Search Results - "Pécot, Thierry"

Deep learning tools and modeling to estimate the temporal expression of cell cycle proteins from 2D still images by Pécot, Thierry, Cuitiño, Maria C, Johnson, Roger H, Timmers, Cynthia, Leone, Gustavo

“…Automatic characterization of fluorescent labeling in intact mammalian tissues remains a challenge due to the lack of quantifying techniques capable of…”
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Testing independence between two random sets for the analysis of colocalization in bioimaging by Lavancier, Frédéric, Pécot, Thierry, Zengzhen, Liu, Kervrann, Charles

“…Colocalization aims at characterizing spatial associations between two fluorescently tagged biomolecules by quantifying the co‐occurrence and correlation…”
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Two Distinct E2F Transcriptional Modules Drive Cell Cycles and Differentiation by Cuitiño, Maria C., Pécot, Thierry, Sun, Daokun, Kladney, Raleigh, Okano-Uchida, Takayuki, Shinde, Neelam, Saeed, Resham, Perez-Castro, Antonio J., Webb, Amy, Liu, Tom, Bae, Soo In, Clijsters, Linda, Selner, Nicholas, Coppola, Vincenzo, Timmers, Cynthia, Ostrowski, Michael C., Pagano, Michele, Leone, Gustavo

“…Orchestrating cell-cycle-dependent mRNA oscillations is critical to cell proliferation in multicellular organisms. Even though our understanding of…”
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Canonical and atypical E2Fs regulate the mammalian endocycle by Chen, Hui-Zi, Ouseph, Madhu M., Li, Jing, Pécot, Thierry, Chokshi, Veda, Kent, Lindsey, Bae, Sooin, Byrne, Morgan, Duran, Camille, Comstock, Grant, Trikha, Prashant, Mair, Markus, Senapati, Shantibhusan, Martin, Chelsea K., Gandhi, Sagar, Wilson, Nicholas, Liu, Bin, Huang, Yi-Wen, Thompson, John C., Raman, Sundaresan, Singh, Shantanu, Leone, Marcelo, Machiraju, Raghu, Huang, Kun, Mo, Xiaokui, Fernandez, Soledad, Kalaszczynska, Ilona, Wolgemuth, Debra J., Sicinski, Piotr, Huang, Tim, Jin, Victor, Leone, Gustavo

“…The endocycle is a variant cell cycle consisting of successive DNA synthesis and gap phases that yield highly polyploid cells. Although essential for metazoan…”
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A quantitative approach for analyzing the spatio-temporal distribution of 3D intracellular events in fluorescence microscopy by Pécot, Thierry, Zengzhen, Liu, Boulanger, Jérôme, Salamero, Jean, Kervrann, Charles

“…Analysis of the spatial distribution of endomembrane trafficking is fundamental to understand the mechanisms controlling cellular dynamics, cell homeostasy,…”
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Deep learning provides high accuracy in automated chondrocyte viability assessment in articular cartilage using nonlinear optical microscopy by Chen, Xun, Li, Yang, Wyman, Nicole, Zhang, Zheng, Fan, Hongming, Le, Michael, Gannon, Steven, Rose, Chelsea, Zhang, Zhao, Mercuri, Jeremy, Yao, Hai, Gao, Bruce, Woolf, Shane, Pécot, Thierry, Ye, Tong

“…Chondrocyte viability is a crucial factor in evaluating cartilage health. Most cell viability assays rely on dyes and are not applicable for or longitudinal…”
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Background Fluorescence Estimation and Vesicle Segmentation in Live Cell Imaging With Conditional Random Fields by Pecot, Thierry, Bouthemy, Patrick, Boulanger, Jerome, Chessel, Anatole, Bardin, Sabine, Salamero, Jean, Kervrann, Charles

“…Image analysis applied to fluorescence live cell microscopy has become a key tool in molecular biology since it enables to characterize biological processes in…”
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A deep learning segmentation strategy that minimizes the amount of manually annotated images [version 1; peer review: 2 approved with reservations] by Pécot, Thierry, Alekseyenko, Alexander, Wallace, Kristin

“…Deep learning has revolutionized the automatic processing of images. While deep convolutional neural networks have demonstrated astonishing segmentation…”
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Artificial Intelligence in Predicting Microsatellite Instability and KRAS, BRAF Mutations from Whole-Slide Images in Colorectal Cancer: A Systematic Review by Guitton, Theo, Allaume, Pierre, Rabilloud, Noémie, Rioux-Leclercq, Nathalie, Henno, Sébastien, Turlin, Bruno, Galibert-Anne, Marie-Dominique, Lièvre, Astrid, Lespagnol, Alexandra, Pécot, Thierry, Kammerer-Jacquet, Solène-Florence

