Cyclic Immunofluorescence (CycIF), A Highly Multiplexed Method for Single‐cell Imaging

Cited by (208)

Items 101–200 of 208

1. Automated multimodal fluorescence microscopy for hyperplex spatial-proteomics: Coupling microfluidic-based immunofluorescence to high resolution, high sensitivity, three-dimensional analysis of histological slides
   Laura Furia, Simone Pelicci, Federica Perillo, Maddalena M. Bolognesi, Pier Giuseppe Pelicci, Federica Facciotti, Giorgio Cattoretti, Mario Faretta · 2022 · Frontiers in Oncology
2. Exploration and analysis of molecularly annotated, 3D models of breast cancer at single-cell resolution using virtual reality
   Dario Bressan, Claire M. Mulvey, Fatime Qosaj, Robert Becker, Flaminia Grimaldi, Suvi Coffey, Sara Lisa Vogl, Laura Kuett, Raúl Catena, Ali A. Dariush et al. · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
3. Multiresolution 3D Optical Mapping of Immune Cell Infiltrates in Mouse Asthmatic Lung
   Yi-Chien Wu, Hyung‐Geun Moon, Vytautas P. Bindokas, Evan H. Phillips, Gye Young Park, Seung Young Lee · 2023 · American Journal of Respiratory Cell and Molecular Biology
4. Enabling drug discovery and development through single-cell imaging
   Andrea K. Pomerantz, Farid Sari‐Sarraf, Kerri J. Grove, Liliana Pedro, Patrick J. Rudewicz, John W. Fathman, Thomas Krucker · 2018 · Expert Opinion on Drug Discovery
5. Proteomics advances for precision therapy in ovarian cancer
   Marilyne Labrie, Nicholas D. Kendsersky, Hongli Ma, Lydia G. Campbell, Jennifer R. Eng, Koei Chin, Gordon Brent Mills · 2019 · Expert Review of Proteomics
6. Identification of non-cancer cells from cancer transcriptomic data
   Michele Bortolomeazzi, Mohamed Reda Keddar, Francesca D. Ciccarelli, Lorena Gabriela Benedetti · 2019 · Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms
7. TRIPODD: a Novel Fluorescence Imaging Platform for In Situ Quantification of Drug Distribution and Therapeutic Response
   McMahon, Nathan P., Solanki, Allison, Wang, Lei G., Montaño, Antonio R., Jones, Jocelyn A., Samkoe, Kimberley S., Tichauer, Kenneth M., Gibbs, Summer L. · 2021 · Molecular Imaging and Biology
8. An overview of multiplexed analyses of CAR T-cell therapies: insights and potential
   Brittany Paige DePriest, Noah Vieira, Alan Bidgoli, Sophie Paczesny · 2021 · Expert Review of Proteomics
9. cyc‐DEP: Cyclic immunofluorescence profiling of particles collected using dielectrophoresis
   Kyle T. Gustafson, Zeynep Sayar, Hillary H. Le, Steven L. Gustafson, Austin J. Gower, Augusta E. Modestino, Stuart D. Ibsen, Michael J. Heller, Sadik C. Esener, Sebnem Ece Eksi · 2022 · Electrophoresis
10. S3-CIMA: Supervised spatial single-cell image analysis for identifying disease-associated cell-type compositions in tissue
    Sepideh Babaei, Jonathan Christ, Vivek Sehra, Ahmad Makky, Mohammed Zidane, Kilian Wistuba‐Hamprecht, Christian M. Schürch, Manfred Claassen · 2023 · Patterns
11. A Simple Method for Creating a High‐Content Microscope for Imaging Multiplexed Tissue Microarrays
