238 Works

Data from: Genetic diversity, linkage disequilibrium and selection signatures in Chinese and Western pigs revealed by genome-wide SNP markers

Huashui Ai, Lusheng Huang & Jun Ren
To investigate population structure, linkage disequilibrium (LD) pattern and selection signature at the genome level in Chinese and Western pigs, we genotyped 304 unrelated animals from 18 diverse populations using porcine 60 K SNP chips. We confirmed the divergent evolution between Chinese and Western pigs and showed distinct topological structures of the tested populations. We acquired the evidence for the introgression of Western pigs into two Chinese pig breeds. Analysis of runs of homozygosity revealed...

Data from: Genome-wide association analysis for blood lipid traits measured in three pig populations revealed a substantial level of genetic heterogeneity

Hui Yang, Xiaochang Huang, Zhijun Zeng, Wanchang Zhang, Chenlong Liu, Shaoming Fang, Lusheng Huang & Congying Chen
Serum lipids are associated with myocardial infarction and cardiovascular disease in humans. Here we dissected the genetic architecture of blood lipid traits by applying genome-wide association studies (GWAS) in 1,256 pigs from Laiwu, Erhualian and Duroc × (Landrace × Yorkshire) populations, and a meta-analysis of GWAS in more than 2,400 pigs from five diverse populations. A total of 22 genomic loci surpassing the suggestive significance level were detected on 11 pig chromosomes (SSC) for six...

Data from: Heterogeneous and efficient transesterification of Jatropha curcas L. seed oil to produce biodiesel catalyzed by nano-sized SO42-/TiO2

Chao Chen, Lei Cai, Xinchen Shangguan, Liang Li, Yanping Hong & Guoqiang Wu
Developing high-efficiency hetero-catalysts for transesterification reaction is of great importance in the production of biodiesel from Jatropha curcas L. seed oil (JO). Here, we synthesized a series of sulfated TiO2 by treating with varying H2SO4 concentration (xSO42-/TiO2) and TiO2 catalysts and applied to the transesterification of JO. Furthermore, these heterostructures were characterized by many characterization methods including XRD, FT–IR, N2–adsorption, SEM, TEM, TG, py-IR and NH3-TPD, and their catalytic performance were investigated under various operating...

sj-xlsx-4-tct-10.1177_15330338221124658 - Supplemental material for In Vitro and in Vivo Study of the Effect of Osteogenic Pulsed Electromagnetic Fields on Breast and Lung Cancer Cells

Mike Y. Chen, Jing Li, Nianli Zhang, Erik I. Waldorff, James T. Ryaby, Philip Fedor, Yongsheng Jia & Yujun Wang
Supplemental material, sj-xlsx-4-tct-10.1177_15330338221124658 for In Vitro and in Vivo Study of the Effect of Osteogenic Pulsed Electromagnetic Fields on Breast and Lung Cancer Cells by Mike Y. Chen, Jing Li, Nianli Zhang and Erik I. Waldorff, James T. Ryaby, Philip Fedor, Yongsheng Jia, Yujun Wang in Technology in Cancer Research & Treatment

EIF3D promoted cervical carcinoma through Warburg effect by interacting with GRP78

Qing Liu, Jing Liu, Dan Zheng, Ranxi Zhang, Yan Xiang, Fei Xu, Xiaochan Zhou & Juan Qin
The incidence of cervical cancer ranks third among all female tumours globally and second in developing countries. However, the role of eukaryotic translation initiation factor 3 subunit D (EIF3D) in cervical carcinoma is unknown. This study investigated the effects of EIF3D on cell progression of cervical carcinoma and its underlying mechanism in vivo and vitro models. There were increases of EIF3D expression mRNA and protein expression levels in patients with cervical carcinoma. Disease-free survival (DFS)...

EIF3D promoted cervical carcinoma through Warburg effect by interacting with GRP78

Qing Liu, Jing Liu, Dan Zheng, Ranxi Zhang, Yan Xiang, Fei Xu, Xiaochan Zhou & Juan Qin
The incidence of cervical cancer ranks third among all female tumours globally and second in developing countries. However, the role of eukaryotic translation initiation factor 3 subunit D (EIF3D) in cervical carcinoma is unknown. This study investigated the effects of EIF3D on cell progression of cervical carcinoma and its underlying mechanism in vivo and vitro models. There were increases of EIF3D expression mRNA and protein expression levels in patients with cervical carcinoma. Disease-free survival (DFS)...

