Supplementary MaterialsS1 Fig: Dish layout and predictions with secondary CNN strategies. dose-response curve (bottom), including the EC50, from CNN Nuc_Ring (A) and CNN 4crops (B) toxicity predictions. For each well, toxicity readouts were obtained by computing Z-scores (normalizing to DMSO-treated wells) with adjustment of the sign to display toxic effects as positive values. Z-scores 3 represent harmful hits.(TIF) pcbi.1006238.s002.tif (1.3M) GUID:?A7E067E0-823C-45DD-A09C-BC33F58321E2 S3 Fig: Evaluation of (R)CNN deep-learning toxicity-assessment approaches. HL1 (A) and MEVEC (B) cells treated or not (-) with DMSO or the indicated concentrations of drugs (M) were processed as explained in the Materials and Methods (Experiments #2 and #10). Representative Tirofiban Hydrochloride Hydrate images are shown of untreated cells. Plots display mean toxicity readouts of four replicate wells, obtained from the percentage of cells predicted by the CNN Nuc (Tox_CNN) or RCNN (Tox_RCNN) mixed models, and from nuclei counting by standard image segmentation (Num Nuc), or by RCNN-based automated detection (Num Nuc RCNN). For each well, toxicity readouts were obtained by computing Z-scores (normalizing to DMSO-treated wells) with adjustment of the sign to display toxic effects as positive values.(TIF) pcbi.1006238.s003.tif (1.7M) GUID:?BF37BB70-37E2-457E-A66C-DEDB754985E2 S4 Fig: Evaluation of a different nuclear staining. HL1 cells treated or not (-) with DMSO or the indicated concentrations of drugs (M) were stained in parallel with DAPI (Experiment #26) or H42 (Experiment #27) as defined in the Components and Strategies. Representative pictures of neglected cells are proven. Plots screen toxicity readouts of four replicate wells, extracted from the percentage of cells forecasted with the CNN Nuc (Tox_CNN) or RCNN (Tox_RCNN) blended versions for both tests. For every well, toxicity readouts had been obtained by processing Z-scores (normalizing to DMSO-treated wells) with modification from Tirofiban Hydrochloride Hydrate the sign to show toxic results as positive beliefs.(TIF) pcbi.1006238.s004.tif (954K) GUID:?5DB25904-1A0F-431E-9BD1-752BC4677733 S5 Fig: Confirmation of (R)CNN-predicted dangerous hits. Principal cardiac fibroblasts (Test #25) treated or not really (-) with DMSO SKP1 or the indicated concentrations of medications (M) had been processed as defined in the Components and Strategies. Boxplots of per-well toxicity assessments in lifestyle wells from set up measurements (A-C), and matching specific well readouts (D-F), extracted from Caspase 3/7 nucleus:cytoplasm proportion (Casp Nuc/Cyto) (A,D), Mitotracker cytoplasmic strength (Mito) (B,E), and nuclei keeping track of (Num Nuc)(C,F). Data are from 4 replicate wells from the same test. For every well, toxicity readouts (D-F) had been obtained by processing Z-scores (normalizing to DMSO-treated wells) with modification from the sign to show toxic results as positive beliefs.(TIF) pcbi.1006238.s005.tif (1.9M) GUID:?8A38475C-72E4-455E-B1E5-C34A5BBBA22A S6 Fig: Validation of (R)CNN as drug toxicity screening tools. Pancreatic CAFs (Tests #15C24) treated with 60 substances on the indicated concentrations (M) had been processed as defined in the Components and Strategies. Plots match results in every 10 comprehensive plates, exhibiting mean toxicity readouts of four replicate wells, extracted from the percentage of cells forecasted with the CNN (Tr_Tox_CNN) and RCNN (Tr_Tox_RCNN) blended versions after transfer learning, and from nuclei keeping track of by standard picture segmentation (Num Nuc), or by RCNN-based computerized recognition (Num Nuc Tr_RCNN). For every well, toxicity readouts had been obtained by processing Z-scores (normalizing to DMSO-treated wells) with modification from the sign to show toxic results as positive beliefs.(TIF) pcbi.1006238.s006.tif Tirofiban Hydrochloride Hydrate (4.7M) GUID:?BB09308A-8850-4B96-9C67-603279AC1E17 S1 Desk: Experiments. Overview of most tests found in this ongoing function, including information regarding cell lines, remedies, and the real variety of pictures and cells.(XLSX) pcbi.1006238.s007.xlsx (12K) GUID:?3812CE5F-B4FC-4477-B69C-4D4BC7410E51 S2 Desk: (R)CNN choices and schooling. Summary of the amount of situations (vegetation or field pictures) and tests used for schooling each model generated within this function.(XLSX) pcbi.1006238.s008.xlsx (11K) GUID:?50D3A16A-C529-4412-8DFA-079D74B1790B S3 Desk: (R)CNN exams and figures. Overview of tests and the amount of situations (vegetation or field pictures) examined with the various models, and sources to figures like the corresponding outcomes.(XLSX) pcbi.1006238.s009.xlsx (14K) GUID:?3DB6FCF5-097A-4A94-8BF2-DB4F7A99F8F9 S1 Document: Supporting data. Compressed file containing.
Categories