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1.

Differential encoding in prefrontal cortex projection neuron classes across cognitive tasks.

Lui, Jan H; Nguyen, Nghia D; Grutzner, Sophie M; Darmanis, Spyros; Peixoto, Diogo; Wagner, Mark J; Allen, William E; Kebschull, Justus M; Richman, Ethan B; Ren, Jing; Newsome, William T; Quake, Stephen R; Luo, Liqun.

Cell ; 184(2): 489-506.e26, 2021 01 21.

Article in English | MEDLINE | ID: mdl-33338423

2.

Global and cell type-specific immunological hallmarks of severe dengue progression identified via a systems immunology approach.

Ghita, Luca; Yao, Zhiyuan; Xie, Yike; Duran, Veronica; Cagirici, Halise Busra; Samir, Jerome; Osman, Ilham; Rebellón-Sánchez, David Esteban; Agudelo-Rojas, Olga Lucia; Sanz, Ana Maria; Sahoo, Malaya Kumar; Robinson, Makeda L; Gelvez-Ramirez, Rosa Margarita; Bueno, Nathalia; Luciani, Fabio; Pinsky, Benjamin A; Montoya, Jose G; Estupiñan-Cardenas, Maria Isabel; Villar-Centeno, Luis Angel; Rojas-Garrido, Elsa Marina; Rosso, Fernando; Quake, Stephen R; Zanini, Fabio; Einav, Shirit.

Nat Immunol ; 24(12): 2150-2163, 2023 Dec.

Article in English | MEDLINE | ID: mdl-37872316

3.

Cell-Surface Proteomic Profiling in the Fly Brain Uncovers Wiring Regulators.

Li, Jiefu; Han, Shuo; Li, Hongjie; Udeshi, Namrata D; Svinkina, Tanya; Mani, D R; Xu, Chuanyun; Guajardo, Ricardo; Xie, Qijing; Li, Tongchao; Luginbuhl, David J; Wu, Bing; McLaughlin, Colleen N; Xie, Anthony; Kaewsapsak, Pornchai; Quake, Stephen R; Carr, Steven A; Ting, Alice Y; Luo, Liqun.

Cell ; 180(2): 373-386.e15, 2020 01 23.

Article in English | MEDLINE | ID: mdl-31955847

4.

Antigen Identification for Orphan T Cell Receptors Expressed on Tumor-Infiltrating Lymphocytes.

Gee, Marvin H; Han, Arnold; Lofgren, Shane M; Beausang, John F; Mendoza, Juan L; Birnbaum, Michael E; Bethune, Michael T; Fischer, Suzanne; Yang, Xinbo; Gomez-Eerland, Raquel; Bingham, David B; Sibener, Leah V; Fernandes, Ricardo A; Velasco, Andrew; Baltimore, David; Schumacher, Ton N; Khatri, Purvesh; Quake, Stephen R; Davis, Mark M; Garcia, K Christopher.

Cell ; 172(3): 549-563.e16, 2018 01 25.

Article in English | MEDLINE | ID: mdl-29275860

5.

Single-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation Patterns.

Enge, Martin; Arda, H Efsun; Mignardi, Marco; Beausang, John; Bottino, Rita; Kim, Seung K; Quake, Stephen R.

Cell ; 171(2): 321-330.e14, 2017 Oct 05.

Article in English | MEDLINE | ID: mdl-28965763

6.

Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-Cell RNA Sequencing.

Li, Hongjie; Horns, Felix; Wu, Bing; Xie, Qijing; Li, Jiefu; Li, Tongchao; Luginbuhl, David J; Quake, Stephen R; Luo, Liqun.

Cell ; 171(5): 1206-1220.e22, 2017 Nov 16.

Article in English | MEDLINE | ID: mdl-29149607

7.

Alternative splicing of latrophilin-3 controls synapse formation.

Wang, Shuai; DeLeon, Chelsea; Sun, Wenfei; Quake, Stephen R; Roth, Bryan L; Südhof, Thomas C.