Data from: Female developmental environment delays development of male honeybee (Apis mellifera)

Xujiang He, Yi Bo Liu, Yao Yi, Amal Abdelmawla, Yun Lin Zheng & Zhi Jiang Zeng
Background Nutrition and cell size play an important role in the determination of caste differentiation in queen and worker of honeybees (Apis mellifera), whereas the haploid genome dominates the differentiation of drones. However, the effects of female developmental environment on the development of males remain unclear. In this study, young drone larvae were transferred into worker cells (WCs) or remained in drone cells (DCs) to rear drones. The drone larvae were also grafted into queen...

Additional file 1 of The causal associations of circulating amino acids with blood pressure: a Mendelian randomization study

Chenhao Lin, Zhonghan Sun, Zhendong Mei, Hailuan Zeng, Manying Zhao, Jianying Hu, Mingfeng Xia, Tao Huang, Chaolong Wang, Xin Gao & Yan Zheng
Additional file 1: Table S1. Overview of observational studies investigating associations of amino acids with blood pressure or hypertension. Table S2. Definitions and the unique data identifiers within UK Biobank data. Table S3. Characteristics of the instrumental variables for circulating levels of amino acids in primary analyses. Table S4. Association of selected SNPs in our primary analyses with potential confounders. Table S5. Characteristics of the broad sets of instrumental variables for circulating levels of amino...

WES data from 286 diffuse gliomas under the 2021 WHO Classification of Tumors of the Central Nervous System

Zheng Zhao, Ke-Nan Zhang, Zhiyan Sun, Changlin Yang, Wenping Ma, Fan Wu & Tao Jiang
The output table with called SNVs per sample

Additional file 2 of Neomorphic DNA-binding enables tumor-specific therapeutic gene expression in fusion-addicted childhood sarcoma

Tilman L. B. Hölting, Florencia Cidre-Aranaz, Dana Matzek, Bastian Popper, Severin J. Jacobi, Cornelius M. Funk, Florian H. Geyer, Jing Li, Ignazio Piseddu, Bruno L. Cadilha, Stephan Ledderose, Jennifer Zwilling, Shunya Ohmura, David Anz, Annette Künkele, Frederick Klauschen, Thomas G. P. Grünewald & Maximilian M. L. Knott
Additional file 2: Additional Tables 1-5.

Hsa-miR-186-3p suppresses colon cancer progression by inhibiting KRT18/MAPK signaling pathway

Tian Xia, Zhiyong Zhang, Xin Zhang & Quanfu Li
This study aimed to determine the effect of miR-186-3p and KRT18 interaction on the biological behavior of colon cancer cells. A biotin-microRNA pull-down assay was performed to identify potential miRNAs. qRT-PCR was used to verify the KRT18 and miR-186-3p levels. In addition, Western blotting was used to detect the KRT18 protein levels. The functional connection between KRT18 and miR-186-3p was confirmed using a dual luciferase reporter assay. BrdU incorporation, MTT assay, and flow cytometry were...

Hsa-miR-186-3p suppresses colon cancer progression by inhibiting KRT18/MAPK signaling pathway

Tian Xia, Zhiyong Zhang, Xin Zhang & Quanfu Li
This study aimed to determine the effect of miR-186-3p and KRT18 interaction on the biological behavior of colon cancer cells. A biotin-microRNA pull-down assay was performed to identify potential miRNAs. qRT-PCR was used to verify the KRT18 and miR-186-3p levels. In addition, Western blotting was used to detect the KRT18 protein levels. The functional connection between KRT18 and miR-186-3p was confirmed using a dual luciferase reporter assay. BrdU incorporation, MTT assay, and flow cytometry were...

Additional file 2 of Genome-wide identification and characterization of lncRNAs in sunflower endosperm

Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan & Xiaomei Dong
Additional file 2: Table S2. The genomic information of lncRNAs in sunflower endosperm at 12DAP.

Additional file 3 of Genome-wide identification and characterization of lncRNAs in sunflower endosperm

Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan & Xiaomei Dong
Additional file 3: Table S3. GO Gene Ontology analysis of co-expressed protein-coding genes with all candidate lncRNAs.

Additional file 10 of Genome-wide identification and characterization of lncRNAs in sunflower endosperm

Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan & Xiaomei Dong
Additional file 10: Table S5. The summary of lncRNAs exhibiting allele-specific expression in cultivated sunflower lines for edible fruit and oil identified in 12 DAP sunflower endosperm.

Additional file 11 of Genome-wide identification and characterization of lncRNAs in sunflower endosperm

Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan & Xiaomei Dong
Additional file 11: Table S6. GO Gene Ontology analysis of co-expressed protein-coding genes with lncRNAs of allelic bias toward cultivated lines for edible fruit.

