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Article ; Online: Comprendre la totipotence embryonnaire à partir des cellules 2C-like.

Yakhou, Lounis / Azogui, Anaelle / Therizols, Pierre / Defossez, Pierre-Antoine

2024 Volume 40, Issue 2, Page(s) 147–153

Abstract: Totipotency is the ability of a cell to generate a whole organism, a property that characterizes the first embryonic cells, such as the zygote and the blastomeres. This review provides a retrospective on the progress made in the last decade in the study ... ...

Title translation	Using 2C-like cells to understand embryonic totipotency.
Abstract	Totipotency is the ability of a cell to generate a whole organism, a property that characterizes the first embryonic cells, such as the zygote and the blastomeres. This review provides a retrospective on the progress made in the last decade in the study of totipotency, especially with the discovery of mouse ES cells expressing markers of the 2-cell stage (2C-like cells). This model has greatly contributed to a better understanding of the molecular mechanisms involved in totipotency (pioneer factors, epigenetic regulation, splicing, nuclear maturation). 2C-like cells have also paved the way for the development of new cellular models of human totipotency.
MeSH term(s)	Humans ; Animals ; Mice ; Epigenesis, Genetic ; Retrospective Studies ; Embryonic Stem Cells ; RNA Splicing ; Zygote
Language	French
Publishing date	2024-02-27
Publishing country	France
Document type	Review ; English Abstract ; Journal Article
ZDB-ID	632733-3
ISSN	1958-5381 ; 0767-0974
ISSN (online)	1958-5381
ISSN	0767-0974
DOI	10.1051/medsci/2023217
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Article ; Online: Ecological convergence of secondary phytochemicals along elevational gradients.

Bakhtiari, Moe / Glauser, Gaétan / Defossez, Emmanuel / Rasmann, Sergio

The New phytologist

2020 Volume 229, Issue 3, Page(s) 1755–1767

Abstract: Biologists still strive to identify the ecological and evolutionary drivers of phytochemical variation that mediate biotic interactions. We hypothesized that plant species growing at sites characterized by high herbivore pressure would converge to ... ...

Abstract	Biologists still strive to identify the ecological and evolutionary drivers of phytochemical variation that mediate biotic interactions. We hypothesized that plant species growing at sites characterized by high herbivore pressure would converge to produce highly toxic blends of secondary metabolites, independent of phylogenetic constraints. To address the role of shared evolutionary history and ecological niches in driving variation in plant phytochemistry, we combined targeted metabolomics with insect herbivore bioassays and with a set of growth-related traits of several Cardamine species growing along the entire elevational gradient of the Alps. We observed that Cardamine phytochemical profiles grouped according to previously established growth form categorizations within specific abiotic conditions, independently of phylogenetic relationship. We also showed that novel indices summarizing functional phytochemical diversity better explain plant resistance against chewing and sap-feeding herbivores than classic diversity indices. We conclude that multiple functional axes of phytochemical diversity should be integrated with the functional axis of plant growth forms to study phenotypic convergence along large-scale ecological gradients.
MeSH term(s)	Animals ; Herbivory ; Insecta ; Phylogeny ; Phytochemicals ; Plants
Chemical Substances	Phytochemicals
Language	English
Publishing date	2020-10-26
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	208885-x
ISSN	1469-8137 ; 0028-646X
ISSN (online)	1469-8137
ISSN	0028-646X
DOI	10.1111/nph.16966
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Article: Incidence et prévention du syndrome de renutrition inappropriée chez les patients nécessitant une nutrition entérale ou parentérale à l’aide d’un logiciel informatique : une étude prospective

Duez, L. / Défossez, F. / Ruiz Maymo, S. / Ballarin, A. / Thomas, J. / Odent, M. / Szalai, A. / Aglave, R. / Preiser, J.-C. / Arvanitakis, M.

Nutrition clinique et métabolisme. 2022 Feb., v. 36, no. 1

2022

Abstract: ... 83) présentaient un indice de masse corporelle (IMC) de 21,9kg/m² (11,7–42 ...

