Author
Jean-François Côté
Other affiliations: École Polytechnique de Montréal, Université de Montréal
Bio: Jean-François Côté is an academic researcher from Laval University. The author has contributed to research in topics: Vehicle routing problem & Heuristic (computer science). The author has an hindex of 17, co-authored 34 publications receiving 926 citations. Previous affiliations of Jean-François Côté include École Polytechnique de Montréal & Université de Montréal.
Papers
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TL;DR: Pyrosequencing proved to be the most efficient method to detect BRAF mutations in melanomas and could be performed on VE1-negative or uninterpretable cases, as well as used as a first-line method for HER2 amplification detection.
154 citations
TL;DR: PVL appears to play a role in the persistence and rapid local extension of rabbit osteomyelitis, in keeping with the greater severity of human bone infections due to PVL-positive S. aureus.
Abstract: Background
Extensive spread of community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) in the United States, and the concomitant increase in severe invasive staphylococcal infections, including osteomyelitis, in healthy children, has led to renewed interest in Panton-Valentine leukocidin (PVL). However, the pathogenetic role of PVL in staphylococcal infections remains controversial, possibly because it depends on the site of infection.
120 citations
TL;DR: This paper proposes a new exact method that solves a large number of the open benchmark instances within a limited computational effort and shows that the proposed algorithm provides a substantial breakthrough with respect to previously published algorithms.
Abstract: We study the strip packing problem, in which a set of two-dimensional rectangular items has to be packed in a rectangular strip of fixed width and infinite height, with the aim of minimizing the height used. The problem is important because it models a large number of real-world applications, including cutting operations where stocks of materials such as paper or wood come in large rolls and have to be cut with minimum waste, scheduling problems in which tasks require a contiguous subset of identical resources, and container loading problems arising in the transportation of items that cannot be stacked one over the other. The strip packing problem has been attacked in the literature with several heuristic and exact algorithms, nevertheless, benchmark instances of small size remain unsolved to proven optimality. In this paper we propose a new exact method that solves a large number of the open benchmark instances within a limited computational effort. Our method is based on a Benders' decomposition, in whi...
89 citations
TL;DR: The proposed tabu search heuristic is shown to outperform the best approach reported in the literature on 34 benchmark instances with a homogeneous fleet.
87 citations
TL;DR: In vivo and in vitro findings support that TWIST1 collaborates with the EGF pathway in promoting EMT in EGFR mutated lung adenocarcinoma and that large series of EG FR mutated lung cancer patients are needed to further define the prognostic role of TWist1 reactivation in this subgroup.
Abstract: Metastasis is a multistep process and the main cause of mortality in lung cancer patients. We previously showed that EGFR mutations were associated with a copy number gain at a locus encompassing the TWIST1 gene on chromosome 7. TWIST1 is a highly conserved developmental gene involved in embryogenesis that may be reactivated in cancers promoting both malignant conversion and cancer progression through an epithelial to mesenchymal transition (EMT). The aim of this study was to investigate the possible implication of TWIST1 reactivation on the acquisition of a mesenchymal phenotype in EGFR mutated lung cancer. We studied a series of consecutive lung adenocarcinoma from Caucasian non-smokers for which surgical frozen samples were available (n = 33) and showed that TWIST1 expression was linked to EGFR mutations (P<0.001), to low CDH1 expression (P<0.05) and low disease free survival (P = 0.044). To validate that TWIST1 is a driver of EMT in EGFR mutated lung cancer, we used five human lung cancer cell lines and demonstrated that EMT and the associated cell mobility were dependent upon TWIST1 expression in cells with EGFR mutation. Moreover a decrease of EGFR pathway stimulation through EGF retrieval or an inhibition of TWIST1 expression by small RNA technology reversed the phenomenon. Collectively, our in vivo and in vitro findings support that TWIST1 collaborates with the EGF pathway in promoting EMT in EGFR mutated lung adenocarcinoma and that large series of EGFR mutated lung cancer patients are needed to further define the prognostic role of TWIST1 reactivation in this subgroup.
61 citations
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TL;DR: A review of the most up-to-date knowledge and a perspective for the future prophylaxis or new treatments for CA-MRSA infections is provided in this paper.
1,367 citations
TL;DR: The roles of EMT-inducing transcription factors are discussed in creating a pro-tumorigenic setting characterized by an intrinsic ability to withstand oncogenic insults through the mitigation of p53-dependent oncosuppressive functions and the gain of stemness-related properties.
Abstract: Puisieux et al. discuss endothelial to mesenchymal transition (EMT)-inducing transcription factors in tumorigenesis. They explore how EMT contributes not only to tumour progression through its roles in invasion and metastasis, but also to malignant transformation and early tumour development by impinging on tumour suppressive pathways and cell differentiation states.
797 citations
TL;DR: This chapter discusses the ecological implications of mycorrhizal associations in natural ecosystems and the role of soil or environmental factors, mycorRhizal fungus characteristics or host plant properties, as well as the population ecology of my corollary fungi and the influence of their associations on plant population ecology.
Abstract: Publisher Summary This chapter discusses the ecological implications of mycorrhizal associations in natural ecosystems and the role of soil or environmental factors, mycorrhizal fungus characteristics or host plant properties. Mycorrhizal associations are regulated by features of the host plant and mycorrhizal fungus, as well as by soil conditions and environmental factors. Factors which can influence the occurrence and effectiveness of mycorrhizal associations include (1) root properties (2) edaphic or climatic factors (3) soil organisms, (4) soil disturbance, and (5) host-fungus compatibility. Several other complex ecological topics also discussed in the chapter include (1) mycorrhizal phenology , (2) factors responsible for varying degrees of mycorrhizal dependency in host plants, (3) the role of mycorrhizal hyphae in soil (4) nutrient competition involving mycorrhizal and non-mycorrhizal plants, and (5) mycorrhizal interactions involving pollution and other stresses, the rhizosphere, soil properties and allelopathy. Finally, the chapter also discusses the population ecology of mycorrhizal fungi and the influence of their associations on plant population ecology.
772 citations
TL;DR: The frequency of genetic alterations, acceptable turnaround times in obtaining analysis results, and the clinical advantage provided by detection of a genetic alteration suggest that this nationwide molecular profiling of patients with advanced NSCLC provides a clinical benefit.
757 citations
TL;DR: A state-of-the-art survey of the Benders Decomposition algorithm, emphasizing its use in combinatorial optimization and introducing a taxonomy of algorithmic enhancements and acceleration strategies based on the main components of the algorithm.
506 citations