Deep Learning Automates the Quantitative Analysis of Individual Cells in Live-Cell Imaging Experiments von Van Valen, David A, Kudo, Takamasa, Lane, Keara M, Macklin, Derek N, Quach, Nicolas T, DeFelice, Mialy M, Maayan, Inbal, Tanouchi, Yu, Ashley, Euan A, Covert, Markus W

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Deep learning for cellular image analysis von Moen, Erick, Bannon, Dylan, Kudo, Takamasa, Graf, William, Covert, Markus, Van Valen, David

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Single-cell metabolic profiling of human cytotoxic T cells von Hartmann, Felix J., Mrdjen, Dunja, McCaffrey, Erin, Glass, David R., Greenwald, Noah F., Bharadwaj, Anusha, Khair, Zumana, Verberk, Sanne G. S., Baranski, Alex, Baskar, Reema, Graf, William, Van Valen, David, Van den Bossche, Jan, Angelo, Michael, Bendall, Sean C.

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Whole-cell segmentation of tissue images with human-level performance using large-scale data annotation and deep learning von Greenwald, Noah F., Miller, Geneva, Moen, Erick, Kong, Alex, Kagel, Adam, Dougherty, Thomas, Fullaway, Christine Camacho, McIntosh, Brianna J., Leow, Ke Xuan, Schwartz, Morgan Sarah, Pavelchek, Cole, Cui, Sunny, Camplisson, Isabella, Bar-Tal, Omer, Singh, Jaiveer, Fong, Mara, Chaudhry, Gautam, Abraham, Zion, Moseley, Jackson, Warshawsky, Shiri, Soon, Erin, Greenbaum, Shirley, Risom, Tyler, Hollmann, Travis, Bendall, Sean C., Keren, Leeat, Graf, William, Angelo, Michael, Van Valen, David

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DeepCell Kiosk: scaling deep learning–enabled cellular image analysis with Kubernetes von Bannon, Dylan, Moen, Erick, Schwartz, Morgan, Borba, Enrico, Kudo, Takamasa, Greenwald, Noah, Vijayakumar, Vibha, Chang, Brian, Pao, Edward, Osterman, Erik, Graf, William, Van Valen, David

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The immunoregulatory landscape of human tuberculosis granulomas von McCaffrey, Erin F., Donato, Michele, Keren, Leeat, Chen, Zhenghao, Delmastro, Alea, Fitzpatrick, Megan B., Gupta, Sanjana, Greenwald, Noah F., Baranski, Alex, Graf, William, Kumar, Rashmi, Bosse, Marc, Fullaway, Christine Camacho, Ramdial, Pratista K., Forgó, Erna, Jojic, Vladimir, Van Valen, David, Mehra, Smriti, Khader, Shabaana A., Bendall, Sean C., van de Rijn, Matt, Kalman, Daniel, Kaushal, Deepak, Hunter, Robert L., Banaei, Niaz, Steyn, Adrie J. C., Khatri, Purvesh, Angelo, Michael

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Measuring Signaling and RNA-Seq in the Same Cell Links Gene Expression to Dynamic Patterns of NF-κB Activation von Lane, Keara, Van Valen, David, DeFelice, Mialy M., Macklin, Derek N., Kudo, Takamasa, Jaimovich, Ariel, Carr, Ambrose, Meyer, Tobias, Pe'er, Dana, Boutet, Stéphane C., Covert, Markus W.

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A Single-Molecule Hershey-Chase Experiment von Van Valen, David, Wu, David, Chen, Yi-Ju, Tuson, Hannah, Wiggins, Paul, Phillips, Rob

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Publisher Correction: DeepCell Kiosk: scaling deep learning–enabled cellular image analysis with Kubernetes von Bannon, Dylan, Moen, Erick, Schwartz, Morgan, Borba, Enrico, Kudo, Takamasa, Greenwald, Noah, Vijayakumar, Vibha, Chang, Brian, Pao, Edward, Osterman, Erik, Graf, William, Van Valen, David

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Accurate single-molecule spot detection for image-based spatial transcriptomics with weakly supervised deep learning von Laubscher, Emily, Wang, Xuefei, Razin, Nitzan, Dougherty, Tom, Xu, Rosalind J., Ombelets, Lincoln, Pao, Edward, Graf, William, Moffitt, Jeffrey R., Yue, Yisong, Van Valen, David

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Author Correction: The immunoregulatory landscape of human tuberculosis granulomas von McCaffrey, Erin F., Donato, Michele, Keren, Leeat, Chen, Zhenghao, Delmastro, Alea, Fitzpatrick, Megan B., Gupta, Sanjana, Greenwald, Noah F., Baranski, Alex, Graf, William, Kumar, Rashmi, Bosse, Marc, Fullaway, Christine Camacho, Ramdial, Pratista K., Forgó, Erna, Jojic, Vladimir, Van Valen, David, Mehra, Smriti, Khader, Shabaana A., Bendall, Sean C., van de Rijn, Matt, Kalman, Daniel, Kaushal, Deepak, Hunter, Robert L., Banaei, Niaz, Steyn, Adrie J. C., Khatri, Purvesh, Angelo, Michael

