Refining Boolean models with the partial most permissive scheme

Authors: Boina, Nadine Ben, Mossé, Brigitte, Baudot, Anaïs, Remy, Élisabeth

Subject Terms: Quantitative Biology - Molecular Networks, Computer Science - Discrete Mathematics

Access URL: http://arxiv.org/abs/2407.09954

Current and future directions in network biology

Authors: Zitnik, Marinka, Li, Michelle M., Wells, Aydin, Glass, Kimberly, Gysi, Deisy Morselli, Krishnan, Arjun, Murali, T. M., Radivojac, Predrag, Roy, Sushmita, Baudot, Anaïs, Bozdag, Serdar, Chen, Danny Z., Cowen, Lenore, Devkota, Kapil, Gitter, Anthony, Gosline, Sara, Gu, Pengfei, Guzzi, Pietro H., Huang, Heng, Jiang, Meng, Kesimoglu, Ziynet Nesibe, Koyuturk, Mehmet, Ma, Jian, Pico, Alexander R., Pržulj, Nataša, Przytycka, Teresa M., Raphael, Benjamin J., Ritz, Anna, Sharan, Roded, Shen, Yang, Singh, Mona, Slonim, Donna K., Tong, Hanghang, Yang, Xinan Holly, Yoon, Byung-Jun, Yu, Haiyuan, Milenković, Tijana

Subject Terms: Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/2309.08478

Zoo Guide to Network Embedding

Authors: Baptista, Anthony, Sánchez-García, Rubén J., Baudot, Anaïs, Bianconi, Ginestra

Subject Terms: Computer Science - Social and Information Networks, Computer Science - Machine Learning, Mathematical Physics

Access URL: http://arxiv.org/abs/2305.03474

Universal Multilayer Network Exploration by Random Walk with Restart

Authors: Baptista, Anthony, Gonzalez, Aitor, Baudot, Anaïs

Subject Terms: Computer Science - Machine Learning, Physics - Physics and Society, Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/2107.04565

MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach

Authors: Pio-Lopez, Léo, Valdeolivas, Alberto, Tichit, Laurent, Remy, Élisabeth, Baudot, Anaïs

Subject Terms: Computer Science - Machine Learning, Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/2008.10085

Tracking Temporal Clusters from Patient Networks
32nd Conference on Medical Informatics Europe

Authors: Lambert, Judith, Leutenegger, Anne-Louise, Jannot, Anne-Sophie, Baudot, Anaïs

Source: Studies in health technology and informatics. 294:155-158

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCCN607823315&indx=1&recIds=ETOCCN607823315

Tracking clusters of patients over time enables extracting information from medico-administrative databases

Authors: Lambert, Judith, Leutenegger, Anne-Louise, Jannot, Anne-Sophie, Baudot, Anaïs

Source: In Journal of Biomedical Informatics March 2023 139

Improving patient clustering by incorporating structured variable label relationships in similarity measures.

Authors: Lambert, Judith, Leutenegger, Anne-Louise, Baudot, Anaïs, Jannot, Anne-Sophie

Source: BMC Medical Research Methodology; 3/15/2025, Vol. 25 Issue 1, p1-12, 12p

Multi-omics analysis in inclusion body myositis identifies mir-16 responsible for HLA overexpression.

Authors: Wijnbergen, Daphne, Johari, Mridul, Ozisik, Ozan, 't Hoen, Peter A.C., Ehrhart, Friederike, Baudot, Anaïs, Evelo, Chris T., Udd, Bjarne, Roos, Marco, Mina, Eleni

Source: Orphanet Journal of Rare Diseases; 1/15/2025, Vol. 20 Issue 1, p1-10, 10p

Subject Terms: INCLUSION body myositis, LIFE sciences, ANTIGEN processing, RIBOSOMAL RNA, MUSCLE diseases, MYOSITIS

A collaborative network analysis for the interpretation of transcriptomics data in Huntington's disease.

Authors: Ozisik, Ozan, Kara, Nazli Sila, Abbassi-Daloii, Tooba, Térézol, Morgane, Kuijper, Elsa C., Queralt-Rosinach, Núria, Jacobsen, Annika, Sezerman, Osman Ugur, Roos, Marco, Evelo, Chris T., Baudot, Anaïs, Ehrhart, Friederike, Mina, Eleni

Source: Scientific Reports; 1/9/2025, Vol. 15 Issue 1, p1-12, 12p

Subject Terms: HUNTINGTON disease, RARE diseases, TRANSCRIPTOMES, DISEASE prevalence, QUALITY of life

miR-376a-3p and miR-376b-3p overexpression in Hutchinson-Gilford progeria fibroblasts inhibits cell proliferation and induces premature senescence

Authors: Frankel, Diane, Delecourt, Valérie, Novoa-del-Toro, Elva-María, Robin, Jérôme D., Airault, Coraline, Bartoli, Catherine, Carabalona, Aurélie, Perrin, Sophie, Mazaleyrat, Kilian, De Sandre-Giovannoli, Annachiara, Magdinier, Frederique, Baudot, Anaïs, Lévy, Nicolas, Kaspi, Elise, Roll, Patrice

Source: In iScience 18 February 2022 25(2)

Gastruloids are competent to specify both cardiac and skeletal muscle lineages.

