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Your search keyword '"Li, Xiujin"' showing total 434 results
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434 results on '"Li, Xiujin"'

2. A compendium of genetic regulatory effects across pig tissues.

Author

Teng, Jinyan, Gao, Yahui, Yin, Hongwei, Bai, Zhonghao, Liu, Shuli, Zeng, Haonan, Bai, Lijing, Cai, Zexi, Zhao, Bingru, Li, Xiujin, Xu, Zhiting, Lin, Qing, Pan, Zhangyuan, Yang, Wenjing, Yu, Xiaoshan, Guan, Dailu, Hou, Yali, Keel, Brittney, Rohrer, Gary, Lindholm-Perry, Amanda, Oliver, William, Ballester, Maria, Crespo-Piazuelo, Daniel, Quintanilla, Raquel, Canela-Xandri, Oriol, Rawlik, Konrad, Xia, Charley, Yao, Yuelin, Zhao, Qianyi, Yao, Wenye, Yang, Liu, Li, Houcheng, Zhang, Huicong, Liao, Wang, Chen, Tianshuo, Karlskov-Mortensen, Peter, Fredholm, Merete, Amills, Marcel, Clop, Alex, Giuffra, Elisabetta, Wu, Jun, Cai, Xiaodian, Diao, Shuqi, Pan, Xiangchun, Wei, Chen, Li, Jinghui, Cheng, Hao, Wang, Sheng, Su, Guosheng, Sahana, Goutam, Lund, Mogens, Dekkers, Jack, Kramer, Luke, Tuggle, Christopher, Corbett, Ryan, Groenen, Martien, Madsen, Ole, Gòdia, Marta, Rocha, Dominique, Charles, Mathieu, Li, Cong-Jun, Pausch, Hubert, Hu, Xiaoxiang, Frantz, Laurent, Luo, Yonglun, Lin, Lin, Zhou, Zhongyin, Zhang, Zhe, Chen, Zitao, Cui, Leilei, Xiang, Ruidong, Shen, Xia, Li, Pinghua, Huang, Ruihua, Tang, Guoqing, Li, Mingzhou, Zhao, Yunxiang, Yi, Guoqiang, Tang, Zhonglin, Jiang, Jicai, Zhao, Fuping, Yuan, Xiaolong, Liu, Xiaohong, Chen, Yaosheng, Xu, Xuewen, Zhao, Shuhong, Zhao, Pengju, Haley, Chris, Zhou, Huaijun, Wang, Qishan, Pan, Yuchun, Ding, Xiangdong, Ma, Li, Li, Jiaqi, Navarro, Pau, Zhang, Qin, Li, Bingjie, Tenesa, Albert, Li, Kui, and Liu, George

Subjects
Swine, Animals, Humans, Gene Expression Regulation, Genotype, Phenotype, Sequence Analysis, RNA, Gene Expression Profiling
Abstract

The Farm Animal Genotype-Tissue Expression (FarmGTEx) project has been established to develop a public resource of genetic regulatory variants in livestock, which is essential for linking genetic polymorphisms to variation in phenotypes, helping fundamental biological discovery and exploitation in animal breeding and human biomedicine. Here we show results from the pilot phase of PigGTEx by processing 5,457 RNA-sequencing and 1,602 whole-genome sequencing samples passing quality control from pigs. We build a pig genotype imputation panel and associate millions of genetic variants with five types of transcriptomic phenotypes in 34 tissues. We evaluate tissue specificity of regulatory effects and elucidate molecular mechanisms of their action using multi-omics data. Leveraging this resource, we decipher regulatory mechanisms underlying 207 pig complex phenotypes and demonstrate the similarity of pigs to humans in gene expression and the genetic regulation behind complex phenotypes, supporting the importance of pigs as a human biomedical model.