Institution	nom de Ballarin
Abstract	Le syndrome de renutrition inapproprié (SRI) est un état de perturbation métabolique lié à la reprise d’une alimentation (orale, entérale ou parentérale) après un jeûne prolongé pouvant donner des manifestations cliniques sévères. La prévention du SRI repose sur l’identification des facteurs de risques, des apports nutritionnels adéquats et une supplémentation en vitamines et électrolytes. Cette étude prospective observationnelle vise à déterminer l’incidence du SRI à l’aide d’un logiciel intra hospitalier (SRIsque) dont le but et de prévenir son développement à l’instauration d’une nutrition. Les critères d’inclusions étaient les suivants : instauration d’une nutrition entérale ou parentérale pour dénutrition, patient âgé de minimum 18 ans, hospitalisation estimée à plus de 7jours en dehors des services de réanimation. Les critères d’exclusion : autres causes d’hypophosphatémie. Le critère de jugement principal était l’incidence du SRI imminent (critères biologiques prédéfinis) et du SRI confirmé (critères clinico-biologiques prédéfinis). Les critères de jugement secondaires étaient : durée de l’hospitalisation, durée de la nutrition et le taux de décès avec un suivi de 30jours. Les analyses statistiques sont exprimées en valeurs médianes (min–max) et en pourcentage. Parmi les 98 patients eligibles pour l’étude entre le 1/02/2021 et le 31/07/2021, 12 ont été exclus. Les 86 patients inclus (42 femmes pour 44 hommes), âgés de 61 ans (19–83) présentaient un indice de masse corporelle (IMC) de 21,9kg/m² (11,7–42) avant le début de la nutrition. 49 (57 %) patients étaient atteints d’un cancer dont 30 (35 %) au niveau digestif. 24 (28 %) patients souffraient de pathologies digestives bénignes. Les autres patients présentaient un trouble du comportement alimentaire (TCA), une insuffisance respiratoire chronique ou une maladie neurologique. 78 (90 %) patients étaient considérés à risqué élevé de développer un SRI. Quarante quatre (51 %) patients avaient une nutrition parentérale, 36 (42 %) une nutrition entérale et 6 (7 %) une nutrition mixte. La durée médiane d’hospitalisation était de 20jours (7–30). La durée médiane de nutrition était de 26jours (7–30). Quinze (17 %) patients ont développé un SRI imminent, qui a été traité selon l’algorithme thérapeutique défini (supplémentation ionique et diminution des apports) et 1 patient un SRI confirmé (avec manifestations cliniques). Quatorze (16 %) des patients sont décédés. L’utilisation d’un logiciel permet d’appliquer facilement un algorithme intra-hospitalier visant à stratifier le risque, de prévenir et de prendre en charge le SRI.
Keywords	neoplasms ; nutrition ; patients ; sons
Language	English
Dates of publication	2022-02
Size	p. S55.
Publishing place	Elsevier Masson SAS
Document type	Article
ZDB-ID	1131758-9
ISSN	0985-0562
ISSN	0985-0562
DOI	10.1016/j.nupar.2021.12.106
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Multi-scale datasets for monitoring Mediterranean oak forests from optical remote sensing during the SENTHYMED/MEDOAK experiment in the north of Montpellier (France).

Adeline, K / Féret, J B / Clenet, H / Limousin, J M / Ourcival, J M / Mouillot, F / Alleaume, S / Jolivot, A / Briottet, X / Bidel, L / Aria, E / Defossez, Atm / Gaubert, T / Giffard-Carlet, J / Kempf, J / Longepierre, D / Lopez, F / Miraglio, T / Vigouroux, J /

Debue, M

Data in brief

2024 Volume 53, Page(s) 110185

Abstract: Mediterranean forests represent critical areas that are increasingly affected by the frequency of droughts and fires, anthropic activities and land use changes. Optical remote sensing data give access to several essential biodiversity variables, such as ... ...

Abstract	Mediterranean forests represent critical areas that are increasingly affected by the frequency of droughts and fires, anthropic activities and land use changes. Optical remote sensing data give access to several essential biodiversity variables, such as species traits (related to vegetation biophysical and biochemical composition), which can help to better understand the structure and functioning of these forests. However, their reliability highly depends on the scale of observation and the spectral configuration of the sensor. Thus, the objective of the SENTHYMED/MEDOAK experiment is to provide datasets from leaf to canopy scale in synchronization with remote sensing acquisitions obtained from multi-platform sensors having different spectral characteristics and spatial resolutions. Seven monthly data collections were performed between April and October 2021 (with a complementary one in June 2023) over two forests in the north of Montpellier, France, comprised of two oak endemic species with different phenological dynamics (evergreen:
Language	English
Publishing date	2024-02-13
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	2786545-9
ISSN	2352-3409 ; 2352-3409
ISSN (online)	2352-3409
ISSN	2352-3409
DOI	10.1016/j.dib.2024.110185
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Article ; Online: A novel bioinformatic approach reveals cooperation between Cancer/Testis genes in basal-like breast tumors.

