Selected Publications

All Publications
Highlighted Publications
Highlighted Reviews
bioRxiv Publications

All Publications

2022

Basic principles of neuroimmunology.Yoshida TM, Wang A, Hafler DA. Semin Immunopathol. 2022 Jun 22; 2022 Jun 22. PMID: 35732977.
Fatty Acid Metabolism and T Cells in Multiple Sclerosis.Pompura SL, Hafler DA, Dominguez-Villar M. Front Immunol. 2022; 2022 May 4. PMID: 35603182.
Population genetics meets single-cell sequencing.Sumida TS, Hafler DA. Science. 2022 Apr 8; 2022 Apr 7. PMID: 35389792.
Type I interferon transcriptional network regulates expression of coinhibitory receptors in human T cells.Sumida TS, Dulberg S, Schupp JC, Lincoln MR, Stillwell HA, Axisa PP, Comi M, Unterman A, Kaminski N, Madi A, Kuchroo VK, Hafler DA. Nat Immunol. 2022 Apr; 2022 Mar 17. PMID: 35301508.
Dissection of artifactual and confounding glial signatures by single-cell sequencing of mouse and human brain.Marsh SE, Walker AJ, Kamath T, Dissing-Olesen L, Hammond TR, de Soysa TY, Young AMH, Murphy S, Abdulraouf A, Nadaf N, Dufort C, Walker AC, Lucca LE, Kozareva V, Vanderburg C, Hong S, Bulstrode H, Hutchinson PJ, Gaffney DJ, Hafler DA, Franklin RJM, Macosko EZ, Stevens B. Nat Neurosci. 2022 Mar; 2022 Mar 8. PMID: 35260865.
TCR-sequencing in cancer and autoimmunity: barcodes and beyond.Pauken KE, Lagattuta KA, Lu BY, Lucca LE, Daud AI, Hafler DA, Kluger HM, Raychaudhuri S, Sharpe AH. Trends Immunol. 2022 Mar; 2022 Jan 25. PMID: 35090787.
Single-cell multi-omics reveals dyssynchrony of the innate and adaptive immune system in progressive COVID-19.Unterman A, Sumida TS, Nouri N, Yan X, Zhao AY, Gasque V, Schupp JC, Asashima H, Liu Y, Cosme C Jr, Deng W, Chen M, Raredon MSB, Hoehn KB, Wang G, Wang Z, DeIuliis G, Ravindra NG, Li N, Castaldi C, Wong P, Fournier J, Bermejo S, Sharma L, Casanovas-Massana A, Vogels CBF, Wyllie AL, Grubaugh ND, Melillo A, Meng H, Stein Y, Minasyan M, Mohanty S, Ruff WE, Cohen I, Raddassi K, Niklason LE, Ko AI, Montgomery RR, Farhadian SF, Iwasaki A, Shaw AC, van Dijk D, Zhao H, Kleinstein SH, Hafler DA, Kaminski N, Dela Cruz CS. Nat Commun. 2022 Jan 21; 2022 Jan 21. PMID: 35064122.

