SOAP: short oligonucleotide alignment program von Li, Ruiqiang, Li, Yingrui, Kristiansen, Karsten, Wang, Jun

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Metagenome-wide association of gut microbiome features for schizophrenia von Zhu, Feng, Ju, Yanmei, Wang, Wei, Wang, Qi, Guo, Ruijin, Ma, Qingyan, Sun, Qiang, Fan, Yajuan, Xie, Yuying, Yang, Zai, Jie, Zhuye, Zhao, Binbin, Xiao, Liang, Yang, Lin, Zhang, Tao, Feng, Junqin, Guo, Liyang, He, Xiaoyan, Chen, Yunchun, Chen, Ce, Gao, Chengge, Xu, Xun, Yang, Huanming, Wang, Jian, Dang, Yonghui, Madsen, Lise, Brix, Susanne, Kristiansen, Karsten, Jia, Huijue, Ma, Xiancang

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Developmental trajectory of the healthy human gut microbiota during the first 5 years of life von Roswall, Josefine, Olsson, Lisa M., Kovatcheva-Datchary, Petia, Nilsson, Staffan, Tremaroli, Valentina, Simon, Marie-Christine, Kiilerich, Pia, Akrami, Rozita, Krämer, Manuela, Uhlén, Mathias, Gummesson, Anders, Kristiansen, Karsten, Dahlgren, Jovanna, Bäckhed, Fredrik

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SNP detection for massively parallel whole-genome resequencing von Li, Ruiqiang, Li, Yingrui, Fang, Xiaodong, Yang, Huanming, Wang, Jian, Kristiansen, Karsten, Wang, Jun

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1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses von Zou, Yuanqiang, Xue, Wenbin, Luo, Guangwen, Deng, Ziqing, Qin, Panpan, Guo, Ruijin, Sun, Haipeng, Xia, Yan, Liang, Suisha, Dai, Ying, Wan, Daiwei, Jiang, Rongrong, Su, Lili, Feng, Qiang, Jie, Zhuye, Guo, Tongkun, Xia, Zhongkui, Liu, Chuan, Yu, Jinghong, Lin, Yuxiang, Tang, Shanmei, Huo, Guicheng, Xu, Xun, Hou, Yong, Liu, Xin, Wang, Jian, Yang, Huanming, Kristiansen, Karsten, Li, Junhua, Jia, Huijue, Xiao, Liang

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SOAP2: an improved ultrafast tool for short read alignment von Li, Ruiqiang, Yu, Chang, Li, Yingrui, Lam, Tak-Wah, Yiu, Siu-Ming, Kristiansen, Karsten, Wang, Jun

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Transplantation of microbiota from drug-free patients with schizophrenia causes schizophrenia-like abnormal behaviors and dysregulated kynurenine metabolism in mice von Zhu, Feng, Guo, Ruijin, Wang, Wei, Ju, Yanmei, Wang, Qi, Ma, Qingyan, Sun, Qiang, Fan, Yajuan, Xie, Yuying, Yang, Zai, Jie, Zhuye, Zhao, Binbin, Xiao, Liang, Yang, Lin, Zhang, Tao, Liu, Bing, Guo, Liyang, He, Xiaoyan, Chen, Yunchun, Chen, Ce, Gao, Chengge, Xu, Xun, Yang, Huanming, Wang, Jian, Dang, Yonghui, Madsen, Lise, Brix, Susanne, Kristiansen, Karsten, Jia, Huijue, Ma, Xiancang

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Prevotella-to-Bacteroides ratio predicts body weight and fat loss success on 24-week diets varying in macronutrient composition and dietary fiber: results from a post-hoc analysis von Hjorth, Mads F., Blædel, Trine, Bendtsen, Line Q., Lorenzen, Janne K., Holm, Jacob B., Kiilerich, Pia, Roager, Henrik M., Kristiansen, Karsten, Larsen, Lesli H., Astrup, Arne

