Publications by authors named "Poulain P"

The most prominent and persistent feature of the eastern Mediterranean Levantine Basin (LB) is the warm anticyclonic Cyprus Eddy (CE) located above the Eratosthenes Seamount (ESM). This eddy periodically couples with two smaller cyclonic and anticyclonic eddies, the South Shikmona Eddy (SSE) and North Shikmona Eddy (NSE), which form downstream. The reason for the zonal drift of the CE center and the formation mechanism of the CE, SSE and NSE is largely debated today, yet the upwelling and biological productivity of the LB can be strongly impacted by the local dynamics.

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This article begins by tracing the history of supportive oncology care, from its definition to its regulation and organization in France. It then recalls the development of non-conventional practices in oncology, initially identified under the name of alternative and complementary medicine, which has evolved towards a more inclusive notion of integrative oncology. Today, oncology support care provides the link between specific cancer treatments and these unconventional practices.

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The rise of open science and the absence of a global dedicated data repository for molecular dynamics (MD) simulations has led to the accumulation of MD files in generalist data repositories, constituting the - data that is technically accessible, but neither indexed, curated, or easily searchable. Leveraging an original search strategy, we found and indexed about 250,000 files and 2000 datasets from Zenodo, Figshare and Open Science Framework. With a focus on files produced by the Gromacs MD software, we illustrate the potential offered by the mining of publicly available MD data.

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The functions of eukaryotic chromosomes and their spatial architecture in the nucleus are reciprocally dependent. Hi-C experiments are routinely used to study chromosome 3D organization by probing chromatin interactions. Standard representation of the data has relied on contact maps that show the frequency of interactions between parts of the genome.

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This paper reports on an observation of three-dimensional (3D) arrivals for which the change in the direction of horizontally refracted sound is nearly 180°. The experimental site is Jan Mayen Channel (JMCh), which connects the Greenland and Norwegian Seas. During the experiment, signals from a moored source transmitting a 500-1500 Hz sweep every 4 h were recorded by three surface drifters equipped with hydrophone arrays.

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Computational reproducibility is a simple premise in theory, but is difficult to achieve in practice. Building upon past efforts and proposals to maximize reproducibility and rigor in bioinformatics, we present a framework called the five pillars of reproducible computational research. These include (1) literate programming, (2) code version control and sharing, (3) compute environment control, (4) persistent data sharing and (5) documentation.

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The rise of open science and the absence of a global dedicated data repository for molecular dynamics (MD) simulations has led to the accumulation of MD files in generalist data repositories, constituting the - data that is technically accessible, but neither indexed, curated, or easily searchable. Leveraging an original search strategy, we found and indexed about 250,000 files and 2,000 datasets from Zenodo, Figshare and Open Science Framework. With a focus on files produced by the Gromacs MD software, we illustrate the potential offered by the mining of publicly available MD data.

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The way flipped classrooms are perceived and even practiced by teachers is sometimes approximate. For instance, while the Covid-19 pandemic has pushed many universities to adopt distance learning, flipped classrooms have often been mentioned as a solution in that context. This inducement maintains a confusion between flipped classrooms and distance learning that might be detrimental for students and teachers.

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Arachidonic acid lipoxygenases (ALOX) have been implicated in the pathogenesis of inflammatory, hyperproliferative, neurodegenerative, and metabolic diseases, but the physiological function of ALOX15 still remains a matter of discussion. To contribute to this discussion, we created transgenic mice (aP2-ALOX15 mice) expressing human ALOX15 under the control of the aP2 (adipocyte fatty acid binding protein 2) promoter, which directs expression of the transgene to mesenchymal cells. Fluorescence in situ hybridization and whole-genome sequencing indicated transgene insertion into the E1-2 region of chromosome 2.

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The attention of the scientific community, policymakers, and public opinion on the Medicanes has recently grown because of their increase in intensity and harmful potential. Although Medicanes may be influenced by pre-existing upper-ocean conditions, uncertainties remain about how such weather extremes influence ocean circulation. This work examines a condition that has been never described before in the Mediterranean, which involves the interplay between an atmospheric cyclone (Medicane Apollo-October 2021) and a cyclonic gyre located in the western Ionian Sea.

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Article Synopsis
  • The text discusses the importance of data clustering in genomics and proteomics, focusing on the benefits of Bayesian clustering, specifically using the AutoClass algorithm to classify large datasets of genes and proteins.
  • A new online tool called AutoClassWeb has been developed to make Bayesian clustering more user-friendly, allowing users to easily input data and obtain results suitable for further analysis.
  • AutoClassWeb is implemented in Python, available under a BSD license, and its source code, along with documentation, can be found on GitHub.
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Simple light isotope metabolic labeling (bSLIM) is an innovative method to accurately quantify differences in protein abundance at the proteome level in standard bottom-up experiments. The quantification process requires computation of the ratio of intensity of several isotopologs in the isotopic cluster of every identified peptide. Thus, appropriate bioinformatic workflows are required to extract the signals from the instrument files and calculate the required ratio to infer peptide/protein abundance.

