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A longitudinal single-cell atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease Thomas, Tom; Friedrich, Matthias; Rich-Griffin, Charlotte; Pohin, Mathilde; Agarwal, Devika; Pakpoor, Julia; Lee, Carl; Tandon, Ruchi; Rendek, Aniko; Aschenbrenner, Dominik; Jainarayanan, Ashwin; Voda, Alexandru; Siu, Jacqueline H. Y.; Sanches-Peres, Raphael; Nee, Eloise; Sathananthan, Dharshan; Kotliar, Dylan; Todd, Peter; Kiourlappou, Maria; Gartner, Lisa; Ilott, Nicholas; Issa, Fadi; Hester, Joanna; Turner, Jason; Nayar, Saba; Mackerodt, Jonas; Zhang, Fan; Jonsson, Anna; Brenner, Michael; Raychaudhuri, Soumya; Kulicke, Ruth; Ramsdell, Danielle; Stransky, Nicolas; Pagliarini, Ray; Bielecki, Piotr; Spies, Noah; Marsden, Brian; Taylor, Stephen; Wagner, Allon; Klenerman, Paul; Walsh, Alissa; Coles, Mark; Jostins-Dean, Luke; Powrie, Fiona M.; Filer, Andrew; Travis, Simon; Uhlig, Holm H.; Dendrou, Calliope A.; Buckley, Christopher D. Share Save
Tissue-specific enhancer-gene maps from multimodal single-cell data identify causal disease alleles Sakaue, Saori; Weinand, Kathryn; Isaac, Shakson; Dey, Kushal K.; Jagadeesh, Karthik; Kanai, Masahiro; Watts, Gerald F. M.; Zhu, Zhu; Brenner, Michael B.; McDavid, Andrew; Donlin, Laura T.; Wei, Kevin; Price, Alkes L.; Raychaudhuri, Soumya Share Save
Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution Kang, Joyce B.; Shen, Amber Z.; Gurajala, Saisriram; Nathan, Aparna; Rumker, Laurie; Aguiar, Vitor R. C.; Valencia, Cristian; Lagattuta, Kaitlyn A.; Zhang, Fan; Jonsson, Anna Helena; Yazar, Seyhan; Alquicira-Hernandez, Jose; Khalili, Hamed; Ananthakrishnan, Ashwin N.; Jagadeesh, Karthik; Dey, Kushal; Albrecht, Jennifer; Apruzzese, William; Banda, Nirmal; Barnas, Jennifer L.; Bathon, Joan M.; Ben-Artzi, Ami; Boyce, Brendan F.; Boyle, David L.; Bridges, S. Louis; Bykerk, Vivian P.; Campbell, Debbie; Ceponis, Arnold; Cordle, Andrew; Deane, Kevin D.; Firestein, Gary S.; James, Judith A.; Weinand, Kathryn; Xavier, Ramnik J.; Rao, Deepak A.; Brenner, Michael B.; Gutierrez-Arcelus, Maria; Luo, Yang; Sakaue, Saori; Raychaudhuri, Soumya Share Save
Clonally expanded CD38hi cytotoxic CD8 T cells define the T cell infiltrate in checkpoint inhibitor-associated arthritis Wang, Runci; Singaraju, Anvita; Marks, Kathryne E.; Shakib, Lorien; Dunlap, Garrett; Adejoorin, Ifeoluwakiisi; Greisen, Stinne R.; Chen, Lin; Tirpack, Aidan K.; Aude, Carlos; Fein, Miriam R.; Todd, Derrick J.; MacFarlane, Lindsey; Goodman, Susan M.; DiCarlo, Edward F.; Massarotti, Elena M.; Sparks, Jeffrey A.; Jonsson, A. Helena; Brenner, Michael B.; Postow, Michael A.; Chan, Karmela K.; Bass, Anne R.; Donlin, Laura T.; Rao, Deepak A. Share Save
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Longitudinal analysis of invariant natural killer T cell activation reveals a cMAF-associated transcriptional state of NKT10 cells Kane, Harry; LaMarche, Nelson M.; Ni Scannail, Aine; Garza, Amanda E.; Koay, Hui-Fern; Azad, Adiba, I; Kunkenmoeller, Britta; Stevens, Brenneth; Brenner, Michael B.; Lynch, Lydia Share Save
Cross-tissue, single-cell stromal atlas identifies shared pathological fibroblast phenotypes in four chronic inflammatory diseases Korsunsky, Ilya; Wei, Kevin; Pohin, Mathilde; Kim, Edy Y.; Barone, Francesca; Major, Triin; Taylor, Emily; Ravindran, Rahul; Kemble, Samuel; Watts, Gerald F. M.; Jonsson, A. Helena; Jeong, Yunju; Athar, Humra; Windell, Dylan; Kang, Joyce B.; Friedrich, Matthias; Turner, Jason; Nayar, Saba; Fisher, Benjamin A.; Raza, Karim; Marshall, Jennifer L.; Croft, Adam P.; Tamura, Tomoyoshi; Sholl, Lynette M.; Vivero, Marina; Rosas, Ivan O.; Bowman, Simon J.; Coles, Mark; Frei, Andreas P.; Lassen, Kara; Filer, Andrew; Powrie, Fiona; Buckley, Christopher D.; Brenner, Michael B.; Raychaudhuri, Soumya Share Save
