| Year |
Citation |
Score |
| 2024 |
Wang K, Lo CH, Mehta RS, Nguyen LH, Wang Y, Ma W, Ugai T, Kawamura H, Ugai S, Takashima Y, Mima K, Arima K, Okadome K, Giannakis M, Sears CL, ... ... Segata N, et al. An Empirical Dietary Pattern Associated with the Gut Microbial Features in Relation to Colorectal Cancer Risk. Gastroenterology. PMID 39117122 DOI: 10.1053/j.gastro.2024.07.040 |
0.424 |
|
| 2024 |
Piperni E, Nguyen LH, Manghi P, Kim H, Pasolli E, Andreu-Sánchez S, Arrè A, Bermingham KM, Blanco-Míguez A, Manara S, Valles-Colomer M, Bakker E, Busonero F, Davies R, Fiorillo E, ... ... Segata N, et al. Intestinal Blastocystis is linked to healthier diets and more favorable cardiometabolic outcomes in 56,989 individuals from 32 countries. Cell. PMID 38981480 DOI: 10.1016/j.cell.2024.06.018 |
0.466 |
|
| 2024 |
Zolfo M, Silverj A, Blanco-Miguez A, Manghi P, Rota-Stabelli O, Heidrich V, Jensen J, Maharjan S, Franzosa E, Menni C, Visconti A, Pinto F, Ciciani M, Huttenhower C, Cereseto A, ... ... Segata N, et al. Discovering and exploring the hidden diversity of human gut viruses using highly enriched virome samples. Biorxiv : the Preprint Server For Biology. PMID 38464031 DOI: 10.1101/2024.02.19.580813 |
0.523 |
|
| 2024 |
Björk JR, Bolte LA, Maltez Thomas A, Lee KA, Rossi N, Wind TT, Smit LM, Armanini F, Asnicar F, Blanco-Miguez A, Board R, Calbet-Llopart N, Derosa L, Dhomen N, Brooks K, ... ... Segata N, et al. Longitudinal gut microbiome changes in immune checkpoint blockade-treated advanced melanoma. Nature Medicine. PMID 38365950 DOI: 10.1038/s41591-024-02803-3 |
0.581 |
|
| 2023 |
Asnicar F, Thomas AM, Passerini A, Waldron L, Segata N. Machine learning for microbiologists. Nature Reviews. Microbiology. PMID 37968359 DOI: 10.1038/s41579-023-00984-1 |
0.528 |
|
| 2023 |
Wang Y, Ma W, Mehta R, Nguyen LH, Song M, Drew DA, Asnicar F, Huttenhower C, Segata N, Wolf J, Spector T, Berry S, Staller K, Chan AT. Diet and gut microbial associations in irritable bowel syndrome according to disease subtype. Gut Microbes. 15: 2262130. PMID 37786251 DOI: 10.1080/19490976.2023.2262130 |
0.457 |
|
| 2023 |
Geistlinger L, Mirzayi C, Zohra F, Azhar R, Elsafoury S, Grieve C, Wokaty J, Gamboa-Tuz SD, Sengupta P, Hecht I, Ravikrishnan A, Gonçalves RS, Franzosa E, Raman K, Carey V, ... ... Segata N, et al. BugSigDB captures patterns of differential abundance across a broad range of host-associated microbial signatures. Nature Biotechnology. PMID 37697152 DOI: 10.1038/s41587-023-01872-y |
0.702 |
|
| 2023 |
Blanco-Míguez A, Beghini F, Cumbo F, McIver LJ, Thompson KN, Zolfo M, Manghi P, Dubois L, Huang KD, Thomas AM, Nickols WA, Piccinno G, Piperni E, Punčochář M, Valles-Colomer M, ... ... Segata N, et al. Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4. Nature Biotechnology. PMID 36823356 DOI: 10.1038/s41587-023-01688-w |
0.546 |
|
| 2023 |
Kennedy KM, de Goffau MC, Perez-Muñoz ME, Arrieta MC, Bäckhed F, Bork P, Braun T, Bushman FD, Dore J, de Vos WM, Earl AM, Eisen JA, Elovitz MA, Ganal-Vonarburg SC, Gänzle MG, ... ... Segata N, et al. Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies. Nature. 613: 639-649. PMID 36697862 DOI: 10.1038/s41586-022-05546-8 |
0.525 |
|
| 2022 |
Lee KA, Thomas AM, Bolte LA, Björk JR, de Ruijter LK, Armanini F, Asnicar F, Blanco-Miguez A, Board R, Calbet-Llopart N, Derosa L, Dhomen N, Brooks K, Harland M, Harries M, ... ... Segata N, et al. Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma. Nature Medicine. PMID 35228751 DOI: 10.1038/s41591-022-01695-5 |
0.61 |
|
| 2021 |
Mirzayi C, Renson A, Zohra F, Elsafoury S, Geistlinger L, Kasselman LJ, Eckenrode K, van de Wijgert J, Loughman A, Marques FZ, MacIntyre DA, Arumugam M, Azhar R, ... ... Segata N, et al. Reporting guidelines for human microbiome research: the STORMS checklist. Nature Medicine. PMID 34789871 DOI: 10.1038/s41591-021-01552-x |
0.664 |
|
| 2021 |
