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Publications

2020

Boland, B.S.*, He, Z.*, Tsai, M.S.*, Olvera, J.G., Omilusik, K.D, Duong H.G., Kim, E.S., Limary, A.E., Jin, W., Milner, J.J., Yu, B., Patel, S.A., Louis, T.L., Tysl, T., Kurd, N.S., Bortnick, A., Quezada, L.K., Kanbar, J.N., Miralles, A., Huylebroeck, D., Valasek, M.A., Dulai, P.S., Singh, S., Lu, L.F., Bui, J.D., Murre, C., Sandborn, W.J., Goldrath, A.W., Yeo, G.W., Chang, J.T. Heterogeneity and clonal relationships of adaptive immune cells in ulcerative colitis revealed by single-cell analyses. Science Immunology 2020. 10.1126/sciimmunol.abb4432 [accompanying piece in The Conversation] [press release]

Milner, J.J., Toma, C., He, Z., Kurd, N.S., Nguyen, Q.P., McDonald, B., Quezada, L.K.,  Widjaja, C.E.,Witherden, D.A., Crowl, J.T., Shaw, L.A., Yeo, G.W., Chang, J.T.,Omilusik, K.D., Goldrath, A.W. Heterogenous Populations of Tissue-Resident CD8+ T Cells Are Generated in Response to Infection and Malignancy. Immunity 2020. 10.1016/j.immuni.2020.04.007

Kurd, N.S.*, He, Z.*, Louis, T.L., Milner, J.J., Omilusik, K.D., Jin, W., Tsai, M.S., Widjaja, C.E., Kanbar, J.N., Olvera, J.G., Tysl, T., Quezada, L.K., Boland, B.S., Huang, W.J., Murre, C., Goldrath, A.W., Yeo, G.W.,  Chang, J.T. Early precursors and molecular determinants of tissue-resident memory CD8+ T lymphocytes revealed by single-cell RNA sequencing. Science Immunology 2020. 10.1126/sciimmunol.aaz6894

Quinn RA, Melnik AV, Vrbanac A, Fu T, Patras KA, Christy MP, Bodai Z, Belda-Ferre P, Tripathi A, Chung LK, Downes M, Welch RD, Quinn M, Humphrey G, Panitchpakdi M, Weldon KC, Aksenov A, da Silva R, Avila-Pacheco J, Clish C, Bae S, Mallick H, Franzosa EA, Lloyd-Price J, Bussell R, Thron T, Nelson AT, Wang M, Leszczynski E, Vargas F, Gauglitz JM, Meehan MJ, Gentry E, Arthur TD, Komor AC, Poulsen O, Boland BS, Chang JT, Sandborn WJ, Lim M, Garg N, Lumeng JC, Xavier RJ, Kazmierczak BI, Jain R, Egan M, Rhee KE, Ferguson D, Raffatellu M, Vlamakis H, Haddad GG, Siegel D, Huttenhower C, Mazmanian SK, Evans RM, Nizet V, Knight R, Dorrestein PC. Global Chemical Effects of the Microbiome Include New Bile-Acid Conjugations. Nature 2020 Mar;579(7797):123-129. doi: 10.1038/s41586-020-2047-9.

Dulai PS, Singh S, Casteele NV, Meserve J, Winters A, Chablaney S, Aniwan S, Shashi P, Kochhar G, Weiss A, Koliani-Pace JL, Gao Y, Boland BS, Chang JT, Faleck D, Hirten R, Ungaro R, Lukin D, Sultan K, Hudesman D, Chang S, Bohm M, Varma S, Fischer M, Shmidt E, Swaminath A, Gupta N, Rosario M, Jairath V, Guizzetti L, Feagan BG, Siegel CA, Shen B, Kane S, Loftus EV Jr, Sandborn WJ, Sands BE, Colombel JF, Lasch K, Cao C. Development and Validation of Clinical Scoring Tool to Predict Outcomes of Treatment With Vedolizumab in Patients With Ulcerative Colitis. Clin Gastroenterol Hepatol 2020;S1542-3565(20)30174-9. doi: 10.1016/j.cgh.2020.02.010

