
Ankit Agrawal
Department of Computational Biology of Spatial Biomedical Systems Würzburg Institute of Systems Immunology, Würzburg, Germany
<p><span style="color: rgb(0, 0, 0);">Dr. Ankit Agrawal obtained his Ph.D. in Computational Biology from HBNI, Mumbai, India, in 2019. During his doctoral research, he developed biophysical models of chromatin architecture, spanning scales from motifs to individual chromosomes. Dr. Agrawal conducted a brief postdoc in the developmental biology laboratory of Elazar Zelzer at the Weizmann Institute of Science, Israel, from 2018-2020, where he developed a computational pipeline to define cell state based on morphological features. This led to the discovery that morphological cell states delineate principal axes in bone tissue variability. His research demonstrated that spatiotemporal clusters of these morphological cell states are responsible for different bone growth strategies in adult and embryonic mice. Since 2021, Dr. Agrawal has been working in the lab of Dominic Grün, where he developed NiCo, a computational tool for identifying cell state covariation in the colocalized neighborhood by integrating spatial transcriptomics and single-cell RNA sequencing data. Dr. Agrawal's research interest focuses on understanding cellular states and cell state transitions in healthy and diseased tissues. </span></p>

Madhumala K. Sadanandappa
Department of Pathology and Laboratory Medicine, Dartmouth Hitchcock Medical Center
<p>Dr. Madhumala K. Sadanandappa earned her PhD from the National Center for Biological Sciences, Bangalore, followed by a Human Frontier Science Program postdoctoral fellowship at the Geisel School of Medicine, Dartmouth College, USA. Using animal models of human disease in her research, she uncovered circuit, cellular, and molecular mechanisms underlying behavioral habituation, olfactory learning and memory, host-parasitoid interactions, and the function of conserved disease-causing genes.</p><p><br></p><p>Dr. Sadanandappa leads spatial biology initiatives at Dartmouth Hitchcock Medical Center. As part of the Emerging Diagnostics and Innovative Technologies Program, she oversees the validation of assays and the development of data analysis pipelines for high-plex proteomics, transcriptomics, and multi-omics<span style="color: rgb(28, 28, 28);">.</span> Her research focuses on deciphering tumor microenvironment interactions to identify biomarkers for diagnosis and therapeutics.</p>
Spatial biology is transforming our ability to study cellular processes within their native tissue environments by integrating spatial proteomics, transcriptomics, metabolomics, genomics, and epigenomics. This powerful approach provides high-resolution insights into cell-cell communication, tissue organization, disease mechanisms, and therapeutic strategies. The advancement of this field depends on robust experimental techniques, innovative methodologies, and optimized workflows.
This method collection invites researchers, clinicians, and industry professionals to showcase state-of-the-art techniques, workflows, and instrumentation that drive spatial biology forward in academic research, biotechnology, and industry.
We welcome contributions on the following:
We encourage original research methodologies, technical reports, and case studies on experimental design, protocol optimization, and computational solutions for spatial biology challenges.
Join us in advancing spatial biology by contributing cutting-edge research!
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2025
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2025
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Nupura Prabhune1,2, Yilin Du1,3, Afeefa Zainab4, Satoru Ebihara3, Shinji Takeoka2, Shinpei Kawaoka1,5, Alexis Vandenbon4,6
1Department of Integrative Bioanalytics, Institute of Development, Aging and Cancer, Tohoku University, 2Department of Life Science and Medical Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, 3Department of Rehabilitation Medicine, Tohoku University Graduate School of Medicine, 4Institute for Life and Medical Sciences, Kyoto University, 5Inter-Organ Communication Research Team, Institute for Life and Medical Sciences, Kyoto University, 6Institute for Liberal Arts and Sciences, Kyoto University
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2025
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Intravital Microscopy-Guided Live-Cell Isolation from Intact Tissue to Link Dynamics of Leukemia Progression with Single-Cell Transcriptional Programs
Christa Haase*1
1Departments of Bioengineering and Physics, Northeastern University