Wibowo MC, Yang Z, Borry M, Hübner A, Huang KD, Tierney BT, Zimmerman S, Barajas-Olmos F, Contreras-Cubas C, García-Ortiz H, Martínez-Hernández A, Luber JM, Kirstahler P, Blohm T, Smiley FE, ... ... Segata N, et al. Reconstruction of ancient microbial genomes from the human gut. Nature. PMID 33981035 DOI: 10.1038/s41586-021-03532-0 |
0.316 |
|
| 2021 |
Beghini F, McIver LJ, Blanco-Míguez A, Dubois L, Asnicar F, Maharjan S, Mailyan A, Manghi P, Scholz M, Thomas AM, Valles-Colomer M, Weingart G, Zhang Y, Zolfo M, Huttenhower C, ... ... Segata N, et al. Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3. Elife. 10. PMID 33944776 DOI: 10.7554/eLife.65088 |
0.547 |
|
| 2021 |
Asnicar F, Berry SE, Valdes AM, Nguyen LH, Piccinno G, Drew DA, Leeming E, Gibson R, Le Roy C, Khatib HA, Francis L, Mazidi M, Mompeo O, Valles-Colomer M, Tett A, ... ... Segata N, et al. Microbiome connections with host metabolism and habitual diet from 1,098 deeply phenotyped individuals. Nature Medicine. PMID 33432175 DOI: 10.1038/s41591-020-01183-8 |
0.675 |
|
| 2020 |
Almeida A, Nayfach S, Boland M, Strozzi F, Beracochea M, Shi ZJ, Pollard KS, Sakharova E, Parks DH, Hugenholtz P, Segata N, Kyrpides NC, Finn RD. A unified catalog of 204,938 reference genomes from the human gut microbiome. Nature Biotechnology. PMID 32690973 DOI: 10.1038/S41587-020-0603-3 |
0.408 |
|
| 2020 |
Caio G, Lungaro L, Segata N, Guarino M, Zoli G, Volta U, De Giorgio R. Effect of Gluten-Free Diet on Gut Microbiota Composition in Patients with Celiac Disease and Non-Celiac Gluten/Wheat Sensitivity. Nutrients. 12. PMID 32575561 DOI: 10.3390/Nu12061832 |
0.305 |
|
| 2020 |
Karcher N, Pasolli E, Asnicar F, Huang KD, Tett A, Manara S, Armanini F, Bain D, Duncan SH, Louis P, Zolfo M, Manghi P, Valles-Colomer M, Raffaetà R, Rota-Stabelli O, ... ... Segata N, et al. Analysis of 1321 Eubacterium rectale genomes from metagenomes uncovers complex phylogeographic population structure and subspecies functional adaptations. Genome Biology. 21: 138. PMID 32513234 DOI: 10.1186/S13059-020-02042-Y |
0.546 |
|
| 2020 |
Pasolli E, De Filippis F, Mauriello IE, Cumbo F, Walsh AM, Leech J, Cotter PD, Segata N, Ercolini D. Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome. Nature Communications. 11: 2610. PMID 32451391 DOI: 10.1038/S41467-020-16438-8 |
0.354 |
|
| 2020 |
Asnicar F, Thomas AM, Beghini F, Mengoni C, Manara S, Manghi P, Zhu Q, Bolzan M, Cumbo F, May U, Sanders JG, Zolfo M, Kopylova E, Pasolli E, Knight R, ... ... Segata N, et al. Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0. Nature Communications. 11: 2500. PMID 32427907 DOI: 10.1038/S41467-020-16366-7 |
0.569 |
|
| 2020 |
Swann JR, Rajilic-Stojanovic M, Salonen A, Sakwinska O, Gill C, Meynier A, Fança-Berthon P, Schelkle B, Segata N, Shortt C, Tuohy K, Hasselwander O. Considerations for the design and conduct of human gut microbiota intervention studies relating to foods. European Journal of Nutrition. 59: 3347-3368. PMID 32246263 DOI: 10.1007/S00394-020-02232-1 |
0.329 |
|
| 2020 |
Collado MC, Segata N. Initial exploration of in utero microbial colonization. Nature Medicine. PMID 32231297 DOI: 10.1038/S41591-020-0836-1 |
0.353 |
|
| 2020 |
Zagato E, Pozzi C, Bertocchi A, Schioppa T, Saccheri F, Guglietta S, Fosso B, Melocchi L, Nizzoli G, Troisi J, Marzano M, Oresta B, Spadoni I, Atarashi K, Carloni S, ... ... Segata N, et al. Endogenous murine microbiota member Faecalibaculum rodentium and its human homologue protect from intestinal tumour growth. Nature Microbiology. PMID 31988379 DOI: 10.1038/S41564-019-0649-5 |
0.314 |
|
| 2019 |
Manara S, Asnicar F, Beghini F, Bazzani D, Cumbo F, Zolfo M, Nigro E, Karcher N, Manghi P, Metzger MI, Pasolli E, Segata N. Microbial genomes from non-human primate gut metagenomes expand the primate-associated bacterial tree of life with over 1000 novel species. Genome Biology. 20: 299. PMID 31883524 DOI: 10.1186/S13059-019-1923-9 |