Fields FJ, Lejzerowica, Schroeder D, Ngoi SM, Tran M, McDonald D, Jiang L, Chang JT, Knight R, Mayfield S. Effects of the microalgae Chlamydomonas on gastrointestinal health. Journal of Functional Foods 2020. doi.org/10.1016/j.jff.2019.103738

2019

Battat R, Dulai PS, Vande Casteele N, Evans E, Hester KD, Webster E, Jain A, Proudfoot JA, Mairalles A, Neill J, Singh S, Chang J.T., Rivera-Nieves J, Sandborn WJ, Boland BS. Biomarkers are associated with clinical and endoscopic outcomes with vedolizumab treatment in ulcerative colitis. Inflammatory Bowel Diseases 2019; 25(2):410-420. doi: 10.1093/ibd/izy307

Dulai PS, Singh S, Vande Casteele N, Boland BS, Rivera-Nieves J, Ernst PB, Eckmann L, Barrett KE, Chang JT, Sandborn WJ. Should we divide Crohn's disease into ileum-dominant and isolated colonic diseases? Clinical Gastroenterology and Hepatology 2019. doi: 10.1016/j.cgh.2019.04.040

Chandrasekaran, A., Molparia, B., Akhtar, E., Wang, X., Lewis, J.D., Chang, J.T., Oliveira, G., Torkamani, A., Konijeti, G.G. The Autoimmune Protocol Diet Modifies Intestinal RNA Expression in Inflammatory Bowel Disease. Journal of Crohn's and Colitis 360; 2019. doi: 10.1093/crocol/otz016

Sanders JG, Nurk S, Salido RA, Minich J, Xu ZZ, Zhu Q, Martino C, Fedarko M, Arthur TD, Chen F, Boland BS, Humphrey GC, Brennan C, Sanders K, Gaffney J, Jepsen K, Khosroheidari M, Green C, Liyanage M, Dang JW, Phelan VV, Quinn RA, Bankevich A, Chang JT, Rana TM, Conrad DJ, Sandborn WJ, Smarr L, Dorrestein PC, Pevzner PA, Knight R. Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads. Genome Biol. 2019;20(1):226. doi: 10.1186/s13059-019-1834-9

2018

Moustafa A, Li W, Anderson EL, Wong EHM, Dulai PS, Sandborn WJ, Biggs W, Yooseph S, Jones MB, Venter JC, Nelson KE, Chang JT, Telenti A, Boland BS. Genetic risk, dysbiosis, and treatment stratification using host genome and gut microbiome in inflammatory bowel disease. Clin Transl Gastroenterology 2018 Jan 18. [PMID: 29345635]

Dulai PS, Buckey JC, Raffals LE, Swoger JM, Claus PL, O'Toole K, Ptak JA, Gleeson MW, Widjaja CE, Chang JT, Adler JM, Patel N, Skinner LA, Haren SP, Goldby-Reffner K, Thompson KD, Siegel CA. Hyperbaric Oxygen therapy is well tolerated and effective for ulcerative colitis patients hospitalized for moderate-severe flares: a phase 2A pilot multi-center, randomized, double-blind, sham-controlled trial. Am J Gastroenterology 2018 Feb 16. [PMID: 29453383]

Klann JE, Kim SH, Remedios KA, He Z, Metz PJ, Lopez J, Tysl T, Olvera JG, Ablack JN, Cantor JM, Boland BS, Yeo G, Zheng Y, Lu LF, Bui JD, Ginsberg MH, Petrich BG, Chang JT. Integrin Activation Controls Regulatory T Cell-Mediated Peripheral Tolerance. Journal of Immunolology 2018 Jun 15;200(12):4012-4023. [PMID: 29703862]

Garcia DA, Baek C, Estrada MV, Tysl, Bennett EJ, Yang J, Chang JT. USP11 Enhances TGFbeta-induced Epithelial-Mesenchymal Plasticity and Human Breast Cancer Metastasis. Molecular Cancer Research 2018 Jul; 16(7):1172-1184. [PMID: 29724812]

Olvera JG, Boland BS, Chang JT. Protein and transcriptome quantitation using BD AbSeq Antibody-Oligonucleotide technology and the 10X Genomics Chromium Single Cell Gene Expression Solution. [PDF]