Laisné, Marthe / Rodgers, Brianna / Benlamara, Sarah / Wicinski, Julien / Nicolas, André / Djerroudi, Lounes / Gupta, Nikhil / Ferry, Laure / Kirsh, Olivier / Daher, Diana / Philippe, Claude / Okada, Yuki / Charafe-Jauffret, Emmanuelle / Cristofari, Gael / Meseure, Didier / Vincent-Salomon, Anne / Ginestier, Christophe / Defossez, Pierre-Antoine

Oncogene

2024

Abstract: Breast cancer is the most prevalent type of cancer in women worldwide. Within breast tumors, the basal-like subtype has the worst prognosis, prompting the need for new tools to understand, detect, and treat these tumors. Certain germline-restricted genes ...

Abstract	Breast cancer is the most prevalent type of cancer in women worldwide. Within breast tumors, the basal-like subtype has the worst prognosis, prompting the need for new tools to understand, detect, and treat these tumors. Certain germline-restricted genes show aberrant expression in tumors and are known as Cancer/Testis genes; their misexpression has diagnostic and therapeutic applications. Here we designed a new bioinformatic approach to examine Cancer/Testis gene misexpression in breast tumors. We identify several new markers in Luminal and HER-2 positive tumors, some of which predict response to chemotherapy. We then use machine learning to identify the two Cancer/Testis genes most associated with basal-like breast tumors: HORMAD1 and CT83. We show that these genes are expressed by tumor cells and not by the microenvironment, and that they are not expressed by normal breast progenitors; in other words, their activation occurs de novo. We find these genes are epigenetically repressed by DNA methylation, and that their activation upon DNA demethylation is irreversible, providing a memory of past epigenetic disturbances. Simultaneous expression of both genes in breast cells in vitro has a synergistic effect that increases stemness and activates a transcriptional profile also observed in double-positive tumors. Therefore, we reveal a functional cooperation between Cancer/Testis genes in basal breast tumors; these findings have consequences for the understanding, diagnosis, and therapy of the breast tumors with the worst outcomes.
Language	English
Publishing date	2024-03-11
Publishing country	England
Document type	Journal Article
ZDB-ID	639046-8
ISSN	1476-5594 ; 0950-9232
ISSN (online)	1476-5594
ISSN	0950-9232
DOI	10.1038/s41388-024-03002-7
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Article ; Online: Reductions in home-range size and social interactions among dehorned black rhinoceroses (

Duthé, Vanessa / Odendaal, Karen / Van der Westhuizen, Rickert / Church, Brigitte / Naylor, Simon / Boshoff, Suzette / Venter, Mariana / Prinsloo, Meiring / Ngwenya, Petros / Hanekom, Catharine / Kelly, Christopher P / Walker, Tom W N / Rasmann, Sergio / Defossez, Emmanuel

Proceedings of the National Academy of Sciences of the United States of America

2023 Volume 120, Issue 25, Page(s) e2301727120

Abstract: Poaching for horns and tusks is driving declines of megaherbivores worldwide, including the critically endangered African black rhinoceros ( ...

Abstract	Poaching for horns and tusks is driving declines of megaherbivores worldwide, including the critically endangered African black rhinoceros (
MeSH term(s)	Animals ; Behavior, Animal ; Homing Behavior ; Perissodactyla ; Social Interaction
Language	English
Publishing date	2023-06-12
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	209104-5
ISSN	1091-6490 ; 0027-8424
ISSN (online)	1091-6490
ISSN	0027-8424
DOI	10.1073/pnas.2301727120
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Book ; Online: Music Demixing Challenge 2021

Mitsufuji, Yuki / Fabbro, Giorgio / Uhlich, Stefan / Stöter, Fabian-Robert / Défossez, Alexandre / Kim, Minseok / Choi, Woosung / Yu, Chin-Yun / Cheuk, Kin-Wai

2021

Abstract: Music source separation has been intensively studied in the last decade and tremendous progress with the advent of deep learning could be observed. Evaluation campaigns such as MIREX or SiSEC connected state-of-the-art models and corresponding papers, ... ...