    Shabnam Abtahi, Neal R. Gliksman, John F. Heneghan, Steven P. Nilsen, Jeremy L. Muhlich, Jay Copeland, Emil Rozbicki, Chris Allan, Pradeep Kumar Dudeja, Jerrold R. Turner · 2021 · Current Protocols
12. Exploring the Single‐Cell Dynamics of FOXM1 Under Cell Cycle Perturbations
    Tooba Jawwad, Maliwan Kamkaew, Kriengkrai Phongkitkarun, Porncheera Chusorn, Supawan Jamnongsong, Eric W.‐F. Lam, Somponnat Sampattavanich · 2025 · Cell Proliferation
13. Toward universal immunofluorescence normalization for multiplex tissue imaging with UniFORM
    Kunlun Wang, Kaoutar Ait-Ahmad, Sam Kupp, Zachary Sims, Eric M. Cramer, Zeynep Sayar, Jessica X. Yu, Melissa H. Y. Wong, Gordon Brent Mills, Sebnem Ece Eksi et al. · 2025 · Cell Reports Methods
14. Phenotypic maps for precision medicine: a promising systems biology tool for assessing therapy response and resistance at a personalized level
    Sayantan Bhattacharyya, Shafqat Ehsan, Loukia Georgiou Karacosta · 2023 · Frontiers in Network Physiology
15. In vivo systems biology approaches to chronic immune/inflammatory pathophysiology
    Alina Starchenko, Douglas A. Lauffenburger · 2018 · Current Opinion in Biotechnology
16. Tysserand—fast and accurate reconstruction of spatial networks from bioimages
    Alexis Coullomb, Véra Pancaldi · 2021 · Bioinformatics
17. Anti-PD-1 plus anti-CTLA-4 blockade overcomes immune exclusion in NSCLC brain metastases by enhancing CD8+ T cell responses and promoting tertiary lymphoid structure formation
    Kazutaka Hosoya, Hiroaki Ozasa, Takahiro Tsuji, Masahiro Oi, Yusuke Shima, Keiichiro Suminaga, Kentaro Hashimoto, Hiroshi Yoshida, Tomoko Yamamoto Funazo, Hitomi Ajimizu et al. · 2026 · Nature Communications
18. Gelatin embedding and LED autofluorescence reduction for rodent spinal cord histology
    Nicholas F. Nolta, Alexandra Liberti, Rohit Makol, Martin Han · 2020 · Journal of Neuroscience Methods
19. Deliver on Time or Pay the Fine: Scheduling in Membrane Trafficking
    Giampaolo Placidi, Carlo Cosimo Campa · 2021 · International Journal of Molecular Sciences
20. Mitigation of Huanglongbing: Implications of a Biologically Enhanced Nutritional Program on Yield, Pathogen Localization, and Host Gene Expression Profiles
    Srinivas N. Makam, Mamoudou Sétamou, Olufemi J. Alabi, William Alan Day, Douglas W. Cromey, Chika C. Nwugo · 2023 · Plant Disease
21. TME-analyzer: a new interactive and dynamic image analysis tool that identified immune cell distances as predictors for survival of triple negative breast cancer patients
    Hayri Emrah Balcioglu, Rebecca Wijers, Marcel Smid, Dora Hammerl, Anita Trapman-Jansen, Astrid A.M. Oostvogels, Mieke A. M. Timmermans, John W.M. Martens, Reno Debets · 2024 · npj Imaging
22. The prospects of single‐cell analysis in autoimmunity
    André Sulen, Shahinul Islam, Anette S. B. Wolff, Bergithe Eikeland Oftedal · 2020 · Scandinavian Journal of Immunology
23. Mapping human natural killer cell development in pediatric tonsil by imaging mass cytometry and high-resolution microscopy
