CF Functional Genomics
The Core Facility Functional Genomics provides a comprehensive range of services for high-throughput functional genome-wide experiments, incorporating both image-based assays and pooled CRISPR technologies.
Key services and expertise include:
High-throughput functional genomics experiments
- Utilizes both RNA interference (RNAi) (e.g., siRNA or shRNA) and CRISPR-based approaches (e.g., CRISPR-Cas9) to modulate gene expression.
- Supports image-based high-content microscopy for the quantitative analysis of cellular phenotypes, alongside other data-driven approaches.
CRISPR and RNAi genome-wide pooled screens
- Provides access to genome-wide pooled CRISPR screens using gRNA libraries, alongside RNAi-based screens.
- Enables CRISPR knockout (KO) or knock-in (KI) studies for large-scale functional analysis, allowing precise gene editing to investigate gene functions.
Hit validation and custom cell line generation
- Assists in the validation of genetic hits from screening experiments.
- Provides expertise in generating custom KO/KI cell lines for functional studies, ensuring precise editing and characterization of genes of interest.
Personalized library sub pools
- Offers support in creating personalized sub pools of CRISPR or RNAi libraries, allowing researchers to focus on specific sets of genes or pathways for targeted functional studies.
This facility integrates cutting-edge CRISPR technologies with high-content phenotypic analysis, enabling researchers to perform both genome-wide screens and targeted experiments with detailed support in gene editing and cellular phenotype analysis.
Resources and equipment:
Substance libraries
- genome wide pooled sgRNA libraries (mouse and human)
- shRNA libraries of selected targets
- genome wide siRNA libraries (mouse and human)
- siRNA libraries of selected targets
- drug library of FDA approved compounds
Automated high throughput spinning disk confocal microscope
- MD ImageXPress Micro Confocal
Liquid handling workstation
- Tecan Evo Freedom
Cell dispensing device
- Biotek CellDispenser
Electroporation device
- Amaxa 4D-Nucleofector (X and Y units)
- NEPA21 Super Electroporator
IT infrastructure for storage & analysis of large datasets in collaboration with SG-IT and CF Life Science Computing.
About Us
Current Main Activities
Important User Information
Team
Selected Publications
| Poly(ADP-Ribose) Polymerase-1 Lacking Enzymatic Activity Is Not Compatible with Mouse Development. Kamaletdinova T, Zong W, Urbánek P, Wang S, Sannai M, Grigaravičius P, Sun W, Fanaei-Kahrani Z, Mangerich A, Hottiger MO, Li T, Wang ZQ; Cells 2023, 12(16), 2078; https://doi.org/10.1101/2023.12.12.569033 |
| The EMT transcription factor ZEB1 governs a fitness-promoting but vulnerable DNA replication stress response. Schuhwerk H, Kleemann J, Gupta P, van Roey R, Armstark I, Kreileder M, Feldker N, Ramesh V, Hajjaj Y, Fuchs K, Mahapatro M, Hribersek M, Volante M, Groenewoud A, Engel FB, Ceppi P, Eckstein M, Hartmann A, Müller F, Kroll T, Stemmler MP, Brabletz S, Brabletz T; Cell Rep 2022, 41(11), 111819; https://www.doi.org/10.1016/j.celrep.2022.111819 |
| Cell Type-Specific Role of RNA Nuclease SMG6 in Neurogenesis. Guerra GM, May D, Kroll T, Koch P, Groth M, Wang** ZQ, Li TL, Grigaravičius** P; Cells 2021, 10(12), 3365 ** co-corresponding authors; https://www.doi.org/10.3390/cells10123365 |
| Tnfaip2/exoc3-driven lipid metabolism is essential for stem cell differentiation and organ homeostasis. Deb S, Felix DA, Koch P, Deb MK, Szafranski K, Buder K, Sannai M, Groth M, Kirkpatrick J, Pietsch S, Gollowitzer A, Groß A, Riemenschneider P, Koeberle A, González-Estévez** C, Rudolph** KL; EMBO Rep 2021, 22(1), e49328 ** co-corresponding authors; https://www.doi.org/10.15252/embr.201949328 |
| COPII collar defines the boundary between ER and ER exit site and does not coat cargo containers. Shomron O, Nevo-Yassaf I, Aviad T, Yaffe Y, Erez Zahavi E, Dukhovny A, Perlson E, Brodsky I, Yeheskel A, Pasmanik-Chor M, Mironov A, Beznoussenko GV, Mironov AA, Sklan EH, Patterson GH, Yonemura Y, Sannai M, Kaether** C, Hirschberg** K; J Cell Biol 2021, 220(6), e201907224 ** co-corresponding authors; https://pubmed.ncbi.nlm.nih.gov/33852719/ |
| Cell-based RNAi screening and high-content analysis in primary calvarian osteoblasts applied to identification of osteoblast differentiation regulators. Ahmad M, Kroll T, Jakob J, Rauch A, Ploubidou A, Tuckermann J; Sci Rep 2018, 8(1), 14045; http://dx.doi.org/10.1038/s41598-018-32364-8 |