Dulai PS, Boland BS, Singh S, Chaudrey K, Koliani-Pace JL, Kochhar G, Parikh MP, Shmidt E, Hartke J, Chilukuri P, Meserve J, Whitehead D, Hirten R, Winters AC, Katta LG, Peerani F, Narula N, Sultan K, Swaminath A, Bohm M, Lukin D, Hudesman D, Chang JT, Rivera-Nieves J, Jairath V, Zou GY, Feagan BG, Shen B, Siegel CA, Loftus EV Jr, Kane S, Sands BE, Colombel JF, Sandborn WJ, Lasch K, Cao C. Gastroenterology 2018 Sep; 155(3):687-695. [PMID29857091]

2017

Widjaja CE, Olvera JG, Metz PJ, Phan AT, Savas JN, de Bruin G, Leestemaker Y, Berkers CR, de Jong A, Florea BI, Fisch K, Lopez J, Kim SH, Garcia DA, Searles S, Bui JD, Chang AN, Yates JR 3rd, Goldrath AW, Overkleeft HS, Ovaa H, Chang JT. Proteasome activity regulates CD8+ T lymphocyte metabolism and fate specification. Journal of Clinical Investigation. 2017 Aug 28. pii: 90895. doi: 10.1172/JCI90895. [PMID:28846070] [press release] [highlighted in Nature Reviews Immunology]

Klann JE, Remedios KA, Kim SH, Metz PJ, Lopez J, Mack LA, Zheng Y, Ginsberg MH, Petrich BG, Chang JT. Journal of Immunolology. Talin Plays a Critical Role in the Maintenance of the Regulatory T Cell Pool. 2017 Jun 15;198(12):4639-4651. [PMID:28515282]

Yu, B., Zhang, K., Milner, J.J., Toma, C., Chen, R, Scott-Browne, J.P., Pereira, R.M., Crotty, S., Chang, J.T., Pipkin, M.E., Wang, W., Goldrath, A.W. Epigenetic landscapes reveal transcription factors that regulate CD8+ T differentiation.  Nature Immunology Mar 13. doi 10/1038/ni.3706. [PMID:28288100]

Kakaradov, B., Arsenio, J., Widjaja, C.E., He, Zhaoren, Aigner, S., Metz, P.J., Yu, B., Wehrens, E., Lopez, Kim, S.H., Zuniga, E.I., Goldrath, A.W., Chang, J.T., and Yeo, G.W. Early transcriptional and epigenetic regulation of CD8+ T differentiation revealed by single-cell RNA sequencing. Nature Immunology Feb 20. doi 10/1038/ni.3688. [PMID: 28218746] [Blog] [F1000 recommendation]

2016

Bertin, S., Aoki-Nonaka, Y., Lee, J., de Jong, P.R., Kim, D.K., Han, T., Yu, T., To, K., Takahashi, N., Boland, B.S., Chang, J.T., Ho, S.B, Herdman, S., Corr, M., Franco, A., Sharma, S., Dong, H., Akopian, A.N., and Raz, E. The TRPA1 ion channel is expressed in CD4+ T cells and restrains T cell-mediated colitis through inhibition of TRPV1. Gut 2016 Jun 20. pii: gutjnl-2015-310710. doi: 10.1136/gutjnl-2015-310710. [PMID: 27325418]

Dulai, P.S., Singh, S., Jiang, X., Peerani, F., Narula, N., Chaudry, K., Whitehead, D., Hudesman, D., Lukin, D., Swaminath, A., Shmidt, E., Wang, S., Boland, B.S., Chang, J.T., Kane, S., Siegel, C.A., Loftus, E.V., Sandborn, W.J., Sands, B.E., and Colombel, J.F. The Real-World Effectiveness and Safety of Vedolizumab for Moderate-Severe Crohn's Disease: Results for the US VICTORY Consortium. American Journal of Gastroenterology 2016; 111(8): 1147-55 [PMID: 27296941]

