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Research: Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma
- Mauro Castellarin,
- René L. Warren,
- J. Douglas Freeman,
- Lisa Dreolini,
- Martin Krzywinski,
- Jaclyn Strauss,
- Rebecca Barnes,
- Peter Watson,
- Emma Allen-Vercoe,
- Richard A. Moore,
- and Robert A. Holt
Genome Res. February 2012 22: 299-306; Published in Advance October 18, 2011, doi:10.1101/gr.126516.111
...–115. ↵ Kostic AD, Gevers D, Pedamallu CS, Michaud M, Duke F, Earl AM, Ojesina AI, Jung J, Bass AJ, Tabernero J Kostic AD, Gevers D, Pedamallu CS, Michaud M, Duke F, Earl AM, Ojesina AI, Jung J, Bass AJ, Tabernero J, et al. 2012. Genomic analysis identifies association of Fusobacterium with colorectal carcinoma...
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Resource: Global compositional and functional states of the human gut microbiome in health and disease
- Sunjae Lee,
- Theo Portlock,
- Emmanuelle Le Chatelier,
- Fernando Garcia-Guevara,
- Frederick Clasen,
- Florian Plaza Oñate,
- Nicolas Pons,
- Neelu Begum,
- Azadeh Harzandi,
- Ceri Proffitt,
- Dorines Rosario,
- Stefania Vaga,
- Junseok Park,
- Kalle von Feilitzen,
- Fredric Johansson,
- Cheng Zhang,
- Lindsey A. Edwards,
- Vincent Lombard,
- Franck Gauthier,
- Claire J. Steves,
- David Gomez-Cabrero,
- Bernard Henrissat,
- Doheon Lee,
- Lars Engstrand,
- Debbie L. Shawcross,
- Gordon Proctor,
- Mathieu Almeida,
- Jens Nielsen,
- Adil Mardinoglu,
- David L. Moyes,
- Stanislav Dusko Ehrlich,
- Mathias Uhlen,
- and Saeed Shoaie
Genome Res. June 2024 34: 967-978; Published in Advance July 22, 2024, doi:10.1101/gr.278637.123
...and statistical methods, we identified Fusobacterium nucleatum and Anaerostipes hadrus with the highest frequencies, enriched and depleted, respectively, across different disease cohorts. Distinct functional distributions were observed in the gut microbiomes of both westernized and nonwesternized populations...
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Commentary: An emerging toolkit for targeted cancer therapies
- Gordon B. Mills
Genome Res. February 2012 22: 177-182; doi:10.1101/gr.136044.111
..., Michaud M, Duke F, Earl AM, Ojesina AI, Jung J, Bass AJ, Tabernero J, et al. 2012. Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. Genome Res (this issue) doi: 10.1101/gr.126573.111. ↵ Liedtke C, Broglio K, Moulder S, Hsu L, Kau SW, Symmans WF, Albarracin C, Meric...
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Resource: A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples
- Samia N. Naccache,
- Scot Federman,
- Narayanan Veeraraghavan,
- Matei Zaharia,
- Deanna Lee,
- Erik Samayoa,
- Jerome Bouquet,
- Alexander L. Greninger,
- Ka-Cheung Luk,
- Barryett Enge,
- Debra A. Wadford,
- Sharon L. Messenger,
- Gillian L. Genrich,
- Kristen Pellegrino,
- Gilda Grard,
- Eric Leroy,
- Bradley S. Schneider,
- Joseph N. Fair,
- Miguel A. Martínez,
- Pavel Isa,
- John A. Crump,
- Joseph L. DeRisi,
- Taylor Sittler,
- John Hackett, Jr.,
- Steve Miller,
- and Charles Y. Chiu
Genome Res. July 2014 24: 1180-1192; Published in Advance June 4, 2014, doi:10.1101/gr.171934.113
...et al. 2013). In addition, SURPI was used to analyze publicly available data from a study that detected an increase in bacterial reads aligning to Fusobacterium nucleatum in association with colorectal tumors (Castellarin et al. 2012). As in the previous study, an overabundance of aligned reads...
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