    Everardo Hegewisch-Solloa, Janine E. Melsen, Hiranmayi Ravichandran, André F. Rendeiro, Aharon G. Freud, Bethany L. Mundy-Bosse, Johannes C. Melms, Shira Esther Eisman, Benjamin Izar, Eli Grunstein et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
24. Coordinated Immune Cell Networks in the Bone Marrow Microenvironment Define the Graft versus Leukemia Response with Adoptive Cellular Therapy
    Katie Maurer, Cameron Y. Park, Shouvik Mani, Mehdi Borji, Livius Penter, Yinuo Jin, Jia Yi Zhang, Crystal S. Shin, James R. Brenner, Jackson Southard et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
25. Molecularly-guided spatial proteomics captures single-cell identity of the healthy and diseased nervous system
    Sayan Dutta, Marion Pang, Gerard Michael Coughlin, Sirisha Gudavalli, Michael Lee Roukes, Tsui‐Fen Chou, Viviana Gradinaru · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
26. CD8+ T cells in the tumor microenvironment modulate the response to endocrine therapy in breast cancer
    Fabiana Napolitano, Yunguan Wang, Dhivya R. Sudhan, Paula I. González Ericsson, Luigi Formisano, Nisha G Unni, Shahbano Shakeel, James Zhu, Khushi Ahuja, Lei Ming Guo et al. · 2025 · Journal of Clinical Investigation
27. In situ single-cell therapeutic response imaging facilitated by the TRIPODD fluorescence imaging platform
    Nathan P. McMahon, Allison Solanki, Lei G. Wang, Antonio R. Montaño, Jocelyn A. Jones, Kimberley S. Samkoe, Kenneth M. Tichauer, Summer L. Gibbs · 2024 · Theranostics
28. Mpox infection of stromal cells and macrophages of macaque with endometriosis
    Joshua M. Hall, Claire E. Lyons, Jingyi Li, Gisela Martinez‐Romero, Tammy Hayes, Anthony Cook, Dan H. Barouch, Amanda Jezek Martinot · 2024 · Scientific Reports
29. Integrating -Omic Technologies across Modality, Space, and Time to Decipher Remodeling in Cardiac Disease
    John F. Mulvey, Emily L. Meyer, Mikkel Skjoldan Svenningsen, Alicia Lundby · 2025 · Current Cardiology Reports
30. Multimodal Mass Spectrometry Imaging in Atlas Building: A Review
    Kyle A. Vanderschoot, Kayle J. Bender, Christopher M. De Caro, Kelli A. Steineman, Elizabeth K. Neumann · 2024 · Seminars in Nephrology
31. Multiparametric cellular and spatial organization in cancer tissue lesions with a streamlined pipeline
    Mark Buckup, Igor Figueiredo, Giorgio Ioannou, Sinem Ozbey, Rafael Cabal, Alexandra Tabachnikova, Leanna Troncoso, Jessica Le Bérichel, Zhen Zhao, Stephen C. Ward et al. · 2025 · Nature Biomedical Engineering
32. Partially shared multi-modal embedding learns holistic representation of cell state
    Xinyi Zhang, G. V. Shivashankar, Caroline Uhler · 2026 · Nature Computational Science
33. Signal removal methods for highly multiplexed immunofluorescent staining using antibody conjugated oligonucleotides
    Nathan P. McMahon, Jocelyn Jones, Jennifer R. Eng, Sunjong Kwon, Young Hwan Chang, Guillaume Thibault, Koei Chin, Michel A. Nederlof, Joe W. Gray, Summer L. Gibbs · 2019 · Imaging, Manipulation, and Analysis of Biomolecules, Cells, and Tissues