Abstract	Music source separation has been intensively studied in the last decade and tremendous progress with the advent of deep learning could be observed. Evaluation campaigns such as MIREX or SiSEC connected state-of-the-art models and corresponding papers, which can help researchers integrate the best practices into their models. In recent years, the widely used MUSDB18 dataset played an important role in measuring the performance of music source separation. While the dataset made a considerable contribution to the advancement of the field, it is also subject to several biases resulting from a focus on Western pop music and a limited number of mixing engineers being involved. To address these issues, we designed the Music Demixing (MDX) Challenge on a crowd-based machine learning competition platform where the task is to separate stereo songs into four instrument stems (Vocals, Drums, Bass, Other). The main differences compared with the past challenges are 1) the competition is designed to more easily allow machine learning practitioners from other disciplines to participate, 2) evaluation is done on a hidden test set created by music professionals dedicated exclusively to the challenge to assure the transparency of the challenge, i.e., the test set is not accessible from anyone except the challenge organizers, and 3) the dataset provides a wider range of music genres and involved a greater number of mixing engineers. In this paper, we provide the details of the datasets, baselines, evaluation metrics, evaluation results, and technical challenges for future competitions.
Keywords	Electrical Engineering and Systems Science - Audio and Speech Processing ; Computer Science - Sound
Subject code	780
Publishing date	2021-08-30
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Trends in incidence of invasive vaginal cancer in France from 1990 to 2018 and survival of recently diagnosed women - A population-based study.

Trétarre, Brigitte / Dantony, Emmanuelle / Coureau, Gaëlle / Defossez, Gautier / Guizard, Anne-Valérie / Delafosse, Patricia / Daubisse, Laetitia / Velten, Michel / Karima Hammas / Barra, Simona / Lapotre, Bénédicte / Plouvier, Sandrine / d'Almeida, Tania / Molinié, Florence / Woronoff, Anne-Sophie

European journal of obstetrics, gynecology, and reproductive biology

2023 Volume 283, Page(s) 125–129

Abstract: Objective: The aim of this study was to analyze trends in the incidence of vaginal cancer in France over a 28-year period and to present survival for recently-diagnosed women.: Methods: French cancer registries provided data on invasive vaginal ... ...

Abstract	Objective: The aim of this study was to analyze trends in the incidence of vaginal cancer in France over a 28-year period and to present survival for recently-diagnosed women. Methods: French cancer registries provided data on invasive vaginal cancers diagnosed from 1990 to 2015 and followed up through June 2018. Trends in incidence were analyzed using a Poisson model with a bidimensional penalized spline of age and year at diagnosis. Net survival analysis was restricted to recently-diagnosed cases (2010-2015) and used a novel approach based on a bidimensional penalized spline of age and time-since-diagnosis to model excess mortality hazard. Results: With 162 new cases estimated in France in 2018, vaginal cancer represented 0.9 % of genital cancers in French women. In 2018, the world population age-standardized incidence rate was 0.2 per 100,000 person-years, median age at diagnosis was 75 years. The standardized incidence rate decreased significantly by 3 % per year (95 % CI, -3.8; -2.2) between 1990 and 2018 (0.4 cases per 100,000 person-year in 1990, vs 0.2 in 2018). Age-standardized net survival at 1 and 5 years after diagnosis was respectively 74 % and 45 %. Conclusions: This study confirms that vaginal cancer is still a rare malignancy in France with 5-year net survival that remains low. We observed a consistent decrease in the incidence rate between 1990 and 2018. It may be too early to attribute these trends to a positive impact of vaccination campaigns against hrHPV infection, since vaginal cancer mainly affects older women and HPV vaccination has only been available since the early 2000s, and only targets young girls.
MeSH term(s)	Humans ; Female ; Aged ; Incidence ; Vaginal Neoplasms/epidemiology ; Vaginal Neoplasms/pathology ; Survival Rate ; France/epidemiology ; Carcinoma in Situ ; Registries
Language	English
Publishing date	2023-02-13
Publishing country	Ireland
Document type	Journal Article
ZDB-ID	190605-7
ISSN	1872-7654 ; 0301-2115 ; 0028-2243
ISSN (online)	1872-7654
ISSN	0301-2115 ; 0028-2243
DOI	10.1016/j.ejogrb.2023.02.003
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Article ; Online: Net survival in colon and rectal cancer by stage according to neoadjuvant treatment. A French population-based study.

Jooste, Valérie / Grosclaude, Pascale / Defossez, Gautier / Daubisse, Laetitia / Woronoff, Anne-Sophie / Bouvier, Véronique / Chirpaz, Emmanuel / Tretarre, Brigitte / Lapotre, Bénédicte / Plouvier, Sandrine / Launoy, Guy / Bonneault, Mélanie / Molinié, Florence / Bouvier, Anne-Marie

Digestive and liver disease : official journal of the Italian Society of Gastroenterology and the Italian Association for the Study of the Liver

2023

Abstract: Aim: Real-life estimations of survival by stage in colorectal cancer are scanty. We estimated population-based net survival by pathological stage and location, and for rectal cancer by patterns of evolution according to clinical and pathological stage ... ...