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Article Synopsis
  • The study focuses on modeling transcriptional regulatory networks in yeast, where genes are nodes and their regulatory connections are edges.
  • Researchers aimed to combine traditional models with realistic spatial organization of the yeast genome to gain deeper insights.
  • Significant observations of gene co-localization were made for certain regulatory modules, and a user-friendly web tool called 3D-Scere was developed to facilitate similar analyses for other gene lists.
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Instruments drifting at the ocean surface are quasi-Lagrangian, that is, they do not follow exactly the near-surface ocean currents. The currents measured by three commonly-used drifters (CARTHE, CODE and SVP) are compared in a wide range of sea state conditions (winds up to 17 m/s and significant wave height up to 3 m). Nearly collocated and simultaneous drifter measurements in the southwestern Mediterranean reveal that the CARTHE and CODE drifters measure the currents in the first meter below the surface in approximately the same way.

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Simple light isotope metabolic labeling (SLIM labeling) is an innovative method to quantify variations in the proteome based on an original labeling strategy. Heterotrophic cells grown in U-[C] as the sole source of carbon synthesize U-[C]-amino acids, which are incorporated into proteins, giving rise to U-[C]-proteins. This results in a large increase in the intensity of the monoisotope ion of peptides and proteins, thus allowing higher identification scores and protein sequence coverage in mass spectrometry experiments.

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Working alongside local stakeholders, members of the French-African Pediatric Oncology Group developed a 3-year program to train pediatric oncology teams from 15 French-speaking countries in Africa in using analgesics and providing palliative care. This program was rolled out in three phases: initial training, in situ assessment, and advanced training in selected topics. To access this program, multidisciplinary teams had to come up with a project to improve their existing palliative care and pain management practices, and commit themselves to implementing it.

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Article Synopsis
  • The study aimed to see if a question prompt list (QPL) could help advanced cancer patients in France discuss prognosis and end-of-life care more effectively during outpatient palliative care consultations.
  • Patients who used the QPL asked significantly more questions about palliative care and end-of-life issues compared to those who did not use the list, leading to higher satisfaction with doctors’ skills.
  • Despite the increase in questions, there was no notable change in psychological symptoms or quality of life after two months; however, patients using the QPL employed less avoidance coping strategies.
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Introduction: The aim of this study was to compare the efficacy and maternal-neonatal morbidity between balloon catheter and oxytocin for induction of labor in women with a previous cesarean section and an unfavorable cervix.

Material And Methods: This open-label randomized controlled trial took place in seven French hospitals. Inclusion criteria were medical indication for labor induction in pregnant women, ≥37 weeks, with lower segment cesarean section, Bishop score ≤4, no pre-labor rupture of membranes, singleton fetus in cephalic presentation.

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Increasing interest in the acquisition of biotic and abiotic resources from within the deep sea (e.g., fisheries, oil-gas extraction, and mining) urgently imposes the development of novel monitoring technologies, beyond the traditional vessel-assisted, time-consuming, high-cost sampling surveys.

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Background: In biology, high-throughput experimental technologies, also referred as "omics" technologies, are increasingly used in research laboratories. Several thousands of gene expression measurements can be obtained in a single experiment. Researchers are routinely facing the challenge to annotate, store, explore and mine all the biological information they have at their disposal.

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This paper reviewed the 2002 guidelines established by the National Federation of Cancer Centres. A group of experts nominated by the 3 French Societies involved in the treatment of cancer pain (AFSOS, SFAP, SFETD), established new guidelines ratios for morphine switching and/or changing of route of administration, in patients for whom either pain was not adequatly managed or adverse effects were unbearable. After a rapid reminder of the pharmacokinetics and metabolism properties of morphine, experts explained why the theory of opioid rotation (oxycodone, hydromorphone, fentanyl, methadone, tapentadol) using fixed equianalgesic ratios is not any more appropriate for a secure clinical practice.

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We present a new educational initiative called Meet-U that aims to train students for collaborative work in computational biology and to bridge the gap between education and research. Meet-U mimics the setup of collaborative research projects and takes advantage of the most popular tools for collaborative work and of cloud computing. Students are grouped in teams of 4-5 people and have to realize a project from A to Z that answers a challenging question in biology.

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