2021

Phase 2 Trial of Rituximab in Acetylcholine Receptor Antibody-Positive Generalized Myasthenia Gravis: The BeatMG Study.Nowak RJ, Coffey CS, Goldstein JM, Dimachkie MM, Benatar M, Kissel JT, Wolfe GI, Burns TM, Freimer ML, Nations S, Granit V, Smith AG, Richman DP, Ciafaloni E, Al-Lozi MT, Sams LA, Quan D, Ubogu E, Pearson B, Sharma A, Yankey JW, Uribe L, Shy M, Amato AA, Conwit R, O'Connor KC, Hafler DA, Cudkowicz ME, Barohn RJ. Neurology. 2021 Dec 2; 2021 Dec 2. PMID: 34857535.
The double-edged sword: Harnessing PD-1 blockade in tumor and autoimmunity.Kuchroo JR, Hafler DA, Sharpe AH, Lucca LE. Sci Immunol. 2021 Nov 5; 2021 Nov 5. PMID: 34739340.
²³Na imaging: Worth its salt for understanding multiple sclerosis.Longbrake EE, Hafler DA. Proc Natl Acad Sci U S A. 2021 Aug 17. PMID: 34376559.
Single-cell immunophenotyping of the skin lesion erythema migrans identifies IgM memory B cells.Jiang R, Meng H, Raddassi K, Fleming I, Hoehn KB, Dardick KR, Belperron AA, Montgomery RR, Shalek AK, Hafler DA, Kleinstein SH, Bockenstedt LK. JCI Insight. 2021 Jun 22; 2021 Jun 22. PMID: 34061047.
Cutting Edge: Distinct B Cell Repertoires Characterize Patients with Mild and Severe COVID-19.Hoehn KB, Ramanathan P, Unterman A, Sumida TS, Asashima H, Hafler DA, Kaminski N, Dela Cruz CS, Sealfon SC, Bukreyev A, Kleinstein SH. J Immunol. 2021 Jun 15; 2021 May 28. PMID: 34049971.
NEBULA is a fast negative binomial mixed model for differential or co-expression analysis of large-scale multi-subject single-cell data.He L, Davila-Velderrain J, Sumida TS, Hafler DA, Kellis M, Kulminski AM. Commun Biol. 2021 May 26; 2021 May 26. PMID: 34040149.
Circulating clonally expanded T cells reflect functions of tumor-infiltrating T cells.Lucca LE, Axisa PP, Lu B, Harnett B, Jessel S, Zhang L, Raddassi K, Zhang L, Olino K, Clune J, Singer M, Kluger HM, Hafler DA. J Exp Med. 2021 Apr 5. PMID: 33651881.
Post-infectious inflammatory disease in MIS-C features elevated cytotoxicity signatures and autoreactivity that correlates with severity.Ramaswamy A, Brodsky NN, Sumida TS, Comi M, Asashima H, Hoehn KB, Li N, Liu Y, Shah A, Ravindra NG, Bishai J, Khan A, Lau W, Sellers B, Bansal N, Guerrerio P, Unterman A, Habet V, Rice AJ, Catanzaro J, Chandnani H, Lopez M, Kaminski N, Dela Cruz CS, Tsang JS, Wang Z, Yan X, Kleinstein SH, van Dijk D, Pierce RW, Hafler DA, Lucas CL. medRxiv. 2021 Apr 3; 2021 Apr 3. PMID: 33300011.
Clinical Significance of PDCD4 in Melanoma by Subcellular Expression and in Tumor-Associated Immune Cells.Tran TT, Rane CK, Zito CR, Weiss SA, Jessel S, Lucca L, Lu BY, Oria VO, Adeniran A, Chiang VL, Omay SB, Hafler DA, Kluger HM, Jilaveanu LB. Cancers (Basel). 2021 Mar 2; 2021 Mar 2. PMID: 33801444.
Oleic acid restores suppressive defects in tissue-resident FOXP3 Tregs from patients with multiple sclerosis.Pompura SL, Wagner A, Kitz A, LaPerche J, Yosef N, Dominguez-Villar M, Hafler DA. J Clin Invest. 2021 Jan 19. PMID: 33170805.

2020

Epigenetic fine-mapping: identification of causal mechanisms for autoimmunity.Lincoln MR, Axisa PP, Hafler DA. Curr Opin Immunol. 2020 Dec; 2020 Sep 23. PMID: 32977183.
Type I Interferon Transcriptional Network Regulates Expression of Coinhibitory Receptors in Human T cells.Sumida TS, Dulberg S, Schupp J, Stillwell HA, Axisa PP, Comi M, Lincoln M, Unterman A, Kaminski N, Madi A, Kuchroo VK, Hafler DA. bioRxiv. 2020 Oct 31; 2020 Oct 31. PMID: 33140047.
Two genetic variants explain the association of European ancestry with multiple sclerosis risk in African-Americans.Nakatsuka N, Patterson N, Patsopoulos NA, Altemose N, Tandon A, Beecham AH, McCauley JL, Isobe N, Hauser S, De Jager PL, Hafler DA, Oksenberg JR, Reich D. Sci Rep. 2020 Oct 9; 2020 Oct 9. PMID: 33037294.
Transcriptomic and clonal characterization of T cells in the human central nervous system.Pappalardo JL, Zhang L, Pecsok MK, Perlman K, Zografou C, Raddassi K, Abulaban A, Krishnaswamy S, Antel J, van Dijk D, Hafler DA. Sci Immunol. 2020 Sep 18. PMID: 32948672.
Differential expression of the T-cell inhibitor TIGIT in glioblastoma and MS.Lucca LE, Lerner BA, Park C, DeBartolo D, Harnett B, Kumar VP, Ponath G, Raddassi K, Huttner A, Hafler DA, Pitt D. Neurol Neuroimmunol Neuroinflamm. 2020 May 4; 2020 Apr 8. PMID: 32269065.
CXCR3+ T cells in multiple sclerosis correlate with reduced diversity of the gut microbiome.Choileáin SN, Kleinewietfeld M, Raddassi K, Hafler DA, Ruff WE, Longbrake EE. J Transl Autoimmun. 2020; 2019 Dec 20. PMID: 32743517.

