Simultaneous Mice Sub-Retinal Cell Enrichment Using FACS Sorting Strategy

Ayudha Bahana Ilham Perdamaian; Titi Marsifah; Sri Yuli Purnama; Dewi Kartikawati Paramita; Bjorn Voss; Muhammad Bayu Sasongko; Supanji Supanji

doi:10.2991/978-94-6239-762-0_16

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Simultaneous Mice Sub-Retinal Cell Enrichment Using FACS Sorting Strategy

Authors

Ayudha Bahana Ilham Perdamaian¹^{, 2}, Titi Marsifah³, Sri Yuli Purnama³, Dewi Kartikawati Paramita⁴^{, 5}^{, 6}, Bjorn Voss⁷, Muhammad Bayu Sasongko², Supanji Supanji²^{, *}

¹Doctorate Program of Medicine and Health Science, Faculty of Medicine, Public Health, and Nursing, Universitas Gadjah Mada, Yogyakarta, Indonesia

²Department of Ophthalmology, Faculty of Medicine, Public Health and Nursing, Universitas Gadjah Mada, Yogyakarta, Indonesia

³Master Program of Biomedical Science, Faculty of Medicine, Public Health and Nursing, Universitas Gadjah Mada, Yogyakarta, Indonesia

⁴Department of Histology and Molecular Biology, Faculty of Medicine, Public Health and Nursing, Universitas Gadjah Mada, Yogyakarta, Indonesia

⁵Study Center for Biotechnology, Universitas Gadjah Mada, Yogyakarta, Indonesia

⁶Integrated Research Laboratory, Faculty of Medicine, Public Health and Nursing, Universitas Gadjah Mada, Yogyakarta, Indonesia

⁷RNA-Biology and Bioinformatics, Institute of Biomedical Genetics, University of Stuttgart, Allmandring 31, 70569, Stuttgart, Germany

^*Corresponding author. Email: supanji@ugm.ac.id

Corresponding Author

Supanji Supanji

Available Online 4 September 2026.

DOI: 10.2991/978-94-6239-762-0_16 How to use a DOI?
Keywords: FACS; Transcriptomic Biomarker; Inherited Retinal Dystrophy; Cluster Differentiation; Mouse Retinal Cells
Abstract: The retinal tissue consists of many cell types with distinct characteristics and functions. Many eye diseases are initiated by a dysregulated retinal cell subtype within the tissue. A feasible method is needed for single-cell transcriptomic studies. It is possible to enrich retinal cell subtypes by combining specific epitopes expressed in rod cells, cone cells, Müller cells, and other cell types. This study aims to optimize sorting strategies to simultaneously enrich murine rod, cone, and Müller cells using FACS. Methods: Standard retinal cell dissociation protocols using proteases, then cell viability assay using trypan blue staining and MTT. In the optimal condition, dissociated cells were stained with several central differentiation (CD) markers, including CD73, CD133, CD147, CD29, SSEA-1, and CD44, before sorting by FACS. Results: This study shows that the sorting strategy achieves rods, cones, and Müller cells simultaneously. These results suggest that FACS can be used for complex experimental setups for downstream applications such as RNA-seq. Conclusion: The strategy successfully sorted viable murine rods, cones, and Müller cells.
Open Access: Open Access This chapter is licensed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (http://creativecommons.org/licenses/by-nc-nd/4.0/), which permits any noncommercial use, sharing, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license and indicate if you modified the licensed material. You do not have permission under this license to share adapted material derived from this chapter or parts of it.

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Volume Title: Proceedings of the 6th International Conference on Bioinformatics, Biotechnology, and Biomedical Engineering (BIOMIC 2025)
Series: Advances in Health Sciences Research
Publication Date: 4 September 2026
ISBN: 978-94-6239-762-0
ISSN: 2468-5739
DOI: 10.2991/978-94-6239-762-0_16 How to use a DOI?
Open Access: Open Access This chapter is licensed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License (http://creativecommons.org/licenses/by-nc-nd/4.0/), which permits any noncommercial use, sharing, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license and indicate if you modified the licensed material. You do not have permission under this license to share adapted material derived from this chapter or parts of it.

Cite this article

ris enw bib

TY  - CONF
AU  - Ayudha Bahana Ilham Perdamaian
AU  - Titi Marsifah
AU  - Sri Yuli Purnama
AU  - Dewi Kartikawati Paramita
AU  - Bjorn Voss
AU  - Muhammad Bayu Sasongko
AU  - Supanji Supanji
PY  - 2026
DA  - 2026/09/04
TI  - Simultaneous Mice Sub-Retinal Cell Enrichment Using FACS Sorting Strategy
BT  - Proceedings of the 6th International Conference on Bioinformatics, Biotechnology, and Biomedical Engineering (BIOMIC 2025)
PB  - Atlantis Press
SP  - 251
EP  - 257
SN  - 2468-5739
UR  - https://doi.org/10.2991/978-94-6239-762-0_16
DO  - 10.2991/978-94-6239-762-0_16
ID  - Perdamaian2026
ER  -

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