Results 11 to 20 of about 3,600,628 (280)
Multiplexed imaging of nucleome architectures in single cells of mammalian tissue [PDF]
Nature Communications, 2020 The three-dimensional architecture of the genome affects genomic functions. Here, the authors developed Multiplexed Imaging of Nucleome Architectures to measure multiscale chromatin folding, RNA profiles, and associations of numerous genomic regions with Miao Liu, Yanfang Lu, Bing Yang, Yanbo Chen, Jonathan S. D. Radda, Mengwei Hu, Samuel G. Katz, Siyuan Wang +7 moredoaj +4 more sourcesMCMICRO: a scalable, modular image-processing pipeline for multiplexed tissue imaging. [PDF]
Nat Methods, 2022 Highly multiplexed tissue imaging makes detailed molecular analysis of single cells possible in a preserved spatial context. However, reproducible analysis of large multichannel images poses a substantial computational challenge.Schapiro D, Sokolov A, Yapp C, Chen YA, Muhlich JL, Hess J, Creason AL, Nirmal AJ, Baker GJ, Nariya MK, Lin JR, Maliga Z, Jacobson CA, Hodgman MW, Ruokonen J, Farhi SL, Abbondanza D, McKinley ET, Persson D, Betts C, Sivagnanam S, Regev A, Goecks J, Coffey RJ, Coussens LM, Santagata S, Sorger PK. +26 moreeuropepmc +6 more sourcesUnsupervised discovery of tissue architecture in multiplexed imaging [PDF]
Nature Methods, 2022 Multiplexed imaging and spatial transcriptomics enable highly resolved spatial characterization of cellular phenotypes, but still largely depend on laborious manual annotation to understand higher-order patterns of tissue organization.Elemento, O, Mosquera, J.M, Shaykhiev, R, Randell, S.H, Rendeiro, A.F, Kim, J, Rustam, S +6 morecore +4 more sourcesMITI minimum information guidelines for highly multiplexed tissue images [PDF]
Nature Methods, 2022 The imminent release of tissue atlases combining multichannel microscopy with single-cell sequencing and other omics data from normal and diseased specimens creates an urgent need for data and metadata standards to guide data deposition, curation and ...Schultz, Nikolaus, Network, Human Tumor Atlas, Tyler, Madison, Swedlow, Jason R.; id_orcid, Roland, Joseph T, Burlingame, Erik A., Merrick, Daniel T, Herrmann, Markus D., Santagata, Sandro, Snyder, Michael P., Bankhead, Peter, Taylor, Adam J., Bankhead, Peter; id_orcid, Xie, Yubin, Farhi, Samouil L., Swedlow, Jason R, Sorger, Peter K, Taylor, Adam J, Reynolds, Sheila M, Pe'er, Dana, Reynolds, Sheila M., Pe\u27er, Dana, Herndon, John M, Mazzili, Sarah A., Muhlich, Jeremy, Yapp, Clarence, Arena, Sarah, Vankatamohan, Nithya, Drewes, Julia L, Gehlenborg, Nils, ?, ?, Reynolds, Sheila, Angelo, Michael, Nikolov, Milen, Rodig, Scott J, Farhi, Samouil L, Gutman, David A, Human Tumor Atlas Network,, Mazzili, Sarah A, Chang, Young H., Drewes, Julia L., Thorsson, Vésteinn, Nolan, Garry, Roland, Joseph T., Lin, Jia-Ren, Merrick, Daniel T., Sorger, Peter K., Gutman, David A., Rodig, Scott J., Chen, Yu-An, Burlingame, Erik A, Sudar, Damir, Snyder, Michael P, Sokolov, Artem, Schapiro, Denis, Arias-Camison, Raquel, Mazzilli, Sarah A, Venkatamohan, Nithya, Cerami, Ethan, Chang, Young H, Herrmann, Markus D, Sheila M. Reynolds, Chris Maher, Ruiyang Liu, Nicole R. LeBoeuf, Alan J. Simmons, Jan Remsik, Ofir Cohen, Young H. Chang, Derek A. Oldridge, Erik A. Burlingame, Cody N. Heiser, Ana Verma, Raphael Bueno, James M. Ford, Alexander R. Guimaraes, Sarah A. Mazzili, Gordon B. Mills, Shahar Alon, Christine Iacobuzio-Donahue, Siri H. Strand, Jaeyoung Chun, Cynthia Ma, Yasin Uzun, Shigeaki Umeda, Lijun Yao, James J. Hsieh, Tao Ju, Jeanne Shen, Daniel Persson, Luke Ternes, Travis J. Hollmann, Stephen P. Hunger, Marisol Adelina Ramirez, Julia L. Drewes, null null, Rebecca Aft, Tuhin Guha, Wen-Wen Liang, Ethan Baker, Clarisse Lau, Joseph Lo, Joseph