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Shady Sayed Group

Genome Editing for Precision Oncology – Translational lung cancer research

Portrait Shady Sayed

My research group aims to apply CRISPR-based mutation profiling and functional characterisation to patient-derived lung organoids to better understand mutation-driven vulnerabilities.

Lung cancer remains the leading cause of cancer-related mortality in the European Union, with approximately 249,000 deaths each year. More than half of patients are diagnosed with metastatic disease, necessitating systemic, drug-based therapies. Over the past decade, systemic treatment options for lung cancer have expanded rapidly; however, clinical responses are often incomplete and resistance to therapy frequently emerges, limiting long-term efficacy.

Our previous work have demonstrated that CRISPR-based genome editing can not only uncover previously unrecognized cancer-driving mutations, but also precisely correct oncogenic variants within their native genomic environment. Moreover, this approach enables the functional stratification of mutations in cancer driver genes, such as TP53, KRAS, and SMAD4, based on their contribution to cellular fitness. Meanwhile, although TP53 has long been considered “undruggable” due to its role as a transcription factor, the precise correction of mutant TP53 in its endogenous context offers a powerful strategy to restore its tumor-suppressive function. Interestingly, we have recently shown cellular depletion following TP53 mutation repair in various cell lines of different cancer origins and recently achieved in vivo repair of a TP53 hotspot mutation in a peritoneal cancer mouse model, leading to significant tumor regression. Extending this platform to lung cancer, the most prevalent type of cancer, offers a a straightfoward extension toward clinical translation. Current work focuses on improving tissue-specific delivery using lipid nanoparticles and viral vectors to enhance feasibility. Importantly, this strategy is designed as a broadly applicable framework and shall serve as a blueprint for multiple cancer types, including pediatric, hematologic, and other solid malignancies.

Shady Sayed Research: Figure
Figure: Overview of the research focus at the group of Genome Editing for Precision Oncology

Future Projects and Goals

  • Screen nanocarrier delivery vehicles e.g. lipid nanoparticles, virus-like particles, across a panel of cancer organoids to profile cell-type specificity
  • Tailoring therapies based on the response of cancer organoids to mutations repair, potentially leading to more effective personalised treatment regimens
  • Evaluate drug sensitivity in lung cancer organoids after mutation repair
  • In vivo molecular surgery by using CRISPR-technologies to repair tumor mutations in mouse models

Methodological and Technical Expertise

  • CRISPR-Cas9 Technologies (design, execution & data analysis)
  • Advanced Tissue Culture Models e.g. Patient-derived tumor/normal organoids
  • Tumor Biology
  • Functional genomics
  • Viral vectors

CV

since 2026
MSNZ Junior Group Leader at the Faculty of Medicine Carl Gustav Carus Dresden, TU Dresden

since 2025
Fellow of the national Translational Tandem Program for Gene- and Cell-based Therapies (nTTP-GCT) – coordinated by the Biomedical Innovation Academy of the Berlin Institute of Health at Charité (BIH) and funded by the Federal Ministry of Education and Research (BMBF). Tandem project: “Pioneering molecular surgery with CRISPR-technologies for personalized lung cancer therapy”

2021–2025
Postdoctoral Fellow, Prof. Dr. Frank Buchholz research group, UCC, Faculty of Medicine Carl Gustav Carus Dresden, TU Dresden

2017–2020
PhD Student, Prof. Dr. Frank Buchholz research group, UCC, Faculty of Medicine Carl Gustav Carus Dresden, TU Dresden

Selected Publications

Pascal Wang, Rituparno Sen, Frank Buchholz, and Shady Sayed
A base editing platform for the correction of cancer driver mutations unmasks conserved p53 transcription programs
Genome Biol 26, 217 doi: 10.1186/s13059-025-03667-7 (2025) – the publication was awarded Paper of the Quarter by the German Society for Gene Therapy

Lukas Theo Schmitt, Aksana Schneider, Jonas Posorski, Felix Lansing, Milica Jelicic, Manavi Jain, Shady Sayed, Frank Buchholz, Duran Sürün
Quantification of evolved DNA-editing enzymes at scale with DEQSeq
Genome Biol 24, 254 doi: 10.1186/s13059-023-03097-3 (2023)

Shady Sayed, Olga A. Sidorova, Alexander Hennig, Martina Augsburg, Catherine P. Cortés Vesga, Moustafa Abohawya, Lukas T. Schmitt, Duran Sürün, Daniel E. Stange, Jovan Mircetic, Frank Buchholz
Efficient Correction of oncogenic KRAS and TP53 mutations through CRISPR Base Editing
Cancer Res 82(17):3002–3015 doi: 10.1158/0008-5472.CAN-21-2519 (2022)

Shady Sayed, Duran Sürün, Jovan Mircetic, Olga Alexandra Sidorova & Frank Buchholz
Using CRISPR-Cas9 to Dissect Cancer Mutations in Cell Lines
Cancer Cell Biology. Methods Mol Bio, vol 2508 doi: 10.1007/978-1-0716-2376-3_18 (2022)

Shady Sayed, Maciej Paszkowski-Rogacz, Lukas Theo Schmitt, Frank Buchholz
CRISPR/Cas9 as a tool to dissect cancer mutations
Methods 164–165:36–48 doi: 10.1016/j.ymeth.2019.05.007 (2019)