Browsing by Author "Fellay, Jacques"

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    ItemOpen Access
    Author Correction: A global effort to dissect the human genetic basis of resistance to SARS-CoV-2 infection (Nature Immunology, (2022), 23, 2, (159-164), 10.1038/s41590-021-01030-z)
    (Springer Nature, 2022-02) Andreakos, Evangelos; Abel, Laurent; Vinh, Donald C.; Kaja, Elżbieta; Drolet, Beth A.; Zhang, Qian; O’Farrelly, Cliona; Novelli, Giuseppe; Rodríguez-Gallego, Carlos; Haerynck, Filomeen; Prando, Carolina; Pujol, Aurora; Bastard, Paul; Biggs, Catherine M.; Bigio, Benedetta; Boisson, Bertrand; Bolze, Alexandre; Bondarenko, Anastasiia; Brodin, Petter; Chakravorty, Samya; Christodoulou, John; Cobat, Aurelié; Condino-Neto, Antonio; Constantinescu, Stefan N.; Feldman, Hagit Baris; Fellay, Jacques; Halwani, Rabih; Jouanguy, Emmanuelle; Lau, Yu-Lung; Meyts, Isabelle; Mogensen, Trine H.; Okada, Satoshi; Okamoto, Keisuke; Özçelik, Tayfun; Pan-Hammarström, Qiang; Planas, Anna M.; Puel, Anne; Quintana-Murci, Lluis; Renia, Laurent; Resnick, Igor; Sediva, Anna; Shcherbina, Anna; Slaby, Ondrej; Tancevski, Ivan; Turvey, Stuart E.; Uddin, K. M. Furkan; van de Beek, Diederik; Zatz, Mayana; Zawadzki, Pawel; Zhang, Shen-Ying; Su, Helen C.; Casanova, Jean-Laurent; Spaan, András N.
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    GenoGuard: protecting genomic data against brute-force attacks
    (IEEE, 2015-05) Huang, Z.; Ayday, Erman; Fellay, Jacques; Hubaux, J-P.; Juels, A.
    Secure storage of genomic data is of great and increasing importance. The scientific community's improving ability to interpret individuals' genetic materials and the growing size of genetic database populations have been aggravating the potential consequences of data breaches. The prevalent use of passwords to generate encryption keys thus poses an especially serious problem when applied to genetic data. Weak passwords can jeopardize genetic data in the short term, but given the multi-decade lifespan of genetic data, even the use of strong passwords with conventional encryption can lead to compromise. We present a tool, called Geno Guard, for providing strong protection for genomic data both today and in the long term. Geno Guard incorporates a new theoretical framework for encryption called honey encryption (HE): it can provide information-theoretic confidentiality guarantees for encrypted data. Previously proposed HE schemes, however, can be applied to messages from, unfortunately, a very restricted set of probability distributions. Therefore, Geno Guard addresses the open problem of applying HE techniques to the highly non-uniform probability distributions that characterize sequences of genetic data. In Geno Guard, a potential adversary can attempt exhaustively to guess keys or passwords and decrypt via a brute-force attack. We prove that decryption under any key will yield a plausible genome sequence, and that Geno Guard offers an information-theoretic security guarantee against message-recovery attacks. We also explore attacks that use side information. Finally, we present an efficient and parallelized software implementation of Geno Guard. © 2015 IEEE.
