One Style is All you Need to Generate a Video

In this paper, we propose a style-based conditional video generative model. We introduce a novel temporal generator based on a set of learned sinusoidal bases. Our method learns dynamic representations of various actions that are independent of image content and can be transferred between different actors. Beyond the significant enhancement of video quality compared to prevalent methods, we demonstrate that the disentangled dynamic and content permit their independent manipulation, as well as temporal GAN-inversion to retrieve and transfer a video motion from one content or identity to another without further preprocessing such as landmark points

Unpaired Image-to-Image Translation with Limited Data to Reveal Subtle Phenotypes

Unpaired image-to-image translation methods aim at learning a mapping of images from a source domain to a target domain. Recently, these methods proved to be very useful in biological applications to display subtle phenotypic cell variations otherwise invisible to the human eye. However, current models require a large number of images to be trained, while mostmicroscopy experiments remain limited in the number of images they can produce. In this work, we present an improved CycleGAN architecture that employs self-supervised discriminators to alleviate the need for numerous images. We demonstrate quantitatively and qualitatively that the proposed approach outperforms the CycleGAN baseline, including when it is combined with differentiable augmentations. We also provide results obtained with small biological datasets on obvious and non-obvious cell phenotype variations, demonstrating a straightforward application of this method

Monitored eCLIP: high accuracy mapping of RNA-protein interactions

International audienceCLIP-seq methods provide transcriptome-wide snapshots of RNA-protein interactions in live cells. Reverse transcriptases stopping at cross-linked nucleotides sign for RNA-protein binding sites. Reading through cross-linked positions results in false binding site assignments. In the 'monitored enhanced CLIP' (meCLIP) method, a barcoded biotiny-lated linker is ligated at the 5 end of cross-linked RNA fragments to purify RNA prior to the reverse transcription. cDNAs keeping the barcode sequence correspond to reverse transcription read-throughs. Read through occurs in unpredictable proportions, representing up to one fourth of total reads. Filtering out those reads strongly improves reliability and precision in protein binding site assignment

Weakly supervised cross-modal learning in high-content screening

With the surge in available data from various modalities, there is a growing need to bridge the gap between different data types. In this work, we introduce a novel approach to learn cross-modal representations between image data and molecular representations for drug discovery. We propose EMM and IMM, two innovative loss functions built on top of CLIP that leverage weak supervision and cross sites replicates in High-Content Screening. Evaluating our model against known baseline on cross-modal retrieval, we show that our proposed approach allows to learn better representations and mitigate batch effect. In addition, we also present a preprocessing method for the JUMP-CP dataset that effectively reduce the required space from 85Tb to a mere usable 7Tb size, still retaining all perturbations and most of the information content

Telomere tethering at the nuclear periphery is essential for efficient DNA double strand break repair in subtelomeric region

In the yeast Saccharomyces cerevisiae that lacks lamins, the nuclear pore complex (NPC) has been proposed to serve a role in chromatin organization. Here, using fluorescence microscopy in living cells, we show that nuclear pore proteins of the Nup84 core complex, Nup84p, Nup145Cp, Nup120p, and Nup133p, serve to anchor telomere XI-L at the nuclear periphery. The integrity of this complex is shown to be required for repression of a URA3 gene inserted in the subtelomeric region of this chromosome end. Furthermore, altering the integrity of this complex decreases the efficiency of repair of a DNA double-strand break (DSB) only when it is generated in the subtelomeric region, even though the repair machinery is functional. These effects are specific to the Nup84 complex. Our observations thus confirm and extend the role played by the NPC, through the Nup84 complex, in the functional organization of chromatin. They also indicate that anchoring of telomeres is essential for efficient repair of DSBs occurring therein and is important for preserving genome integrity