Common Contaminants in Next-Generation Sequencing That Hinder Discovery of Low-Abundance Microbes

Marni Stott-Miller, Jonathan L. Wright, Janet L. Stanford, MSMB gene variant alters the association between prostate cancer and number of sexual partners. The Prostate. ,vol. 73, pp. 1803- 1809 ,(2013) , 10.1002/PROS.22719

Siobhan Sutcliffe, Angelo M. De Marzo, Karen S. Sfanos, Martin Laurence, MSMB variation and prostate cancer risk: Clues towards a possible fungal etiology The Prostate. ,vol. 74, pp. 569- 578 ,(2014) , 10.1002/PROS.22778

Aleksandar D Kostic, Akinyemi I Ojesina, Chandra Sekhar Pedamallu, Joonil Jung, Roel G W Verhaak, Gad Getz, Matthew Meyerson, PathSeq: software to identify or discover microbes by deep sequencing of human tissue Nature Biotechnology. ,vol. 29, pp. 393- 396 ,(2011) , 10.1038/NBT.1868

Robert Schmieder, Robert Edwards, Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets PLoS ONE. ,vol. 6, pp. e17288- ,(2011) , 10.1371/JOURNAL.PONE.0017288

Keisha Findley, Julia Oh, Joy Yang, Sean Conlan, Clayton Deming, Jennifer A Meyer, Deborah Schoenfeld, Effie Nomicos, Morgan Park, Heidi H Kong, Julia A Segre, None, Topographic diversity of fungal and bacterial communities in human skin Nature. ,vol. 498, pp. 367- 370 ,(2013) , 10.1038/NATURE12171

H. Feng, M. Shuda, Y. Chang, P. S. Moore, Clonal integration of a polyomavirus in human Merkel cell carcinoma. Science. ,vol. 319, pp. 1096- 1100 ,(2008) , 10.1126/SCIENCE.1152586

Christopher G Duncan, Rebecca J Leary, Jimmy Cheng-Ho Lin, Jordan Cummins, Chunhui Di, Carl F Schaefer, Tian-Li Wang, Gregory J Riggins, Jennifer Edwards, Darell Bigner, Levy Kopelovich, Bert Vogelstein, Kenneth W Kinzler, Victor E Velculescu, Hai Yan, None, Identification of microbial DNA in human cancer. BMC Medical Genomics. ,vol. 2, pp. 22- 22 ,(2009) , 10.1186/1755-8794-2-22

Riccardo Percudani, A Microbial Metagenome (Leucobacter sp.) in Caenorhabditis Whole Genome Sequences Bioinformatics and Biology Insights. ,vol. 7, pp. 55- 72 ,(2013) , 10.4137/BBI.S11064

Shyh-Ching Lo, Guo-Chiuan Hung, Bingjie Li, Haiyan Lei, Tianwei Li, Kenjiro Nagamine, Jing Zhang, Shien Tsai, Richard Bryant, Isolation of Novel Afipia septicemium and Identification of Previously Unknown Bacteria Bradyrhizobium sp. OHSU_III from Blood of Patients with Poorly Defined Illnesses PLoS ONE. ,vol. 8, pp. e76142- ,(2013) , 10.1371/JOURNAL.PONE.0076142

Goo Jun, Matthew Flickinger, Kurt N. Hetrick, Jane M. Romm, Kimberly F. Doheny, Gonçalo R. Abecasis, Michael Boehnke, Hyun Min Kang, Detecting and Estimating Contamination of Human DNA Samples in Sequencing and Array-Based Genotype Data American Journal of Human Genetics. ,vol. 91, pp. 839- 848 ,(2012) , 10.1016/J.AJHG.2012.09.004