Gene Expression Affymetrix Facility

Gene Expression Affymetrix Facility at the CMMC is headed by Prof. Dr. Agapios Sachinidis (Institute for Neurophysiology) and his team, Dipl. Biol. Margit Henry and Dipl. Biol. Tamara Rotshteyn. 

Besides 3’ transcriptomics microarrays, the Facility also uses the GeneChip® Human Transcriptome Array 2.0, the GeneChip® Mouse Exon ST Array and the GeneChip® Rat Exon ST Array. These arrays offer a cost-effective alternative to next generation sequencing with the following main advantages:

Analysis of the data does not require specific knowledge in bioinformatics
Big data storage facilities are not required
Analysis of the data is very fast

CMMC Gene expression Affymetrix facility

Before sending samples, please get in contact with Margit Henry or Tamara Rotshteyn.

Postal address for sending the samples:
Gene Expression Affymetrix Facility
CMMC Research Building
Robert-Koch-Str. 21
50931 Cologne

Please note that the Facility cannot guarantee a positive outcome and that remaining samples can only be stored for 4 weeks, after which they will be discarded.

Publications until 10/2022

Acharya A, Nemade H, Rajendra Prasad K, Khan K, Hescheler J, Blackburn N, Hemmersbach R, Papadopoulos S, and Sachinidis A (2022). Live-Cell Imaging of the Contractile Velocity and Transient Intracellular Ca(2+) Fluctuations in Human Stem Cell-Derived Cardiomyocytes. Cells11. doi:10.3390/cells11081280.

Cherianidou A, Seidel F, Kappenberg F, Dreser N, Blum J, Waldmann T, Bluthgen N, Meisig J, Madjar K, Henry M, Rotshteyn T, Marchan R, Edlund K, Leist M, Rahnenfuhrer J, Sachinidis A, and Hengstler JG (2022). Classification of Developmental Toxicants in a Human iPSC Transcriptomics-Based Test. Chem Res Toxicol35, 760-773. doi:10.1021/acs.chemrestox.1c00392.

Hamad S, Derichsweiler D, Gaspar JA, Brockmeier K, Hescheler J, Sachinidis A, and Pfannkuche KP (2022). High-efficient serum-free differentiation of endothelial cells from human iPS cells. Stem Cell Res Ther13, 251. doi:10.1186/s13287-022-02924-x.

Hombach A, Barden M, Hannappel L, Chmielewski M, Rappl G, Sachinidis A, and Abken H (2022). IL12 integrated into the CAR exodomain converts CD8(+) T cells to poly-functional NK-like cells with superior killing of antigen-loss tumors. Mol Ther30, 593-605. doi:10.1016/j.ymthe.2021.10.011.

Publications 2021

Edlund K, Madjar K, Lebrecht A, Aktas B, Pilch H, Hoffmann G, Hofmann M, Kolberg HC, Boehm D, Battista M, Seehase M, Stewen K, Gebhard S, Cadenas C, Marchan R, Brenner W, Hasenburg A, Koelbl H, Solbach C, Gehrmann M, Tanner B, Weber KE, Loibl S, Sachinidis A, Rahnenfuhrer J, Schmidt M, and Hengstler JG (2021). Gene Expression-Based Prediction of Neoadjuvant Chemotherapy Response in Early Breast Cancer: Results of the Prospective Multicenter EXPRESSION Trial. Clin Cancer Res27, 2148-2158. doi:10.1158/1078-0432.CCR-20-2662.

Hombach A, Barden M, Hannappel L, Chmielewski M, Rappl G, Sachinidis A, and Abken H (2021). IL12 integrated into the CAR exodomain convertsCD8(+) T cells to poly-functional NK-like cells with superior killing of antigen-loss tumors. Mol Ther. doi:10.1016/j.ymthe.2021.10.011.

Machado R, Sachinidis A, and Futschik ME (2021). Detection of Novel Potential Regulators of Stem Cell Differentiation and Cardiogenesis through Combined Genome-Wide Profiling of Protein-Coding Transcripts and microRNAs. Cells10. doi:10.3390/cells10092477.

Peinkofer G, Maass M, Pfannkuche K, Sachinidis A, Baldus S, Hescheler J, Saric T, and Halbach M (2021). Persistence of intramyocardially transplanted murine induced pluripotent stem cell-derived cardiomyocytes from different developmental stages. Stem Cell Res Ther12, 46. doi:10.1186/s13287-020-02089-5.

Wang D, Liu C, Liu H, Meng Y, Lin F, Gu Y, Wang H, Shang M, Tong C, Sachinidis A, Ying Q, Li L, and Peng L (2021). ERG1 plays an essential role in rat cardiomyocyte fate decision by mediating AKT signaling. Stem Cells39, 443-457. doi:10.1002/stem.3328.

Papazoglou P, Peng L, and Sachinidis A (2021). Epigenetic Mechanisms Involved in the Cardiovascular Toxicity of Anticancer Drugs. Front Cardiovasc Med8, 658900. doi:10.3389/fcvm.2021.658900.

Publications 2020

Hellweg CE, Shinde V, Srinivasan SP, Henry M, Rotshteyn T, Baumstark-Khan C, Schmitz C, Feles S, Spitta LF, Hemmersbach R, Hescheler J, and Sachinidis A (2020). Radiation Response of Murine Embryonic Stem Cells. Cells9. doi:Artn 1650 10.3390/Cells9071650.

Lucendo-Villarin B, Nell P, Hellwig B, Filis P, Feuerborn D, O'Shaughnessy PJ, Godoy P, Rahnenfuhrer J, Hengstler JG, Cherianidou A, Sachinidis A, Fowler PA, and Hay DC (2020). Genome-wide expression changes induced by bisphenol A, F and S in human stem cell derived hepatocyte-like cells. EXCLI J19, 1459-1476. doi:10.17179/excli2020-2934.

Meisig J , Dreser N, Kapitza M, Henry M, Rotshteyn T, Rahnenführer J, Hengstler, JG, Sachinidis A, Waldmann T, Leist M, Blüthgen N. (2020) Kinetic modeling of stem cell transcriptome dynamics to identify regulatory modules of normal and disturbed neuroectodermal differentiation. Nucleic Acids Res48, 12577-12592. doi: 10.1093/nar/gkaa1089.

Nemade H, Acharya A, Chaudhari U, Nembo E, Nguemo F, Riet N, Abken H, Hescheler J, Papadopoulos S, and Sachinidis A (2020). Cyclooxygenases Inhibitors Efficiently Induce Cardiomyogenesis in Human Pluripotent Stem Cells. Cells9. doi:10.3390/cells9030554.

Sachinidis A (2020). Cardiotoxicity and Heart Failure: Lessons from Human-Induced Pluripotent Stem Cell-Derived Cardiomyocytes and Anticancer Drugs. Cells9. doi:10.3390/cells9041001.