Published
2024

9. Comparative transcriptome in large-scale human and cattle populations

Author

Yao, Yuelin, Liu, Shuli, Xia, Charley, Gao, Yahui, Pan, Zhangyuan, Canela-Xandri, Oriol, Khamseh, Ava, Rawlik, Konrad, Wang, Sheng, Li, Bingjie, Zhang, Yi, Pairo-Castineira, Erola, D’Mellow, Kenton, Li, Xiujin, Yan, Ze, Li, Cong-jun, Yu, Ying, Zhang, Shengli, Ma, Li, Cole, John B, Ross, Pablo J, Zhou, Huaijun, Haley, Chris, Liu, George E, Fang, Lingzhao, and Tenesa, Albert

Subjects
Biological Sciences, Genetics, Human Genome, Biotechnology, Generic health relevance, Animals, Cattle, Genome-Wide Association Study, Humans, Multifactorial Inheritance, Phenotype, Quantitative Trait Loci, Transcriptome, Comparative transcriptome, Gene co-expression, Heritability enrichment, Inter-individual variability, RNA-seq, Environmental Sciences, Information and Computing Sciences, Bioinformatics
Abstract

BackgroundCross-species comparison of transcriptomes is important for elucidating evolutionary molecular mechanisms underpinning phenotypic variation between and within species, yet to date it has been essentially limited to model organisms with relatively small sample sizes.ResultsHere, we systematically analyze and compare 10,830 and 4866 publicly available RNA-seq samples in humans and cattle, respectively, representing 20 common tissues. Focusing on 17,315 orthologous genes, we demonstrate that mean/median gene expression, inter-individual variation of expression, expression quantitative trait loci, and gene co-expression networks are generally conserved between humans and cattle. By examining large-scale genome-wide association studies for 46 human traits (average n = 327,973) and 45 cattle traits (average n = 24,635), we reveal that the heritability of complex traits in both species is significantly more enriched in transcriptionally conserved than diverged genes across tissues.ConclusionsIn summary, our study provides a comprehensive comparison of transcriptomes between humans and cattle, which might help decipher the genetic and evolutionary basis of complex traits in both species.

Published
2022

21. A multi-tissue atlas of regulatory variants in cattle

Author

Liu, Shuli, Gao, Yahui, Canela-Xandri, Oriol, Wang, Sheng, Yu, Ying, Cai, Wentao, Li, Bingjie, Xiang, Ruidong, Chamberlain, Amanda J., Pairo-Castineira, Erola, D’Mellow, Kenton, Rawlik, Konrad, Xia, Charley, Yao, Yuelin, Navarro, Pau, Rocha, Dominique, Li, Xiujin, Yan, Ze, Li, Congjun, Rosen, Benjamin D., Van Tassell, Curtis P., Vanraden, Paul M., Zhang, Shengli, Ma, Li, Cole, John B., Liu, George E., Tenesa, Albert, and Fang, Lingzhao

Published
2022
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26. Enhanced Hydrothermal Depolymerization with Fe/Ni Loaded C Catalysts for Improving Anaerobic Digestion Performance of Corn Stover.

Author

Wang, Xitong, Zhu, Chenyang, Yuan, Hairong, and Li, Xiujin

Subjects
CORN stover, ANAEROBIC digestion, RENEWABLE natural gas, CELLULOLYTIC bacteria, DEPOLYMERIZATION
Abstract

This research investigated the effects of hydrothermal depolymerization with Fe/Ni loaded C catalysts on the anaerobic digestion (AD) performance of corn stover (CS). CS was depolymerized at 140 °C for 20 min with Fe/C or Ni/C catalysts, and then anaerobically digested. The results showed that the biomethane yield with Fe/C-600 increased by 36.6% compared to that of the control. This increase could be attributed to effective CS depolymerization with catalysts (DC), indicated by modified structures of solid fraction and enriched available components of liquid fraction. SEM analyses showed that CS microphysical structure after DC was obviously disrupted, resulting in more accessibility of cellulose and hemicellulose. The crystallinity index (CrI) of depolymerized CS was significantly reduced from 32.5% to 23.5%, allowing for a more easily biodegradable non-crystalline area to be available for enzymes. Meanwhile, the DC group produced 4.7 times more reducing sugar (RS), and a 3.4 times increase in total volatile fatty acids (VFAs) as compared to the control. Furthermore, these enhancements in DC led to an increased relative abundance of cellulolytic bacteria (Hydrogenispora and Fermentimonas) and anaerobic methanogenic archaea (Methanosarcina) in following the AD process. This could explain the reason for the biomethane yield increase with DC from microbial perspectives. This study demonstrated that hydrothermal depolymerization with Fe/C or Ni/C could provide an effective approach for obtaining more biomethane from CS via AD. [ABSTRACT FROM AUTHOR]

Published
2025
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