34. Tysserand - Fast and accurate reconstruction of spatial networks from bioimages
    Alexis Coullomb, Véra Pancaldi · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
35. Addressing persistent challenges in digital image analysis of cancerous tissues
    Sandhya Prabhakaran, Clarence Yapp, Gregory J. Baker, Johanna Beyer, Young Hwan Chang, Allison Creason, Robert Krueger, Jeremy L. Muhlich, Nathan Heath Patterson, Kevin Sidak et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
36. An Estrogen Receptor Signaling Transcriptional Program Linked to Immune Evasion in Human Hormone Receptor-Positive Breast Cancer
    Kenichi Shimada, Daniel E. Michaud, Yvonne Xiaoyong Cui, Kelly Zheng, Jonathan L. Goldberg, Zhenlin Ju, Stuart J. Schnitt, Ricardo Pastorello, Lukas D. Kania, John Hoffer et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
37. Targeted protein degradation by Trim-Away using cell resealing coupled with microscopic image-based quantitative analysis
    Rina Kunishige, Masayuki Murata, Fumi Kano · 2022 · Frontiers in Cell and Developmental Biology
38. A Modified Bleaching Method for Multiplex Immunofluorescence Staining of FFPE Tissue Sections
    Dan Wang, Alison Cheung, Gordon E. Mawdsley, Kela Liu, Yulia Yerofeyeva, Kelsie L. Thu, Ju‐Yoon Yoon, Martin J. Yaffe · 2024 · Applied immunohistochemistry & molecular morphology
39. Single-Cell and Spatial Analysis of Emergent Organoid Platforms
    Aditi Kumar, Shuangyi Cai, Mayar Allam, Samuel Henderson, Melissa Ozbeyler, Lilly Saiontz, Ahmet F. Coskun · 2023 · Methods in molecular biology
40. Extracellular matrix phenotyping by imaging mass cytometry defines distinct cellular matrix environments associated with allergic airway inflammation
    James E Parkinson, Morgan Bryant, Mohamed Ghafoor, Rebecca J. Dodd, Hannah E Tompkins, Martin Fergie, Matthew O. Burgess, Magnus Rattray, Tara E. Sutherland · 2026 · Molecular Systems Biology
41. Highly Multiplexed, Quantitative Tissue Imaging at Cellular Resolution
    Madeline E. McCarthy, Marc R. Birtwistle · 2019 · Current Pathobiology Reports
42. Multiplex immunohistochemistry in lymphoma pathology: a research tool for study of the immune microenvironment
    Matthew Pugh, Ayse U. Akarka, Kelly J. Hunter, Stefan D. Dojcinov, Teresa Marafioti · 2020 · Diagnostic histopathology
43. In situ functional cell phenotyping reveals microdomain networks in colorectal cancer recurrence
    Samantha A. Furman, Andrew M. Stern, Shikhar Uttam, D. Lansing Taylor, Filippo Pullara, S. Chakra Chennubhotla · 2021 · Cell Reports Methods
44. Spatial Multiplex In Situ Tagging (MIST) Technology for Rapid, Highly Multiplexed Detection of Protein Distribution on Brain Tissue
    Revanth Reddy, Liwei Yang, Jesse Liu, Zhuojie Liu, Jun Wang · 2022 · Analytical Chemistry
45. Three‐dimensional spatial mapping of the human hematopoietic microenvironment in healthy and diseased bone marrow
    Sandro Bräunig, Isak Karmhag, Hongzhe Li, Jens Enoksson, Anne Hultquist, Stefan Scheding · 2023 · Cytometry Part A
