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Francesco Asnicar

Loop profile ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2017-2023
Publications (10 Years): 28

Top Venues

Nature communications

Nature

Nature medicine

Nature biotechnology

This page only lists publications with an associated author ORCID identifier.

Publications

Aitor Blanco-Míguez, Francesco Beghini, Fabio Cumbo, Lauren J McIver, Kelsey N Thompson, Moreno Zolfo, Paolo Manghi, Leonard Dubois, Kun D Huang, Andrew Maltez Thomas, William A Nickols, Gianmarco Piccinno, Elisa Piperni, Michal Punčochář, Mireia Valles-Colomer, Adrian Tett, Francesca Giordano, Richard Davies, Jonathan Wolf, Sarah E Berry, Timothy D Spector, Eric A Franzosa, Edoardo Pasolli, Francesco Asnicar, Curtis Huttenhower, Nicola Segata
Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4. Nature biotechnology (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature 614 (7946) (2023)
Kihyun Lee, Sebastien Raguideau, Kimmo Sirén, Francesco Asnicar, Fabio Cumbo, Falk Hildebrand, Nicola Segata, Chang-Jun Cha, Christopher Quince
Population-level impacts of antibiotic usage on the human gut microbiome. Nature communications 14 (1) (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature 614 (7946) (2023)
Kihyun Lee, Sebastien Raguideau, Kimmo Sirén, Francesco Asnicar, Fabio Cumbo, Falk Hildebrand, Nicola Segata, Chang-Jun Cha, Christopher Quince
Population-level impacts of antibiotic usage on the human gut microbiome. Nature communications 14 (1) (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature 614 (7946) (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature 614 (7946) (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature 614 (7946) (2023)
Francesco Asnicar, Andrew Maltez Thomas, Andrea Passerini, Levi Waldron, Nicola Segata
Machine learning for microbiologists. Nature reviews. Microbiology (2023)
Mireia Valles-Colomer, Aitor Blanco-Míguez, Paolo Manghi, Francesco Asnicar, Leonard Dubois, Davide Golzato, Federica Armanini, Fabio Cumbo, Kun D Huang, Serena Manara, Giulia Masetti, Federica Pinto, Elisa Piperni, Michal Punčochář, Liviana Ricci, Moreno Zolfo, Olivia Farrant, Adriana Goncalves, Marta Selma-Royo, Ana G Binetti, Jimmy E Becerra, Bei Han, John Lusingu, John H Amuasi, Loredana Amoroso, Alessia Visconti, Claire M Steves, Mario Falchi, Michele Filosi, Adrian Tett, Anna Last, Qian Xu, Nan Qin, Huanlong Qin, Jürgen May, Daniel Eibach, Maria Valeria Corrias, Mirco Ponzoni, Edoardo Pasolli, Timothy D Spector, Enrico Domenici, Maria Carmen Collado, Nicola Segata
The person-to-person transmission landscape of the gut and oral microbiomes. Nature 614 (7946) (2023)
Kihyun Lee, Sebastien Raguideau, Kimmo Sirén, Francesco Asnicar, Fabio Cumbo, Falk Hildebrand, Nicola Segata, Chang-Jun Cha, Christopher Quince
Population-level impacts of antibiotic usage on the human gut microbiome. Nature communications 14 (1) (2023)
Kihyun Lee, Sebastien Raguideau, Kimmo Sirén, Francesco Asnicar, Fabio Cumbo, Falk Hildebrand, Nicola Segata, Chang-Jun Cha, Christopher Quince
Population-level impacts of antibiotic usage on the human gut microbiome. Nature communications 14 (1) (2023)
Kihyun Lee, Sebastien Raguideau, Kimmo Sirén, Francesco Asnicar, Fabio Cumbo, Falk Hildebrand, Nicola Segata, Chang-Jun Cha, Christopher Quince
Population-level impacts of antibiotic usage on the human gut microbiome. Nature communications 14 (1) (2023)
Matteo Ciciani, Michele Demozzi, Eleonora Pedrazzoli, Elisabetta Visentin, Laura Pezzè, Lorenzo Federico Signorini, Aitor Blanco-Míguez, Moreno Zolfo, Francesco Asnicar, Antonio Casini, Anna Cereseto, Nicola Segata
Automated identification of sequence-tailored Cas9 proteins using massive metagenomic data. Nature communications 13 (1) (2022)
Giulia I Corsi, Swapnil Tichkule, Anna Rosa Sannella, Paolo Vatta, Francesco Asnicar, Nicola Segata, Aaron R Jex, Cock Van Oosterhout, Simone Mario Cacciò