2019

Siponimod Chips Away at Progressive MS.Longbrake EE, Hafler DA. Cell. 2019 Dec 12; 2019 Dec 12. PMID: 31951523.
AKT isoforms modulate Th1-like Treg generation and function in human autoimmune disease.Kitz A, de Marcken M, Gautron AS, Mitrovic M, Hafler DA, Dominguez-Villar M. EMBO Rep. 2019 Aug. PMID: 31379130.
Aedes aegypti AgBR1 antibodies modulate early Zika virus infection of mice.Uraki R, Hastings AK, Marin-Lopez A, Sumida T, Takahashi T, Grover JR, Iwasaki A, Hafler DA, Montgomery RR, Fikrig E. Nat Microbiol. 2019 Jun; 2019 Mar 11. PMID: 30858571.
Autoantibodies against Neurologic Antigens in Nonneurologic Autoimmunity.Stathopoulos P, Chastre A, Waters P, Irani S, Fichtner ML, Benotti ES, Guthridge JM, Seifert J, Nowak RJ, Buckner JH, Holers VM, James JA, Hafler DA, O'Connor KC. J Immunol. 2019 Apr 15; 2019 Mar 1. PMID: 30824481.
Latent autoimmunity across disease-specific boundaries in at-risk first-degree relatives of SLE and RA patients.James JA, Chen H, Young KA, Bemis EA, Seifert J, Bourn RL, Deane KD, Demoruelle MK, Feser M, O'Dell JR, Weisman MH, Keating RM, Gaffney PM, Kelly JA, Langefeld CD, Harley JB, Robinson W, Hafler DA, O'Connor KC, Buckner J, Guthridge JM, Norris JM, Holers VM. EBioMedicine. 2019 Apr; 2019 Apr 3. PMID: 30952617.
From Big Data to Precision Medicine.Hulsen T, Jamuar SS, Moody AR, Karnes JH, Varga O, Hedensted S, Spreafico R, Hafler DA, McKinney EF. Front Med (Lausanne). 2019; 2019 Mar 1. PMID: 30881956.
TIGIT signaling restores suppressor function of Th1 Tregs.Lucca LE, Axisa PP, Singer ER, Nolan NM, Dominguez-Villar M, Hafler DA. JCI Insight. 2019 Feb 7; 2019 Feb 7. PMID: 30728325.
Multiple sclerosis enters a grey area.Pappalardo JL, Hafler DA. Nature. 2019 Feb. PMID: 30809050.
Fingolimod modulates T cell phenotype and regulatory T cell plasticity in vivo.Dominguez-Villar M, Raddassi K, Danielsen AC, Guarnaccia J, Hafler DA. J Autoimmun. 2019 Jan; 2018 Aug 16. PMID: 30122421.

2018

Enhanced astrocyte responses are driven by a genetic risk allele associated with multiple sclerosis.Ponath G, Lincoln MR, Levine-Ritterman M, Park C, Dahlawi S, Mubarak M, Sumida T, Airas L, Zhang S, Isitan C, Nguyen TD, Raine CS, Hafler DA, Pitt D. Nat Commun. 2018 Dec 17; 2018 Dec 17. PMID: 30559390.
Activated β-catenin in Foxp3⁺ regulatory T cells links inflammatory environments to autoimmunity.Sumida T, Lincoln MR, Ukeje CM, Rodriguez DM, Akazawa H, Noda T, Naito AT, Komuro I, Dominguez-Villar M, Hafler DA. Nat Immunol. 2018 Dec; 2018 Oct 29. PMID: 30374130.
Single-cell RNA sequencing reveals microglia-like cells in cerebrospinal fluid during virologically suppressed HIV.Farhadian SF, Mehta SS, Zografou C, Robertson K, Price RW, Pappalardo J, Chiarella J, Hafler DA, Spudich SS. JCI Insight. 2018 Sep 20; 2018 Sep 20. PMID: 30232286.
Regulatory T cells in autoimmune disease.Dominguez-Villar M, Hafler DA. Nat Immunol. 2018 Jul; 2018 Jun 20. PMID: 29925983.