Authors: Argiro, Laurent, Chevalier, Céline, Choquet, Caroline, Nandkishore, Nitya, Ghata, Adeline, Baudot, Anaïs, Zaffran, Stéphane, Lescroart, Fabienne

Source: Nature Communications; 11/23/2024, Vol. 15 Issue 1, p1-19, 19p

Subject Terms: MYOCARDIUM, EMBRYONIC stem cells, MUSCLE growth, CONGENITAL disorders, MESODERM, MYOGENESIS

The Molecular Landscape of Premature Aging Diseases Defined by Multilayer Network Exploration.

Authors: Beust, Cécile, Valdeolivas, Alberto, Baptista, Anthony, Brière, Galadriel, Lévy, Nicolas, Ozisik, Ozan, Baudot, Anaïs

Source: Advanced Biology; Nov2024, Vol. 8 Issue 11, p1-13, 13p

Subject Terms: PREMATURE aging (Medicine), AGE, BIOLOGICAL networks, GENETIC transcription regulation, CELL communication

A multilevel screening pipeline in zebrafish identifies therapeutic drugs for GAN

Authors: Lescouzères, Léa, Hassen‐Khodja, Cédric, Baudot, Anaïs, Bordignon, Benoît, Bomont, Pascale

Source: EMBO molecular medicine. 15(7)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100187216225.0x000001&indx=1&recIds=ETOCvdc_100187216225.0x000001

Leaving no patient behind! Expert recommendation in the use of innovative technologies for diagnosing rare diseases.

Authors: van Karnebeek, Clara D. M., O'Donnell-Luria, Anne, Baynam, Gareth, Baudot, Anaïs, Groza, Tudor, Jans, Judith J. M., Lassmann, Timo, Letinturier, Mary Catherine V., Montgomery, Stephen B., Robinson, Peter N., Sansen, Stefaan, Mehrian-Shai, Ruty, Steward, Charles, Kosaki, Kenjiro, Durao, Patricia, Sadikovic, Bekim

Source: Orphanet Journal of Rare Diseases; 9/27/2024, Vol. 19 Issue 1, p1-16, 16p

Subject Terms: TECHNOLOGICAL innovations, MEDICAL genomics, CONTINUING medical education, RARE diseases, MOLECULAR diagnosis

Transcriptomic metaanalyses of autistic brains reveals shared gene expression and biological pathway abnormalities with cancer

Authors: Forés-Martos, Jaume, Catalá-López, Ferrán, Sánchez-Valle, Jon, Ibáñez, Kristina, Tejero, Héctor, Palma-Gudiel, Helena, Climent, Joan, Pancaldi, Vera, Fañanás, Lourdes, Arango, Celso, Parellada, Mara, Baudot, Anaïs, Vogt, Daniel, Rubenstein, John, Valencia, Alfonso, Tabarés-Seisdedos, Rafael

Source: Molecular autism. 10(1):1-16

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100187069536.0x000001&indx=1&recIds=ETOCvdc_100187069536.0x000001

Random walk with restart on multiplex and heterogeneous biological networks

Authors: Valdeolivas, Alberto, Tichit, Laurent, Navarro, Claire, Perrin, Sophie, Odelin, Gaëlle, Levy, Nicolas, Cau, Pierre, Remy, Elisabeth, Baudot, Anaïs

Source: Bioinformatics. 35(3):497-505

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100077952372.0x000001&indx=1&recIds=ETOCvdc_100077952372.0x000001

System-level analysis of genes mutated in muscular dystrophies reveals a functional pattern associated with muscle weakness distribution.

Authors: Ozisik, Ozan, Gorokhova, Svetlana, Cerino, Mathieu, Bartoli, Marc, Baudot, Anaïs

Source: Scientific Reports; 5/16/2024, Vol. 14 Issue 1, p1-10, 10p

Subject Terms: MUSCULAR dystrophy, MUSCLE weakness, FACIOSCAPULOHUMERAL muscular dystrophy, GENES, BIOLOGICAL networks, CELL physiology, GENETIC disorders

Current and future directions in network biology.

Authors: Zitnik, Marinka, Li, Michelle M, Wells, Aydin, Glass, Kimberly, Gysi, Deisy Morselli, Krishnan, Arjun, Murali, T M, Radivojac, Predrag, Roy, Sushmita, Baudot, Anaïs, Bozdag, Serdar, Chen, Danny Z, Cowen, Lenore, Devkota, Kapil, Gitter, Anthony, Gosline, Sara J C, Gu, Pengfei, Guzzi, Pietro H, Huang, Heng, Jiang, Meng

Source: Bioinformatics Advances; 2024, Vol. 4 Issue 1, p1-49, 49p

Subject Terms: KNOWLEDGE graphs, BIOLOGICAL systems, SCIENTIFIC community, LIFE sciences, LARGE-scale brain networks, BIOLOGICAL networks, COMPUTATIONAL biology

Benchmarking joint multi-omics dimensionality reduction approaches for the study of cancer

Authors: Cantini, Laura, Zakeri, Pooya, Hernandez, Celine, Naldi, Aurelien, Thieffry, Denis, Remy, Elisabeth, Baudot, Anaïs

Source: Nature communications. 12(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100191058733.0x000001&indx=1&recIds=ETOCvdc_100191058733.0x000001