Additional file 12 of Genome-wide identification and characterization of lncRNAs in sunflower endosperm

Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan & Xiaomei Dong
Additional file 12: Table S7. GO Gene Ontology analysis of co-expressed protein-coding genes with lncRNAs of allelic bias toward cultivated lines for oil.

Additional file 6 of Complete chloroplast genomes of Sorbus sensu stricto (Rosaceae): comparative analyses and phylogenetic relationships

Chenqian Tang, Xin Chen, Yunfei Deng, Liyang Geng, Jianhui Ma & Xueyan Wei
Additional file 6: Table S6. The nucleotide variability (Pi) of 16 Sorbus s.s. chloroplast genomes

Additional file 2 of Complete chloroplast genomes of Sorbus sensu stricto (Rosaceae): comparative analyses and phylogenetic relationships

Chenqian Tang, Xin Chen, Yunfei Deng, Liyang Geng, Jianhui Ma & Xueyan Wei
Additional file 2: TableS2. Genes annotated in 16 newly sequenced Sorbus s.s. chloroplast genomes

Additional file 8 of Complete chloroplast genomes of Sorbus sensu stricto (Rosaceae): comparative analyses and phylogenetic relationships

Chenqian Tang, Xin Chen, Yunfei Deng, Liyang Geng, Jianhui Ma & Xueyan Wei
Additional file 8: Table S8. 22 taxa in Sorbus s.l. with genes re-annotated

Additional file 6 of Integrated analysis to identify the AC005154.6/hsa-miR-29c-3p/CCNL2 axis as a novel prognostic biomarker associated with immune infiltration in prostate cancer

Qinyu Li, Bingliang Chen, Guoda Song, Kai Zeng, Xin Chen, Jianping Miao, Xianglin Yuan, Jihong Liu, Zhihua Wang & Bo Liu
Additional file 6. Prognosis model constructed by AC005154.6/hsa-miR-29c-3p/CCNL2 axis.

Population genetics and forensic efficiency of 30 InDel markers in four Chinese ethnic groups residing in Sichuan

Fei Wang, Guanglin He, Zheng Wang, Mengge Wang, Jing Liu, Xing Zou, Shouyu Wang, Mengyuan Song, Ziwei Ye, Mingkun Xie & Yiping Hou
Sichuan Province is located at the transitional junction regions of the Qinghai-Tibet Plateau and the low-altitude plains. It also serves as the corridor of Sino-Tibetan-speaking population migration and expansion since neolithic expansion of Proto-Tibeto-Burman populations from Middle/Upper Yellow River during Majiayao period (3300–2000 BC). However, the population structure and the corresponding genetic diversity of forensic-related markers in this region remain unclear. Thus, we genotyped 30 insertion-deletion (InDel) markers in 444 samples from four ethnic groups...

Inference on moderation effect with third-variable effect analysis – application to explore the trend of racial disparity in oncotype dx test for breast cancer treatment

Qingzhao Yu, Lu Zhang, Xiaocheng Wu & Bin Li
Third variable effect refers to the effect from a third variable that explains an observed relationship between an exposure and an outcome. Depending on whether there is causal relationship, typically, a third variable takes the format of a mediator or a confounder. A moderation effect is a special case of the third-variable effect, where the moderator and other variables have an interactive effect on the outcome. In this paper, we extend the R package ‘mma’...

Additional file 1 of Genetic analysis of 55 cases with fetal skeletal dysplasia

Ying Bai, Yue Sun, Ning Liu, Li Wang, Zhihui Jiao, Yaqin Hou, Huikun Duan, Qianqian Li, Xiaofan Zhu, Jingjing Meng & Xiangdong Kong
Additional file 1. Table S1: 811 genes of a genetic skeletal disease panel; Table S2: Primer sequence in this study; Table S3: Summary of clinical information and molecular results for 55 cases with skeletal abnormalities.

Additional file 2 of Understanding of bacterial lignin extracellular degradation mechanisms by Pseudomonas putida KT2440 via secretomic analysis

Zhangyang Xu, Bo Peng, Reta Birhanu Kitata, Carrie D. Nicora, Karl K. Weitz, Yunqiao Pu, Tujin Shi, John R. Cort, Arthur J. Ragauskas & Bin Yang
Additional file 2: Table S4. Proteomic analysis of the intracellular and secretome in P. putida KT2440.

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Affiliations

  • Jiangxi Agricultural University
    238
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    173
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    148
  • Zhejiang University
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  • Capital Medical University
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