Franck Picard

Gene Regulatory Network Inference reveals tcf4 as a key a player in neuroblastoma gene expression circuitry

Mechanistic stochastic gene regulatory network inference on neuroblastoma tumoroid scRNA-seq predicts TCF4 as a hub whose loss slows chromaffin-to-sympathoblast progression, supported by JQ1 treatment ex vivo.

jsPCA: fast, scalable, and interpretable identification of spatial domains and variable genes across multi-slice and multi-sample spatial transcriptomics data

jsPCA identifies spatial domains and variable genes in spatial transcriptomics data efficiently and accurately, outperforming existing methods in speed and scalability.

scAN1.0: A reproducible and standardized pipeline for processing 10X single cell RNAseq data

scAN1.0 is a reproducible pipeline for processing 10X single cell RNAseq data, demonstrating its utility in analyzing human and murine datasets.

Dimeric G-quadruplex motifs-induced NFRs determine strong replication origins in vertebrates

The paper identifies dimeric G-quadruplex motifs as key determinants of replication origins by inducing nucleosome-free regions and H2A.Z enrichment in vertebrates.

Detecting sex-linked genes using genotyped individuals sampled in natural populations

The paper introduces SDpop, a method to detect sex-linked genes in natural populations using genotyped individuals, showing robust predictions with 5-10 individuals per sex.

Probabilistic Count Matrix Factorization for Single Cell Expression Data Analysis

The paper introduces a probabilistic Count Matrix Factorization method for single-cell expression data analysis, showing improved clustering performance compared to existing methods.

Modeling Spatial Genomic Interactions with the Hawkes model

The paper introduces a Hawkes model to quantify spatial interactions between DNA-protein binding events and identifies attractive and repulsive patterns in replication origins.