Pasolli, Edoardo

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

Truong, D. T., Franzosa, E. A., Tickle, T. L., Scholz, M., Weingart, G., Pasolli, E., Tett, A., Huttenhower, C., & Segata, N. (2015) · Nature Methods

Genomics and Phylogenetic StudiesGut microbiota and health

Cited by 2,185

Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle

Pasolli, E., Asnicar, F., Manara, S., Zolfo, M., Karcher, N., Armanini, F., Beghini, F., Manghi, P., Tett, A., Ghensi, P., et al. (2019) · Cell

Genomics and Phylogenetic StudiesGut microbiota and health

Cited by 1,591

Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4

Blanco-Míguez, A., Beghini, F., Cumbo, F., McIver, L. J., Thompson, K. N., Zolfo, M., Manghi, P., Dubois, L., Huang, K. D., Thomas, A. M., et al. (2023) · Nature Biotechnology

Genomics and Phylogenetic StudiesGut microbiota and health

Cited by 1,442

Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome

Ferretti, P., Pasolli, E., Tett, A., Asnicar, F., Gorfer, V., Fedi, S., Armanini, F., Truong, D. T., Manara, S., Zolfo, M., et al. (2018) · Cell Host & Microbe

Gut microbiota and healthInfant Nutrition and Health

Cited by 1,292

Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

Thomas, A. M., Manghi, P., Asnicar, F., Pasolli, E., Armanini, F., Zolfo, M., Beghini, F., Manara, S., Karcher, N., Pozzi, C., et al. (2019) · Nature Medicine

Gut microbiota and healthOral microbiology and periodontitis research

Cited by 1,030

Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0

Asnicar, F., Thomas, A. M., Beghini, F., Mengoni, C., Manara, S., Manghi, P., Zhu, Q., Bolzan, M., Cumbo, F., May, U., et al. (2020) · Nature Communications

Genomics and Phylogenetic StudiesMicrobial Community Ecology and Physiology

Cited by 869

Microbial strain-level population structure and genetic diversity from metagenomes

Truong, D. T., Tett, A., Pasolli, E., Huttenhower, C., & Segata, N. (2017) · Genome Research

Gut microbiota and healthGenomics and Phylogenetic Studies

Cited by 839

Prevotella Diversity, Niches and Interactions with the Human Host

Tett, A., Pasolli, E., Masetti, G., Ercolini, D., & Segata, N. (2021) · Nature Reviews Microbiology

Gut microbiota and healthOral microbiology and periodontitis research

Cited by 748

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights

Pasolli, E., Truong, D. T., Malik, F., Waldron, L., & Segata, N. (2016) · PLOS Computational Biology

Gut microbiota and healthOral microbiology and periodontitis research

Cited by 659

Mediterranean diet intervention in overweight and obese subjects lowers plasma cholesterol and causes changes in the gut microbiome and metabolome independently of energy intake

Meslier, V., Laiola, M., Roager, H. M., De Filippis, F., Roume, H., Quinquis, B., Giacco, R., Mennella, I., Ferracane, R., Pons, N., et al. (2020) · Gut

Gut microbiota and healthNutritional Studies and Diet

Cited by 583

Accessible, curated metagenomic data through ExperimentHub

Pasolli, E., Schiffer, L., Manghi, P., Renson, A., Obenchain, V., Truong, D. T., Beghini, F., Malik, F., Ramos, M., Dowd, J. B., et al. (2017) · Nature Methods

Genomics and Phylogenetic StudiesResearch Data Management Practices

Cited by 514

The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations

Tett, A., Huang, K. D., Asnicar, F., Fehlner-Peach, H., Pasolli, E., Karcher, N., Armanini, F., Manghi, P., Bonham, K., Zolfo, M., et al. (2019) · Cell Host & Microbe

Gut microbiota and healthOral microbiology and periodontitis research

Cited by 476

Strain-Level Analysis of Mother-to-Child Bacterial Transmission during the First Few Months of Life

Yassour, M., Jason, E., Hogstrom, L. J., Arthur, T. D., Tripathi, S., Siljander, H., Selvenius, J., Oikarinen, S., Hyöty, H., Virtanen, S. M., et al. (2018) · Cell Host & Microbe

