DATA: "Pore-size dynamics control complex volume swelling in pyroptosis."

DATA: “Pore-size dynamics control complex volume swelling in pyroptosis.” 1. FOLDER: iBMDMs: DATA obtained on iBMDM cell line a. SUBFOLDER: data_SRB_10_500kDa Data_Inhica.mat : BAPTA_AM treatment data SRB_10_500 o Cell trajectories ROW DATA : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Cell trajectories Normalized Vi= 1 : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Timelapse parameters of cell volume acquisition: · dt : Timelapse in min o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_500 and Timepoints_500 -> Determined on 500KDa cell volume trajectories · Volpoints_SRB and Timepoints_SRB -> Determined on SRB cell volume trajectories o Early_swelling rate measurement on 500 kDA cell trajectories between timepoints 1 and 2 : · Early_swelling_rate o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o Flow of 10kDA entry into cell: · Dex10kDa_flow o Correlation betaween Flow of SRB entry into cell and Time of 10kDA entry into cell: · SRB_flow_corr o A table grouping the time points, volume points, and cell volume steady-state parameters, organized by dye and by cell. o Table_Data_analyse_plateau_InhiCa · Plateau oui_non : existence of plateau · Tps_plateau : plateau duration · DeltaV_plateau : Difference in cell volume between the start and the end of the cell volume plateau · Vi_Vp : Difference in cell volume between the initial swelling onset and the beginning of the cell volume plateau SRB_10_70 o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow Data_Glycin.mat : Glycine treatment data SRB_10_500 o Cell trajectories ROW DATA : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Cell trajectories Normalized Vi= 1 : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Timelapse parameters of cell volume acquisition: · dt : Timelapse in min o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_500 and Timepoints_500 -> Determined on 500KDa cell volume trajectories · Volpoints_SRB and Timepoints_SRB -> Determined on SRB cell volume trajectories o Early_swelling rate measurement on 500 kDA cell trajectories between timepoints 1 and 2 : · Early_swelling_rate o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o Flow of 10kDA entry into cell: · Dex10kDa_flow o Correlation betaween Flow of SRB entry into cell and Time of 10kDA entry into cell: · SRB_flow_corr o A table grouping the time points, volume points, and cell volume steady-state parameters, organized by dye and by cell. o Table_Data_analyse_plateau_InhiCa · Plateau oui_non : existence of plateau · Tps_plateau : plateau duration · DeltaV_plateau : Difference in cell volume between the start and the end of the cell volume plateau · Vi_Vp : Difference in cell volume between the initial swelling onset and the beginning of the cell volume plateau. Data_MCWOCa.mat : Culture medium without Calcium data SRB_10_500 o Cell trajectories ROW DATA : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Cell trajectories Normalized Vi= 1 : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Timelapse parameters of cell volume acquisition: · dt : Timelapse in min o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_500 and Timepoints_500 -> Determined on 500KDa cell volume trajectories · Volpoints_SRB and Timepoints_SRB -> Determined on SRB cell volume trajectories o Early_swelling rate measurement on 500 kDA cell trajectories between timepoints 1 and 2 : · Early_swelling_rate o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o A table grouping the time points, volume points, and cell volume steady-state parameters, organized by dye and by cell. o Table_Data_analyse_plateau_MCWOCa · Plateau oui_non : existence of plateau · Tps_plateau : plateau duration · DeltaV_plateau : Difference in cell volume between the start and the end of the cell volume plateau · Vi_Vp : Difference in cell volume between the initial swelling onset and the beginning of the cell volume plateau SRB_10_70 o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o Flow of 10kDA entry into cell: · Dex10kDa_flow Data_NinjKO.mat : iBMDMs Ninj 1-/- Data_NinjKO: SRB_10_500: Two types of experiments were performed (type 1 and type 2), differing