2017

Minimum Information about T Regulatory Cells: A Step toward Reproducibility and Standardization.Fuchs A, Gliwiński M, Grageda N, Spiering R, Abbas AK, Appel S, Bacchetta R, Battaglia M, Berglund D, Blazar B, Bluestone JA, Bornhäuser M, Ten Brinke A, Brusko TM, Cools N, Cuturi MC, Geissler E, Giannoukakis N, Gołab K, Hafler DA, van Ham SM, Hester J, Hippen K, Di Ianni M, Ilic N, Isaacs J, Issa F, Iwaszkiewicz-Grześ D, Jaeckel E, Joosten I, Klatzmann D, Koenen H, van Kooten C, Korsgren O, Kretschmer K, Levings M, Marek-Trzonkowska NM, Martinez-Llordella M, Miljkovic D, Mills KHG, Miranda JP, Piccirillo CA, Putnam AL, Ritter T, Roncarolo MG, Sakaguchi S, Sánchez-Ramón S, Sawitzki B, Sofronic-Milosavljevic L, Sykes M, Tang Q, Vives-Pi M, Waldmann H, Witkowski P, Wood KJ, Gregori S, Hilkens CMU, Lombardi G, Lord P, Martinez-Caceres EM, Trzonkowski P. Front Immunol. 2017; 2018 Jan 15. PMID: 29379498.
Podoplanin is a negative regulator of Th17 inflammation.Nylander AN, Ponath GD, Axisa PP, Mubarak M, Tomayko M, Kuchroo VK, Pitt D, Hafler DA. JCI Insight. 2017 Sep 7; 2017 Sep 7. PMID: 28878118.
Functional differences between PD-1+ and PD-1- CD4+ effector T cells in healthy donors and patients with glioblastoma multiforme.Goods BA, Hernandez AL, Lowther DE, Lucca LE, Lerner BA, Gunel M, Raddassi K, Coric V, Hafler DA, Love JC. PLoS One. 2017; 2017 Sep 7. PMID: 28880903.
Resisting fatal attraction: a glioma oncometabolite prevents CD8+ T cell recruitment.Lucca LE, Hafler DA. J Clin Invest. 2017 Apr 3; 2017 Mar 20. PMID: 28319049.
Co-inhibitory blockade while preserving tolerance: checkpoint inhibitors for glioblastoma.Lucca LE, Hafler DA. Immunol Rev. 2017 Mar. PMID: 28258696.
Solving Immunology?Vodovotz Y, Xia A, Read EL, Bassaganya-Riera J, Hafler DA, Sontag E, Wang J, Tsang JS, Day JD, Kleinstein SH, Butte AJ, Altman MC, Hammond R, Sealfon SC. Trends Immunol. 2017 Feb; 2016 Dec 13. PMID: 27986392.
TGF-β1 modulates microglial phenotype and promotes recovery after intracerebral hemorrhage.Taylor RA, Chang CF, Goods BA, Hammond MD, Mac Grory B, Ai Y, Steinschneider AF, Renfroe SC, Askenase MH, McCullough LD, Kasner SE, Mullen MT, Hafler DA, Love JC, Sansing LH. J Clin Invest. 2017 Jan 3; 2016 Nov 28. PMID: 27893460.

