Publications

Academic publications

Keegan Korthauer*, Patrick K Kimes*, Claire Duvallet^, Alejandro Reyes^, Ayshwarya Subramanian^, Mingxiang Teng, Chinmay Shukla, Eric J Alm, and Stephanie C Hicks. “A practical guide to methods controlling false discoveries in computational biology.” bioRxiv (2018) doi: 10.1101/458786

Thomas Gurry, HST Microbiome Consortium, Sean M Gibbons, Sean M Kearney, Ashwin Ananthakrishnan, Xiaofang Jiang, Claire Duvallet, Zain Kassam, and Eric J Alm. “Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort.” Scientific Reports (2018) 8(1): 12699. doi: 10.1038/s41598-018-30783-1

Sean M. Gibbons, Claire Duvallet, and Eric J. Alm. “Correcting for batch effects in case-control microbiome studies.” PLoS Computational Biology (2018) 14(4): e1006102. doi: 10.1371/journal.pone.0176335

Claire Duvallet. “Meta-analysis generates and prioritizes hypotheses for translational microbiome research.” Microbial Biotechnology (2018). doi: 10.1111/1751-7915.13047

Claire Duvallet, Sean M. Gibbons, Thomas Gurry, Rafael A. Irizarry, and Eric J. Alm. “Meta-analysis of gut microbiome studies identifies disease-specific and shared responses.” Nature Communications (2017). doi: 10.1038/s41467-017-01973-8. Associated github: cduvallet/microbiomeHD and data: zenodo record 840333.

Scott W. Olesen, Claire Duvallet, and Eric J. Alm. “dbOTU3: A new implementation of distribution-based OTU calling.” PloS ONE 12, no. 5 (2017): e0176335. doi: 10.1371/journal.pone.0176335

Non-peer reviewed academic content

[Blog post] Claire Duvallet. “Beyond dysbiosis: disease-specific and shared microbiome responses to disease.Nature Microbiology Community Forum. December 2017.

[Dataset] Claire Duvallet, Sean M. Gibbons, Thomas Gurry, Rafael A. Irizarry, and Eric J. Alm. (2017). MicrobiomeHD: the human gut microbiome in health and disease. Zenodo. doi: 10.5281/zenodo.797943

Other

[Resource] Claire Duvallet and Monika Avello. “Graduate student support resources flowchart.” I and another student on iREFS created this flowchart to help graduate students find support at MIT.

[Blog posts] Claire Duvallet. During my Luce year (2014-2015), I wrote some posts for the Engineering World Health blog: