Example data sets for correlative refractive index and fluorescence tomography with optofluidic rotation

The samples are identified by the file name: - phantom: Cell-sized object consisting of a Polyacrylamide (PAA) bead containing fused silica beads; No fluorescence data (fig. 3 in [1]) - hl60: HL60 cell; Fluorescence data shows Hoechst staining (fig. 4 in [1]) - retina-young: Young (P10) mouse retina cell; Fluorescence data shows Hoechst staining (fig. 5a,b in [1]) - retina-adult: Adult mouse retina cell; Fluorescence data shows Hoechst staining (fig. 5c,d in [1]) The quantitative phase data were recorded with a commercial camera (SID4Bio, Phasics) and converted from the raw format to the amplitude/phase format using proprietary software shipped with the camera.

The fluorescence data were recorded with a CMOS camera. For a successful reproduction of the figures in [1], the following tasks must be performed - spatial and temporal colocalization of the fluorescence and phase data - bleach correction of the fluorescence data - correction of the lateral movement during optofluidic rotation - determination of the rotational axis - determination of a 2PI rotation interval - estimation of the non-uniform rotational speed - tomographic reconstruction using backprojection (fluorescence) and backpropagation (amplitude/phase) For more information and a detailed analysis, please refer to [1], [4] and [5].

SHA256 sums: 032c3c989050a225b296c22da9ac0c5b21ecfd196eb6e9681fce366c360fbc01 hl60_reference_fli.h5 7b1f46fab6245093429f90560b09d0e6aa96b6b616d27bb4401d2421ed0bde1b hl60_reference_qpi.h5 2fa3647f536fba16a985ac155670679bcd19d868a9aa15f03331275ba0bdc686 hl60_sinogram_fli.h5 4f2d797d1781a835f3c4b421a95adb5c5226169a94ea3c175ffebf55b58ad4f7 hl60_sinogram_qpi.h5 aff6aa82367697c75b706bd8b99ede8ff225610293bb1e1f9ef6c8dcd67cbbdf phantom_sinogram_qpi.h5 41495a7acdc6974711dd0c01d7331856b8ec38733178df41addd676e0ba45011 retina-adult_reference_fli.h5 c7efa7530be273b09e0f57632554c7f03c1980bb8af78da2f123a500e5ea4d8a retina-adult_reference_qpi.h5 93f6b2c36be2f03bbf0b5a6a01fff42028a69107fe9bbbc594b4c140b1aefd3c retina-adult_sinogram_fli.h5 4761be77def8c03aa91cdb19f5f7dc5aecc3f234dd0d5f777cb14bda32c4d557 retina-adult_sinogram_qpi.h5 032fc6de9cb9e6889a59cc49f596d3953d0dfa5c59aa65340e571a2fdf6e7692 retina-young_reference_fli.h5 53df795724ec7e7d8bbcd9aefe9d24867d3d60b45d6120191079c6a1907c8f6b retina-young_reference_qpi.h5 fb84a8a579505ae3f314a3c1847fb5cc474a3c2ce6327ae46a709c4c782a5a10 retina-young_sinogram_fli.h5 62ec6f2fc373449050d798bb00922fa3e5e4ad803f05a093c76007eb3d27994a retina-young_sinogram_qpi.h5 [1] doi.org/10.1002/jbio.201700145, arxiv.org/abs/1706.00715 [2] github.com/RI-imaging/qpimage, flimage.readthedocs.io [3] github.com/RI-imaging/flimage, qpimage.readthedocs.io [4] dx.doi.org/10.1002/jbio.201800095, arxiv.org/abs/1805.06214 [5] dx.doi.org/10.1364/OE.26.010729, arxiv.org/abs/1803.06410