2016

The Human Functional Genomics Project: Understanding Generation of Diversity.Pappalardo JL, Hafler DA. Cell. 2016 Nov 3. PMID: 27814519.
AKT isoforms modulate Th1-like Treg generation and function in human autoimmune disease.Kitz A, de Marcken M, Gautron AS, Mitrovic M, Hafler DA, Dominguez-Villar M. EMBO Rep. 2016 Aug; 2016 Jun 16. PMID: 27312110.
National Heart, Lung, and Blood Institute Working Group Report on Salt in Human Health and Sickness: Building on the Current Scientific Evidence.Oh YS, Appel LJ, Galis ZS, Hafler DA, He J, Hernandez AL, Joe B, Karumanchi SA, Maric-Bilkan C, Mattson D, Mehta NN, Randolph G, Ryan M, Sandberg K, Titze J, Tolunay E, Toney GM, Harrison DG. Hypertension. 2016 Aug; 2016 Jun 20. PMID: 27324228.
Linking Genotype to Clinical Phenotype in Multiple Sclerosis: In Search of the Holy Grail.Longbrake EE, Hafler DA. JAMA Neurol. 2016 Jul 1. PMID: 27244583.
Power estimation for non-standardized multisite studies.Keshavan A, Paul F, Beyer MK, Zhu AH, Papinutto N, Shinohara RT, Stern W, Amann M, Bakshi R, Bischof A, Carriero A, Comabella M, Crane JC, D'Alfonso S, Demaerel P, Dubois B, Filippi M, Fleischer V, Fontaine B, Gaetano L, Goris A, Graetz C, Gröger A, Groppa S, Hafler DA, Harbo HF, Hemmer B, Jordan K, Kappos L, Kirkish G, Llufriu S, Magon S, Martinelli-Boneschi F, McCauley JL, Montalban X, Mühlau M, Pelletier D, Pattany PM, Pericak-Vance M, Cournu-Rebeix I, Rocca MA, Rovira A, Schlaeger R, Saiz A, Sprenger T, Stecco A, Uitdehaag BMJ, Villoslada P, Wattjes MP, Weiner H, Wuerfel J, Zimmer C, Zipp F, Hauser SL, Oksenberg JR, Henry RG. Neuroimage. 2016 Jul 1; 2016 Apr 1. PMID: 27039700.
Multiple sclerosis: genetics, biomarkers, treatments.Axisa PP, Hafler DA. Curr Opin Neurol. 2016 Jun. PMID: 27058221.
Production of Proinflammatory Cytokines by Monocytes in Liver-Transplanted Recipients with De Novo Autoimmune Hepatitis Is Enhanced and Induces TH1-like Regulatory T Cells.Arterbery AS, Osafo-Addo A, Avitzur Y, Ciarleglio M, Deng Y, Lobritto SJ, Martinez M, Hafler DA, Kleinewietfeld M, Ekong UD. J Immunol. 2016 May 15; 2016 Apr 18. PMID: 27183637.
PD-1 marks dysfunctional regulatory T cells in malignant gliomas.Lowther DE, Goods BA, Lucca LE, Lerner BA, Raddassi K, van Dijk D, Hernandez AL, Duan X, Gunel M, Coric V, Krishnaswamy S, Love JC, Hafler DA. JCI Insight. 2016 Apr 21. PMID: 27182555.
CNS demyelination and enhanced myelin-reactive responses after ipilimumab treatment.Cao Y, Nylander A, Ramanan S, Goods BA, Ponath G, Zabad R, Chiang VL, Vortmeyer AO, Hafler DA, Pitt D. Neurology. 2016 Apr 19; 2016 Mar 16. PMID: 26984943.
Evaluation of KIR4.1 as an Immune Target in Multiple Sclerosis.Chastre A, Hafler DA, O'Connor KC. N Engl J Med. 2016 Apr 14. PMID: 27074083.
The Link Between CD6 and Autoimmunity: Genetic and Cellular Associations.Kofler DM, Farkas A, von Bergwelt-Baildon M, Hafler DA. Curr Drug Targets. 2016. PMID: 26844569.