0.417 |
|
| 2019 |
Zhu Q, Mai U, Pfeiffer W, Janssen S, Asnicar F, Sanders JG, Belda-Ferre P, Al-Ghalith GA, Kopylova E, McDonald D, Kosciolek T, Yin JB, Huang S, Salam N, Jiao JY, ... ... Segata N, et al. Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea. Nature Communications. 10: 5477. PMID 31792218 DOI: 10.1038/S41467-019-13443-4 |
0.569 |
|
| 2019 |
Fehlner-Peach H, Magnabosco C, Raghavan V, Scher JU, Tett A, Cox LM, Gottsegen C, Watters A, Wiltshire-Gordon JD, Segata N, Bonneau R, Littman DR. Distinct Polysaccharide Utilization Profiles of Human Intestinal Prevotella copri Isolates. Cell Host & Microbe. 26: 680-690.e5. PMID 31726030 DOI: 10.1016/J.Chom.2019.10.013 |
0.397 |
|
| 2019 |
Thomas AM, Manghi P, Asnicar F, Pasolli E, Armanini F, Zolfo M, Beghini F, Manara S, Karcher N, Pozzi C, Gandini S, Serrano D, Tarallo S, Francavilla A, Gallo G, ... ... Segata N, et al. Author Correction: Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation. Nature Medicine. PMID 31664237 DOI: 10.1038/S41591-019-0663-4 |
0.6 |
|
| 2019 |
Tett A, Huang KD, Asnicar F, Fehlner-Peach H, Pasolli E, Karcher N, Armanini F, Manghi P, Bonham K, Zolfo M, De Filippis F, Magnabosco C, Bonneau R, Lusingu J, Amuasi J, ... ... Segata N, et al. The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations. Cell Host & Microbe. PMID 31607556 DOI: 10.1016/J.Chom.2019.08.018 |
0.542 |
|
| 2019 |
Segata N. No bacteria found in healthy placentas. Nature. 572: 317-318. PMID 31406307 DOI: 10.1038/D41586-019-02262-8 |
0.333 |
|
| 2019 |
Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F, Bai Y, Bisanz JE, Bittinger K, Brejnrod A, Brislawn CJ, ... ... Segata N, et al. Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology. PMID 31399723 DOI: 10.1038/S41587-019-0252-6 |
0.468 |
|
| 2019 |
McBain AJ, O'Neill CA, Amezquita A, Price LJ, Faust K, Tett A, Segata N, Swann JR, Smith AM, Murphy B, Hoptroff M, James G, Reddy Y, Dasgupta A, Ross T, et al. Consumer Safety Considerations of Skin and Oral Microbiome Perturbation. Clinical Microbiology Reviews. 32. PMID 31366612 DOI: 10.1128/Cmr.00051-19 |
0.318 |
|
| 2019 |
Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, Alexander H, Alm EJ, Arumugam M, Asnicar F, Bai Y, Bisanz JE, Bittinger K, Brejnrod A, Brislawn CJ, ... ... Segata N, et al. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology. PMID 31341288 DOI: 10.1038/S41587-019-0209-9 |
0.447 |
|
| 2019 |
Thomas AM, Segata N. Multiple levels of the unknown in microbiome research. Bmc Biology. 17: 48. PMID 31189463 DOI: 10.1186/S12915-019-0667-Z |
0.378 |
|
| 2019 |
Renson A, Jones HE, Beghini F, Segata N, Zolnik CP, Usyk M, Moody TU, Thorpe L, Burk R, Waldron L, Dowd JB. Sociodemographic variation in the oral microbiome. Annals of Epidemiology. PMID 31151886 DOI: 10.1016/J.Annepidem.2019.03.006 |
0.602 |
|
| 2019 |
Beghini F, Renson A, Zolnik CP, Geistlinger L, Usyk M, Moody TU, Thorpe L, Dowd JB, Burk R, Segata N, Jones HE, Waldron L. Tobacco exposure associated with oral microbiota oxygen utilization in the New York City Health and Nutrition Examination Study. Annals of Epidemiology. PMID 31076212 DOI: 10.1016/J.Annepidem.2019.03.005 |
0.578 |
|
| 2019 |
Thomas AM, Manghi P, Asnicar F, Pasolli E, Armanini F, Zolfo M, Beghini F, Manara S, Karcher N, Pozzi C, Gandini S, Serrano D, Tarallo S, Francavilla A, Gallo G, ... ... Segata N, et al. Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation. Nature Medicine. PMID 30936548 DOI: 10.1038/S41591-019-0405-7 |
0.641 |
|
| 2019 |
Wirbel J, Pyl PT, Kartal E, Zych K, Kashani A, Milanese A, Fleck JS, Voigt AY, Palleja A, Ponnudurai R, Sunagawa S, Coelho LP, Schrotz-King P, Vogtmann E, Habermann N, ... ... Segata N, et al. Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer. Nature Medicine. PMID 30936547 DOI: 10.1038/S41591-019-0406-6 |
0.641 |
|
| 2019 |
