Functional variants identify sex-specific genes and pathways in Alzheimer’s Disease

Autor: Thomas Bourquard, Kwanghyuk Lee, Ismael Al-Ramahi, Minh Pham, Dillon Shapiro, Yashwanth Lagisetty, Shirin Soleimani, Samantha Mota, Kevin Wilhelm, Maryam Samieinasab, Young Won Kim, Eunna Huh, Jennifer Asmussen, Panagiotis Katsonis, Juan Botas, Olivier Lichtarge

Publikováno v: Nature Communications, Vol 14, Iss 1, Pp 1-15 (2023)

Abstract The incidence of Alzheimer’s Disease in females is almost double that of males. To search for sex-specific gene associations, we build a machine learning approach focused on functionally impactful coding variants. This method can detect di

Externí odkaz: https://doaj.org/article/5fd507b11a1941148399c2ae7ff75fb9

Evolutionary action of mutations reveals antimicrobial resistance genes in Escherichia coli

Autor: David C. Marciano, Chen Wang, Teng-Kuei Hsu, Thomas Bourquard, Benu Atri, Ralf B. Nehring, Nicholas S. Abel, Elizabeth A. Bowling, Taylor J. Chen, Pamela D. Lurie, Panagiotis Katsonis, Susan M. Rosenberg, Christophe Herman, Olivier Lichtarge

Publikováno v: Nature Communications, Vol 13, Iss 1, Pp 1-13 (2022)

The emergence of antibiotic resistance, even against last-line antibiotics such as colistin, is a serious public health threat. To guide treatment and drug development strategies, Marciano et al. apply evolutionary action (EA) analysis to identify dr

Externí odkaz: https://doaj.org/article/769ce09d0d21450c9e7f82f6e09d8059

Accurate determination of epitope for antibodies with unknown 3D structures

Autor: Shifa Tahir, Thomas Bourquard, Astrid Musnier, Yann Jullian, Yannick Corde, Zakaria Omahdi, Laetitia Mathias, Eric Reiter, Pascale Crépieux, Gilles Bruneau, Anne Poupon

Publikováno v: mAbs, Vol 13, Iss 1 (2021)

MAbTope is a docking-based method for the determination of epitopes. It has been used to successfully determine the epitopes of antibodies with known 3D structures. However, during the antibody discovery process, this structural information is rarely

Externí odkaz: https://doaj.org/article/8451735ad5364024a4f44a7ddd4b61e8

A collaborative filtering approach for protein-protein docking scoring functions.

Autor: Thomas Bourquard, Julie Bernauer, Jérôme Azé, Anne Poupon

Publikováno v: PLoS ONE, Vol 6, Iss 4, p e18541 (2011)

A protein-protein docking procedure traditionally consists in two successive tasks: a search algorithm generates a large number of candidate conformations mimicking the complex existing in vivo between two proteins, and a scoring function is used to

Externí odkaz: https://doaj.org/article/d795b15b2572438a8918c5e5870858dc

A New in Silico Antibody Similarity Measure Both Identifies Large Sets of Epitope Binders with Distinct CDRs and Accurately Predicts Off-Target Reactivity

Autor: Astrid Musnier, Thomas Bourquard, Amandine Vallet, Laetitia Mathias, Gilles Bruneau, Mohammed Akli Ayoub, Ophélie Travert, Yannick Corde, Nathalie Gallay, Thomas Boulo, Sandra Cortes, Hervé Watier, Pascale Crépieux, Eric Reiter, Anne Poupon

Publikováno v: International Journal of Molecular Sciences
International Journal of Molecular Sciences, 2022, 23 (17), pp.1-17. ⟨10.3390/ijms23179765⟩
International Journal of Molecular Sciences; Volume 23; Issue 17; Pages: 9765

International audience; Developing a therapeutic antibody is a long, tedious, and expensive process. Many obstacles need to be overcome, such as biophysical properties (issues of solubility, stability, weak production yields, etc.), as well as cross-

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::820601cc291909ac2734db5a3b47323c
https://doi.org/10.3390/ijms23179765