Recent genetic exchanges and admixture shape the genome and population structure of the zoonotic pathogen Cryptosporidium parvum. Molecular ecology (2022)
Karla A Lee, Andrew Maltez Thomas, Laura A Bolte, Johannes R Björk, Laura Kist de Ruijter, Federica Armanini, Francesco Asnicar, Aitor Blanco-Míguez, Ruth Board, Neus Calbet-Llopart, Lisa Derosa, Nathalie Dhomen, Kelly Brooks, Mark Harland, Mark Harries, Emily R Leeming, Paul C Lorigan, Paolo Manghi, Richard Marais, Julia Newton-Bishop, Luigi Nezi, Federica Pinto, Miriam Potrony, Susana Puig Sardà, Patricio Serra-Bellver, Heather M Shaw, Sabrina Tamburini, Sara Valpione, Amrita Vijay, Levi Waldron, Laurence Zitvogel, Moreno Zolfo, Elisabeth G E de Vries, Paul Nathan, Rudolf S N Fehrmann, Véronique Bataille, Geke A P Hospers, Timothy D Spector, Rinse K Weersma, Nicola Segata
Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma. Nature medicine 28 (3) (2022)
Gianluca G Ianiro, Michal Punčochář, Nicolai Karcher, Serena Porcari, Federica Armanini, Francesco Asnicar, Francesco Beghini, Aitor Blanco-Míguez, Fabio Cumbo, Paolo Manghi, Federica Pinto, Luca Masucci, Gianluca Quaranta, Silvia De Giorgi, Giusi Desirè Sciumè, Stefano Bibbò, Federica Del Chierico, Lorenza Putignani, Maurizio Sanguinetti, Antonio Gasbarrini, Mireia Valles-Colomer, Giovanni Cammarota, Nicola Segata
Variability of strain engraftment and predictability of microbiome composition after fecal microbiota transplantation across different diseases. Nature medicine 28 (9) (2022)
Francesco Asnicar, Sarah E Berry, Ana M Valdes, Long H Nguyen, Gianmarco Piccinno, David A Drew, Emily Leeming, Rachel Gibson, Caroline Ivanne Le Roy, Haya Al Khatib, Lucy Francis, Mohsen Mazidi, Olatz Mompeo, Mireia Valles-Colomer, Adrian Tett, Francesco Beghini, Léonard Dubois, Davide Bazzani, Andrew Maltez Thomas, Chloe Mirzayi, Asya Khleborodova, Sehyun Oh, Rachel Hine, Christopher Bonnett, Joan Capdevila Pujol, Serge Danzanvilliers, Francesca Giordano, Ludwig Geistlinger, Levi Waldron, Richard Davies, George Hadjigeorgiou, Jonathan Wolf, José Marìa Ordovàs, Christopher D Gardner, Paul W Franks, Andrew T Chan, Curtis Huttenhower, Timothy D Spector, Nicola Segata
Microbiome connections with host metabolism and habitual diet from 1,098 deeply phenotyped individuals. Nature medicine 27 (2) (2021)
Elena Zagato, Chiara Pozzi, Alice Bertocchi, Tiziana Schioppa, Fabiana Saccheri, Silvia Guglietta, Bruno Fosso, Laura Melocchi, Giulia Nizzoli, Jacopo Troisi, Marinella Marzano, Bianca Oresta, Ilaria Spadoni, Koji Atarashi, Sara Carloni, Stefania Arioli, Giulia Fornasa, Francesco Asnicar, Nicola Segata, Simone Guglielmetti, Kenya Honda, Graziano Pesole, William Vermi, Giuseppe Penna, Maria Rescigno
Endogenous murine microbiota member Faecalibaculum rodentium and its human homologue protect from intestinal tumour growth. Nature microbiology 5 (3) (2020)
Moreno Zolfo, Federica Pinto, Francesco Asnicar, Paolo Manghi, Adrian Tett, Frederic D Bushman, Nicola Segata
Detecting contamination in viromes using ViromeQC. Nature biotechnology 37 (12) (2020)
Francesco Asnicar, Andrew Maltez Thomas, Francesco Beghini, Claudia Mengoni, Serena Manara, Paolo Manghi, Qiyun Zhu, Mattia Bolzan, Fabio Cumbo, Uyen May, Jon G Sanders, Moreno Zolfo, Evguenia Kopylova, Edoardo Pasolli, Rob Knight, Siavash Mirarab, Curtis Huttenhower, Nicola Segata
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0. Nature communications 11 (1) (2020)
Sarah E Berry, Ana M Valdes, David A Drew, Francesco Asnicar, Mohsen Mazidi, Jonathan Wolf, Joan Capdevila Pujol, George Hadjigeorgiou, Richard Davies, Haya Al Khatib, Christopher Bonnett, Sajaysurya Ganesh, Elco Bakker, Deborah J Hart, Massimo Mangino, Ruth J F Loos, Inbar Linenberg, Patrick Wyatt, José Marìa Ordovàs, Christopher D Gardner, Linda M Delahanty, Andrew T Chan, Nicola Segata, Paul W Franks, Timothy D Spector