Nature ; 626(7997): 128-135, 2024 Feb.

Article in English | MEDLINE | ID: mdl-38233523

8.

Spatial transcriptomics reveal neuron-astrocyte synergy in long-term memory.

Sun, Wenfei; Liu, Zhihui; Jiang, Xian; Chen, Michelle B; Dong, Hua; Liu, Jonathan; Südhof, Thomas C; Quake, Stephen R.

Nature ; 627(8003): 374-381, 2024 Mar.

Article in English | MEDLINE | ID: mdl-38326616

9.

Temporal response of the human virome to immunosuppression and antiviral therapy.

De Vlaminck, Iwijn; Khush, Kiran K; Strehl, Calvin; Kohli, Bitika; Luikart, Helen; Neff, Norma F; Okamoto, Jennifer; Snyder, Thomas M; Cornfield, David N; Nicolls, Mark R; Weill, David; Bernstein, Daniel; Valantine, Hannah A; Quake, Stephen R.

Cell ; 155(5): 1178-87, 2013 Nov 21.

Article in English | MEDLINE | ID: mdl-24267896

10.

Molecular hallmarks of heterochronic parabiosis at single-cell resolution.

Pálovics, Róbert; Keller, Andreas; Schaum, Nicholas; Tan, Weilun; Fehlmann, Tobias; Borja, Michael; Kern, Fabian; Bonanno, Liana; Calcuttawala, Kruti; Webber, James; McGeever, Aaron; Luo, Jian; Pisco, Angela Oliveira; Karkanias, Jim; Neff, Norma F; Darmanis, Spyros; Quake, Stephen R; Wyss-Coray, Tony.

Nature ; 603(7900): 309-314, 2022 03.

Article in English | MEDLINE | ID: mdl-35236985

11.

Early prediction of preeclampsia in pregnancy with cell-free RNA.

Moufarrej, Mira N; Vorperian, Sevahn K; Wong, Ronald J; Campos, Ana A; Quaintance, Cecele C; Sit, Rene V; Tan, Michelle; Detweiler, Angela M; Mekonen, Honey; Neff, Norma F; Baruch-Gravett, Courtney; Litch, James A; Druzin, Maurice L; Winn, Virginia D; Shaw, Gary M; Stevenson, David K; Quake, Stephen R.

Nature ; 602(7898): 689-694, 2022 02.

Article in English | MEDLINE | ID: mdl-35140405

12.

RNA profiles reveal signatures of future health and disease in pregnancy.

Rasmussen, Morten; Reddy, Mitsu; Nolan, Rory; Camunas-Soler, Joan; Khodursky, Arkady; Scheller, Nikolai M; Cantonwine, David E; Engelbrechtsen, Line; Mi, Jia Dai; Dutta, Arup; Brundage, Tiffany; Siddiqui, Farooq; Thao, Mainou; Gee, Elaine P S; La, Johnny; Baruch-Gravett, Courtney; Santillan, Mark K; Deb, Saikat; Ame, Shaali M; Ali, Said M; Adkins, Melanie; DePristo, Mark A; Lee, Manfred; Namsaraev, Eugeni; Gybel-Brask, Dorte Jensen; Skibsted, Lillian; Litch, James A; Santillan, Donna A; Sazawal, Sunil; Tribe, Rachel M; Roberts, James M; Jain, Maneesh; Høgdall, Estrid; Holzman, Claudia; Quake, Stephen R; Elovitz, Michal A; McElrath, Thomas F.

Nature ; 601(7893): 422-427, 2022 01.

Article in English | MEDLINE | ID: mdl-34987224

13.

Genome-wide single-cell analysis of recombination activity and de novo mutation rates in human sperm.

Wang, Jianbin; Fan, H Christina; Behr, Barry; Quake, Stephen R.

Cell ; 150(2): 402-12, 2012 Jul 20.

Article in English | MEDLINE | ID: mdl-22817899

14.

Gut cytokines modulate olfaction through metabolic reprogramming of glia.

