Visualizing structure and transitions in high-dimensional biological data
Moon, Kevin R., van Dijk, David, Wang, Zheng, Gigante, Scott, Burkhardt, Daniel B., Chen, William S., Yim, Kristina, Elzen, Antonia van den, Hirn, Matthew J., Coifman, Ronald R., Ivanova, Natalia B., Wolf, Guy, Krishnaswamy, Smita
Published in Nature biotechnology (01.12.2019)
Published in Nature biotechnology (01.12.2019)
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Journal Article
Quantifying the effect of experimental perturbations at single-cell resolution
Burkhardt, Daniel B., Stanley, Jay S., Tong, Alexander, Perdigoto, Ana Luisa, Gigante, Scott A., Herold, Kevan C., Wolf, Guy, Giraldez, Antonio J., van Dijk, David, Krishnaswamy, Smita
Published in Nature biotechnology (01.05.2021)
Published in Nature biotechnology (01.05.2021)
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Journal Article
Mitochondrial phylogenomics of Hemiptera reveals adaptive innovations driving the diversification of true bugs
Li, Hu, Leavengood, John M., Chapman, Eric G., Burkhardt, Daniel, Song, Fan, Jiang, Pei, Liu, Jinpeng, Zhou, Xuguo, Cai, Wanzhi
Published in Proceedings of the Royal Society. B, Biological sciences (13.09.2017)
Published in Proceedings of the Royal Society. B, Biological sciences (13.09.2017)
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Journal Article
MLL-AF9 initiates transformation from fast-proliferating myeloid progenitors
Chen, Xinyue, Burkhardt, Daniel B., Hartman, Amaleah A., Hu, Xiao, Eastman, Anna E., Sun, Chao, Wang, Xujun, Zhong, Mei, Krishnaswamy, Smita, Guo, Shangqin
Published in Nature communications (18.12.2019)
Published in Nature communications (18.12.2019)
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Journal Article
Mapping Phenotypic Plasticity upon the Cancer Cell State Landscape Using Manifold Learning
Burkhardt, Daniel B, San Juan, Beatriz P, Lock, John G, Krishnaswamy, Smita, Chaffer, Christine L
Published in Cancer discovery (05.08.2022)
Published in Cancer discovery (05.08.2022)
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Journal Article
Endocrine-Exocrine Signaling Drives Obesity-Associated Pancreatic Ductal Adenocarcinoma
Chung, Katherine Minjee, Singh, Jaffarguriqbal, Lawres, Lauren, Dorans, Kimberly Judith, Garcia, Cathy, Burkhardt, Daniel B., Robbins, Rebecca, Bhutkar, Arjun, Cardone, Rebecca, Zhao, Xiaojian, Babic, Ana, Vayrynen, Sara A., Dias Costa, Andressa, Nowak, Jonathan A., Chang, Daniel T., Dunne, Richard F., Hezel, Aram F., Koong, Albert C., Wilhelm, Joshua J., Bellin, Melena D., Nylander, Vibe, Gloyn, Anna L., McCarthy, Mark I., Kibbey, Richard G., Krishnaswamy, Smita, Wolpin, Brian M., Jacks, Tyler, Fuchs, Charles S., Muzumdar, Mandar Deepak
Published in Cell (14.05.2020)
Published in Cell (14.05.2020)
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Journal Article
Modeling uniquely human gene regulatory function via targeted humanization of the mouse genome
Dutrow, Emily V., Emera, Deena, Yim, Kristina, Uebbing, Severin, Kocher, Acadia A., Krenzer, Martina, Nottoli, Timothy, Burkhardt, Daniel B., Krishnaswamy, Smita, Louvi, Angeliki, Noonan, James P.
Published in Nature communications (13.01.2022)
Published in Nature communications (13.01.2022)
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Journal Article
Long-Term Warming Alters Carbohydrate Degradation Potential in Temperate Forest Soils
Pold, Grace, Billings, Andrew F, Blanchard, Jeff L, Burkhardt, Daniel B, Frey, Serita D, Melillo, Jerry M, Schnabel, Julia, van Diepen, Linda T A, DeAngelis, Kristen M
Published in Applied and environmental microbiology (15.11.2016)
Published in Applied and environmental microbiology (15.11.2016)
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Journal Article
Manifold learning-based methods for analyzing single-cell RNA-sequencing data
Moon, Kevin R., Stanley, Jay S., Burkhardt, Daniel, van Dijk, David, Wolf, Guy, Krishnaswamy, Smita
Published in Current opinion in systems biology (01.02.2018)
Published in Current opinion in systems biology (01.02.2018)
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Journal Article
How to build the virtual cell with artificial intelligence: Priorities and opportunities
Bunne, Charlotte, Roohani, Yusuf, Rosen, Yanay, Gupta, Ankit, Zhang, Xikun, Roed, Marcel, Alexandrov, Theo, AlQuraishi, Mohammed, Brennan, Patricia, Burkhardt, Daniel B., Califano, Andrea, Cool, Jonah, Dernburg, Abby F., Ewing, Kirsty, Fox, Emily B., Haury, Matthias, Herr, Amy E., Horvitz, Eric, Hsu, Patrick D., Jain, Viren, Johnson, Gregory R., Kalil, Thomas, Kelley, David R., Kelley, Shana O., Kreshuk, Anna, Mitchison, Tim, Otte, Stephani, Shendure, Jay, Sofroniew, Nicholas J., Theis, Fabian, Theodoris, Christina V., Upadhyayula, Srigokul, Valer, Marc, Wang, Bo, Xing, Eric, Yeung-Levy, Serena, Zitnik, Marinka, Karaletsos, Theofanis, Regev, Aviv, Lundberg, Emma, Leskovec, Jure, Quake, Stephen R.