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    Human genetic and immunological determinants of critical COVID-19 pneumonia
    (Springer Nature, 2022-03-24) Zhang, Qian; Bastard, Paul; Karbuz, Adem; Gervais, Adrian; Tayoun, Ahmad Abou; Aiuti, Alessandro; Belot, Alexandre; Bolze, Alexandre; Gaudet, Alexandre; Bondarenko, Anastasiia; Liu, Zhiyong; Spaan, András N.; Guennoun, Andrea; Arias, Andres Augusto; Planas, Anna M.; Sediva, Anna; Shcherbina, Anna; Neehus, Anna-Lena; Puel, Anne; Froidure, Antoine; Novelli, Antonio; Parlakay, Aslınur Özkaya; Pujol, Aurora; Yahşi, Aysun; Gülhan, Belgin; Bigio, Benedetta; Boisson, Bertrand; Drolet, Beth A.; Franco, Carlos Andres Arango; Flores, Carlos; Rodríguez-Gallego, Carlos; Prando, Carolina; Biggs, Catherine M.; Luyt, Charles-Edouard; Dalgard, Clifton L.; O’Farrelly, Cliona; Matuozzo, Daniela; Dalmau, David; Perlin, David S.; Mansouri, Davood; van de Beek, Diederik; Vinh, Donald C.; Dominguez-Garrido, Elena; Hsieh, Elena W. Y.; Erdeniz, Emine Hafize; Jouanguy, Emmanuelle; Şevketoglu, Esra; Talouarn, Estelle; Quiros-Roldan, Eugenia; Andreakos, Evangelos; Husebye, Eystein; Alsohime, Fahad; Haerynck, Filomeen; Casari, Giorgio; Novelli, Giuseppe; Aytekin, Gökhan; Morelle, Guillaume; Alkan, Gulsum; Bayhan, Gulsum Iclal; Feldman, Hagit Baris; Su, Helen C.; von Bernuth, Horst; Resnick, Igor; Bustos, Ingrid; Meyts, Isabelle; Migeotte, Isabelle; Tancevski, Ivan; Bustamante, Jacinta; Fellay, Jacques; El Baghdadi, Jamila; Martinez-Picado, Javier; Casanova, Jean-Laurent; Rosain, Jeremie; Manry, Jeremy; Chen, Jie; Christodoulou, John; Bohlen, Jonathan; Franco, José Luis; Li, Juan; Anaya, Juan Manuel; Rojas, Julian; Ye, Junqiang; Uddin, K. M. Furkan; Yasar, Kadriye Kart; Kisand, Kai; Okamoto, Keisuke; Chaïbi, Khalil; Mironska, Kristina; Maródi, László; Abel, Laurent; Renia, Laurent; Lorenzo, Lazaro; Hammarström, Lennart; Ng, Lisa F. P.; Quintana-Murci, Lluis; Erazo, Lucia Victoria; Notarangelo, Luigi D.; Reyes, Luis Felipe; Allende, Luis M.; Imberti, Luisa; Renkilaraj, Majistor Raj Luxman Maglorius; Moncada-Velez, Marcela; Materna, Marie; Anderson, Mark S.; Gut, Marta; Chbihi, Marwa; Ogishi, Masato; Emiroglu, Melike; Seppänen, Mikko R. J.; Uddin, Mohammed J.; Shahrooei, Mohammed; Alexander, Natalie; Hatipoglu, Nevin; Marr, Nico; Akçay, Nihal; Boyarchuk, Oksana; Slaby, Ondrej; Akcan, Ozge Metin; Zhang, Peng; Soler-Palacín, Pere; Gregersen, Peter K.; Brodin, Petter; Garçon, Pierre; Morange, Pierre-Emmanuel; Pan-Hammarström, Qiang; Zhou, Qinhua; Philippot, Quentin; Halwani, Rabih; de Diego, Rebeca Perez; Levy, Romain; Yang, Rui; Öz, Şadiye Kübra Tüter; Muhsen, Saleh Al; Kanık-Yüksek, Saliha; Espinosa-Padilla, Sara; Ramaswamy, Sathishkumar; Okada, Satoshi; Bozdemir, Sefika Elmas; Aytekin, Selma Erol; Karabela, Şemsi Nur; Keles, Sevgi; Senoglu, Sevtap; Zhang, Shen-Ying; Duvlis, Sotirija; Constantinescu, Stefan N.; Boisson-Dupuis, Stephanie; Turvey, Stuart E.; Tangye, Stuart G.; Asano, Takaki; Özcelik, Tayfun; Le Voyer, Tom; Maniatis, Tom; Morio, Tomohiro; Mogensen, Trine H.; Sancho-Shimizu, Vanessa; Beziat, Vivien; Solanich, Xavier; Bryceson, Yenan; Lau, Yu-Lung; Itan, Yuval; Cobat, Aurélie; Casanova, Jean-Laurent
    SARS-CoV-2 infection is benign in most individuals but, in around 10% of cases, it triggers hypoxaemic COVID-19 pneumonia, which leads to critical illness in around 3% of cases. The ensuing risk of death (approximately 1% across age and gender) doubles every five years from childhood onwards and is around 1.5 times greater in men than in women. Here we review the molecular and cellular determinants of critical COVID-19 pneumonia. Inborn errors of type I interferons (IFNs), including autosomal TLR3 and X-chromosome-linked TLR7 deficiencies, are found in around 1–5% of patients with critical pneumonia under 60 years old, and a lower proportion in older patients. Pre-existing auto-antibodies neutralizing IFNα, IFNβ and/or IFNω, which are more common in men than in women, are found in approximately 15–20% of patients with critical pneumonia over 70 years old, and a lower proportion in younger patients. Thus, at least 15% of cases of critical COVID-19 pneumonia can be explained. The TLR3- and TLR7-dependent production of type I IFNs by respiratory epithelial cells and plasmacytoid dendritic cells, respectively, is essential for host defence against SARS-CoV-2. In ways that can depend on age and sex, insufficient type I IFN immunity in the respiratory tract during the first few days of infection may account for the spread of the virus, leading to pulmonary and systemic inflammation. © 2022, Springer Nature Limited.
