Searcharxiv⌕ Search

arXiv subjects

Jérôme Cartailler

Publications and source records attributed to Jérôme Cartailler.

2 recordsLinked to original sources

ReMAP: Self-supervised learning to unveil brain representations and vulnerability

General anesthesia offers a rare opportunity to observe the human brain under a standardized, controlled perturbation. Yet intraoperative electroencephalography (EEG) is almost always reduced to a single proprietary depth index, collapsing a rich trajectory into one number and discarding how a brain moves between states. Here we ask whether the geometry of that trajectory, not merely the depth it reaches, carries clinically meaningful information. Using similarity-based self-supervised learning on raw, two-electrode frontal EEG, with no labels, we place each recording within a low-dimensional space in which anesthetic depth becomes one readable axis while the shape of a patient's path encodes additional structure. We validate the representation across two cohorts and two acquisition systems totaling more than 1,000 patients. Depth of anesthesia is predicted accurately (BIS mean absolute error = 3.2, R2 = 0.82), and in the sparse-montage setting our compact ( 68k parameter) model remains competitive with EEG foundation models orders of magnitude larger (4M-157M parameters), indicating that matching the representation to the recording dominates raw scale. The learned space organizes age along its own gradient, independent from depth, without supervision. The same space also aligns with interpretable anesthetic signatures like frontal alpha, slow-delta, and burst suppression, linking this data-driven representation to established neurophysiology. On an independent cohort with longitudinal follow-up, the geometry of the early trajectory separates 30- month cognitive and mortality outcomes complementary to age (AUROC 0.86). These results suggest that the path a brain traces through anesthesia is a label-efficient correlate of latent vulnerability, motivating prospective validation.

cs.LG↗

Facilitated diffusion framework for transcription factor search with conformational changes

Cellular responses often require the fast activation or repression of specific genes, which depends on Transcription Factors (TFs) that have to quickly find the promoters of these genes within a large genome. Transcription Factors (TFs) search for their DNA promoter target by alternating between bulk diffusion and sliding along the DNA, a mechanism known as facilitated diffusion. We study a facilitated diffusion framework with switching between three search modes: a bulk mode and two sliding modes triggered by conformational changes between two protein conformations. In one conformation (search mode) the TF interacts unspecifically with the DNA backbone resulting in fast sliding. In the other conformation (recognition mode) it interacts specifically and strongly with DNA base pairs leading to slow displacement. From the bulk, a TF associates with the DNA at a random position that is correlated with the previous dissociation point, which implicitly is a function of the DNA structure. The target affinity depends on the conformation. We derive exact expressions for the mean first passage time (MFPT) to bind to the promoter and the conditional probability to bind before detaching when arriving at the promoter site. We systematically explore the parameter space and compare various search scenarios. We compare our results with experimental data for the dimeric Lac repressor search in E.Coli bacteria. We find that a coiled DNA conformation is absolutely necessary for a fast MFPT. With frequent spontaneous conformational changes, a fast search time is achieved even when a TF becomes immobilized in the recognition state due to the specific bindings. We find a MFPT compatible with experimental data in presence of a specific TF-DNA interaction energy that has a Gaussian distribution with a large variance.

q-bio.SC↗