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The microbiota continuum along the female reproductive tract and its relation to uterine-related diseases von Chen, Chen, Song, Xiaolei, Wei, Weixia, Zhong, Huanzi, Dai, Juanjuan, Lan, Zhou, Li, Fei, Yu, Xinlei, Feng, Qiang, Wang, Zirong, Xie, Hailiang, Chen, Xiaomin, Zeng, Chunwei, Wen, Bo, Zeng, Liping, Du, Hui, Tang, Huiru, Xu, Changlu, Xia, Yan, Xia, Huihua, Yang, Huanming, Wang, Jian, Wang, Jun, Madsen, Lise, Brix, Susanne, Kristiansen, Karsten, Xu, Xun, Li, Junhua, Wu, Ruifang, Jia, Huijue

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Interplay between food and gut microbiota in health and disease von Danneskiold-Samsøe, Niels Banhos, Dias de Freitas Queiroz Barros, Helena, Santos, Rosangela, Bicas, Juliano Lemos, Cazarin, Cinthia Baú Betim, Madsen, Lise, Kristiansen, Karsten, Pastore, Glaucia Maria, Brix, Susanne, Maróstica Júnior, Mário Roberto

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Dynamics and Stabilization of the Human Gut Microbiome during the First Year of Life von Bäckhed, Fredrik, Roswall, Josefine, Peng, Yangqing, Feng, Qiang, Jia, Huijue, Kovatcheva-Datchary, Petia, Li, Yin, Xia, Yan, Xie, Hailiang, Zhong, Huanzi, Khan, Muhammad Tanweer, Zhang, Jianfeng, Li, Junhua, Xiao, Liang, Al-Aama, Jumana, Zhang, Dongya, Lee, Ying Shiuan, Kotowska, Dorota, Colding, Camilla, Tremaroli, Valentina, Yin, Ye, Bergman, Stefan, Xu, Xun, Madsen, Lise, Kristiansen, Karsten, Dahlgren, Jovanna, Wang, Jun

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Gut microbiome and serum metabolome alterations in obesity and after weight-loss intervention von Liu, Ruixin, Hong, Jie, Xu, Xiaoqiang, Feng, Qiang, Zhang, Dongya, Gu, Yanyun, Shi, Juan, Zhao, Shaoqian, Liu, Wen, Wang, Xiaokai, Xia, Huihua, Liu, Zhipeng, Cui, Bin, Liang, Peiwen, Xi, Liuqing, Jin, Jiabin, Ying, Xiayang, Wang, Xiaolin, Zhao, Xinjie, Li, Wanyu, Jia, Huijue, Lan, Zhou, Li, Fengyu, Wang, Rui, Sun, Yingkai, Yang, Minglan, Shen, Yuxin, Jie, Zhuye, Li, Junhua, Chen, Xiaomin, Zhong, Huanzi, Xie, Hailiang, Zhang, Yifei, Gu, Weiqiong, Deng, Xiaxing, Shen, Baiyong, Xu, Xun, Yang, Huanming, Xu, Guowang, Bi, Yufang, Lai, Shenghan, Wang, Jian, Qi, Lu, Madsen, Lise, Wang, Jiqiu, Ning, Guang, Kristiansen, Karsten, Wang, Weiqing

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The gut microbiome in atherosclerotic cardiovascular disease von Jie, Zhuye, Xia, Huihua, Zhong, Shi-Long, Feng, Qiang, Li, Shenghui, Liang, Suisha, Zhong, Huanzi, Liu, Zhipeng, Gao, Yuan, Zhao, Hui, Zhang, Dongya, Su, Zheng, Fang, Zhiwei, Lan, Zhou, Li, Junhua, Xiao, Liang, Li, Jun, Li, Ruijun, Li, Xiaoping, Li, Fei, Ren, Huahui, Huang, Yan, Peng, Yangqing, Li, Guanglei, Wen, Bo, Dong, Bo, Chen, Ji-Yan, Geng, Qing-Shan, Zhang, Zhi-Wei, Yang, Huanming, Wang, Jian, Wang, Jun, Zhang, Xuan, Madsen, Lise, Brix, Susanne, Ning, Guang, Xu, Xun, Liu, Xin, Hou, Yong, Jia, Huijue, He, Kunlun, Kristiansen, Karsten

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Characterization and description of Faecalibacterium butyricigenerans sp. nov. and F. longum sp. nov., isolated from human faeces von Zou, Yuanqiang, Lin, Xiaoqian, Xue, Wenbin, Tuo, Li, Chen, Ming-Sheng, Chen, Xiao-Hui, Sun, Cheng-hang, Li, Feina, Liu, Shao-wei, Dai, Ying, Kristiansen, Karsten, Xiao, Liang