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    Studying severe long COVID to understand post-infectious disorders beyond COVID-19
    (Nature Publishing Group, 2022-05-01) Brodin, Petter; Casari, Giorgio; Townsend, Liam; O’Farrelly, Cliona; Tancevski, Ivan; Löffler-Ragg, Judith; Mogensen, Trine H.; Casanova, Jean Laurent; Abel, Laurent; Aiuti, Alessandro; Al-Muhsen, Saleh; Al-Mulla, Fahd; Anderson, Mark S.; Andreakos, Evangelos; Arias, Andrés A.; Feldman, HagitBaris; Belot, Alexandre; Biggs, Catherine M.; Bogunovic, Dusan; Bolze, Alexandre; Bondarenko, Anastasiia; Bousfiha, Ahmed A.; Bryceson, Yenan; Bustamante, Carlos D.; Butte, Manish J.; Christodoulou, John; Condino-Neto, Antonio; Constantinescu, Stefan N.; Cooper, Megan A.; Dalgard, Clifton L.; Desai, Murkesh; Drolet, Beth A.; Baghdadi, Jamila El; Espinosa-Padilla, Sara; Fellay, Jacques; Flores, Carlos; Franco, JoséLuis; Froidure, Antoine; Gregersen, Peter K.; Grimbacher, Bodo; Haerynck, Filomeen; Hagin, David; Halwani, Rabih; Hammarström, Lennart; Heath, James R.; Henrickson, Sarah E.; Hsieh, Elena W. Y.; Husebye, Eystein; Imai, Kohsuke; Itan, Yuval; Jarvis, Erich D.; Karamitros, Timokratis; Kisand, Kai; Ku, Cheng-Lung; Lau, Yu-Lung; Ling, Yun; Lucas, Carrie L.; Maniatis, Tom; Mansouri, Davood; Maródi, László; Meyts, Isabelle; Milner, Joshua D.; Mironska, Kristina; Morio, Tomohiro; Ng, Lisa F. P.; Novelli, Antonio; Novelli, Giuseppe; Okada, Satoshi; Okamoto, Keisuke; Ozcelik, Tayfun; Pan-Hammarström, Qiang; Pape, Jean W.; de Diego, Rebeca Perez; Perlin, David S.; Pesole, Graziano; Planas, Anna M.; Prando, Carolina; Pujol, Aurora; Quintana-Murci, Lluis; Ramaswamy, Sathishkumar; Renia, Laurent; Resnick, Igor; Rodríguez-Gallego, Carlos; Sancho-Shimizu, Vanessa; Sediva, Anna; Seppänen, Mikko R. J.; Shahrooei, Mohammed; Shcherbina, Anna; Slaby, Ondrej; Snow, Andrew L.; Soler-Palacín, Pere; Spaan, András N.; Tangye, Stuart G.; Tayoun, Ahmad Abou; Turvey, Stuart E.; Uddin, K. M. Furkan; Uddin, Mohammed J.; vande Beek, Diederik; Vinh, Donald C.; von Bernuth, Horst; Wauters, Joost; Zatz, Mayana; Zawadzki, Pawel; Casanova, Jean-Laurent