5 files

Real-time deformability cytometry reference data

posted on 14.09.2019, 13:36 by Philipp Rosendahl, Christoph Herold, Paul MüllerPaul Müller, Jochen Guck
This dataset consists of four exemplary real-time fluorescence and deformability cytometry measurements. The HDF5-files can be opened with dclab [1] or Shape-Out [2].

The calibartion beads (8 Peaks, PolyAN) consist of eight bead populations with different mixtures of fluorophores.

Hematopoietic stem and progenitor cells (HSPCs) were obtained using apheresis. The cells were tagged with a fluorescently labeled antibody that binds to the CD34 transmembrane protein. CD34-positive HSPCs are gated with `fl3_max > 90`. Set `area_ratio < 1.05` to remove aggregates. Data were used in [3].

The leukocyte population (white blood cells) of this blood sample can be visualized by setting `aspect < 2` and `area_ratio < 1.05`. For more information, see e.g. [4].

Blood contains mostly red blood cells (RBCs) and about 1% reticulocytes (which develop into mature RBCs). Reticulocytes contain ribosomal RNA which was stained with Syto13 for this measurement. Set `area_ratio < 1.05` to remove aggregates. Data were used in [3].

[1] https://github.com/ZellMechanik-Dresden/dclab

[2] https://github.com/ZellMechanik-Dresden/ShapeOut

[3] Rosendahl et al., "Real-time fluorescence and deformability cytometry". Nature Methods, 15(5):355–358, 2018. doi:10.1038/nmeth.4639.

[4] Toepfner et al., "Detection of human disease conditions by single-cell morpho-rheological phenotyping of whole blood". eLife, 7:e29213, 2017. doi:10.1101/145078.

SHA256 sums:
08c2ef13eed903ef0f9e451727ab8484df09b5d3b39227dab726e0164dcbe244 calibration_beads.rtdc
663b44a9db88d85996500045489e37a317cf115719223a531d617f8e3d450e79 CD34_HSPC.rtdc
68bd538b42ffb990f1db52d5f3b21f37c9aff31208ab284f3910fd6872c40fdb leukocytes.rtdc
5c323ea75bf7eeb2a28d922730772d50270dd872d6957e60d6062663f3628fb3 reticulocytes.rtdc


Alexander-von-Humboldt Stiftung (Humboldt-Professorship to J.G.)

Sächsisches Ministerium für Wissenschaft und Kunst (TG70)

European Fund for Regional Development

ERC Starting Grant ("LightTouch" #282060)

DFG Center for Regenerative Medicine of the Technische Universität Dresden

DFG KFO249 (GU 612/2-2)