CHOP Microbiome Center Publications

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View a list of publications by researchers who used resources in the CHOP Microbiome Center. 

Clarke EL, Taylor LJ, Zhao C, Connell A, Lee JJ, Fett B, Bushman FD, Bittinger K.. Sunbeam: an extensible pipeline for analyzing metagenomic sequencing experiments. Microbiome. 2019 Jan 01; 7(1): 46. doi: 10.1186/s40168-019-0658-x. PMID: 3090211
Yardeni T, Tanes C, Bittinger K, Mattei LM, Schaefer P, Signh LN, Wu G, Murdock D, Wallace DC.. Host mitochondria influence gut microbiome diversity: A role for ROS. Sci Signal. 2019 Jan 01; 12(588). doi: 10.1126/scisignal.aaw3159. PMID: 31266851
Leiby JS, McCormick K, Sherrill-Mix S, Clarke El, Kessler LR, Hofstaedter CE, Roche AM, Mattei LM, Bittinger K, Elovitz MA, Leite R, Parry S, Bushman FD.. Lack of Detection of a Human Placenta Microbiome in Samples from Preterm and Term Deliveries. Microbiome. 2018 Jan 01; 6(1): 196. doi: 10.1186/s40168-018-0575-4. PMID: 30376898
Kim D, Hofstaedter CE, Zhao C, Mattei L, Tanes C, Clarke E, Lauder A, Sherrill-Mix S, Chehoud C, Kelsen J, Conrad M, Collman RG, Baldassano R, Bushman FD, Bittinger K. Optimizing methods and dodging pitfalls in microbiome research. Microbiome. 2017 Jan 01; 5(1) :52. doi: 10.1186/s40168-017-0267-5. PMID: 28476139
Tang A, Choi J, Kotzin J, Yang Y, Hong C, Hobson N, Girard R, Zeineddine H, Lightle R, Moore T, Cao Y, Shenkar R, Chen M, Mericko P, Yang J, Li L, Tanes C, Kobuley D, Vosa U, Whitehead K, Li D, Franke L, Hart B, Schwaninger M, Heano-Mejia, et al. Endothelial TLR4 and the microbiome drive cerebral cavernous malformations. Nature. 2017 Jan 01; 545(7654): 305-310. doi:10.1038/nature22075. PMID: 28489816