Boland, B.S., Bagi, P., Valasek, M.A., Chang, J.T., Bustamante, R., Madlensky, L., Sandborn, W.J., Harismendy, O., and Gupta, S. Cronkhite Canada Syndrome: Significant Response to Infliximab and a Possible Clue to Pathogenesis. American Journal of Gastroenterology 111(5):746-8, 2016 [PMID: 27151126]

Ngoi, S.N., Lopez, J.M., and Chang, J.T. The Microtubule-Associated Protein Lis1 Regulates T Lymphocyte Homeostasis and Differentiation. Journal of Immunology 196(10):4237-45, 2016. [PMID: 27029586] [Highlighted in JI "In This Issue"]

​Banno, A., Garcia., D.A., van Baarsel, E.D., Metz, P.J., Fisch, K., Widjaja, C.E., Kim, S.H., Lopez, J., Chang, J.N., Geurink, P.P., Florea, B.I., Overkleeft, H.S., Ovaa, H., Bui, J.D., Yang, J., and Chang, J.T. Downregulation of 26S Proteasome Catalytic Activity Promotes Epithelial-Mesenchymal Transition. Oncotarget 2016. [PMID: 26930717]

Metz, P.J., Lopez, J., Akimoto, K., Ohno, S., and Chang, J.T. Regulation of Asymmetric Division by Atypical Protein Kinase C Influences Early Specification of CD8+ T Lymphocyte Fates. Scientific Reports 2016; 6:19182. [PMID: 26765121]

2015

Ablack, J.N., Cantor, J.M., Metz, P.J., Chang, J.T., Ginsberg, M.H. Ubiquitination of CD98 Limits Cell Proliferation and Clonal Expansion. Journal of Cell Science 2015; 128(23):4273-8. [PMID: 2649333

Corriden, R., Hollands, A., Olson, J., Derieux, J., Lopez, J., Chang, J.T., Gonzalez, D.J., Nizet, V. Tamoxifen augments the innate functions of neutrophils through modulation of intracellular ceramide. Nature Communications 2015; 6:8369. [PMID: 26458291]

Arsenio, J., Metz, P.J. and Chang, J.T. Understanding T lymphocyte fate diversification: approaches and insights. Trends in Immunology 2015 [PMID: 26474675]

Arsenio, J., Kakaradov, B., Metz, P.J., Yeo, G.W., and Chang, J.T. Reply to: "CD8(+) T cell diversification by asymmetric cell division". Nature Immunology 2015; 16(9): 893-4. [PMID: 26287585]

Taniguchi, K., Wu, L.-W., Grivennikov, S.I., de Jong, P., Lian, I., Yu, F.-X., Wang, K., Ho, S. B., Boland, B.S., Chang, J.T., Sandborn, W.J., Hardiman, G., Raz, E., Maehara, Y.,  Yoshimura, A., Zucman-Rossi, J., Guan, K.-L., and Karin. M.  A gp130-Src-YAP Module Links Intestinal Injury and Inflammation to Epithelial Regeneration.  Nature 2015; 519(7541): 57-62. [PMID: 25731159]

Boland, B. S., Widjaja, C.E., Banno, A., Zhang, B., Kim, S.H., Stoven, S., Peterson, M.R., Jones, M.C., Su, H.I., Crowe, S.E., Bui, J.D., Ho, S.B., Marietta, E., Aramburu, J.F., Khosroheidari, Jepsen, K.L., Lopez-Rodriguez, C., Sandborn, W.J., Murray, J.A., Harismendy, O., and Chang, J.T. Autoimmune enteropathy linked to NFAT5 haploinsufficiency. J. Immunol 2015; 194(6):2551-2560. [PMID 25667416]

Metz, P.J., Arsenio, J., Kakaradov, B., Kim, S.H., Remedios, K., Oakley, K., Akimoto, K., Ohno, S., Yeo, G.W., and Chang, J.T. Regulation of asymmetric division and CD8+ T lymphocyte fate specification by atypical PKC. J. Immunol, 2015; 194(5):2249-2259. [PMID: 25617472]