Published in Cell (12.12.2024)
Published in Cell (12.12.2024)
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Journal Article
Publisher Correction: MLL-AF9 initiates transformation from fast-proliferating myeloid progenitors
Chen, Xinyue, Burkhardt, Daniel B., Hartman, Amaleah A., Hu, Xiao, Eastman, Anna E., Sun, Chao, Wang, Xujun, Zhong, Mei, Krishnaswamy, Smita, Guo, Shangqin
Published in Nature communications (29.01.2020)
Published in Nature communications (29.01.2020)
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Journal Article
1-deoxysphingolipids bind to COUP-TF to modulate lymphatic and cardiac cell development
Wang, Ting, Wang, Zheng, de Fabritus, Lauriane, Tao, Jinglian, Saied, Essa M., Lee, Ho-Joon, Ramazanov, Bulat R., Jackson, Benjamin, Burkhardt, Daniel, Parker, Mikhail, Gleinich, Anne S., Wang, Zhirui, Seo, Dong Eun, Zhou, Ting, Xu, Shihao, Alecu, Irina, Azadi, Parastoo, Arenz, Christoph, Hornemann, Thorsten, Krishnaswamy, Smita, van de Pavert, Serge A., Kaech, Susan M., Ivanova, Natalia B., Santori, Fabio R.
Published in Developmental cell (22.11.2021)
Published in Developmental cell (22.11.2021)
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Journal Article
Immune cells and their inflammatory mediators modify β cells and cause checkpoint inhibitor-induced diabetes
Perdigoto, Ana Luisa, Deng, Songyan, Du, Katherine C, Kuchroo, Manik, Burkhardt, Daniel B, Tong, Alexander, Israel, Gary, Robert, Marie E, Weisberg, Stuart P, Kirkiles-Smith, Nancy, Stamatouli, Angeliki M, Kluger, Harriet M, Quandt, Zoe, Young, Arabella, Yang, Mei-Ling, Mamula, Mark J, Pober, Jordan S, Anderson, Mark S, Krishnaswamy, Smita, Herold, Kevan C
Published in JCI insight (08.09.2022)
Published in JCI insight (08.09.2022)
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Journal Article
Author Correction: Visualizing structure and transitions in high-dimensional biological data
Moon, Kevin R., van Dijk, David, Wang, Zheng, Gigante, Scott, Burkhardt, Daniel B., Chen, William S., Yim, Kristina, van den Elzen, Antonia, Hirn, Matthew J., Coifman, Ronald R., Ivanova, Natalia B., Wolf, Guy, Krishnaswamy, Smita
Published in Nature biotechnology (2020)
Published in Nature biotechnology (2020)
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Journal Article
Generating hard-to-obtain information from easy-to-obtain information: Applications in drug discovery and clinical inference
Amodio, Matthew, Shung, Dennis, Burkhardt, Daniel B., Wong, Patrick, Simonov, Michael, Yamamoto, Yu, van Dijk, David, Wilson, Francis Perry, Iwasaki, Akiko, Krishnaswamy, Smita
Published in Patterns (New York, N.Y.) (09.07.2021)
Published in Patterns (New York, N.Y.) (09.07.2021)
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Journal Article
Longterm effects of intraarticular hyaluronan on synovial fluid in osteoarthritis of the knee
Bagga, Hanish, Burkhardt, Daniel, Sambrook, Philip, March, Lyn
Published in Journal of rheumatology (01.05.2006)
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Published in Journal of rheumatology (01.05.2006)
Journal Article
Perioperative outcomes comparing patient controlled epidural versus intravenous analgesia in gynecologic oncology surgery
Chen, Lee-may, Weinberg, Vivian K, Chen, Christine, Powell, C. Bethan, Chen, Lee-lynn, Chan, John K, Burkhardt, Daniel H
Published in Gynecologic oncology (01.12.2009)
Published in Gynecologic oncology (01.12.2009)
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Journal Article
Evaluations of physiologic reactivity and reflexive behaviors during noxious procedures in sedated critically ill patients
Li, Denise, PhD, RN, Miaskowski, Christine, PhD, RN, FAAN, Burkhardt, Daniel, MD, Puntillo, Kathleen, DNSc, RN, FAAN
Published in Journal of critical care (01.09.2009)
Published in Journal of critical care (01.09.2009)
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Journal Article
Predictors of intensive care unit utilization in gynecologic oncology surgery
Ruskin, Rachel, Urban, Renata R, Sherman, Alexander E, Chen, Lee-Lynn, Powell, C Bethan, Burkhardt, 3rd, Daniel H, Chen, Lee-May
Published in International journal of gynecological cancer (01.11.2011)
Published in International journal of gynecological cancer (01.11.2011)
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Journal Article