3D Imaging: The Latest Published Studies

  • Chia-Kuei Mo, Jingxian Liu, Siqi Chen, Erik Storrs, Andre Luiz N. Targino da Costa, Andrew Houston, Michael C. Wendl, Reyka G. Jayasinghe, Michael D. Iglesia, Cong Ma, John M. Herndon, Austin N. Southard-Smith, Xinhao Liu, Jacqueline Mudd, Alla Karpova, Andrew Shinkle, S. Peter Goedegebuure, Abdurrahman Taha Mousa Ali Abdelzaher, Peng Bo, Lauren Fulghum, Samantha Livingston, Metin Balaban, Angela Hill, Joseph E. Ippolito, Vesteinn Thorsson, Jason M. Held, Ian S. Hagemann, Eric H. Kim, Peter O. Bayguinov, Albert H. Kim, Mary M. Mullen, Kooresh I. Shoghi, Tao Ju, Melissa A. Reimers, Cody Weimholt, Liang-I Kang, Sidharth V. Puram, Deborah J. Veis, Russell Pachynski, Katherine C. Fuh, Milan G. Chheda, William E. Gillanders, Ryan C. Fields, Benjamin J. Raphael, Feng Chen & Li Ding. “Tumour evolution and microenvironment interactions in 2D and 3D space”. Nature 634, 1178–1186 (2024). https://doi.org/10.1038/s41586-024-08087-4. Link

  • Nature Method Editorial: “Tissue Histology in 3D” Nature Methods volume 21, page1133 (2024)

  1. Ertürk, A. Nat. Methods https://doi.org/10.1038/s41592-024-02327-1 (2024).

  2. Kaltenecker, D. et al. Nat. Methods https://doi.org/10.1038/s41592-024-02245-2 (2024).

  3. Nat. Methods https://doi.org/10.1038/s41592-024-02246-1 (2024).

  4. Mitani, T. T., Susaki, E. A., Matsumoto, K. & Ueda, H. R. Nat. Methods https://doi.org/10.1038/s41592-024-02307-5 (2024).

  • Andrew H. Song, Mane Williams, Drew F.K. Williamson, Sarah S.L. Chow, Guillaume Jaume, Gan Gao, Andrew Zhang, Bowen Chen, Alexander S. Baras, Robert Serafin, Richard Colling, Michelle R. Downes, Xavier Farré, Peter Humphrey, Clare Verrill, Lawrence D. True, Anil V. Parwani, Jonathan T.C. Liu, Faisal Mahmood, “Analysis of 3D pathology samples using weakly supervised AI”. Cell, Volume 187, Issue 10, 9 May 2024. Link

  • Ferri-Borgogno S, Burks JK, Seeley EH, McKee TD, Stolley DL, Basi AV, Gomez JA, Gamal BT, Ayyadhury S, Lawson BC, Yates MS, Birrer MJ, Lu KH, Mok SC. Molecular, Metabolic, and Subcellular “Mapping of the Tumor Immune Microenvironment via 3D Targeted and Non-Targeted Multiplex Multi-Omics Analyses”. Cancers (Basel). 2024 Feb 20;16(5):846. doi: 10.3390/cancers16050846. PMID: 38473208; PMCID: PMC10930466. Link

  • Yamada H, Makino SI, Okunaga I, Miyake T, Yamamoto-Nonaka K, Oliva Trejo JA, Tominaga T, Empitu MA, Kadariswantiningsih IN, Kerever A, Komiya A, Ichikawa T, Arikawa-Hirasawa E, Yanagita M, Asanuma K. “Beyond 2D: A scalable and highly sensitive method for a comprehensive 3D analysis of kidney biopsy tissue”. PNAS Nexus. 2024 Jan 8;3(1):pgad433. doi: 10.1093/pnasnexus/pgad433. PMID: 38193136; PMCID: PMC10772983. Link

  • Chen L, Meng J, Zhou Y, Zhao F, Ma Y, Feng W, Chen X, Jin J, Gao S, Liu J, Zhang M, Liu A, Hong Z, Tang J, Kuang D, Huang L, Zhang Y, Fei P. “Efficient 3D imaging and pathological analysis of the human lymphoma tumor microenvironment using light-sheet immunofluorescence microscopy.” Theranostics. 2024 Jan 1;14(1):406-419. doi: 10.7150/thno.86221. PMID: 38164148; PMCID: PMC10750216. Link

  • Lee, YH., Huang, CY., Hsieh, YH. et al. “A novel computer-assisted tool for 3D imaging of programmed death-ligand 1 expression in immunofluorescence-stained and optically cleared breast cancer specimens”. BMC Cancer 24, 121 (2024). https://doi.org/10.1186/s12885-023-11748-8 Link

  • Wang, Linghua, Mingyao Li, and Tae Hyun Hwang. "The 3D Revolution in Cancer Discovery." Cancer Discovery 14.4 (2024): 625-629. Link

  • André Forjaz, Eduarda Vaz, Valentina Matos Romero, Saurabh Joshi, Alicia M. Braxton, Ann C. Jiang, Kohei Fujikura, Toby Cornish, Seung-Mo Hong, Ralph H. Hruban, Pei-Hsun Wu, Laura D. Wood, Ashley L. Kiemen, Denis Wirtz “Three-dimensional assessments are necessary to determine the true, spatially-resolved composition of tissues”. doi: https://doi.org/10.1101/2023.12.04.569986 Link

  • Lin JR, Wang S, Coy S, Chen YA, Yapp C, Tyler M, Nariya MK, Heiser CN, Lau KS, Santagata S, Sorger PK. “Multiplexed 3D atlas of state transitions and immune interaction in colorectal cancer”. Cell. 2023 Jan 19;186(2):363-381.e19. doi: 10.1016/j.cell.2022.12.028. PMID: 36669472; PMCID: PMC10019067. Link

  • Tancredi Massimo Pentimalli, Simon Schallenberg, Daniel León-Periñán, Ivano Legnini, Ilan Theurillat, Gwendolin Thomas, Anastasiya Boltengagen, Sonja Fritzsche, Jose Nimo, Lukas Ruff, Gabriel Dernbach, Philipp Jurmeister, Sarah Murphy, Mark T. Gregory, Yan Liang, Michelangelo Cordenonsi, Stefano Piccolo, Fabian Coscia, Andrew Woehler, Nikos Karaiskos, Frederick Klauschen, Nikolaus Rajewsky “High-resolution molecular atlas of a lung tumor in 3D”. (2023) doi: https://doi.org/10.1101/2023.05.10.539644 Link

  • Lin YY, Wang LC, Hsieh YH, Hung YL, Chen YA, Lin YC, Lin YY, Chou TY. “Computer-assisted three-dimensional quantitation of programmed death-ligand 1 in non-small cell lung cancer using tissue clearing technology”. J Transl Med. 2022 Mar 16;20(1):131. doi: 10.1186/s12967-022-03335-5. PMID: 35296339; PMCID: PMC8925228. Link