T. Roland, Tim Blosser, Daniel Goodwin, Andrew Moorman, Ashley N. Reeb, Tyler Risom, Reyka G. Jayasinghe, Richard Wahl, Wenbao Yu, Changya Chen, Jacqueline Mudd, Andrew Fields, Nikhil Wagle, Rozelle Laquindanum, Katie Luckett, Genevieve M. Boland, Elias-Ramzey Karnoub, Marc Lenburg, Pierrette Lo, Dana Pe’er, Luis Cisneros, Khung Jun Ahn, Kathrin Bernt, Jeffrey R. Marks, Garry Nolan, Jason Xu, Samouil L. Farhi, Elizabeth H. Stover, Sherri R. Davies, Yevgeniy R. Semenov, Xiangzhu Zhu, Timothy J. Eberlein, Alexander B. Sibley, Parvathy Manoj, Bob Fulton, Ethan Cerami, Kun Zhang, Karuna Ganesh, Simon Vandekar, Joe W. Gray, Robert J. Coffey, Jianjiong Gao, Kristina A. Cole, Charles M. Rudin, Nadezhda V. Terekhanova, Liang-Bo Wang, Nikolaus Schultz, Gad Getz, Christine G. Lian, Anusha Thadi, Fatemeh Alikarami, Jennifer Beane, Hao Wu, James A. Eddy, Praveen Krishnamoorthy, Gregory J. Baker, Yi Cui, Danika Makowski, Ignas Masilionis, Jose Fernandez, Alla Karpova, Joshua McMichael, Rob Tibshirani, Qi Liu, Francesco Cambuli, Nils Gehlenborg, Tal Nawy, Ajit Johnson Nirmal, Jason R. Swedlow, Jeremy Muhlich, William J. Longabaugh, Wagma Caravan, Li Ding, Allison Maier, Courtney B. Betts, Bruce E. Johnson, Christine Suver, Aziz Khan, Candi Petty, Jeremy St. Cyr, Coleman R. Harris, Lea F. Surrey, Nick Markham, Peter Bayguinov, Warren Kibbe, Shannon White, Alyce A. Chen, Thomas Walle, Jeff Franklin, Madison Tyler, Carlo Maley, Adam J. Taylor, Sidharth V. Puram, Deborah J. Veis, Kian-Huat Lim, George Thomas, Winston Becker, John M. Maris, Sujay Vennam, Steven M. Dubinett, Eun-Sil Hwang, Shannon Coy, Nir Hacohen, Vésteinn Thorsson, Andrea Rolong, Raquel Arias-Camison, Daniel Cui Zhou, Kayvon Fatahalian, Lars J. Grimm, Benjamin L. Gaudio, Koei Chin, Ken Siu Kwong Lau, Stephanie Nevins, Hanspeter Pfister, Nataly Naser Al Deen, Álvaro Quintanal Villalonga, Foluso O. Ademuyiwa, Cody Straub, Hyeyoung Cho, Song Cao, Christina Curtis, Stephanie Stefankiewicz, Inode Bruijn, Matthew A. Wyczalkowski, Cecily Claire Ritch, Elmar Bucher, Artem Sokolov, Feng Chen, Jay Mashl, Marciej A. Mazurowski, Zoltan Maliga, Yu-An Chen, Austin Southar-Smith, Yu Shyr, Erik P. Storrs, Andrew C. Adey, Marc D. Ryser, Michael Angelo, Martha J. Shrubsole, Joan Massague, Mohammad Islam, Rochelle Levy, Qiang Gu, Yubin Xie, Jennifer L. Guerriero, Yige Wu, George F. Murphy, Kai Tan, M. Kay Washington, Graham A. Colditz, Annika K. Weimer, Ryan C. Fields, Yiyun Lin, Benjamin Izar, Sara Chasnoff, Michael P. Snyder, Connor A. Jacobson, Shovik Bandyopadhyay, Edward D. Esplin, Qiuyin Cai, David Denardo, Giorgio Gaglia, Qi Qiu, Lorraine M. King, Samuel Janes, Denis Schapiro, Edward Novikov, Nicholas E. Navin, Bob Chen, Eliot T. McKinley, Natalie Collins, Emek Demir, William E. Gillanders, Daniel L. Abravanel, Kouros Owzar, Stephen T. Oh, Annika L. Windon, Toni M. Delorey, Sheng-Kwei Song, Julie Bletz, Timothy Su, Damir Sudar, Joshua Campbell, Shamilene Sivagnanam, Robert B. West, Deyali Chatterjee, Albert H. Kim, Mary E. Reid, Michael C. Wendl, Allison L. Creason, James A. J. Fitzpatrick, Daniel Martinez, John DiPersio, Sebastien Vigneau, Edward S. Boyden, Clarence Yapp, Reid M. Ness, Roxanne Pelletier, Robert Krueger, Cynthia L. Sears, Scott J. Rodig, Orr Ashenberg, Markus D. Herrmann, Jia-Ren Lin, Avrum E. Spira, David L. Gibbs, Casey Ryan Hanson, Ronan Chaligné, Cherease Street, Shishir M. Pant, Milen Nikolov, Yize Li, David A. Gutman, Dinh Diep, Elyse Kozlowski, Daniel T. Merrick, Peter K. Sorger, Humam Kadara, Sandro Santagata, Kazuhito Sato, Cameron Watson, Zahi I. Mitri, Jessica L. Riesterer, Milan G. Chheda, Sarah Arena, Kornelia Polyak, Tuulia Vallius, Chi-Yun Wu, Anshul Kundaje, Kristina Paul, Kooresh I. Shoghi, Anubhav Sinha, Lisa M. Coussens, Paige