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Abstract 2526: Everything as code von Van Valen, David

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Voices in methods development von Anikeeva, Polina, Boyden, Edward, Brangwynne, Clifford, Cissé, Ibrahim I., Fiehn, Oliver, Fromme, Petra, Gingras, Anne-Claude, Greene, Casey S., Heard, Edith, Hell, Stefan W., Hillman, Elizabeth, Jensen, Grant Jay, Karchin, Rachel, Kiessling, Laura L., Kleinstiver, Benjamin P., Knight, Rob, Kukura, Philipp, Lancaster, Madeline A., Loman, Nicholas, Looger, Loren, Lundberg, Emma, Luo, Qingming, Miyawaki, Atsushi, Myers, Eugene W., Nolan, Garry P., Picotti, Paola, Reik, Wolf, Sauer, Markus, Shalek, Alex K., Shendure, Jay, Slavov, Nikolai, Tanay, Amos, Troyanskaya, Olga, van Valen, David, Wang, Hong-Wei, Yi, Chengqi, Yin, Peng, Zernicka-Goetz, Magdalena, Zhuang, Xiaowei

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Ten challenges and opportunities in computational immuno-oncology von Bao, Riyue, Hutson, Alan, Madabhushi, Anant, Jonsson, Vanessa D, Rosario, Spencer R, Barnholtz-Sloan, Jill S, Fertig, Elana J, Marathe, Himangi, Harris, Lyndsay, Altreuter, Jennifer, Chen, Qingrong, Dignam, James, Gentles, Andrew J, Gonzalez-Kozlova, Edgar, Gnjatic, Sacha, Kim, Erika, Long, Mark, Morgan, Martin, Ruppin, Eytan, Valen, David Van, Zhang, Hong, Vokes, Natalie, Meerzaman, Daoud, Liu, Song, Van Allen, Eliezer M, Xing, Yi

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A Structured Tumor-Immune Microenvironment in Triple Negative Breast Cancer Revealed by Multiplexed Ion Beam Imaging von Keren, Leeat, Bosse, Marc, Marquez, Diana, Angoshtari, Roshan, Jain, Samir, Varma, Sushama, Yang, Soo-Ryum, Kurian, Allison, Van Valen, David, West, Robert, Bendall, Sean C., Angelo, Michael

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A spatially resolved timeline of the human maternal–fetal interface von Greenbaum, Shirley, Averbukh, Inna, Soon, Erin, Rizzuto, Gabrielle, Baranski, Alex, Greenwald, Noah F., Kagel, Adam, Bosse, Marc, Jaswa, Eleni G., Khair, Zumana, Kwok, Shirley, Warshawsky, Shiri, Piyadasa, Hadeesha, Goldston, Mako, Spence, Angie, Miller, Geneva, Schwartz, Morgan, Graf, Will, Van Valen, David, Winn, Virginia D., Hollmann, Travis, Keren, Leeat, van de Rijn, Matt, Angelo, Michael

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Imaging cell biology von Andrews, Brenda, Chang, Jae-Byum, Collinson, Lucy, Li, Dong, Lundberg, Emma, Mahamid, Julia, Manley, Suliana, Mhlanga, Musa, Nakano, Akihiko, Schöneberg, Johannes, Van Valen, David, Wu, Ting ‘C.-ting’, Zaritsky, Assaf

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Scaling biological discovery at the interface of deep learning and cellular imaging von Schwartz, Morgan, Israel, Uriah, Wang, Xuefei (Julie), Laubscher, Emily, Yu, Changhua, Dilip, Rohit, Li, Qilin, Mari, Joud, Soro, Johnathon, Yu, Kevin, Pradhan, Elora, Ates, Ada, Gallandt, Danielle, Barnowski, Ross, Pao, Edward, Van Valen, David

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The multimodality cell segmentation challenge: toward universal solutions von Ma, Jun, Xie, Ronald, Ayyadhury, Shamini, Ge, Cheng, Gupta, Anubha, Gupta, Ritu, Gu, Song, Zhang, Yao, Lee, Gihun, Kim, Joonkee, Lou, Wei, Li, Haofeng, Upschulte, Eric, Dickscheid, Timo, de Almeida, José Guilherme, Wang, Yixin, Han, Lin, Yang, Xin, Labagnara, Marco, Gligorovski, Vojislav, Scheder, Maxime, Rahi, Sahand Jamal, Kempster, Carly, Pollitt, Alice, Espinosa, Leon, Mignot, Tâm, Middeke, Jan Moritz, Eckardt, Jan-Niklas, Li, Wangkai, Li, Zhaoyang, Cai, Xiaochen, Bai, Bizhe, Greenwald, Noah F., Van Valen, David, Weisbart, Erin, Cimini, Beth A., Cheung, Trevor, Brück, Oscar, Bader, Gary D., Wang, Bo

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Biochemistry on a Leash: The Roles of Tether Length and Geometry in Signal Integration Proteins von Van Valen, David, Haataja, Mikko, Phillips, Rob

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