in their time-lapse acquisition settings (dt_1 and dt_2). Each experiment type is associated with its corresponding trajectories, time points, and volume points (_dt1 or _dt2) o Cell trajectories ROW DATA : · Dex10_Trajectories (_dt1 or _dt2) -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories (_dt1 or _dt2) -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories (_dt1 or _dt2) -> cell volumes measured with SRB row data o Timelapse parameters of cell volume acquisition: · dt_1: Timelapse in min · dt_2: Timelapse in min o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 (_dt1 or _dt2) -> Determined on 10KDa cell volume trajectories · Volpoints_SRB and Timepoints_SRB (_dt1 or _dt2) -> Determined on SRB cell volume trajectories · Volpoints_500 and Timepoints_500 include, within the same file, data from experiment type 1 and then experiment type 2 (dt₁ and dt₂), determined from 500 kDa cell volume trajectories o Early_swelling rate measurement on 500 kDA cell trajectories between timepoints 1 and 2 : · Early_swelling_rate o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o A table grouping the time points, volume points, and cell volume steady-state parameters, organized by dye and by cell: o Table_Data_analyse_plateau_NinjKO · Plateau oui_non : existence of plateau · Tps_plateau : plateau duration · DeltaV_plateau : Difference in cell volume between the start and the end of the cell volume plateau · Vi_Vp : Difference in cell volume between the initial swelling onset and the beginning of the cell volume plateau · V_max_500: Maximal cell volume measured on 500 kDa_trajectories · Vmax_over_Vi_500: Ratio between Maximal cell volume and Initial cell volume, measured on 500 kDa_trajectories - data_Ninjko_BAPTA: SRB_10_500: o Cell trajectories ROW DATA : · Dex10_Trajectories (_dt1 or _dt2) -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories (_dt1 or _dt2) -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories (_dt1 or _dt2) -> cell volumes measured with SRB row data o Time: time-lapse interval of 0.13 min o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_500 and Timepoints_500 -> Determined on 500KDa cell volume trajectories Data_CT.mat: iBMDM WT SRB_10_70 o Cell trajectories ROW DATA : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex70_Trajectories -> cell volumes measured with Dextran 70 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Timelapse parameters of cell volume acquisition: · dt : Timelapse in min o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_70 and Timepoints_70 -> Determined on 70KDa cell volume trajectories · Volpoints_SRB and Timepoints_SRB -> Determined on SRB cell volume trajectories o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o Correlation betaween Flow of SRB entry into cell and Time of 10kDA entry into cell: · SRB_flow_corr o A table grouping the time points, volume points, and cell volume steady-state parameters, organized by dye and by cell: o Table_Data_analyse_CT · Early_swelling rate: · Conditions: CT · Experience: 1, 2, or 3 · Nb cell: cell number · Dye: dextrans or SRB (Disulf) · T_entry: Time of dye entry · Flow_sweel: Early_swelling_rate · Flow_ent: Flow of dye entry SRB_10_500 o Cell trajectories ROW DATA : · Dex10_Trajectories -> cell volumes measured with Dextran 10 kDa row data · Dex500_Trajectories -> cell volumes measured with Dextran 500 kDa row data · SRB_Trajectories -> cell volumes measured with SRB row data o Timelapse parameters of cell volume acquisition: o Dt : Timelapse in min o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_70 and Timepoints_70 -> Determined on 70KDa cell volume trajectories · Volpoints_500 and Timepoints_500 -> Determined on SRB cell volume trajectories o Flow of SRB entry into cell measured between Timepoints 1 and 2 on SRB cell trajectories: · SRB_flow o Flow of 10kDA entry into cell: · Dex10kDa_flow o Early_swelling rate measurement on 500 kDA cell trajectories between timepoints 1 and 2 : · early_swelling_rate o A table grouping the time points, volume points, and cell volume steady-state parameters, organized by dye and by cell: Table_Data_analyse_CT · Conditions: CT · Experience: 1, 2, or 3 · Nb cell: cell number · Dye: dextrans · T_entry: Time of dye entry · V_max_500: Maximal cell volume measured on 500 kDa_trajectories · Vmax_over_Vi_500: Ratio between Maximal cell volume and Initial cell volume, measured on 500 kDa_trajectories b. SUBFOLDER: data_iBMDM_WT_Dye_entry Time_Dye_entry.mat o Combined_table · Conditions: CT or Glycin, Dis_50 or Dis_100 (Disulfiram 50 or 100 uM) · Experience: 1, 2, or 3 · nbcell: cell number · Dye: dextrans (4_4:4.4 kDa ; 10: 10kDa ; 70: 70 kDa ; 500 : 500 kDa ; disulf: SRB) · T_entry: Time of dye entry RowDATA_4_4kDa_10kDa_70kDa o Cell trajectories ROW DATA : · Vol10_CT-> cell volumes measured with Dextran 10 kDa row data · Vol500_CT -> cell volumes measured with Dextran 500 kDa row data · Vol70_CT-> cell volumes measured with 70 kDa row data o Timelapse parameters of cell volume acquisition: · timelapse : Timelapse in min o Table · Conditions: CT or Glycin, Dis_50 or Dis_100 (Disulfiram 50 or 100 uM) · Experience: 1, 2, or 3 · nbcell: cell number · Dye: dextrans (4_4:4.4 kDa ; 10: 10kDa ; 70: 70 kDa) · T_entry: Time of dye entry · Timepoints of interest with Volpoints of interest · DeltaV_plateau: Difference in cell volume between the initial swelling onset and the beginning of the cell volume plateau 2. FOLDER: MEFs: DATA obtained on MEF cell line data_10_70_500kDa_CT_Glycin.mat: data of MEF untreated or glycine-treated with dextrans : 10, 70 and 500 kDa o Cell trajectories ROW DATA : Untreated: · Vol10_CT-> cell volumes measured with Dextran 10 kDa row data · Vol500_CT -> cell volumes measured with Dextran 500 kDa row data · Vol70_CT -> cell volumes measured with 70 kDa row Glycine treated: · Vol10_Glycin-> cell volumes measured with Dextran 10 kDa · Vol500_Glycin-> cell volumes measured with Dextran 500 kDa row data · Vol70_Glycin> cell volumes measured with 70 kDa row data o Time points and cell volume points of interest determined on ROW DATA cell volume Untreated: · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_70 and Timepoints_70 -> Determined on 70KDa cell volume trajectories · Volpoints_500 and Timepoints_500 -> Determined on SRB cell volume trajectories Glycine treated: · Volpoints_10_Glycin and Timepoints_10_Glycin -> Determined on 10KDa cell volume trajectories · Volpoints_70_Glycin and Timepoints_70_Glycin -> Determined on 70KDa cell volume trajectories · Volpoints_500_Glycin and Timepoints_500_Glycin -> Determined on SRB cell volume trajectories o Timelapse parameters of cell volume acquisition: · timelapse : Timelapse in min o Table · Conditions: CT or Glycin, Dis_50 or Dis_100 (Disulfiram 50 or 100 uM) · Experience: 1, 2, or 3 · nbcell: cell number · Dye: dextrans (4_4:4.4 kDa ; 10: 10kDa ; 70: 70 kDa) · T_entry: Time of dye entry · Timepoints of interest with Volpoints of interest · Plateau_length: time of cell volume plateau duration data_4_4_10_70kDa.mat: data of MEF with dextrans : 4.4, 10 and 70 kDa Suffixes indicate experimental conditions: _CT for untreated, _Glycin for glycine-treated, _EIPA_50 for EIPA (50 µM)-treated, and _EIPA_500 for EIPA (500 µM)-treated. o Cell trajectories ROW DATA : · Vol10_CT-> cell volumes measured with Dextran 10 kDa row data · Vol500_CT -> cell volumes measured with Dextran 500 kDa row data · Vol70_CT -> cell volumes measured with 70 kDa row o Time points and cell volume points of interest determined on ROW DATA cell volume · Volpoints_10 and Timepoints_10 -> Determined on 10KDa cell volume trajectories · Volpoints_70 and Timepoints_70 -> Determined on 70KDa cell volume trajectories · Volpoints_500 and Timepoints_500 -> Determined on SRB cell volume trajectories o Timelapse parameters of cell volume acquisition: · timelapse : Timelapse in min o Table · Conditions: CT or Glycin, Dis_50 or Dis_100 (Disulfiram 50 or 100 uM) · Experience: 1, 2, or 3 · nbcell: cell number · Dye: dextrans (4_4:4.4 kDa ; 10: 10kDa ; 70: 70 kDa) · T_entry: Time of dye entry · Timepoints of interest with Volpoints of interest · Plateau_length: time of cell volume plateau duration · DeltaV_plateau: Difference in cell volume between the initial swelling onset and the beginning of the cell volume plateau · deltaV_max: Ratio between Maximal cell volume and Initial cell volume, measured on 500 kDa_trajectories