46. How is Spatial Transcriptomics Influencing Cancer Research and Diagnostics?
    Annie Coulson · 2022 · BioTechniques
47. Chemiluminescence-Driven Tyramide Amplification for High-Sensitivity and Long-Term Immunofluorescence Imaging
    Fang Zhao, Jingya Xiao, Hao He, Kai Li · 2026 · Analytical Chemistry
48. Extensible Immunofluorescence (ExIF) accessibly generates high-plexity datasets by integrating standard 4-plex imaging data
    Ihuan Gunawan, Felix V Kohane, Moumitha Dey, Kathy Nguyen, Zheng Ye, Daniel Neumann, Fatemeh Vafaee, Erik H. W. Meijering, John George Lock · 2025 · Nature Communications
49. Advanced high dynamic range fluorescence microscopy with Poisson noise modeling and integrated edge-preserving denoising
    Eva-Maria Brinkmann, Klaus Brinker, Silvia Rüberg, Werner Müller · 2021 · Journal of Physics Communications
50. Multiplexed protein profiling reveals spatial subcellular signaling networks
    Shuangyi Cai, Thomas Hu, Mythreye Venkatesan, Mayar Allam, Frank Schneider, Suresh S. Ramalingam, Shi‐Yong Sun, Ahmet F. Coskun · 2022 · iScience
51. Systematic replication enables normalization of high-throughput imaging assays
    Gregory J. Hunt, Mark A. Dane, James E. Korkola, Laura M. Heiser, Johann A. Gagnon-Bartsch · 2022 · Bioinformatics
52. Comparison and optimization of cellular neighbor preference methods for quantitative tissue analysis
    C. Schiller, Miguel A. Ibarra-Arellano, Kresimir Bestak, Jovan Tanevski, Denis Schapiro · 2026 · Nature Communications
53. Channel Embedding for Informative Protein Identification from Highly Multiplexed Images
    Salma Abdel Magid, Won-Dong Jang, Denis Schapiro, Donglai Wei, James Tompkin, Peter Karl Sorger, Hanspeter Pfister · 2020 · Lecture notes in computer science
54. Protocol for Creating Antibodies with Complex Fluorescence Spectra
    Madeline E. McCarthy, Caitlin M. Anglin, Heather A. Peer, Sevanna Boleman, Stephanie R. Klaubert, Marc R. Birtwistle · 2021 · Bioconjugate Chemistry
55. Cleavable Linker Incorporation into a Synthetic Dye‐Nanobody‐Fluorescent Protein Assembly: FRET, FLIM and STED Microscopy
    Ayse Aktalay, Flavien Ponsot, Mariano L. Bossi, Vladimir N. Belov, Stefan W. Hell · 2022 · ChemBioChem
56. Cell Type Populations for 3D Anatomical Structures of the Human Reference Atlas
    Andreas Bueckle, Bruce W. Herr, L. Chen, Daniel Bolin, Danial Qaurooni, Michael Ginda, Yashvardhan Jain, Aleix Puig-Barbe, Kristin Ardlie, Fusheng Wang et al. · 2026 · Scientific Data
57. Advances in spatial multi-omics technologies
    Wenyi Zhang, Xingye Huang, Liyong He, Xiangwei Zhao · 2025 · Chinese Science Bulletin (Chinese Version)
58. ST-FFPE-mIF: integrating spatial transcriptomics and multiplex immunofluorescence in formalin-fixed paraffin-embedded tissues using Stereo-seq
    Xue Zhang, Meng Zhang, Yuan Xu, Yangyang Song, Xinfeng Yang, Yanan Wu, Xuelin Zhao, Dongsheng Ran, Xin Liu, Huaqiang Huang et al. · 2025 · Genome biology
59. Mapping Immunity With Cutting‐Edge Spatial Biology and Tissue Cytometry Innovations
    Lilibeth Cárdenas-Piedra, Selwin Gabriel Samuel, Felicitas Mungenast, Dinesh Yasothkumar, Rupert Ecker, Jyotsna Batra · 2026 · MedComm
60. Cyclic Multiplex Fluorescent Immunohistochemistry Protocol to Phenotype Glial Cells in Formalin-Fixed Paraffin-Embedded Human Brain Sections
    Clara Muñoz‐Castro, Ayush Noori, Bradley T. Hyman, Alberto Serrano‐Pozo · 2022 · Methods in molecular biology
61. A chemically tunable FOXM1–DHFR sensor reveals the direct influence of FOXM1 on the cell cycle
    Kriengkrai Phongkitkarun, Porncheera Chusorn, Maliwan Kamkaew, Supawan Jamnongsong, Eric W.‐F. Lam, Chamras Promptmas, Somponnat Sampattavanich · 2025 · Journal of Cell Science
62. Multiplexing Immunohistochemistry