Abstract	Aim: Real-life estimations of survival by stage in colorectal cancer are scanty. We estimated population-based net survival by pathological stage and location, and for rectal cancer by patterns of evolution according to clinical and pathological stage with regard to neoadjuvant therapy. Method: Age-standardized net survival was estimated on 19,630 colorectal cancers diagnosed between 2009 and 2015. Results: Five-year net survival was 64 % for colon and 62 % for rectal cancer. The highest absolute difference between colon and rectum was 12 % for stage II women aged 75 (91% vs. 79 %). Among patients with clinical stage III rectal cancer, 67 % no longer had pathological node involvement after neoadjuvant treatment. Survival was similar in clinical stage I, II or III and pathological stage III after neoadjuvant treatment and in pathological stage III without neoadjuvant treatment (between 67 % and 72 %). It ranged between 80 and 82 % in pathological stage II, without neoadjuvant treatment or with clinical stage I, II or III before neoadjuvant treatment. Survival ranged between 93 % and 95 % in pathological stage I, treated with surgery only or with clinical stage II or III before neoadjuvant treatment. Conclusion: Prognosis is associated with stage determined on surgical specimens rather than stage at the initial workup.
Language	English
Publishing date	2023-11-03
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	1459373-7
ISSN	1878-3562 ; 1125-8055
ISSN (online)	1878-3562
ISSN	1125-8055
DOI	10.1016/j.dld.2023.10.012
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Article ; Online: Do diabetic complications influence cancer-related events in people with type 2 diabetes? A cohort approach.

Liuu, Evelyne / Saulnier, Pierre-Jean / Gand, Elise / Defossez, Gautier / Jamet, Amélie / Ragot, Stéphanie / Paccalin, Marc / Hadjadj, Samy

Diabetes & metabolism

2021 Volume 48, Issue 2, Page(s) 101289

Abstract: Aim: To investigate whether diabetic micro- and macrovascular complications (mMVC) influence cancer-related events in people with type 2 diabetes.: Methods: People with type 2 diabetes from the SURDIAGENE cohort were characterized (duration of ... ...

Abstract	Aim: To investigate whether diabetic micro- and macrovascular complications (mMVC) influence cancer-related events in people with type 2 diabetes. Methods: People with type 2 diabetes from the SURDIAGENE cohort were characterized (duration of diabetes, HbA1c, mMVC, history of cancer) and prospectively followed-up for death and cancer-related events (occurrence, dissemination and cancer-related death). Results: Between 2002 and 2012, 1468 participants (58% men, mean age 64.8 ± 10.7 years, mean duration of diabetes 14.5 ± 9.9 years at baseline) were enrolled. At baseline, 119 (8%) had a personal history of cancer. Incident cancer occurred in 207 (14%) patients during a mean follow-up of 7.3 ± 3.7 years and was associated with older age, smoking status and personal history of cancer. mMVC were not associated with cancer-related events, considering cancer occurrence, node/metastasis dissemination and cancer-specific death. Risk of all-cause mortality was increased in diabetic patients cumulating cancer history and mMVC (HR 1.73, 95%CI 1.25-2.38) compared to those with neither cancer nor mMVC. In our cohort, cancer-related death was not associated with mMVC (HR 1.05, 95%CI 0.67-1.64), but conversely history of cancer was significantly associated with cardiovascular-related death (HR 2.41, 95%CI 1.36-4.26). Conclusion: In our cohort, mMVC were not associated with cancer-related events, while history of cancer was significantly associated with cardiovascular death.
MeSH term(s)	Aged ; Cohort Studies ; Diabetes Mellitus, Type 2/complications ; Diabetes Mellitus, Type 2/epidemiology ; Diabetic Angiopathies/epidemiology ; Female ; Humans ; Male ; Middle Aged ; Neoplasms/complications ; Neoplasms/epidemiology ; Risk Factors
Language	English
Publishing date	2021-10-10
Publishing country	France
Document type	Journal Article
ZDB-ID	1315751-6
ISSN	1878-1780 ; 1262-3636 ; 0338-1684
ISSN (online)	1878-1780
ISSN	1262-3636 ; 0338-1684
DOI	10.1016/j.diabet.2021.101289
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