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"en": "This dataset contains tracking results of different combinations of CD44 antibody-blocked AsPC1 and MiaPaca cells perfused on CD44 antibody-blocked endothelial monolayers under physiological flow speeds.\r\n\r\nVideos were recorded using a Nikon Eclipse Ti2-E microscope and 20x objective.\r\n\r\nPerfused cells from the generated videos were segmented using custom-trained Stardist models. Tracking was performed using TrackMate, and tracking results were analyzed using a custom CellTracksColab notebook. \r\n\r\nThe dataset here contains the CSV files generated by TrackMate (Track and Spots information), the tracking data stored in the CellTracksColab format (Analysis.zip), and the analysis output used in the paper (Analysis.zip). \r\n\r\n Specifications\r\n\r\n\r\n\r\n\r\n\r\nSample information\r\n\r\n\r\n\r\n\r\n\r\n\r\nAsPC1 and MiaPaca cells perfused on HUVEC cells under physiological flow speeds: 400 µm/s (p1), 200 µm/s (p2), 100 µm/s (p3) and 400 µm/s (p4). \r\n\r\n\r\n\r\n\r\nCD44 antibody blocking of PDACs, HUVECs, or both prior to perfusion\r\n\r\n\r\n\r\n\r\n\r\nImaging specs\r\n\r\n\r\n\r\n\r\n\r\n\r\nMicroscope: Nikon Eclipse Ti2-E, 20x objective\r\n\r\n\r\n\r\n\r\nData Type: Brightfield microscopy images (16-bit)\r\n\r\n\r\n\r\n\r\nImage Size: 1024 x 1022 pixels (Pixel size: 650 nm)\r\n\r\n\r\n\r\n\r\nRecording speed 25 frames/s\r\n\r\n\r\n\r\n\r\n\r\nDL models:\r\n\r\n\r\n\r\n\r\n\r\n\r\nCancer cells: https://doi.org/10.5281/zenodo.10572122 \r\n\r\n\r\n\r\n\r\nNeutrophils: https://doi.org/10.5281/zenodo.10572231\r\n\r\n\r\n\r\n\r\nMononucleated cells: https://doi.org/10.5281/zenodo.10572200\r\n\r\n\r\n\r\n\r\nModel Training and predictions: Conducted using ZeroCostDL4Mic (https://github.com/HenriquesLab/ZeroCostDL4Mic/wiki)\r\n\r\n\r\n\r\n\r\n\r\nTracking parameters (TrackMate):\r\n\r\n\r\n\r\n\r\n\r\n\r\nDetection: label detector\r\n\r\n\r\n\r\n\r\nTracking: Simple LAP detector: Linking max distance: 20 px; Gap-closing max distance: 20 px; Gap-closing max frame gap: 4. \r\n\r\n\r\n\r\n\r\nTrack filtering: min number of spots in the tracks 11.79 \r\n\r\n\r\n\r\n\r\n\r\nTracking analysis\r\n\r\n\r\n\r\n\r\n\r\n\r\nTracks were analyzed using a customized CellTracksColab notebook (https://github.com/CellMigrationLab/PDAC_DL/tree/main/CellTracksColab)\r\n\r\n\r\n\r\n\r\nContents of the repository\r\n\r\n\r\n\r\n\r\n\r\nAnalysis_AsPC1.zip dataset\r\n\r\n\r\n\r\n\r\nAnalysis_Miapaca.zip dataset\r\n\r\n\r\n\r\n\r\nAs_blockboth.zip dataset\r\n\r\n\r\n\r\n\r\nAs_ctrlblock.zip dataset\r\n\r\n\r\n\r\n\r\nAs_HUblock.zip dataset\r\n\r\n\r\n\r\n\r\nAs_TCblock.zip dataset\r\n\r\n\r\n\r\n\r\nMia_blockboth.zip\r\n\r\n\r\n\r\n\r\nMia_ctrlblock.zip\r\n\r\n\r\n\r\n\r\nMia_HUblock.zip\r\n\r\n\r\n\r\n\r\nMia_TCblock.zip\r\n\r\n\r\n\r\n \r\n\r\n\r\n\r\nReference\r\n\r\nFast label-free live imaging reveals key roles of flow dynamics and CD44-HA interaction in cancer cell arrest on endothelial monolayers\r\n\r\n\r\nGautier Follain, Sujan Ghimire, Joanna W. Pylvänäinen, Monika Vaitkevičiūtė, Diana Wurzinger, Camilo Guzmán, James RW Conway, Michal Dibus, Sanna Oikari, Kirsi Rilla, Marko Salmi, Johanna Ivaska, Guillaume Jacquemet\r\n\r\nbioRxiv 2024.09.30.615654; doi: https://doi.org/10.1101/2024.09.30.615654"
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