De Filippis F, Pasolli E, Tett A, Tarallo S, Naccarati A, De Angelis M, Neviani E, Cocolin L, Gobbetti M, Segata N, Ercolini D. Distinct Genetic and Functional Traits of Human Intestinal Prevotella copri Strains Are Associated with Different Habitual Diets. Cell Host & Microbe. PMID 30799264 DOI: 10.1016/J.Chom.2019.01.004 |
0.35 |
|
| 2019 |
Waldron L, Schiffer L, Azhar R, Ramos M, Geistlinger L, Segata N. Improving Accessibility of the Human Microbiome Project Data Through Integration With R/Bioconductor. American Journal of Epidemiology. PMID 30689687 DOI: 10.1093/Aje/Kwz008 |
0.585 |
|
| 2019 |
Pedron R, Esposito A, Bianconi I, Pasolli E, Tett A, Asnicar F, Cristofolini M, Segata N, Jousson O. Genomic and metagenomic insights into the microbial community of a thermal spring. Microbiome. 7: 8. PMID 30674352 DOI: 10.1186/S40168-019-0625-6 |
0.339 |
|
| 2019 |
Pasolli E, Asnicar F, Manara S, Zolfo M, Karcher N, Armanini F, Beghini F, Manghi P, Tett A, Ghensi P, Collado MC, Rice BL, DuLong C, Morgan XC, Golden CD, ... ... Segata N, et al. Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. Cell. 176: 649-662.e20. PMID 30661755 DOI: 10.1016/J.Cell.2019.01.001 |
0.588 |
|
| 2019 |
Schiffer L, Azhar R, Shepherd L, Ramos M, Geistlinger L, Huttenhower C, Dowd JB, Segata N, Waldron L. HMP16SData: Efficient Access to the Human Microbiome Project through Bioconductor. American Journal of Epidemiology. PMID 30649166 DOI: 10.1093/Aje/Kwz006 |
0.689 |
|
| 2018 |
Manara S, Pasolli E, Dolce D, Ravenni N, Campana S, Armanini F, Asnicar F, Mengoni A, Galli L, Montagnani C, Venturini E, Rota-Stabelli O, Grandi G, Taccetti G, Segata N. Whole-genome epidemiology, characterisation, and phylogenetic reconstruction of Staphylococcus aureus strains in a paediatric hospital. Genome Medicine. 10: 82. PMID 30424799 DOI: 10.1186/S13073-018-0593-7 |
0.314 |
|
| 2018 |
Franzosa EA, McIver LJ, Rahnavard G, Thompson LR, Schirmer M, Weingart G, Lipson KS, Knight R, Caporaso JG, Segata N, Huttenhower C. Species-level functional profiling of metagenomes and metatranscriptomes. Nature Methods. 15: 962-968. PMID 30377376 DOI: 10.1038/S41592-018-0176-Y |
0.589 |
|
| 2018 |
Yassour M, Jason E, Hogstrom LJ, Arthur TD, Tripathi S, Siljander H, Selvenius J, Oikarinen S, Hyöty H, Virtanen SM, Ilonen J, Ferretti P, Pasolli E, Tett A, Asnicar F, ... Segata N, et al. Strain-Level Analysis of Mother-to-Child Bacterial Transmission during the First Few Months of Life. Cell Host & Microbe. 24: 146-154.e4. PMID 30001517 DOI: 10.1016/J.Chom.2018.06.007 |
0.496 |
|
| 2018 |
Ferretti P, Pasolli E, Tett A, Asnicar F, Gorfer V, Fedi S, Armanini F, Truong DT, Manara S, Zolfo M, Beghini F, Bertorelli R, De Sanctis V, Bariletti I, Canto R, ... ... Segata N, et al. Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome. Cell Host & Microbe. 24: 133-145.e5. PMID 30001516 DOI: 10.1016/J.Chom.2018.06.005 |
0.48 |
|
| 2018 |
Dassi E, Ferretti P, Covello G, Bertorelli R, Denti MA, De Sanctis V, Tett A, Segata N. The short-term impact of probiotic consumption on the oral cavity microbiome. Scientific Reports. 8: 10476. PMID 29992994 DOI: 10.1038/S41598-018-28491-X |
0.391 |
|
| 2018 |
Zolfo M, Asnicar F, Manghi P, Pasolli E, Tett A, Segata N. Profiling microbial strains in urban environments using metagenomic sequencing data. Biology Direct. 13: 9. PMID 29743119 DOI: 10.1186/S13062-018-0211-Z |
0.397 |
|
| 2018 |
Pinto F, Tett A, Armanini F, Asnicar F, Boscaini A, Pasolli E, Zolfo M, Donati C, Salmaso N, Segata N. Draft Genome Sequences of Novel,, andSpecies Strains from a Freshwater Ecosystem. Genome Announcements. 6. PMID 29437085 DOI: 10.1128/Genomea.00009-18 |
0.338 |
|
| 2017 |
McIver LJ, Abu-Ali G, Franzosa EA, Schwager R, Morgan XC, Waldron L, Segata N, Huttenhower C. bioBakery: A meta'omic analysis environment. Bioinformatics (Oxford, England). PMID 29194469 DOI: 10.1093/Bioinformatics/Btx754 |