Cai, Xiaoyu Tracy; Li, Hongjie; Borch Jensen, Martin; Maksoud, Elie; Borneo, Jovencio; Liang, Yuxin; Quake, Stephen R; Luo, Liqun; Haghighi, Pejmun; Jasper, Heinrich.

Nature ; 596(7870): 97-102, 2021 08.

Article in English | MEDLINE | ID: mdl-34290404

15.

Persistent transcriptional programmes are associated with remote memory.

Chen, Michelle B; Jiang, Xian; Quake, Stephen R; Südhof, Thomas C.

Nature ; 587(7834): 437-442, 2020 11.

Article in English | MEDLINE | ID: mdl-33177708

16.

A molecular cell atlas of the human lung from single-cell RNA sequencing.

Travaglini, Kyle J; Nabhan, Ahmad N; Penland, Lolita; Sinha, Rahul; Gillich, Astrid; Sit, Rene V; Chang, Stephen; Conley, Stephanie D; Mori, Yasuo; Seita, Jun; Berry, Gerald J; Shrager, Joseph B; Metzger, Ross J; Kuo, Christin S; Neff, Norma; Weissman, Irving L; Quake, Stephen R; Krasnow, Mark A.

Nature ; 587(7835): 619-625, 2020 11.

Article in English | MEDLINE | ID: mdl-33208946

17.

Ageing hallmarks exhibit organ-specific temporal signatures.

Schaum, Nicholas; Lehallier, Benoit; Hahn, Oliver; Pálovics, Róbert; Hosseinzadeh, Shayan; Lee, Song E; Sit, Rene; Lee, Davis P; Losada, Patricia Morán; Zardeneta, Macy E; Fehlmann, Tobias; Webber, James T; McGeever, Aaron; Calcuttawala, Kruti; Zhang, Hui; Berdnik, Daniela; Mathur, Vidhu; Tan, Weilun; Zee, Alexander; Tan, Michelle; Pisco, Angela Oliveira; Karkanias, Jim; Neff, Norma F; Keller, Andreas; Darmanis, Spyros; Quake, Stephen R; Wyss-Coray, Tony.

Nature ; 583(7817): 596-602, 2020 07.

Article in English | MEDLINE | ID: mdl-32669715

18.

Physiological blood-brain transport is impaired with age by a shift in transcytosis.

Yang, Andrew C; Stevens, Marc Y; Chen, Michelle B; Lee, Davis P; Stähli, Daniel; Gate, David; Contrepois, Kévin; Chen, Winnie; Iram, Tal; Zhang, Lichao; Vest, Ryan T; Chaney, Aisling; Lehallier, Benoit; Olsson, Niclas; du Bois, Haley; Hsieh, Ryan; Cropper, Haley C; Berdnik, Daniela; Li, Lulin; Wang, Elizabeth Y; Traber, Gavin M; Bertozzi, Carolyn R; Luo, Jian; Snyder, Michael P; Elias, Joshua E; Quake, Stephen R; James, Michelle L; Wyss-Coray, Tony.

Nature ; 583(7816): 425-430, 2020 07.

Article in English | MEDLINE | ID: mdl-32612231

19.

A decade of molecular cell atlases.

Quake, Stephen R.

Trends Genet ; 38(8): 805-810, 2022 08.

Article in English | MEDLINE | ID: mdl-35105475

20.

c-Jun overexpression in CAR T cells induces exhaustion resistance.

Lynn, Rachel C; Weber, Evan W; Sotillo, Elena; Gennert, David; Xu, Peng; Good, Zinaida; Anbunathan, Hima; Lattin, John; Jones, Robert; Tieu, Victor; Nagaraja, Surya; Granja, Jeffrey; de Bourcy, Charles F A; Majzner, Robbie; Satpathy, Ansuman T; Quake, Stephen R; Monje, Michelle; Chang, Howard Y; Mackall, Crystal L.

Nature ; 576(7786): 293-300, 2019 12.

Article in English | MEDLINE | ID: mdl-31802004

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