Barrera, D.J., Rosenberg, J.N., Chiu, J.G., Chang, Y., Debatis, M., Ngoi, S., Chang, J.T., Shoemaker, C.B., Oyler, G.A., and Mayfield, S.P. Algal chloroplast produced camelid VhH antitoxins are capable of neutralizing botulinum neurotoxin. Plant Biotechnology Journal, 2015; 13(1):117-24. [PMID 25229405]

Boland, B.S., Boyle, D.L., Sandborn, W.J., Firestein, G.S., Levesque, B.G., Hillman, J., Zhang, B., Proudfoot, J., Eckmann, L., Ernst, P., Rivera-Nieves, J., Pola, S., Copur-Dahi, N., Zou, G., and Chang, J.T. Validation of gene expression biomarker analysis for biopsy-based clinical trials in Crohn’s disease. Inflammatory Bowel Diseases, 2015; 21(2):323-330. [PMID 25545378]

2014 

Chang, J.T., Wherry, E.J., and Goldrath, A.W. Molecular regulation of effector and memory T lymphocyte differentiation. Nature Immunology 2014; 15(12):1104-15. [PMID 25396352]

Chang, J.T., Sandborn, W.J., and Ernst, P.B.  Studies in human intestinal tissues.  Is it time to re-emphasize research in human immunology? Gastroenterology 2014; 147(1): 26-30. [PMID 24877864]

Boland, B.S., Sandborn, W.J., and Chang, J.T. Update on Janus Kinase Antagonists. Gastroenterology Clinics of North America 2014; 43(3): 603-617. [PMID 25110261]

Boland, B.S., Boyle, D.L., Sandborn, W.J., Firestein, G.S., Levesque, B.G., Hillman, J., Zhang, B., Proudfoot, J., Eckmann, L., Ernst, P., Rivera-Nieves, J., Pola, S., Copur-Dahi, N., and Chang, J.T. Validated gene expression biomarker analysis for biopsy-based clinical trials. Alimentary Pharmacology and Therapeutics 2014; 40(5):477-85. [PMID 25041724]

Arsenio, J., Kakaradov, B., Metz, P.J., Kim, S.H., Yeo, G.W., and Chang, J.T. Early specification of CD8+ T lymphocyte fates during adaptive immunity revealed by single-cell gene expression analyses. Nature Immunology 2014; 15(4):365-72. [Press release]

Jung, H-R., Song, K.H., Chang, J.T., and Doh, J. Geometrically controlled asymmetric division of CD4+ T cells studied by immunological synapse arrays. Plos One 2014 9(3):e91926.

2013 and earlier

Kwong, W.T. and Chang, J.T. Endoscopic retrieval of ingested nails using a refrigerator magnet. Clinical Gastroenterology and Hepatology 2013; 11(9):A24. [PMID: 23333705

Chang, J.T. Polarity and lymphocyte fate determination. Curr Opin Cell Biol 2012. [PMID:22658837]

Ciocca, M.L., Barnett, B.E., Burkhardt, J.K., Chang, J.T., and Reiner, SL. Cutting edge: asymmetric memory T cell division in response to rechallenge. J. Immunol 2012; 188(9): 4145-8. [PMID: 22467651]

Cantor, J., Slepak, M., Ege, N., Chang, J.T., and Ginsberg, M.H. Loss of T Cell CD98 Heavy Chain Specifically Ablates T Cell Clonal Expansion and Protects from Autoimmunity. J. Immunol 2011; 187(2); 851-860. [PMID: 21670318]

Chang, J.T., Ciocca, M.L., Kinjyo, I., Palanivel, V.R., McClurkin, C.E., DeJong, C.S., Mooney, E.C., Kim, J.S., Steinel, N.C., Oliaro, J., Yin, C.C., Florea, B.I., Overkleeft, H.S., Berg, L.J., Russell, S.M., Koretzky, G.A., Jordan, M.S., and Reiner, S.L. Asymmetric Proteasome Segregation as a Mechanism for Unequal Partitioning of the Transcription Factor T-bet during T Lymphocyte Division. Immunity 2011: 34, 492-504. [PMID:21497118][highlighted in Nature Reviews Immunology] [reviewed at Faculty of 1000]