N. Vega, Tiarah Jeudi, Luciano Galdieri, Gary J. Patti, Nithya Venkatamohan, Daniel Cotter, Simon Warchol, Adrienne Boire, Matthew Meyerson, John M. Herndon, Jeffrey Huang, Eliezer R. Van Allen, John Hoffer, Samuel Achilefu, Brett E. Johnson, Teri Longacre, Peter Bankhead, William G. Hawkins, Rumana Rashid, Chia-hui Chen, Belen Gutierrez, Rachel E. Factor, Jeremy Goecks, Joseph M. Chan, Michael D. Iglesia, Wungki Park, Heidi S. Feiler, David Liu, William Greenleaf, Ignaty Leshchiner, Siqi Chen, Uri Ladabaum, Hayan Lee +367 morecore +5 more sourcesQualifying antibodies for image-based immune profiling and multiplexed tissue imaging. [PDF]
Nat Protoc, 2019 Multiplexed tissue imaging enables precise, spatially resolved enumeration and characterization of cell types and states in human resection specimens. A growing number of methods applicable to formalin-fixed, paraffin-embedded (FFPE) tissue sections have Du Z, Lin JR, Rashid R, Maliga Z, Wang S, Aster JC, Izar B, Sorger PK, Santagata S. +8 moreeuropepmc +7 more sourcesUnveiling spatial complexity in solid tumor immune microenvironments through multiplexed imaging [PDF]
Frontiers in ImmunologyDeciphering cellular components and the spatial interaction network of the tumor immune microenvironment (TIME) of solid tumors is pivotal for understanding biologically relevant cross-talks and, ultimately, advancing therapies.Sophia Scheuermann, Sophia Scheuermann, Sophia Scheuermann, Beate Kristmann, Fabienne Engelmann, Alice Nuernbergk, David Scheuermann, Marie Koloseus, Tayeb Abed, Wiebke Solass, Christian M. Seitz, Christian M. Seitz, Christian M. Seitz +12 moredoaj +4 more sourcesHighly accurate image registration for 3D multiplexed cyclic imaging using dense labeling in expandable tissue gels.
PLoS BiologyMultiplexed cyclic imaging in expandable tissue gels has been extensively studied to visualize numerous biomolecules at a nanoscale resolution in situ. Previous studies have employed sparse labels, such as DAPI or lectin staining, as registration markers.Hyunwoo Kim, Joon-Goon Kim, Jueun Sim, Hoyeon Nam, In Cho, Hyejin Shin, Junyoung Kwon, Dae-Hyeon Song, Seoungbin Bae, Young-Gyu Yoon, Taeyun Ku, Jae-Byum Chang +11 moredoaj +2 more sourcesRhesus Macaque CODEX Multiplexed Immunohistochemistry Panel for Studying Immune Responses During Ebola Infection
Frontiers in Immunology, 2021 Non-human primate (NHP) animal models are an integral part of the drug research and development process. For some biothreat pathogens, animal model challenge studies may offer the only possibility to evaluate medical countermeasure efficacy.Sizun Jiang, Sizun Jiang, Nilanjan Mukherjee, Richard S. Bennett, Han Chen, James Logue, Bonnie Dighero-Kemp, Jonathan R. Kurtz, Ricky Adams, Darci Phillips, Christian M. Schürch, Christian M. Schürch, Yury Goltsev, John W. Hickey, Erin F. McCaffrey, Alea Delmastro, Pauline Chu, J. Rachel Reader, Rebekah I. Keesler, José A. Galván, Inti Zlobec, Koen K. A. Van Rompay, David X. Liu, Lisa E. Hensley, Garry P. Nolan, David R. McIlwain +25 moredoaj +2 more sourcesSharp-peaked lanthanide nanocrystals for near-infrared photoacoustic multiplexed differential imaging
Communications MaterialsPhotoacoustic tomography offers a powerful tool to visualize biologically relevant molecules and understand processes within living systems at high resolution in deep tissue, facilitated by the conversion of incident photons into low-scattering acoustic ...Kang Yong Loh, Lei S. Li, Jingyue Fan, Yi Yiing Goh, Weng Heng Liew, Samuel Davis, Yide Zhang, Kai Li, Jie Liu, Liangliang Liang, Minjun Feng, Ming Yang, Hang Zhang, Ping’an Ma, Guangxue Feng, Zhao Mu, Weibo Gao, Tze Chien Sum, Bin Liu, Jun Lin, Kui Yao, Lihong V. Wang, Xiaogang Liu +22 moredoaj +2 more sources
