Single Cell Genomics Core
As a part of the national Biocenter Finland single-cell omics technology platform service, the mission of the Single Cell Genomics core is to providing access to the latest technologies in the field on single cell genomics. Currently, we provide single-cell single-cell transcriptomics (RNA-Seq) and epigenetics (ATAC-Seq) services using commercial platforms from 10 x Genomics (Chromium controller) and BD Biosciences (Rhapsody). We also provide consultancy in experimental setup and data analysis.
At the moment our services consist of high throughput single-cell transcriptomics (RNA-Seq) and epigenetics (ATAC-Seq). In addition, we provide scientific consultation and engage in research collaborations focused on development and implementation of new methods and technologies.
We offer the 10 x Chromium technology as staff-assisted service. Also BD Rhapsody platform is also available for applications requiring low cell numbers (500-1000 cells) or for cells that might not be compatible with other systems.
Spatial transcriptomics will be piloted in spring 2021, stay tuned!
Minna Kaikkonen-Määttä (Head of the Unit)
Tiit Örd (Scientific Coordinator)
Tuula Salonen (Lab Manager)
Group members - UEF
Minna Kaikkonen-Määttä Academy Research Fellow , Faculty of Health Sciences, A.I. Virtanen Institute for Molecular Sciences
Tiit Örd Postdoctoral Researcher , Faculty of Health Sciences, A.I. Virtanen Institute for Molecular Sciences
Tuula Salonen Laboratory Technician , Faculty of Health Sciences, A.I. Virtanen Institute for Molecular Sciences
Publications by the research group members
Microanatomy of the Human Atherosclerotic Plaque by Single-Cell Transcriptomics Depuydt, Marie Ac; Prange, Koen Hm; Slenders, Lotte; Örd, Tiit; Elbersen, Danny; Boltjes, Arjan; de Jager, Saskia Ca; Asselbergs, Folkert W; de Borst, Gert J; Aavik, Einari; Lönnberg, Tapio; Lutgens, Esther; Glass, Christopher K; den Ruijter, Hester M; Kaikkonen, Minna U; Bot, Ilze; Slütter, Bram; van der Laan, Sander W; Ylä-Herttuala, Seppo; Mokry, Michal; et al. 2020. Microanatomy of the Human Atherosclerotic Plaque by Single-Cell Transcriptomics Circulation research 127 11: 1437-1455. 2020