    Kathryn McLaughlin · 2019 · Materials and Methods
63. IMPASTO: Multiplexed cyclic imaging without signal removal via self-supervised neural unmixing
    H Kim, Seoungbin Bae, Junmo Cho, Hoyeon Nam, Junyoung Seo, Seungjae Han, Euiin Yi, Eun‐Su Kim, Young‐Gyu Yoon, Jae‐Byum Chang · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
64. Spatial Patterning Analysis of Cellular Ensembles (SPACE) discovers complex spatial organization at the cell and tissue levels
    Edward C. Schrom, Erin McCaffrey, Vivek Sreejithkumar, Andrea J. Radtke, Hiroshi Ichise, Armando Arroyo-Mejías, Emily E. Speranza, Leanne Arakkal, Nishant Thakur, Spencer M. Grant et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
65. Revealing In Situ Molecular Profiles of Glomerular Cell Types and Substructures with Integrated Imaging Mass Spectrometry and Multiplexed Immunofluorescence Microscopy
    Allison B. Esselman, Felipe A. Moser, Léonore E. M. Tideman, Lukasz G. Migas, Katerina V. Djambazova, Madeline E. Colley, Ellie L. Pingry, Nathan Heath Patterson, Melissa A. Farrow, Haichun Yang et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
66. A Mixed Reality and 2D Display Hybrid Approach for Visual Analysis of 3D Tissue Maps
    Eric Mörth, Cydney B Nielsen, Morgan Turner, Liu Xianhao, Mark S. Keller, Johanna Beyer, Hanspeter Pfister, Zhutian Chen, Nils Gehlenborg · 2024
67. Pipeline for Assessing Tumor Immune Status Using Superplex Immunostaining and Spatial Immune Interaction Analysis
    Chaoxin Xiao, Ruihan Zhou, Qin Chen, Wanting Hou, Xiaoying Li, Yulin Wang, Lu Liu, Huanhuan Wang, Xiaohong Yao, Tongtong Xu et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
68. Antigen reactivity defines tissue-resident memory and exhausted T cells in tumours
    Thomas N. Burn, Jan Schröder, Luke C. Gandolfo, Maleika Osman, Elanor N. Wainwright, Enid Y.N. Lam, Keely M. McDonald, Rachel B. Evans, Shihan Li, Daniel Rawlinson et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
69. Implementing spatial single-cell omics in immuno-oncology clinical trials: Challenges and opportunities
    Chiara Caprioli, Julie Morscio, Jonathan Sai‐Hong Chui, Carmen Bravo González‐Blas, Katy Vandereyken, Thierry Voet, Asier Antoranz, Steven De Vleeschouwer, Paul Clement, Francesca Maria Bosisio et al. · 2025 · Elsevier eBooks
70. An Evaluation of MACSima and PhenoCycler‐Fusion for Spatial Image Analysis in a Medulloblastoma Xenograft Model
    Sokhoeun Heng, Taebok Lee, Seung Ah Choi, Haneul Lee, Seung‐Ki Kim, Ji Hoon Phi · 2026 · Microscopy Research and Technique
71. Maximizing photon utilization in spectroscopic single-molecule localization microscopy using symmetrically dispersed dual-wedge prisms
    Wei-Hong Yeo, Benjamin Brenner, Menglin Shi, Youngseop Lee, Junghun Kweon, Cheng Sun, Hao F. Zhang · 2026 · npj Imaging
72. Towards Cellular Resolution of Tryptic Peptides in Tissue Sections by MALDI MS Imaging: A Focus on Enzyme Application and Reproducibility
    Bastian Jahreis, Julia Kokesch‐Himmelreich, Alan Race, Andreas Römpp · 2026 · Analytical Chemistry
73. ConGAT: Context-aware graph attention network for 3D region of interest discovery in multiplexed microscopy images
    Hossein Fathollahian, Siyuan Zhao, Nafiul Nipu, Marziye Salahshour, Lei Duan, Wei Tang, Saeed Boorboor, G. Elisabeta Marai · 2026 · Computers & Graphics
74. Melanoma Prognostication Using AI ‐Guided Histopathology
    Eudora Lee, Ralina Karagenova, Yevgeniy R. Semenov · 2026 · International Journal of Dermatology
75. Unifying fragmented perspectives with additive deep learning for high-dimensional models from partial faceted datasets
    Yufei Wu, Pei-Hsun Wu, Allison B Chambliss, Denis Wirtz, Sean X. Sun · 2025 · npj Biological Physics and Mechanics.