0.704 |
|
| 2017 |
Pinto F, Tett A, Armanini F, Asnicar F, Boscaini A, Pasolli E, Zolfo M, Donati C, Salmaso N, Segata N. Draft Genome Sequence of the Planktic Cyanobacterium Tychonema bourrellyi, Isolated from Alpine Lentic Freshwater. Genome Announcements. 5. PMID 29167244 DOI: 10.1128/Genomea.01294-17 |
0.335 |
|
| 2017 |
Tosi L, Sridhara V, Yang Y, Guan D, Shpilker P, Segata N, Larman HB, Parekkadan B. Long-adapter single-strand oligonucleotide probes for the massively multiplexed cloning of kilobase genome regions. Nature Biomedical Engineering. 1. PMID 29152409 DOI: 10.1038/S41551-017-0092 |
0.313 |
|
| 2017 |
Pasolli E, Schiffer L, Manghi P, Renson A, Obenchain V, Truong DT, Beghini F, Malik F, Ramos M, Dowd JB, Huttenhower C, Morgan M, Segata N, Waldron L. Accessible, curated metagenomic data through ExperimentHub. Nature Methods. 14: 1023-1024. PMID 29088129 DOI: 10.1038/Nmeth.4468 |
0.662 |
|
| 2017 |
Tortoli E, Fedrizzi T, Meehan CJ, Trovato A, Grottola A, Giacobazzi E, Serpini GF, Tagliazucchi S, Fabio A, Bettua C, Bertorelli R, Frascaro F, De Sanctis V, Pecorari M, Jousson O, ... Segata N, et al. The new phylogeny of the genus Mycobacterium: The old and the news. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. PMID 29030295 DOI: 10.1016/J.Meegid.2017.10.013 |
0.355 |
|
| 2017 |
Quince C, Walker AW, Simpson JT, Loman NJ, Segata N. Shotgun metagenomics, from sampling to analysis. Nature Biotechnology. 35: 833-844. PMID 28898207 DOI: 10.1038/Nbt.3935 |
0.439 |
|
| 2017 |
Beghini F, Pasolli E, Truong TD, Putignani L, Cacciò SM, Segata N. Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome. The Isme Journal. PMID 28837129 DOI: 10.1038/Ismej.2017.139 |
0.467 |
|
| 2017 |
Kissling WD, Ahumada JA, Bowser A, Fernandez M, Fernández N, García EA, Guralnick RP, Isaac NJB, Kelling S, Los W, McRae L, Mihoub JB, Obst M, Santamaria M, Skidmore AK, ... ... Segata N, et al. Building essential biodiversity variables (EBVs) of species distribution and abundance at a global scale. Biological Reviews of the Cambridge Philosophical Society. PMID 28766908 DOI: 10.1111/Brv.12359 |
0.338 |
|
| 2017 |
Bacci G, Mengoni A, Fiscarelli E, Segata N, Taccetti G, Dolce D, Paganin P, Morelli P, Tuccio V, De Alessandri A, Lucidi V, Bevivino A. A Different Microbiome Gene Repertoire in the Airways of Cystic Fibrosis Patients with Severe Lung Disease. International Journal of Molecular Sciences. 18. PMID 28758937 DOI: 10.3390/Ijms18081654 |
0.326 |
|
| 2017 |
Duranti S, Lugli GA, Mancabelli L, Armanini F, Turroni F, James K, Ferretti P, Gorfer V, Ferrario C, Milani C, Mangifesta M, Anzalone R, Zolfo M, Viappiani A, Pasolli E, ... ... Segata N, et al. Maternal inheritance of bifidobacterial communities and bifidophages in infants through vertical transmission. Microbiome. 5: 66. PMID 28651630 DOI: 10.1186/S40168-017-0282-6 |
0.31 |
|
| 2017 |
Fedrizzi T, Meehan CJ, Grottola A, Giacobazzi E, Fregni Serpini G, Tagliazucchi S, Fabio A, Bettua C, Bertorelli R, De Sanctis V, Rumpianesi F, Pecorari M, Jousson O, Tortoli E, Segata N. Genomic characterization of Nontuberculous Mycobacteria. Scientific Reports. 7: 45258. PMID 28345639 DOI: 10.1038/Srep45258 |
0.37 |
|
| 2017 |
Truong DT, Tett A, Pasolli E, Huttenhower C, Segata N. Microbial strain-level population structure and genetic diversity from metagenomes. Genome Research. PMID 28167665 DOI: 10.1101/Gr.216242.116 |
0.552 |
|
| 2016 |
Zolfo M, Tett A, Jousson O, Donati C, Segata N. MetaMLST: multi-locus strain-level bacterial typing from metagenomic samples. Nucleic Acids Research. PMID 27651451 DOI: 10.1093/Nar/Gkw837 |
0.399 |
|
| 2016 |
Ferretti P, Farina S, Cristofolini M, Girolomoni G, Tett A, Segata N. Experimental metagenomics and ribosomal profiling of the human skin microbiome. Experimental Dermatology. PMID 27623553 DOI: 10.1111/Exd.13210 |
0.353 |
|
| 2016 |