SLAMF7 engagement superactivates macrophages in acute and chronic inflammation Simmons, Daimon P.; Nguyen, Hung N.; Gomez-Rivas, Emma; Jeong, Yunju; Jonsson, A. Helena; Chen, Antonia F.; Lange, Jeffrey K.; Dyer, George S.; Blazar, Philip; Earp, Brandon E.; Coblyn, Jonathan S.; Massarotti, Elena M.; Sparks, Jeffrey A.; Todd, Derrick J.; Rao, Deepak A.; Kim, Edy Y.; Brenner, Michael B. Share Save
IL-1-driven stromal-neutrophil interactions define a subset of patients with inflammatory bowel disease that does not respond to therapies Friedrich, Matthias; Pohin, Mathilde; Jackson, Matthew A.; Korsunsky, Ilya; Bullers, Samuel J.; Rue-Albrecht, Kevin; Christoforidou, Zoe; Sathananthan, Dharshan; Thomas, Tom; Ravindran, Rahul; Tandon, Ruchi; Peres, Raphael Sanches; Sharpe, Hannah; Wei, Kevin; Watts, Gerald F. M.; Mann, Elizabeth H.; Geremia, Alessandra; Attar, Moustafa; Barone, Francesca; Barone, Francesca; Brenner, Michael; Buckley, Christopher D.; Coles, Mark; Frei, Andreas P.; Lassen, Kara G.; Powrie, Fiona M.; McCuaig, Sarah; Thomas, Lloyd; Collantes, Elena; Uhlig, Holm H.; Sansom, Stephen N.; Easton, Alistair; Raychaudhuri, Soumya; Travis, Simon P.; Powrie, Fiona M. Share Save
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Distinct metabolic programs established in the thymus control effector functions of γδ T cell subsets in tumor microenvironments Lopes, Noella; McIntyre, Claire; Martin, Stefania; Raverdeau, Mathilde; Sumaria, Nital; Kohlgruber, Ayano C.; Fiala, Gina J.; Agudelo, Leandro Z.; Dyck, Lydia; Kane, Harry; Douglas, Aaron; Cunningham, Stephen; Prendeville, Hannah; Loftus, Roisin; Carmody, Colleen; Pierre, Philippe; Kellis, Manolis; Brenner, Michael; Arguello, Rafael J.; Silva-Santos, Bruno; Pennington, Daniel J.; Lynch, Lydia Share Save
Synoviocyte-targeted therapy synergizes with TNF inhibition in arthritis reversal Svensson, Mattias N. D.; Zoccheddu, Martina; Yang, Shen; Nygaard, Gyrid; Secchi, Christian; Doody, Karen M.; Slowikowski, Kamil; Mizoguchi, Fumitaka; Humby, Frances; Hands, Rebecca; SanteIli, Eugenio; Sacchetti, Cristiano; Wakabayashi, Kuninobu; Wu, Dennis J.; Barback, Christopher; Ai, Rizi; Wang, Wei; Sims, Gary P.; Mydel, Piotr; Kasama, Tsuyoshi; Boyle, David L.; Galimi, Francesco; Vera, David; Tremblay, Michel L.; Raychaudhuri, Soumya; Brenner, Michael B.; Firestein, Gary S.; Pitzalis, Costantino; Ekwall, Anna-Karin H.; Stanford, Stephanie; Bottini, Nunzio Share Save
Post-sepsis immunosuppression depends on NKT cell regulation of mTOR/IFN-γ in NK cells Kim, Edy Y.; Ner-Gaon, Hadas; Varon, Jack; Cullen, Aidan M.; Guo, Jingyu; Choi, Jiyoung; Barragan-Bradford, Diana; Higuera, Angelica; Pinilla-Vera, Mayra; Short, Samuel A. P.; Arciniegas-Rubio, Antonio; Tamura, Tomoyoshi; Leaf, David E.; Baron, Rebecca M.; Shay, Tal; Brenner, Michael B. Share Save
Aminoacyl-tRNA synthetase inhibition activates a pathway that branches from the canonical amino acid response in mammalian cells Kim, Yeonjin; Sundrud, Mark S.; Zhou, Changqian; Edenius, Maja; Zocco, Davide; Powers, Kristen; Zhang, Miao; Mazitschek, Ralph; Rao, Anjana; Yeo, Chang-Yeol; Noss, Erika H.; Brenner, Michael B.; Whitman, Malcolm; Keller, Tracy L. Share Save
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