Oliaro, J., Van Ham, V., Sacirbegovic, F., Pasam, A., Bomzon, Z., Pham, K., Ludford-Menting, M.J., Waterhouse, N.J., Bots, M., Hawkins, E.D., Watt, S.V., Cluse, L.A., Clarke, C.J., Izon, D.J., Chang, J.T., Thompson, N., Gu, M., Johnstone, R.W., Smyth, M.J., Humbert, P.O., Reiner, S.L., Russell, S.M. Asymmetric Cell Division of T Cells upon Antigen Presentation Uses Multiple Conserved Mechanisms. Journal of Immunology 2010: 185: 367 -375. [PMID: 20530266]

Kambayashi, T., Allenspach, E.J., Chang, J.T., Zou, T., Shoag, J.E., Reiner, S.L., Caton, A.J., and Koretzky, G.A. Inducible MHC class II expression by mast cells supports effector and regulatory T cell activation. Journal of Immunology 2009: 182(8): 4686-95. [PMID 19342644]

Chang, J.T. and Reiner, S.L. Asymmetric Division and Stem Cell Renewal without a Permanent Niche: Lessons from Lymphocytes.Cold Spring Harbor Symposia on Quantitative Biology. 2008; 73:73-9. [PMID: 19022740]

Chang, J.T. and Reiner, S.L. Protection One Cell Thick. Immunity 2007; 27: 832-4. [PMID: 18093536]

Chang, J.T., Palanivel, V.R., Kinjyo, I., Schambach, F., Intlekofer, A.M., Banerjee, A., Longworth, S., Vinup, V.E., Mrass P., Oliaro J., Killeen, N., Orange J., Russell S.M., Weninger, W., and Reiner, S.L. Asymmetric T Lymphocyte Division in the Initiation of Adaptive Immune Responses. Science 2007; 315: 1687-91. [PMID: 17332376][editorial] [Recognized as one of the "Top Ten Breakthroughs of 2007" by Science magazine]

Chang, J.T. and Reiner, S.L. Diversifying Helper T Cell Fates During Immunity. Journal of Pediatric Gastroenterology and Nutrition 2008; 46 Suppl: E19-20. [PMID: 18354322]

Chang, J.T. and Lichtenstein, G.R. Drug Insight: Antagonists of Tumor Necrosis Factor-alpha in the Treatment of Inflammatory Bowel Disease. Nature Clinical Practice Gastroenterology and Hepatology 2006; 3:220-8. [PMID 16582964]

Chang, J.T. and Katzka, D.A. Gastroesophageal reflux disease, Barrett’s esophagus and esophageal adenocarcinoma: a review. Archives of Internal Medicine 2004; 164:1482-8. [PMID: 15277277]

Shevach, E.M., Chang, J.T., and Segal, B.M. The Critical Role of IL-12 and IL-12Rβ2 Subunit in the Generation of Pathogenic Autoreactive Th1 Cells. Springer Seminars in Immunopathology 1999; 21: 249-262. [PMID 10666772]

B.M. Segal, Chang, J.T., and Shevach, E.M. CpG Oligonucleotides are Potent Adjuvants for the Activation of Autoreactive Encephalitogenic T cells in Vivo. Journal of Immunology 2000; 164: 5683-5688. [PMID 10820244]

Chang, J.T., B.M. Segal, B.M. Segal, Nakanishi, K., Okamura, H., and Shevach, E.M. The Costimulatory Effect of IL-18 on the Induction of Antigen-specific Interferon-γ Production by Resting T cells is IL-12 Dependent and is Mediated by Upregulation of the IL-12 Receptor β2 Subunit. European Journal of Immunology 2000; 30(4): 1113-1119. [PMID 10760800]

Chang, J.T., Shevach, E.M., and Segal, B.M. Role of Costimulation in the Induction of the IL-12/IL-12 Receptor Pathway and the Development of Autoimmunity. Journal of Immunology 2000; 164: 100-106. [PMID 10604999]

Chang, J.T., Shevach, E.M., and Segal, B.M. Regulation of IL-12 Receptor β2 Subunit Expression by Endogenous IL-12: A Critical Step in the Differentiation of Pathogenic Autoreactive T Cells. Journal of Experimental Medicine 1999; 189: 969-978. [PMID 10075980]