Donati C, Zolfo M, Albanese D, Tin Truong D, Asnicar F, Iebba V, Cavalieri D, Jousson O, De Filippo C, Huttenhower C, Segata N. Uncovering oral Neisseria tropism and persistence using metagenomic sequencing. Nature Microbiology. 1: 16070. PMID 27572971 DOI: 10.1038/Nmicrobiol.2016.70 |
0.568 |
|
| 2016 |
Pasolli E, Truong DT, Malik F, Waldron L, Segata N. Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights. Plos Computational Biology. 12: e1004977. PMID 27400279 DOI: 10.1371/Journal.Pcbi.1004977 |
0.648 |
|
| 2016 |
Segata N, Baldini F, Pompon J, Garrett WS, Truong DT, Dabiré RK, Diabaté A, Levashina EA, Catteruccia F. The reproductive tracts of two malaria vectors are populated by a core microbiome and by gender- and swarm-enriched microbial biomarkers. Scientific Reports. 6: 24207. PMID 27086581 DOI: 10.1038/Srep24207 |
0.329 |
|
| 2016 |
Scholz M, Ward DV, Pasolli E, Tolio T, Zolfo M, Asnicar F, Truong DT, Tett A, Morrow AL, Segata N. Strain-level microbial epidemiology and population genomics from shotgun metagenomics. Nature Methods. PMID 26999001 DOI: 10.1038/Nmeth.3802 |
0.367 |
|
| 2016 |
Ward DV, Scholz M, Zolfo M, Taft DH, Schibler KR, Tett A, Segata N, Morrow AL. Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants. Cell Reports. PMID 26997279 DOI: 10.1016/J.Celrep.2016.03.015 |
0.344 |
|
| 2015 |
Kaminski J, Gibson MK, Franzosa EA, Segata N, Dantas G, Huttenhower C. High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED. Plos Computational Biology. 11: e1004557. PMID 26682918 DOI: 10.1371/Journal.Pcbi.1004557 |
0.551 |
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| 2015 |
Milani C, Andrea Lugli G, Duranti S, Turroni F, Mancabelli L, Ferrario C, Mangifesta M, Hevia A, Viappiani A, Scholz M, Arioli S, Sanchez B, Lane J, Ward DV, Hickey R, ... ... Segata N, et al. Bifidobacteria exhibit social behavior through carbohydrate resource sharing in the gut. Scientific Reports. 5: 15782. PMID 26506949 DOI: 10.1038/Srep15782 |
0.425 |
|
| 2015 |
Truong DT, Franzosa EA, Tickle TL, Scholz M, Weingart G, Pasolli E, Tett A, Huttenhower C, Segata N. MetaPhlAn2 for enhanced metagenomic taxonomic profiling. Nature Methods. 12: 902-3. PMID 26418763 DOI: 10.1038/Nmeth.3589 |
0.51 |
|
| 2015 |
Milani C, Mancabelli L, Lugli GA, Duranti S, Turroni F, Ferrario C, Mangifesta M, Viappiani A, Ferretti P, Gorfer V, Tett A, Segata N, van Sinderen D, Ventura M. Exploring Vertical Transmission of Bifidobacteria from Mother to Child. Applied and Environmental Microbiology. 81: 7078-87. PMID 26231653 DOI: 10.1128/Aem.02037-15 |
0.33 |
|
| 2015 |
Segata N. Gut Microbiome: Westernization and the Disappearance of Intestinal Diversity. Current Biology : Cb. 25: R611-3. PMID 26196489 DOI: 10.1016/J.Cub.2015.05.040 |
0.367 |
|
| 2015 |
Asnicar F, Weingart G, Tickle TL, Huttenhower C, Segata N. Compact graphical representation of phylogenetic data and metadata with GraPhlAn. Peerj. 3: e1029. PMID 26157614 DOI: 10.7717/Peerj.1029 |
0.597 |
|
| 2015 |
Truong DT, Franzosa EA, Tickle TL, Scholz M, Weingart G, Pasolli E, Tett A, Huttenhower C, Segata N. Erratum: MetaPhlAn2 for enhanced metagenomic taxonomic profiling Nature Methods. 13: 101-101. DOI: 10.1038/Nmeth0116-101B |
0.46 |
|
| 2015 |
Tortoli E, Fedrizzi T, Pecorari M, Giacobazzi E, Sanctis VD, Bertorelli R, Grottola A, Fabio A, Ferretti P, Leva FD, Serpini GF, Tagliazucchi S, Rumpianesi F, Jousson O, Segata N. The new phylogenesis of the genus Mycobacterium The International Journal of Mycobacteriology. 4: 77. DOI: 10.1016/J.Ijmyco.2014.10.017 |
0.377 |
|
| 2014 |
Milani C, Lugli GA, Turroni F, Mancabelli L, Duranti S, Viappiani A, Mangifesta M, Segata N, van Sinderen D, Ventura M. Evaluation of bifidobacterial community composition in the human gut by means of a targeted amplicon sequencing (ITS) protocol. Fems Microbiology Ecology. 90: 493-503. PMID 25117972 DOI: 10.1111/1574-6941.12410 |
