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Fabio Cumbo
Fabio Cumbo
Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic
Verified email at ccf.org - Homepage
Title
Cited by
Cited by
Year
Bioconda: sustainable and comprehensive software distribution for the life sciences
B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ...
Nature methods 15 (7), 475, 2018
6042018
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0
F Asnicar, AM Thomas, F Beghini, C Mengoni, S Manara, P Manghi, ...
Nature communications 11 (1), 2500, 2020
2192020
Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome
E Pasolli, F De Filippis, IE Mauriello, F Cumbo, AM Walsh, J Leech, ...
Nature communications 11 (1), 2610, 2020
1412020
Intestinal Akkermansia muciniphila predicts clinical response to PD-1 blockade in patients with advanced non-small-cell lung cancer
L Derosa, B Routy, AM Thomas, V Iebba, G Zalcman, S Friard, J Mazieres, ...
Nature medicine 28 (2), 315-324, 2022
682022
A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity
D Wylensek, TCA Hitch, T Riedel, A Afrizal, N Kumar, E Wortmann, T Liu, ...
Nature communications 11 (1), 6389, 2020
552020
Microbial genomes from non-human primate gut metagenomes expand the primate-associated bacterial tree of life with over 1000 novel species
S Manara, F Asnicar, F Beghini, D Bazzani, F Cumbo, M Zolfo, E Nigro, ...
Genome biology 20 (1), 1-16, 2019
422019
GIANT: a cytoscape plugin for modular networks
F Cumbo, P Paci, D Santoni, L Di Paola, A Giuliani
PLoS One 9 (10), e105001, 2014
402014
Classification of large DNA methylation datasets for identifying cancer drivers
F Celli, F Cumbo, E Weitschek
Big data research 13, 21-28, 2018
392018
Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly
N Karcher, E Nigro, M Punčochář, A Blanco-Míguez, M Ciciani, P Manghi, ...
Genome Biology 22 (1), 209, 2021
382021
TCGA2BED: extracting, extending, integrating, and querying The Cancer Genome Atlas
F Cumbo, G Fiscon, S Ceri, M Masseroli, E Weitschek
BMC bioinformatics 18, 1-9, 2017
352017
Bioconda: Sustainable and comprehensive software distribution for the life sciences
R Dale, B Grüning, A Sjödin, J Rowe, BA Chapman, CH Tomkins-Tinch, ...
Nature Methods 15 (7), 475-476, 2018
342018
Genomic data integration: A case study on next generation sequencing of cancer
E Weitschek, F Cumbo, E Cappelli, G Felici
2016 27th International Workshop on Database and Expert Systems Applications …, 2016
112016
IWTomics: testing high-resolution sequence-based ‘Omics’ data at multiple locations and scales
MA Cremona, A Pini, F Cumbo, KD Makova, F Chiaromonte, S Vantini
Bioinformatics 34 (13), 2289-2291, 2018
82018
Commensal Bifidobacterium Strains Enhance the Efficacy of Neo-Epitope Based Cancer Vaccines
M Tomasi, M Dalsass, F Beghini, I Zanella, E Caproni, L Fantappič, ...
Vaccines 9 (11), 1356, 2021
72021
Investigating transcription factor synergism in humans
F Cumbo, D Vergni, D Santoni
https://academic.oup.com/dnaresearch/article/4562529/Investigating …, 2017
72017
OpenGDC: unifying, modeling, integrating cancer genomic data and clinical metadata
E Cappelli, F Cumbo, A Bernasconi, A Canakoglu, S Ceri, M Masseroli, ...
Applied Sciences 10 (18), 6367, 2020
62020
Classifying big DNA methylation data: a gene-oriented approach
E Weitschek, F Cumbo, E Cappelli, G Felici, P Bertolazzi
Database and Expert Systems Applications: DEXA 2018 International Workshops …, 2018
62018
Variability of strain engraftment and predictability of microbiome composition after fecal microbiota transplantation across different diseases
G Ianiro, M Punčochář, N Karcher, S Porcari, F Armanini, F Asnicar, ...
Nature Medicine 28 (9), 1913-1923, 2022
52022
Extending and improving metagenomic taxonomic profiling with uncharacterized species with MetaPhlAn 4
A Blanco-Miguez, F Beghini, F Cumbo, LJ McIver, KN Thompson, M Zolfo, ...
bioRxiv, 2022.08. 22.504593, 2022
52022
A brain-inspired hyperdimensional computing approach for classifying massive dna methylation data of cancer
F Cumbo, E Cappelli, E Weitschek
Algorithms 13 (9), 233, 2020
52020
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Articles 1–20