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Analyses of gut microbiota and plasma bile acids enable stratification of patients for antidiabetic treatment von Gu, Yanyun, Wang, Xiaokai, Li, Junhua, Zhang, Yifei, Zhong, Huanzi, Liu, Ruixin, Zhang, Dongya, Feng, Qiang, Xie, Xiaoyan, Hong, Jie, Ren, Huahui, Liu, Wei, Ma, Jing, Su, Qing, Zhang, Hongmei, Yang, Jialin, Wang, Xiaoling, Zhao, Xinjie, Gu, Weiqiong, Bi, Yufang, Peng, Yongde, Xu, Xiaoqiang, Xia, Huihua, Li, Fang, Xu, Xun, Yang, Huanming, Xu, Guowang, Madsen, Lise, Kristiansen, Karsten, Ning, Guang, Wang, Weiqing

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The oral and gut microbiomes are perturbed in rheumatoid arthritis and partly normalized after treatment von Zhang, Xuan, Zhang, Dongya, Jia, Huijue, Feng, Qiang, Wang, Donghui, Liang, Di, Wu, Xiangni, Li, Junhua, Tang, Longqing, Li, Yin, Lan, Zhou, Chen, Bing, Li, Yanli, Zhong, Huanzi, Xie, Hailiang, Jie, Zhuye, Chen, Weineng, Tang, Shanmei, Xu, Xiaoqiang, Wang, Xiaokai, Cai, Xianghang, Liu, Sheng, Xia, Yan, Li, Jiyang, Qiao, Xingye, Al-Aama, Jumana Yousuf, Chen, Hua, Wang, Li, Wu, Qing-jun, Zhang, Fengchun, Zheng, Wenjie, Li, Yongzhe, Zhang, Mingrong, Luo, Guangwen, Xue, Wenbin, Xiao, Liang, Li, Jun, Chen, Wanting, Xu, Xun, Yin, Ye, Yang, Huanming, Wang, Jian, Kristiansen, Karsten, Liu, Liang, Li, Ting, Huang, Qingchun, Li, Yingrui, Wang, Jun

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Multi-cohort analysis of colorectal cancer metagenome identified altered bacteria across populations and universal bacterial markers von Dai, Zhenwei, Coker, Olabisi Oluwabukola, Nakatsu, Geicho, Wu, William K K, Zhao, Liuyang, Chen, Zigui, Chan, Francis K L, Kristiansen, Karsten, Sung, Joseph J Y, Wong, Sunny Hei, Yu, Jun

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Chronic Trichuris muris Infection Decreases Diversity of the Intestinal Microbiota and Concomitantly Increases the Abundance of Lactobacilli von Holm, Jacob Bak, Sorobetea, Daniel, Kiilerich, Pia, Ramayo-Caldas, Yuliaxis, Estellé, Jordi, Ma, Tao, Madsen, Lise, Kristiansen, Karsten, Svensson-Frej, Marcus

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Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes von Xu, Xun, Liu, Xin, Ge, Song, Jensen, Jeffrey D, Hu, Fengyi, Li, Xin, Dong, Yang, Gutenkunst, Ryan N, Fang, Lin, Huang, Lei, Li, Jingxiang, He, Weiming, Zhang, Guojie, Zheng, Xiaoming, Zhang, Fumin, Li, Yingrui, Yu, Chang, Kristiansen, Karsten, Zhang, Xiuqing, Wang, Jian, Wright, Mark, McCouch, Susan, Nielsen, Rasmus, Wang, Jun, Wang, Wen

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Eosinophilic airway inflammation in asthmatic patients is associated with an altered airway microbiome von Sverrild, Asger, MD, PhD, Kiilerich, Pia, MSc, PhD, Brejnrod, Asker, MSc, Pedersen, Rebecca, MSc, PhD, Porsbjerg, Celeste, MD, PhD, Bergqvist, Anders, MSc, Erjefält, Jonas S., MSc, PhD, Kristiansen, Karsten, MSc, Backer, Vibeke, MD, DMSc

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