Human postprandial responses to food and potential for precision nutrition. Nature medicine 26 (6) (2020)
Qiyun Zhu, Uyen Mai, Wayne Pfeiffer, Stefan Janssen, Francesco Asnicar, Jon G Sanders, Pedro Belda-Ferre, Gabriel A Al-Ghalith, Evguenia Kopylova, Daniel McDonald, Tomasz Kosciolek, John B Yin, Shi Huang, Nimaichand Salam, Jian-Yu Jiao, Zijun Wu, Zhenjiang Z Xu, Kalen Cantrell, Yimeng Yang, Erfan Sayyari, Maryam Rabiee, James T Morton, Sheila Podell, Dan Knights, Wen-Jun Li, Curtis Huttenhower, Nicola Segata, Larry Smarr, Siavash Mirarab, Rob Knight
Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea. Nature communications 10 (1) (2019)
Evan Bolyen, Jai Ram Rideout, Matthew R Dillon, Nicholas A Bokulich, Christian C Abnet, Gabriel A Al-Ghalith, Harriet Alexander, Eric John Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J Brislawn, C Titus Brown, Benjamin J Callahan, Andrés Mauricio Caraballo-Rodriguez, John Chase, Emily K Cope, Ricardo Da Silva, Christian Diener, Pieter C Dorrestein, Gavin M Douglas, Daniel M Durall, Claire Duvallet, Christian F Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M Gauglitz, Sean M Gibbons, Deanna L Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan P Holmes, Hannes Holste, Curtis Huttenhower, Gavin A Huttley, Stefan Janssen, Alan K Jarmusch, Lingjing Jiang, Benjamin D Kaehler, Kyo-Bin Kang, Christopher R Keefe, Paul Keim, Scott T Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan G I Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine A Lozupone, Massoud Maher, Clarisse A Marotz, Bryan D Martin, Daniel McDonald, Lauren J McIver, Alexey V Melnik, Jessica L Metcalf, Sydney C Morgan, Jamie T Morton, Ahmad Turan Naimey, Jose A Navas-Molina, Louis Felix Nothias, Stephanie B Orchanian, Talima R Pearson, Samuel L Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam R Rivers, Michael Scott Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R Spear, Austin D Swafford, Luke R Thompson, Pedro J Torres, Pauline Trinh, Anupriya Tripathi, Peter J Turnbaugh, Sabah Ul-Hasan, Justin Johan Jozias van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C Weber, Charles H D Williamson, Amy D Willis, Zhenjiang Zech Xu, Jesse R Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, J Gregory Caporaso
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature biotechnology 37 (8) (2019)
Andrew Maltez Thomas, Paolo Manghi, Francesco Asnicar, Edoardo Pasolli, Federica Armanini, Moreno Zolfo, Francesco Beghini, Serena Manara, Nicolai Karcher, Chiara Pozzi, Sara Gandini, Davide Serrano, Sonia Tarallo, Antonio Francavilla, Gaetano Gallo, Mario Trompetto, Giulio Ferrero, Sayaka Mizutani, Hirotsugu Shiroma, Satoshi Shiba, Tatsuhiro Shibata, Shinichi Yachida, Takuji Yamada, Jakob Wirbel, Petra Schrotz-King, Cornelia M Ulrich, Hermann Brenner, Manimozhiyan Arumugam, Peer Bork, Georg Zeller, Francesca Cordero, Emmanuel Dias-Neto, João Carlos Setubal, Adrian Tett, Barbara Pardini, Maria Rescigno, Levi Waldron, Alessio Naccarati, Nicola Segata
Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation. Nature medicine 25 (4) (2019)
Adrian Tett, Edoardo Pasolli, Stefania Farina, Duy Tin Truong, Francesco Asnicar, Moreno Zolfo, Francesco Beghini, Federica Armanini, Olivier Jousson, Veronica De Sanctis, Roberto Bertorelli, Giampiero Girolomoni, Mario Cristofolini, Nicola Segata
Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis. NPJ biofilms and microbiomes 3 (2017)
Francesco Asnicar, Serena Manara, Moreno Zolfo, Duy Tin Truong, Matthias Scholz, Federica Armanini, Pamela Ferretti, Valentina Gorfer, Anna Pedrotti, Adrian Tett, Nicola Segata
Studying Vertical Microbiome Transmission from Mothers to Infants by Strain-Level Metagenomic Profiling. mSystems 2 (1) (2017)

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Publication Activity (10 Years)

Top Topics

Top Venues

Francesco Asnicar