnt-bridge models Artyomov MN, AY Morozov, Pronina E, Kolomeisky AB.
Journal of Statistical Mechanics: Theory and Experiment 2007, P08002
earlier
Compressible models of equilibrium polymerization. Artyomov MN, Freed KF.
J Chem Phys. 2005 Nov 15;123(19):194906.
PMID:16321112

Thermodynamics and phase transitions of electrolytes on lattices with different discretization parameters Artyomov MN, Kolomeisky AB.
Molecular Physics 2005 103 (21-23), 2863-2872

Lattice models of ionic systems with charge asymmetry Artyomov MN, V Kobelev, Kolomeisky AB.
J Chem Phys 2003(118), 6394