TY - JOUR AU - Zhu, Zifan AU - Ren, Jie AU - Michail, Sonia AU - Sun, Fengzhu PY - 2019 DA - 2019/08/06 TI - MicroPro: using metagenomic unmapped reads to provide insights into human microbiota and disease associations JO - Genome Biology SP - 154 VL - 20 IS - 1 AB - We develop a metagenomic data analysis pipeline, MicroPro, that takes into account all reads from known and unknown microbial organisms and associates viruses with complex diseases. We utilize MicroPro to analyze four metagenomic datasets relating to colorectal cancer, type 2 diabetes, and liver cirrhosis and show that including reads from unknown organisms significantly increases the prediction accuracy of the disease status for three of the four datasets. We identify new microbial organisms associated with these diseases and show viruses play important prediction roles in colorectal cancer and liver cirrhosis, but not in type 2 diabetes. MicroPro is freely available at https://github.com/zifanzhu/MicroPro. SN - 1474-760X UR - https://doi.org/10.1186/s13059-019-1773-5 DO - 10.1186/s13059-019-1773-5 ID - Zhu2019 ER -