76. Fluorescent Imaging for In Situ Measurement of Drug Target Engagement and Cell Signaling Pathways.
    Nathan P. McMahon, Allison Solanki, Jocelyn Jones, Sunjong Kwon, Young-Hwan Chang, Koei Chin, Michel A. Nederlof, Joe W. Gray, Summer L. Gibbs · 2020 · PubMed
77. Indexable signal amplification for multiparametric imaging
    Paul D. Simonson, Itzel Valencia, Sanjay S. Patel · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
78. Characterizing Tissue Structures from Spatial Omics with Spatial Cellular Graph Partition
    Zhenqin Wu, Ayano Kondo, Monee McGrady, Ethan A. G. Baker, Eric Wu, Maha K. Rahim, Nathan A. Bracey, Vivek Charu, Raymond Jaihyun Cho, Jeffrey B. Cheng et al. · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
79. ProMPt: A modular preclinical platform for functional modelling of prostate cancer heterogeneity and therapeutic vulnerabilities
    Nicole Pandell, Jacob Househam, Matteo Tartagni, Archana P. Thankamony, Florian Gabel, Roberto Rota, Elizabeth Flittner, Bora Gürel, Ines Figueiredo, George Seed et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
80. Resolving Sialylated N-Glycans and Immune Cell Landscapes Using a Unified Same-Section IMC–MSI Workflow
    Jake Griner, Reto Gerber, Mark D. Robinson, Carsten Krieg, Silvia Guglietta · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
81. SPARQ-MI leverages end-to-end spatial single-cell analysis of the tumor microenvironment
    Lukas Kiwitz, Roberta Turiello, Maike Effern, Marieta Toma, Jennifer Landsberg, Michael Hölzel, Kevin Thurley · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
82. Chemical physics in living cells — Using light to visualize and control intracellular signal transduction
    Vishnu Vardhan Krishnamurthy, Kai Zhang · 2018 · Chinese Journal of Chemical Physics
83. Transformation and Integration of Microenvironment Microarray Data Improves Discovery of Latent Effects
    Gregory J. Hunt, Mark A. Dane, James E. Korkola, Laura M. Heiser, Johann A. Gagnon-Bartsch · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
84. Fluorescent Imaging for In Situ Measurement of Drug Target Engagement and Cell Signaling Pathways
    Nathan P. McMahon, Allison Solanki, Jocelyn Jones, Sunjong Kwon, Young-Hwan Chang, Koei Chin, Michel A. Nederlof, Joe W. Gray, Summer L. Gibbs · 2020 · Optics in the Life Sciences
85. Fluorescent Antibody Multiplexing with Oligo-Based Combinatorial Labeling
    Madeline E. McCarthy, Caitlin M. Anglin, Heather A. Peer, Sevanna Boleman, Stephanie R. Klaubert, Marc R. Birtwistle · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
86. Spatial MIST Technology for Rapid, Highly Multiplexed Detection of Protein Distribution on Brain Tissue
    Revanth Reddy, Liwei Yang, Jesse J. Liu, Zhuojie Liu, Jun Wang · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
87. Data from Clinical Efficacy and Molecular Response Correlates of the WEE1 Inhibitor Adavosertib Combined with Cisplatin in Patients with Metastatic Triple-Negative Breast Cancer
    Tanya Elizabeth Keenan, Tianyu Li, Tuulia Vallius, Jennifer L. Guerriero, Nabihah Tayob, Bose S. Kochupurakkal, Janae A. Davis, Ricardo Pastorello, Rie Kawabori Tahara, Leilani Anderson et al. · 2023
88. Data from Clinical Efficacy and Molecular Response Correlates of the WEE1 Inhibitor Adavosertib Combined with Cisplatin in Patients with Metastatic Triple-Negative Breast Cancer