“…Mismatch repair deficiency (d-MMR)/microsatellite instability (MSI), , and mutational status are crucial for treating advanced colorectal cancer patients…”
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Identifying survival associated morphological features of triple negative breast cancer using multiple datasets by Wang, Chao, Pécot, Thierry, Zynger, Debra L, Machiraju, Raghu, Shapiro, Charles L, Huang, Kun

“…Biomarkers for subtyping triple negative breast cancer (TNBC) are needed given the absence of responsive therapy and relatively poor prediction of survival…”
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Counting-Based Particle Flux Estimation for Traffic Analysis in Live Cell Imaging by Pecot, Thierry, Kervrann, Charles, Salamero, Jean, Boulanger, Jerome

“…A quantitative analysis of the dynamic contents in fluorescence time-lapse microscopy is crucial to decipher the molecular mechanisms involved in cell…”
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Capturing variations in nuclear phenotypes by Raman, Sundaresan, Singh, Shantanu, Pécot, Thierry, Caserta, Enrico, Huang, Kun, Rittscher, Jens, Leone, Gustavo, Machiraju, Raghu

“…•We propose a way for 3D quantification of nuclear phenotypes in a tissue microenvironment using shape, texture and contextual features.•We implement on a…”
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A signal processing approach for enriched region detection in RNA polymerase II ChIP-seq data by Han, Zhi, Tian, Lu, Pécot, Thierry, Huang, Tim, Machiraju, Raghu, Huang, Kun

“…RNA polymerase II (PolII) is essential in gene transcription and ChIP-seq experiments have been used to study PolII binding patterns over the entire genome…”
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Non-parametric population analysis of cellular phenotypes by Singh, Shantanu, Janoos, Firdaus, Pécot, Thierry, Caserta, Enrico, Huang, Kun, Rittscher, Jens, Leone, Gustavo, Machiraju, Raghu

“…Methods to quantify cellular-level phenotypic differences between genetic groups are a key tool in genomics research. In disease processes such as cancer,…”
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Transcriptome regulation and chromatin occupancy by E2F3 and MYC in mice by Tang, Xing, Liu, Huayang, Srivastava, Arunima, Pécot, Thierry, Chen, Zhong, Wang, Qianben, Huang, Kun, Sáenz-Robles, Maria Teresa, Cantalupo, Paul, Pipas, James, Leone, Gustavo

“…E2F3 and MYC are transcription factors that control cellular proliferation. To study their mechanism of action in the context of a regenerating tissue, we…”
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Identifying nuclear phenotypes using semi-supervised metric learning by Singh, Shantanu, Janoos, Firdaus, Pécot, Thierry, Caserta, Enrico, Leone, Gustavo, Rittscher, Jens, Machiraju, Raghu

“…In systems-based approaches for studying processes such as cancer and development, identifying and characterizing individual cells within a tissue is the first…”
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Estimation of the flow of particles within a partition of the image domain in fluorescence video-microscopy by Pecot, Thierry, Boulanger, Jerome, Kervrann, Charles, Bouthemy, Patrick, Salamero, Jean

“…Automatic analysis of the dynamic content in fluorescence video-microscopy is crucial for understanding molecular mechanisms involved in cell functions. In…”
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An end-to-end pipeline based on open source deep learning tools for reliable analysis of complex 3D images of ovaries by Lesage, Manon, Thomas, Manon, Pécot, Thierry, Ly, Tu-Ky, Hinfray, Nathalie, Beaudouin, Remy, Neumann, Michelle, Lovell-Badge, Robin, Bugeon, Jérôme, Thermes, Violette

“…Computational analysis of bio-images by deep learning (DL) algorithms has made exceptional progress in recent years and has become much more accessible to…”
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The coordination of spindle-positioning forces during the asymmetric division of the Caenorhabditis elegans zygote by Bouvrais, Hélène, Chesneau, Laurent, Le Cunff, Yann, Fairbrass, Danielle, Soler, Nina, Pastezeur, Sylvain, Pécot, Thierry, Kervrann, Charles, Pécréaux, Jacques

“…In Caenorhabditis elegans zygote, astral microtubules generate forces essential to position the mitotic spindle, by pushing against and pulling from the…”
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Deep Learning for Detecting BRCA Mutations in High-Grade Ovarian Cancer Based on an Innovative Tumor Segmentation Method From Whole Slide Images by Bourgade, Raphaël, Rabilloud, Noémie, Perennec, Tanguy, Pécot, Thierry, Garrec, Céline, Guédon, Alexis F., Delnatte, Capucine, Bézieau, Stéphane, Lespagnol, Alexandra, de Tayrac, Marie, Henno, Sébastien, Sagan, Christine, Toquet, Claire, Mosnier, Jean-François, Kammerer-Jacquet, Solène-Florence, Loussouarn, Delphine

“…BRCA1 and BRCA2 genes play a crucial role in repairing DNA double-strand breaks through homologous recombination. Their mutations represent a significant…”
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