2015

Investigating the Antigen Specificity of Multiple Sclerosis Central Nervous System-Derived Immunoglobulins.Willis SN, Stathopoulos P, Chastre A, Compton SD, Hafler DA, O'Connor KC. Front Immunol. 2015; 2015 Nov 25. PMID: 26648933.
Sodium chloride inhibits the suppressive function of FOXP3+ regulatory T cells.Hernandez AL, Kitz A, Wu C, Lowther DE, Rodriguez DM, Vudattu N, Deng S, Herold KC, Kuchroo VK, Kleinewietfeld M, Hafler DA. J Clin Invest. 2015 Nov 2; 2015 Oct 20. PMID: 26524592.
Biomarkers in multiple sclerosis.Housley WJ, Pitt D, Hafler DA. Clin Immunol. 2015 Nov; 2015 Jul 2. PMID: 26143623.
Class II HLA interactions modulate genetic risk for multiple sclerosis.Moutsianas L, Jostins L, Beecham AH, Dilthey AT, Xifara DK, Ban M, Shah TS, Patsopoulos NA, Alfredsson L, Anderson CA, Attfield KE, Baranzini SE, Barrett J, Binder TMC, Booth D, Buck D, Celius EG, Cotsapas C, D'Alfonso S, Dendrou CA, Donnelly P, Dubois B, Fontaine B, Fugger L, Goris A, Gourraud PA, Graetz C, Hemmer B, Hillert J, Kockum I, Leslie S, Lill CM, Martinelli-Boneschi F, Oksenberg JR, Olsson T, Oturai A, Saarela J, Søndergaard HB, Spurkland A, Taylor B, Winkelmann J, Zipp F, Haines JL, Pericak-Vance MA, Spencer CCA, Stewart G, Hafler DA, Ivinson AJ, Harbo HF, Hauser SL, De Jager PL, Compston A, McCauley JL, Sawcer S, McVean G. Nat Genet. 2015 Oct; 2015 Sep 7. PMID: 26343388.
Prospects of immune checkpoint modulators in the treatment of glioblastoma.Preusser M, Lim M, Hafler DA, Reardon DA, Sampson JH. Nat Rev Neurol. 2015 Sep; 2015 Aug 11. PMID: 26260659.
Sodium-activated macrophages: the salt mine expands.Lucca LE, Hafler DA. Cell Res. 2015 Aug; 2015 Jul 28. PMID: 26215700.
Genetic variants associated with autoimmunity drive NFκB signaling and responses to inflammatory stimuli.Housley WJ, Fernandez SD, Vera K, Murikinati SR, Grutzendler J, Cuerdon N, Glick L, De Jager PL, Mitrovic M, Cotsapas C, Hafler DA. Sci Transl Med. 2015 Jun 10. PMID: 26062845.
Monoallelic expression of the human FOXP2 speech gene.Adegbola AA, Cox GF, Bradshaw EM, Hafler DA, Gimelbrant A, Chess A. Proc Natl Acad Sci U S A. 2015 Jun 2; 2014 Nov 24. PMID: 25422445.
Genetic basis of autoimmunity.Marson A, Housley WJ, Hafler DA. J Clin Invest. 2015 Jun; 2015 Jun 1. PMID: 26030227.
Thymic selection: to thine own self be true.Kitz A, Hafler DA. Immunity. 2015 May 19. PMID: 25992854.
Editorial: T cell regulation by the environment.Hafler DA, Astier AL. Front Immunol. 2015; 2015 May 13. PMID: 26029214.
Functional inflammatory profiles distinguish myelin-reactive T cells from patients with multiple sclerosis.Cao Y, Goods BA, Raddassi K, Nepom GT, Kwok WW, Love JC, Hafler DA. Sci Transl Med. 2015 May 13. PMID: 25972006.
Prolonged proinflammatory cytokine production in monocytes modulated by interleukin 10 after influenza vaccination in older adults.Mohanty S, Joshi SR, Ueda I, Wilson J, Blevins TP, Siconolfi B, Meng H, Devine L, Raddassi K, Tsang S, Belshe RB, Hafler DA, Kaech SM, Kleinstein SH, Trentalange M, Allore HG, Shaw AC. J Infect Dis. 2015 Apr 1; 2014 Nov 2. PMID: 25367297.
Multiple sclerosis-a quiet revolution.Ransohoff RM, Hafler DA, Lucchinetti CF. Nat Rev Neurol. 2015 Mar; 2015 Feb 17. PMID: 25686758.
Genetic and epigenetic fine mapping of causal autoimmune disease variants.Farh KK, Marson A, Zhu J, Kleinewietfeld M, Housley WJ, Beik S, Shoresh N, Whitton H, Ryan RJ, Shishkin AA, Hatan M, Carrasco-Alfonso MJ, Mayer D, Luckey CJ, Patsopoulos NA, De Jager PL, Kuchroo VK, Epstein CB, Daly MJ, Hafler DA, Bernstein BE. Nature. 2015 Feb 19; 2014 Oct 29. PMID: 25363779.
TLR7 induces anergy in human CD4(+) T cells.Dominguez-Villar M, Gautron AS, de Marcken M, Keller MJ, Hafler DA. Nat Immunol. 2015 Jan; 2014 Nov 17. PMID: 25401424.