0.436 |
|
| 2014 |
Baldini F, Segata N, Pompon J, Marcenac P, Shaw WR, Dabiré RK, Diabaté A, Levashina EA, Catteruccia F. Evidence of natural Wolbachia infections in field populations of Anopheles gambiae. Nature Communications. 5: 3985. PMID 24905191 DOI: 10.1038/Ncomms4985 |
0.312 |
|
| 2014 |
Franzosa EA, Morgan XC, Segata N, Waldron L, Reyes J, Earl AM, Giannoukos G, Boylan MR, Ciulla D, Gevers D, Izard J, Garrett WS, Chan AT, Huttenhower C. Relating the metatranscriptome and metagenome of the human gut. Proceedings of the National Academy of Sciences of the United States of America. 111: E2329-38. PMID 24843156 DOI: 10.1073/Pnas.1319284111 |
0.727 |
|
| 2014 |
Dassi E, Ballarini A, Covello G, Quattrone A, Jousson O, De Sanctis V, Bertorelli R, Denti MA, Segata N. Enhanced microbial diversity in the saliva microbiome induced by short-term probiotic intake revealed by 16S rRNA sequencing on the IonTorrent PGM platform. Journal of Biotechnology. 190: 30-9. PMID 24670254 DOI: 10.1016/J.Jbiotec.2014.03.024 |
0.453 |
|
| 2014 |
Rooks MG, Veiga P, Wardwell-Scott LH, Tickle T, Segata N, Michaud M, Gallini CA, Beal C, van Hylckama-Vlieg JE, Ballal SA, Morgan XC, Glickman JN, Gevers D, Huttenhower C, Garrett WS. Gut microbiome composition and function in experimental colitis during active disease and treatment-induced remission. The Isme Journal. 8: 1403-17. PMID 24500617 DOI: 10.1038/Ismej.2014.3 |
0.541 |
|
| 2014 |
Huang K, Brady A, Mahurkar A, White O, Gevers D, Huttenhower C, Segata N. MetaRef: a pan-genomic database for comparative and community microbial genomics. Nucleic Acids Research. 42: D617-24. PMID 24203705 DOI: 10.1093/Nar/Gkt1078 |
0.6 |
|
| 2013 |
Scher JU, Sczesnak A, Longman RS, Segata N, Ubeda C, Bielski C, Rostron T, Cerundolo V, Pamer EG, Abramson SB, Huttenhower C, Littman DR. Expansion of intestinal Prevotella copri correlates with enhanced susceptibility to arthritis. Elife. 2: e01202. PMID 24192039 DOI: 10.7554/Elife.01202 |
0.528 |
|
| 2013 |
Tickle TL, Segata N, Waldron L, Weingart U, Huttenhower C. Two-stage microbial community experimental design. The Isme Journal. 7: 2330-9. PMID 23949665 DOI: 10.1038/Ismej.2013.139 |
0.703 |
|
| 2013 |
Segata N, Börnigen D, Morgan XC, Huttenhower C. PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. Nature Communications. 4: 2304. PMID 23942190 DOI: 10.1038/Ncomms3304 |
0.557 |
|
| 2013 |
Segata N, Ballarini A, Jousson O. Genome Sequence of Pseudomonas aeruginosa PA45, a Highly Virulent Strain Isolated from a Patient with Bloodstream Infection. Genome Announcements. 1. PMID 23704188 DOI: 10.1128/Genomea.00289-13 |
0.357 |
|
| 2013 |
Segata N, Boernigen D, Tickle TL, Morgan XC, Garrett WS, Huttenhower C. Computational meta'omics for microbial community studies. Molecular Systems Biology. 9: 666. PMID 23670539 DOI: 10.1038/Msb.2013.22 |
0.594 |
|
| 2013 |
Ballarini A, Segata N, Huttenhower C, Jousson O. Simultaneous quantification of multiple bacteria by the BactoChip microarray designed to target species-specific marker genes. Plos One. 8: e55764. PMID 23409037 DOI: 10.1371/Journal.Pone.0055764 |
0.585 |
|
| 2013 |
Koren O, Knights D, Gonzalez A, Waldron L, Segata N, Knight R, Huttenhower C, Ley RE. A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets. Plos Computational Biology. 9: e1002863. PMID 23326225 DOI: 10.1371/Journal.Pcbi.1002863 |
0.707 |
|
| 2013 |
Morgan XC, Segata N, Huttenhower C. Biodiversity and functional genomics in the human microbiome. Trends in Genetics : Tig. 29: 51-8. PMID 23140990 DOI: 10.1016/J.Tig.2012.09.005 |
0.573 |
|
| 2013 |
Scher JU, Sczesnak A, Longman RS, Segata N, Ubeda C, Bielski C, Rostron T, Cerundolo V, Pamer EG, Abramson SB, Huttenhower C, Littman DR. Author response: Expansion of intestinal Prevotella copri correlates with enhanced susceptibility to arthritis Elife. DOI: 10.7554/Elife.01202.028 |
0.47 |
|
| 2012 |