Gut microbiota and healthInfant Nutrition and Health

Cited by 455

The person-to-person transmission landscape of the gut and oral microbiomes

Valles-Colomer, M., Blanco-Míguez, A., Manghi, P., Asnicar, F., Dubois, L., Golzato, D., Armanini, F., Cumbo, F., Huang, K. D., Manara, S., et al. (2023) · Nature

Gut microbiota and healthOral microbiology and periodontitis research

Cited by 449

Gut Bacteria Composition Drives Primary Resistance to Cancer Immunotherapy in Renal Cell Carcinoma Patients

Derosa, L., Routy, B., Fidelle, M., Iebba, V., Alla, L., Pasolli, E., Segata, N., Desnoyer, A., Pietrantonio, F., Ferrere, G., et al. (2020) · European Urology

Cancer Immunotherapy and BiomarkersGut microbiota and health

Cited by 398

Cross-reactivity between tumor MHC class I–restricted antigens and an enterococcal bacteriophage

Fluckiger, A., Daillère, R., Sassi, M., Sixt, B. S., Liu, P., Loos, F., Richard, C., Rabu, C., Alou, M. T., Goubet, A.-G., et al. (2020) · Science

Immunotherapy and Immune ResponsesCancer Immunotherapy and Biomarkers

Cited by 396

Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome

Pasolli, E., De Filippis, F., Mauriello, I. E., Cumbo, F., Walsh, A. M., Leech, J., Cotter, P. D., Segata, N., & Ercolini, D. (2020) · Nature Communications

Probiotics and Fermented FoodsGut microbiota and health

Cited by 367

Maternal inheritance of bifidobacterial communities and bifidophages in infants through vertical transmission

Duranti, S., Lugli, G. A., Mancabelli, L., Armanini, F., Turroni, F., James, K., Ferretti, P., Gorfer, V., Ferrario, C., Milani, C., et al. (2017) · Microbiome

Gut microbiota and healthInfant Nutrition and Health

Cited by 327

The food-gut axis: lactic acid bacteria and their link to food, the gut microbiome and human health

De Filippis, F., Pasolli, E., & Ercolini, D. (2020) · FEMS Microbiology Reviews

Probiotics and Fermented FoodsGut microbiota and health

Cited by 303

Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome

Beghini, F., Pasolli, E., Truong, T. D., Putignani, L., Cacciò, S. M., & Segata, N. (2017) · The ISME Journal

Gut microbiota and healthParasitic Infections and Diagnostics

Cited by 201

Intestinal microbiota influences clinical outcome and side effects of early breast cancer treatment

Terrisse, S., Derosa, L., Iebba, V., Ghiringhelli, F., Vaz-Luis, I., Kroemer, G., Fidelle, M., Christodoulidis, S., Segata, N., Thomas, A. M., et al. (2021) · Cell Death & Differentiation

Gut microbiota and healthCancer, Lipids, and Metabolism

Cited by 172

Newly Explored Faecalibacterium Diversity Is Connected to Age, Lifestyle, Geography, and Disease

De Filippis, F., Pasolli, E., & Ercolini, D. (2020) · Current Biology

Gut microbiota and healthGenomics and Phylogenetic Studies

Cited by 161

Analysis of 1321 Eubacterium rectale genomes from metagenomes uncovers complex phylogeographic population structure and subspecies functional adaptations

Karcher, N., Pasolli, E., Asnicar, F., Huang, K. D., Tett, A., Manara, S., Armanini, F., Bain, D., Duncan, S. H., Louis, P., et al. (2020) · Genome Biology

Gut microbiota and healthGenomics and Phylogenetic Studies

Cited by 116

Cancer Induces a Stress Ileopathy Depending on β-Adrenergic Receptors and Promoting Dysbiosis that Contributes to Carcinogenesis

Yonekura, S., Terrisse, S., Alves Costa Silva, C., Lafarge, A., Iebba, V., Ferrere, G., Goubet, A.-G., Fahrner, J.-E., Lahmar, I., Ueda, K., et al. (2022) · Cancer Discovery

Gut microbiota and healthGastrointestinal motility and disorders

Cited by 112