    Tanya Elizabeth Keenan, Tianyu Li, Tuulia Vallius, Jennifer L. Guerriero, Nabihah Tayob, Bose S. Kochupurakkal, Janae A. Davis, Ricardo Pastorello, Rie Kawabori Tahara, Leilani Anderson et al. · 2023
89. Data from BLEACH&STAIN 15-marker Multiplexed Imaging in 3,098 Human Carcinomas Reveals Six Major PD-L1–driven Immune Phenotypes with Distinct Spatial Orchestration
    Elena Bady, Katharina Möller, Tim Mandelkow, Jonas B. Raedler, Cheng Hsun Yang, Julia Ebner, Magalie C.J. Lurati, Ronald Simon, Eik Vettorazzi, Franziska Büscheck et al. · 2023
90. Oligo cyc‐DEP: On‐chip cyclic immunofluorescence profiling of cell‐derived nanoparticles
    Kyle T. Gustafson, Zeynep Sayar, Augusta E. Modestino, Hillary H. Le, Austin Gower, Fehmi Çivitçi, Sadik C. Esener, Michael J. Heller, Sebnem Ece Eksi · 2024 · Electrophoresis
91. Solving the "Blind men and the elephant problem": Additive deep learning of complex high dimensional models from partial faceted datasets
    Yufei Wu, Pei-Hsun Wu, Allison B Chambliss, Denis Wirtz, Sean X. Sun · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
92. CRISPR screening meets spatial omics: Opportunities and challenges
    Yinxing Ma · 2024 · Elsevier eBooks
93. Addressing persistent challenges in digital image analysis of cancer tissue: resources developed from a hackathon
    Sandhya Prabhakaran, Clarence Yapp, Gregory J. Baker, Johanna Beyer, Young Hwan Chang, Allison Creason, Robert Krueger, Jeremy L. Muhlich, Nathan Heath Patterson, Kevin Sidak et al. · 2025 · Molecular Oncology
94. MARQO pipeline resolves multiparametric cellular and spatial organization in cancer tissue lesions
    Mark Buckup, Igor Figueiredo, Giorgio Ioannou, Sinem Ozbey, Rafael Cabal, Alexandra Tabachnikova, Leanna Troncoso, Jessica Le Bérichel, Zhen Zhao, Stephen C. Ward et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
95. Beyond Images: Data Extraction, Analysis and Interpretation
    T. Dorval · 2025 · Royal Society of Chemistry eBooks
96. Generative semantic multiplexing (SemaPlex) for accessible and scalable multiplexed fluorescence imaging
    Ihuan Gunawan, Moumitha Dey, Daniel Neumann, Felix V Kohane, Ying He, Erik H. W. Meijering, John George Lock · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
97. Oncostatin M orchestrates collective epithelial migration via HIF1A activation
    Ian C. McLean, Sean M. Gross, Tiera A. Liby, Mark A. Dane, Daniel S. Derrick, Laura M. Heiser · 2026 · npj Systems Biology and Applications
98. Unveiling and stratifying cell cycle-dependent drug efficacy using a single-cell PLOM-CON approach with correlation anomaly and presage protein signals
    Yoshiyuki Noguchi, Rina Kunishige, Naeko Shinozaki‐Narikawa, Hiroshi Yamashita, Kazuyuki Aihara, Masayuki Murata, Fumi Kano · 2025 · Communications Biology
99. Scalable imaging-based profiling of CRISPR perturbations with protein barcodes
    Krishna Choudhary, Michael T. McManus · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
100. Multiplexed cellular and tissue imaging via plasmonic heating activated signal exchange of DNA probes
     Ethan Xu, Yanju Chen, Aadhya A Harugeri, Md Yeasin Pabel, Rachel Moor, Elias Joseph Sayour, Ashley Parham Ghiaseddin, Wei David Wei, Fan Hong · 2026 · bioRxiv (Cold Spring Harbor Laboratory)