Not logged in InSituCor: exploring spatially correlated genes conditional on the cell type landscape Danaher, Patrick; McGuire, Dan; Wu, Lidan; Patrick, Michael; Kroeppler, David; Zhai, Haiyan; Olgun, Deniz G.; Gong, Dennis; Cao, Jingyi; Hwang, William L.; Schmid, Joachim; Beechem, Joseph M. Share Save
Childhood-onset lupus nephritis is characterized by complex interactions between kidney stroma and infiltrating immune cells Danaher, Patrick; Hasle, Nicholas; Nguyen, Elizabeth D.; Roberts, Jordan E.; Rosenwasser, Natalie; Rickert, Christian; Hsieh, Elena W. Y.; Hayward, Kristen; Okamura, Daryl M.; Alpers, Charles E.; Reed, Robyn C.; Baxter, Sarah K.; Jackson, Shaun W. Share Save
Repeat RNA mediated disruption of cellular plasticity in pancreatic cancer You, Eunae; Danaher, Patrick; Lu, Chenyue; Sun, Siyu; Zou, Luli; Phillips, Ildiko; Rojas, Alexandra; Ho, Natalie; Song, Yuhui; Raabe, Michael; Xu, Katherine; Richieri, Peter; Li, Hao; Aston, Natalie; Porter, Rebecca; Patel, Bidish; Nieman, Linda; Schurman, Nathan; Hudson, Briana; North, Khrystyna; Church, Sarah; Deshpande, Vikram; Liss, Andrew; Kim, Tae; Cui, Yi; Kim, Youngmi; Greenbaum, Benjamin; Aryee, Martin; Ting, David Share Save
Deep Learning in Single-cell Analysis Molho, Dylan; Ding, Jiayuan; Tang, Wenzhuo; Li, Zhaoheng; Wen, Hongzhi; Wang, Yixin; Venegas, Julian; Jin, Wei; Liu, Renming; Su, Runze; Danaher, Patrick; Yang, Robert; Lei, Yu Leo; Xie, Yuying; Tang, Jiliang Share Save
Uncover spatial signatures of tumor microenvironment and oncogenic pathways using 6,000-plex single-cell spatial molecular imaging on FFPE skin squamous cell carcinoma Patrick, Michael; He, Shanshan; Ilcisin, Saskia; Kroeppler, David; Danaher, Patrick; Reeves, Jason; Gregory, Mark; Zhai, Haiyan; Rhodes, Michael; Beechem, Joseph Share Save
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Spatial insights into tumor immune evasion illuminated with 1000-plex RNA profiling with CosMx Spatial Molecular Imager Williams, Claire; Reeves, Jason W.; Danaher, Patrick; He, Shanshan; Kim, Sean; Patrick, Michael; Preciado, Julian; Gregory, Mark; Reitz, Zach; Jenkins, Justin; Liu, Rachel; Murphy, Sarah; Kang, Christine; Hartman, Byron; Devgan, Vikram; Rhodes, Michael; Beechem, Joseph Share Save
Path to the holy grail of spatial biology: Spatial single-cell whole transcriptomes using 6000-plex spatial molecular imaging on FFPE tissue He, Shanshan; Patrick, Michael; Reeves, Jason W.; Danaher, Patrick; Preciado, Julian; Phan, Joseph; Piazza, Erin; Reitz, Zachary; Wu, Lidan; Khafizov, Rustem; Zhai, Haiyan; Rhodes, Michael; Ruff, David; Beechem, Joseph Share Save
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Longitudinal transcriptional analysis of peripheral blood leukocytes in COVID-19 convalescent donors Gedda, Mallikarjuna R.; Danaher, Patrick; Shao, Lipei; Ongkeko, Martin; Chen, Leonard; Dinh, Anh; Sall, Mame Thioye; Reddy, Opal L.; Bailey, Christina; Wahba, Amy; Dzekunova, Inna; Somerville, Robert; De Giorgi, Valeria; Jin, Ping; West, Kamille; Panch, Sandhya R.; Stroncek, David F. Share Save
High-plex imaging of RNA and proteins at subcellular resolution in fixed tissue by spatial molecular imaging He, Shanshan; Bhatt, Ruchir; Brown, Carl; Brown, Emily A.; Buhr, Derek L.; Chantranuvatana, Kan; Danaher, Patrick; Dunaway, Dwayne; Garrison, Ryan G.; Geiss, Gary; Gregory, Mark T.; Hoang, Margaret L.; Khafizov, Rustem; Killingbeck, Emily E.; Kim, Dae; Kim, Tae Kyung; Kim, Youngmi; Klock, Andrew; Korukonda, Mithra; Kutchma, Alecksandr; Lewis, Zachary R.; Liang, Yan; Nelson, Jeffrey S.; Ong, Giang T.; Perillo, Evan P.; Phan, Joseph C.; Phan-Everson, Tien; Piazza, Erin; Rane, Tushar; Reitz, Zachary; Rhodes, Michael; Rosenbloom, Alyssa; Ross, David; Sato, Hiromi; Wardhani, Aster W.; Williams-Wietzikoski, Corey A.; Wu, Lidan; Beechem, Joseph M. Share Save
