Research > Focus D > Work Packages D01
Summary
This central project aims at ensuring uniform availability and quality of tissue material and high-throughput data in cost-effective and state-of-technology way to be used in UNITE subprojects (coined UNITE Core Collection). Our aim is to work with and provide material and data from newly diagnosed patients and matching recurrences, which has been stringently standardized, characterized and analyzed reflecting the multilevel approach of UNITE.
Task 1
Biobanking at neurosurgery in Heidelberg and Mannheim
Steps / Workflow
- Inspection for tumor cell content at NPATH HD
- Digitalization of slides in NPATH HD
- Focus on matched recurrent Glioblastoma IDH-wt, H3-altered glioma and Astrocytoma IDH-mut grade 4
Task 2
Molecular characterization of tumors and primary cell cultures
Steps / Workflow
Profiling for
- DNA methylation (850k)
- CNVs (850k, lcWGS)
- SNVs/InDels (panel, WES, WGS)
- Rearrangements (RNA, lcWGS) Expression (RNA)
Application of RAPID-CNS2 (A06) (Patel ANP 2022)
- DNA methylation
- CNVs, SNVs/InDels
- Rearrangements
Task 3
Spatial sequencing
Steps / Workflow
- Established platforms (10x Visium, CytAssist)
- Expanding by novel, highresolution Xenium
- Assist in panel generation and devise a comprehensive UNITE panel for targeted (Xenium) analysis
- Develop algorithm for cell segmentation (with C04, D02, A06)
Previous funding period
Principle Investigators
Ratliff, Miriam, Dr.med., Dipl.-Biol.
Constultant, Department of Neurosurgery
University Medical Centre Mannheim, Medical Faculty Mannheim, Heidelberg University Theodor-Kutzer-Ufer 1-3, 68167 Mannheim
HEROLD-MENDE, CHRISTEL, PROF. DR. RER. NAT.
Professor for Experimental Neurosurgery, Division Head
University Hospital Heidelberg, Department of Neurosurgery, Division of Neurosurgical Research, Im Neuenheimer Feld 400, 69120 Heidelberg, Germany
SAHM, FELIX, PROF. DR. DR. MED.
Head of Div. Molecular Neuropathology
University Hospital Heidelberg, Department of Neuropathology, Im Neuenheimer Feld 224, 69120 Heidelberg, Germany