2014

Enhanced suppressor function of TIM-3+ FoxP3+ regulatory T cells.Gautron AS, Dominguez-Villar M, de Marcken M, Hafler DA. Eur J Immunol. 2014 Sep; 2014 Jun 16. PMID: 24838857.
B cells populating the multiple sclerosis brain mature in the draining cervical lymph nodes.Stern JN, Yaari G, Vander Heiden JA, Church G, Donahue WF, Hintzen RQ, Huttner AJ, Laman JD, Nagra RM, Nylander A, Pitt D, Ramanan S, Siddiqui BA, Vigneault F, Kleinstein SH, Hafler DA, O'Connor KC. Sci Transl Med. 2014 Aug 6. PMID: 25100741.
pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires.Vander Heiden JA, Yaari G, Uduman M, Stern JN, O'Connor KC, Hafler DA, Vigneault F, Kleinstein SH. Bioinformatics. 2014 Jul 1; 2014 Mar 10. PMID: 24618469.
TLR-mediated STAT3 and ERK activation controls IL-10 secretion by human B cells.Liu BS, Cao Y, Huizinga TW, Hafler DA, Toes RE. Eur J Immunol. 2014 Jul; 2014 Apr 16. PMID: 24737107.
Decreased RORC-dependent silencing of prostaglandin receptor EP2 induces autoimmune Th17 cells.Kofler DM, Marson A, Dominguez-Villar M, Xiao S, Kuchroo VK, Hafler DA. J Clin Invest. 2014 Jun; 2014 May 8. PMID: 24812667.
Polarization of the effects of autoimmune and neurodegenerative risk alleles in leukocytes.Raj T, Rothamel K, Mostafavi S, Ye C, Lee MN, Replogle JM, Feng T, Lee M, Asinovski N, Frohlich I, Imboywa S, Von Korff A, Okada Y, Patsopoulos NA, Davis S, McCabe C, Paik HI, Srivastava GP, Raychaudhuri S, Hafler DA, Koller D, Regev A, Hacohen N, Mathis D, Benoist C, Stranger BE, De Jager PL. Science. 2014 May 2. PMID: 24786080.
Regulatory T cells in autoimmune neuroinflammation.Kleinewietfeld M, Hafler DA. Immunol Rev. 2014 May. PMID: 24712469.
Treg cells expressing the coinhibitory molecule TIGIT selectively inhibit proinflammatory Th1 and Th17 cell responses.Joller N, Lozano E, Burkett PR, Patel B, Xiao S, Zhu C, Xia J, Tan TG, Sefik E, Yajnik V, Sharpe AH, Quintana FJ, Mathis D, Benoist C, Hafler DA, Kuchroo VK. Immunity. 2014 Apr 17. PMID: 24745333.
Small-molecule RORγt antagonists inhibit T helper 17 cell transcriptional network by divergent mechanisms.Xiao S, Yosef N, Yang J, Wang Y, Zhou L, Zhu C, Wu C, Baloglu E, Schmidt D, Ramesh R, Lobera M, Sundrud MS, Tsai PY, Xiang Z, Wang J, Xu Y, Lin X, Kretschmer K, Rahl PB, Young RA, Zhong Z, Hafler DA, Regev A, Ghosh S, Marson A, Kuchroo VK. Immunity. 2014 Apr 17. PMID: 24745332.
Common genetic variants modulate pathogen-sensing responses in human dendritic cells.Lee MN, Ye C, Villani AC, Raj T, Li W, Eisenhaure TM, Imboywa SH, Chipendo PI, Ran FA, Slowikowski K, Ward LD, Raddassi K, McCabe C, Lee MH, Frohlich IY, Hafler DA, Kellis M, Raychaudhuri S, Zhang F, Stranger BE, Benoist CO, De Jager PL, Regev A, Hacohen N. Science. 2014 Mar 7. PMID: 24604203.
Role of "Western diet" in inflammatory autoimmune diseases.Manzel A, Muller DN, Hafler DA, Erdman SE, Linker RA, Kleinewietfeld M. Curr Allergy Asthma Rep. 2014 Jan. PMID: 24338487.