Adaptive immune signature in HER2-positive breast cancer in NCCTG (Alliance) N9831 and NeoALTTO trials Chumsri, Saranya; Li, Zhuo; Serie, Daniel J.; Norton, Nadine; Mashadi-Hossein, Afshin; Tenner, Kathleen; Brauer, Heather Ann; Warren, Sarah; Danaher, Patrick; Colon-Otero, Gerardo; Partridge, Ann H.; Carey, Lisa A.; Hilbers, Florentine; Van Dooren, Veerle; Holmes, Eileen; Di Cosimo, Serena; Werner, Olena; Huober, Jens Bodo; Dueck, Amylou C.; Sotiriou, Christos; Saura, Cristina; Moreno-Aspitia, Alvaro; Knutson, Keith L.; Perez, Edith A.; Thompson, E. Aubrey Share Save
Metabolic adaptation of ovarian tumors in patients treated with an IDO1 inhibitor constrains antitumor immune responses Odunsi, Kunle; Qian, Feng; Lugade, Amit A.; Yu, Han; Geller, Melissa A.; Fling, Steven P.; Kaiser, Judith C.; Lacroix, Andreanne M.; D'Amico, Leonard; Ramchurren, Nirasha; Morishima, Chihiro; Disis, Mary L.; Dennis, Lucas; Danaher, Patrick; Warren, Sarah; Van Anh Nguyen; Ravi, Sudharshan; Tsuji, Takemasa; Rosario, Spencer; Zha, Wenjuan; Hutson, Alan; Liu, Song; Lele, Shashikant; Zsiros, Emese; McGray, A. J. Robert; Chiello, Jessie; Koya, Richard; Chodon, Thinle; Morrison, Carl D.; Putluri, Vasanta; Putluri, Nagireddy; Mager, Donald E.; Gunawan, Rudiyanto; Cheever, Martin A.; Battaglia, Sebastiano; Matsuzaki, Junko Share Save
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Temporal and spatial heterogeneity of host response to SARS-CoV-2 pulmonary infection Desai, Niyati; Neyaz, Azfar; Szabolcs, Annamaria; Shih, Angela R.; Chen, Jonathan H.; Thapar, Vishal; Nieman, Linda T.; Solovyov, Alexander; Mehta, Arnav; Lieb, David J.; Kulkarni, Anupriya S.; Jaicks, Christopher; Xu, Katherine H.; Raabe, Michael J.; Pinto, Christopher J.; Juric, Dejan; Chebib, Ivan; Colvin, Robert B.; Kim, Arthur Y.; Monroe, Robert; Warren, Sarah E.; Danaher, Patrick; Reeves, Jason W.; Gong, Jingjing; Rueckert, Erroll H.; Greenbaum, Benjamin D.; Hacohen, Nir; Lagana, Stephen M.; Rivera, Miguel N.; Sholl, Lynette M.; Stone, James R.; Ting, David T.; Deshpande, Vikram Share Save
Flt3 ligand augments immune responses to anti-DEC-205-NY-ESO-1 vaccine through expansion of dendritic cell subsets Bhardwaj, Nina; Friedlander, Philip A.; Pavlick, Anna C.; Ernstoff, Marc S.; Gastman, Brian R.; Hanks, Brent A.; Curti, Brendan D.; Albertini, Mark R.; Luke, Jason J.; Blazquez, Ana B.; Balan, Sreekumar; Bedognetti, Davide; Beechem, Joseph M.; Crocker, Andrea S.; D'Amico, Leonard; Danaher, Patrick; Davis, Thomas A.; Hawthorne, Thomas; Hess, Bruce W.; Keler, Tibor; Lundgren, Lisa; Morishima, Chihiro; Ramchurren, Nirasha; Rinchai, Darawan; Salazar, Andres M.; Salim, Bob A.; Sharon, Elad; Vitale, Laura A.; Wang, Ena; Warren, Sarah; Yellin, Michael J.; Disis, Mary L.; Cheever, Martin A.; Fling, Steven P. Share Save
Spatially-resolved in situ expression profiling using the GeoMx™ Cancer Transcriptome Atlas panel in FFPE tissue Hoang, Margaret L.; Kriner, Michelle; Zhou, Zoey; Norgaard, Zach; Sorg, Kristina; Merritt, Chris; Piazza, Erin; Ross, Marty; Fropf, Robin; Saraf, Nileshi; Danaher, Patrick; Rhodes, Michael; Beechem, Joseph Share Save
Multiplex digital spatial profiling of proteins and RNA in fixed tissue Merritt, Christopher R.; Ong, Giang T.; Church, Sarah E.; Barker, Kristi; Danaher, Patrick; Geiss, Gary; Hoang, Margaret; Jung, Jaemyeong; Liang, Yan; McKay-Fleisch, Jill; Nguyen, Karen; Norgaard, Zach; Sorg, Kristina; Sprague, Isaac; Warren, Charles; Warren, Sarah; Webster, Philippa J.; Zhou, Zoey; Zollinger, Daniel R.; Dunaway, Dwayne L.; Mills, Gordon B.; Beechem, Joseph M. Share Save
Duplex Sequencing detects rare subclonal variants that mark early carcinogenesis and preneoplastic clonal evolution Valentine, Charles C.; Fielden, Mark; Young, Robert; Higgins, Jake; Williams, Lindsey; Li, Tan; Kulkarni, Rohan; Minocherhomji, Sheroy; Risques, Rosana; Danaher, Patrick; Salk, Jesse Share Save
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