--- title: README author: Hugues BERRY --- # Synopsis This repository provides access to the experimental data used in the article : Trofimenko, E., Gervasi, N., Perez, S., Rodriguez, N., Ravault, D., Cribier, S., Berry, H., Venance, L. and Sagan, S., (2026). Transient pores account for cell-penetrating peptides and homeoproteins translocation, accepted in the *Proceedings of the National Academy of Sciences of the United States of America* The data consists in patch-clamp recordings of different cell types (CHO-K1, A745 etc) in presence of various concentrations and types of cell-penetrating peptides / CPPs (R9, RL9, RW9 etc...) # Directory organization - The repository is organized into 5 directories: - A745: experiments in CHO-psgA-745 cells - CHO-K1: experiments in CHO-K1 cells - CHO-K1_LT_11C: experiments i CHO-K1 cells at 11°C (fig S4) - SKoV: experiments in SKOV3 cells - Slides: experiments in acute brain slices (fig 5) - Each directory in turn contains directories corresponding to the CPP used, that can be, depending on the cell type: - cargo (ie KRAKLAK), - EN2, - OTX2, - Penetratin - R6L3, - R6W3, - R6W3-cargo (ie R6W3-KRAKLAK), - R10W6 (fig S3). - R9, - TAT, - The 'NT' directory corresponds to control experiments, without CPP # Data organization Each CPP directory contains a single Matlab binary data file: xpdata.mat that can be open in Matlab using the "load" command (or by double-clicking on the .mat file). The file contains a struct array with one struct per experiment (a current sweep). Each experiment is a struct with 17 fields: - *conc*: CPP concentration (in µM) - *trial*: cell id (there are several sweeps per cell) - *sweepn*: sweep number in this cell - *dt*: sampling interval for the patch-clamp recording (in ms)- *CPP*: name of the CPP - *V*: holding potential (in mV) - *I*: current recording / trace (in pA) - *nevents*: number of transient current events detected in the current trace - *meandur*: mean duration of the events of the current trace (in ms) - *meanampl*: mean amplitude of the events of the current trace (in pA) - *stdbase*: event threshold of the current trace (see Material & Methods) - *amplitudes*: individual mean amplitude of each transient event of the current trace - *bayes*: a struct storing the result of the Bayesian analysis for pon and poff, with 4 fields: - *allrates*: a 2x4001 vector giving the successive estimations of pon (row 1) and pof (row2) at each iteration of the Bayesian inference - *burnin*: the length of the iteration windows that is to be skipped to compute the posterior from allrates - *alllogfitness*: a vector giving the log of the fitness at each iteration of the Bayesian inference - *delta*: max amplitude of the MH sampling proposal variants (cf Siekman, Sneyd and Crampin. 2012. Biophys J 103:2275-2286) - *E*: the segmented current trace where each time point of I is 1 if the time point belongs to a current event, 0 otherwise - *baselineampl*: mean amplitude (in pA) of each current event (above its baseline) - *nswitches*: number of switches between open and close states in the experiment - *sumcharges*: total charge transfer for all the events in the experiment