2013

Clinical relevance and functional consequences of the TNFRSF1A multiple sclerosis locus.Ottoboni L, Frohlich IY, Lee M, Healy BC, Keenan BT, Xia Z, Chitnis T, Guttmann CR, Khoury SJ, Weiner HL, Hafler DA, De Jager PL. Neurology. 2013 Nov 26; 2013 Oct 30. PMID: 24174586.
Models of somatic hypermutation targeting and substitution based on synonymous mutations from high-throughput immunoglobulin sequencing data.Yaari G, Vander Heiden JA, Uduman M, Gadala-Maria D, Gupta N, Stern JN, O'Connor KC, Hafler DA, Laserson U, Vigneault F, Kleinstein SH. Front Immunol. 2013; 2013 Nov 15. PMID: 24298272.
The plasticity of human Treg and Th17 cells and its role in autoimmunity.Kleinewietfeld M, Hafler DA. Semin Immunol. 2013 Nov 15; 2013 Nov 5. PMID: 24211039.
Serum autoantibodies to myelin peptides distinguish acute disseminated encephalomyelitis from relapsing-remitting multiple sclerosis.Van Haren K, Tomooka BH, Kidd BA, Banwell B, Bar-Or A, Chitnis T, Tenembaum SN, Pohl D, Rostasy K, Dale RC, O'Connor KC, Hafler DA, Steinman L, Robinson WH. Mult Scler. 2013 Nov; 2013 Apr 23. PMID: 23612879.
Fine-mapping the genetic association of the major histocompatibility complex in multiple sclerosis: HLA and non-HLA effects.Patsopoulos NA, Barcellos LF, Hintzen RQ, Schaefer C, van Duijn CM, Noble JA, Raj T, Gourraud PA, Stranger BE, Oksenberg J, Olsson T, Taylor BV, Sawcer S, Hafler DA, Carrington M, De Jager PL, de Bakker PI. PLoS Genet. 2013 Nov; 2013 Nov 21. PMID: 24278027.
The CD226/CD155 interaction regulates the proinflammatory (Th1/Th17)/anti-inflammatory (Th2) balance in humans.Lozano E, Joller N, Cao Y, Kuchroo VK, Hafler DA. J Immunol. 2013 Oct 1; 2013 Aug 26. PMID: 23980210.
Protein array-based profiling of CSF identifies RBPJ as an autoantigen in multiple sclerosis.Querol L, Clark PL, Bailey MA, Cotsapas C, Cross AH, Hafler DA, Kleinstein SH, Lee JY, Yaari G, Willis SN, O'Connor KC. Neurology. 2013 Sep 10; 2013 Aug 6. PMID: 23921886.
Microbial reprogramming inhibits Western diet-associated obesity.Poutahidis T, Kleinewietfeld M, Smillie C, Levkovich T, Perrotta A, Bhela S, Varian BJ, Ibrahim YM, Lakritz JR, Kearney SM, Chatzigiagkos A, Hafler DA, Alm EJ, Erdman SE. PLoS One. 2013; 2013 Jul 10. PMID: 23874682.
PhIP-Seq characterization of autoantibodies from patients with multiple sclerosis, type 1 diabetes and rheumatoid arthritis.Larman HB, Laserson U, Querol L, Verhaeghen K, Solimini NL, Xu GJ, Klarenbeek PL, Church GM, Hafler DA, Plenge RM, Nigrovic PA, De Jager PL, Weets I, Martens GA, O'Connor KC, Elledge SJ. J Autoimmun. 2013 Jun; 2013 Mar 13. PMID: 23497938.
Specific peripheral B cell tolerance defects in patients with multiple sclerosis.Kinnunen T, Chamberlain N, Morbach H, Cantaert T, Lynch M, Preston-Hurlburt P, Herold KC, Hafler DA, O'Connor KC, Meffre E. J Clin Invest. 2013 Jun; 2013 May 15. PMID: 23676463.
Sodium chloride drives autoimmune disease by the induction of pathogenic TH17 cells.Kleinewietfeld M, Manzel A, Titze J, Kvakan H, Yosef N, Linker RA, Muller DN, Hafler DA. Nature. 2013 Apr 25; 2013 Mar 6. PMID: 23467095.
Immune-mediated disease genetics: the shared basis of pathogenesis.Cotsapas C, Hafler DA. Trends Immunol. 2013 Jan; 2012 Sep 29. PMID: 23031829.

2012

Induction and molecular signature of pathogenic TH17 cells.Lee Y, Awasthi A, Yosef N, Quintana FJ, Xiao S, Peters A, Wu C, Kleinewietfeld M, Kunder S, Hafler DA, Sobel RA, Regev A, Kuchroo VK. Nat Immunol. 2012 Oct; 2012 Sep 9. PMID: 22961052.
An RNA profile identifies two subsets of multiple sclerosis patients differing in disease activity.Ottoboni L, Keenan BT, Tamayo P, Kuchroo M, Mesirov JP, Buckle GJ, Khoury SJ, Hafler DA, Weiner HL, De Jager PL. Sci Transl Med. 2012 Sep 26. PMID: 23019656.
Regulatory T cells in the central nervous system.Lowther DE, Hafler DA. Immunol Rev. 2012 Jul. PMID: 22725960.
Prostaglandin E2 affects T cell responses through modulation of CD46 expression.Kickler K, Maltby K, Ni Choileain S, Stephen J, Wright S, Hafler DA, Jabbour HN, Astier AL. J Immunol. 2012 Jun 1; 2012 Apr 27. PMID: 22544928.
The TIGIT/CD226 axis regulates human T cell function.Lozano E, Dominguez-Villar M, Kuchroo V, Hafler DA. J Immunol. 2012 Apr 15; 2012 Mar 16. PMID: 22427644.
Perspective: Deconstructing a disease.Hafler DA. Nature. 2012 Apr 12. PMID: 22509507.
Multiple sclerosis.Nylander A, Hafler DA. J Clin Invest. 2012 Apr; 2012 Apr 2. PMID: 22466660.