Waldron L, Ogino S, Hoshida Y, Shima K, McCart Reed AE, Simpson PT, Baba Y, Nosho K, Segata N, Vargas AC, Cummings MC, Lakhani SR, Kirkner GJ, Giovannucci E, Quackenbush J, et al. Expression profiling of archival tumors for long-term health studies. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 18: 6136-46. PMID 23136189 DOI: 10.1158/1078-0432.Ccr-12-1915 |
0.658 |
|
| 2012 |
Faust K, Sathirapongsasuti JF, Izard J, Segata N, Gevers D, Raes J, Huttenhower C. Microbial co-occurrence relationships in the human microbiome. Plos Computational Biology. 8: e1002606. PMID 22807668 DOI: 10.1371/Journal.Pcbi.1002606 |
0.596 |
|
| 2012 |
Aagaard K, Riehle K, Ma J, Segata N, Mistretta TA, Coarfa C, Raza S, Rosenbaum S, Van den Veyver I, Milosavljevic A, Gevers D, Huttenhower C, Petrosino J, Versalovic J. A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy. Plos One. 7: e36466. PMID 22719832 DOI: 10.1371/Journal.Pone.0036466 |
0.588 |
|
| 2012 |
Abubucker S, Segata N, Goll J, Schubert AM, Izard J, Cantarel BL, Rodriguez-Mueller B, Zucker J, Thiagarajan M, Henrissat B, White O, Kelley ST, Methé B, Schloss PD, Gevers D, et al. Metabolic reconstruction for metagenomic data and its application to the human microbiome. Plos Computational Biology. 8: e1002358. PMID 22719234 DOI: 10.1371/Journal.Pcbi.1002358 |
0.61 |
|
| 2012 |
Segata N, Haake SK, Mannon P, Lemon KP, Waldron L, Gevers D, Huttenhower C, Izard J. Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples. Genome Biology. 13: R42. PMID 22698087 DOI: 10.1186/Gb-2012-13-6-R42 |
0.703 |
|
| 2012 |
Segata N, Waldron L, Ballarini A, Narasimhan V, Jousson O, Huttenhower C. Metagenomic microbial community profiling using unique clade-specific marker genes. Nature Methods. 9: 811-4. PMID 22688413 DOI: 10.1038/Nmeth.2066 |
0.738 |
|
| 2012 |
Janjua HA, Segata N, Bernabò P, Tamburini S, Ellen A, Jousson O. Clinical populations of Pseudomonas aeruginosa isolated from acute infections show a wide virulence range partially correlated with population structure and virulence gene expression. Microbiology (Reading, England). 158: 2089-98. PMID 22556359 DOI: 10.1099/Mic.0.056689-0 |
0.318 |
|
| 2011 |
Segata N, Huttenhower C. Toward an efficient method of identifying core genes for evolutionary and functional microbial phylogenies. Plos One. 6: e24704. PMID 21931822 DOI: 10.1371/Journal.Pone.0024704 |
0.565 |
|
| 2011 |
Sczesnak A, Segata N, Qin X, Gevers D, Petrosino JF, Huttenhower C, Littman DR, Ivanov II. The genome of th17 cell-inducing segmented filamentous bacteria reveals extensive auxotrophy and adaptations to the intestinal environment. Cell Host & Microbe. 10: 260-72. PMID 21925113 DOI: 10.1016/J.Chom.2011.08.005 |
0.577 |
|
| 2011 |
Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett WS, Huttenhower C. Metagenomic biomarker discovery and explanation. Genome Biology. 12: R60. PMID 21702898 DOI: 10.7490/F1000Research.1089522.1 |
0.692 |
|
| 2011 |
Ballal SA, Gallini CA, Segata N, Huttenhower C, Garrett WS. Host and gut microbiota symbiotic factors: lessons from inflammatory bowel disease and successful symbionts. Cellular Microbiology. 13: 508-17. PMID 21314883 DOI: 10.1111/J.1462-5822.2011.01572.X |
0.574 |
|
| 2011 |
Segata N, Abubucker S, Goll J, Schubert AM, Izard J, Cantarel BL, Rodriguez-Mueller B, Waldron L, Zucker J, Thiagarajan M, Henrissat B, White O, Kelley ST, Methé B, Schloss PD, et al. Microbial community function and biomarker discovery in the human microbiome Genome Biology. 12: P47. DOI: 10.1186/Gb-2011-12-S1-P47 |
0.63 |
|
| 2008 |
Segata N, Blanzieri E, Priami C. Towards the integration of computational systems biology and high-throughput data: supporting differential analysis of microarray gene expression data. Journal of Integrative Bioinformatics. 5. PMID 20134054 DOI: 10.2390/Biecoll-Jib-2008-87 |
0.307 |
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