74 Works

Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity

Feng Yang, Jinghao Zhang, Su Wang, Zhaoyang Sun, Jun Zhou, Feng Li, Yue Liu, Li Ding, Yixin Liu, Wenjing Chi, Tao Liu, Yongqun He, Ping Xiang, Zhijun Bao, Michal A. Olszewski, Hu Zhao & Yanmei Zhang
Severe Helicobacter pylori-linked gastric disorders are especially prevalent in the East Asia region. The ability of H. pylori to cause different clinical outcomes is thought to be associated with unique sets of its genetic features. However, only few genetic features have been definitively linked to specific gastrointestinal pathologies. Genome heterogeneity of clinical H. pylori strains from patients with four different gastric disorders was studied to explore the population structure and molecular genomic features and their...

Genome-wide screening for the G-protein-coupled receptor (GPCR) pathway-related therapeutic gene RGS19 (regulator of G protein signaling 19) in bladder cancer

Yue Liu, Weiming Lou, Guang Chen, Bing Ding, Jin Kuang, Yize Zhang, Cong Wang, Sainan Duan, Ying Deng & Xiongbing Lu
Bladder cancer is one of the most severe genitourinary cancers, causing high morbidity worldwide. However, the underlying molecular mechanism is not clear, and it is urgent to find target genes for treatment. G-protein-coupled receptors are currently a target of high interest for drug design. Thus, we aimed to identify a target gene-related to G-protein-coupled receptors for therapy. We used The Cancer Genome Atlas (TCGA) and DepMap databases to obtain the expression and clinical data of...

A plant cell wall-associated kinase encoding gene is dramatically downregulated during nematode infection of potato

Shiyan Chen, Lili Cui & Xiaohong Wang
Plant cell wall associated kinases (WAKs) and WAK-like kinases (WAKLs) have been increasingly recognized as important regulators of plant immunity against various plant pathogens. However, the role of the WAK/WAKL family in plant-nematode interactions remains to be determined. Here, we analyzed a WAK-encoding gene (Soltu.DM.02G029720.1) from potato (Solanum tuberosum). The Soltu.DM.02G029720.1 encoded protein contains domains characteristic of WAK/WAKL proteins and shows the highest similarity to SlWAKL2 from tomato (S. lycopersicum). We thus named the gene...

Additional file 1 of Relationship between sarcopenia/paravertebral muscles and the incidence of vertebral refractures following percutaneous kyphoplasty: a retrospective study

Qi Chen, Chenyang Lei, Tingxiao Zhao, Zhanqiu Dai, Jun Zhang, Yongming Jin & Chen Xia
Additional file 1.

CircCLTH promotes skeletal muscle development and regeneration

Mengjie Chen, Qingyou Liu, Mingming Song, Xingyu Liu, Kongwei Huang, Dandan Zhong, Yaling Chen, Mingsheng Jiang, Junming Sun, Yiqiang Ouyang, Suren R Sooranna, Deshun Shi & Hui Li
Buffalo holds an excellent potential for beef production, and circRNA plays an important role in regulating myogenesis. However, the regulatory mechanism of circRNAs during buffalo skeletal muscle development has not been fully explored. In this study, circRNA expression profiles during the proliferation and differentiation stages of buffalo myoblasts were analysed by RNA-seq. Here, a total of 3,142 circRNAs candidates were identified, and 110 of them were found to be differentially expressed in the proliferation and...

Additional file 13 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 13: Table S12. The list of representative DEGs related to phenylpropanoid biosynthesis.

Additional file 15 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 15: Table S14. Primers used for quantitative real-time PCR in this study.

Additional file 15 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 15: Table S14. Primers used for quantitative real-time PCR in this study.

Whole-exome sequencing reveals novel variants associated with abnormal uterine bleeding caused by copper intrauterine device Supplementary Materials

Yupei Shen, Xiaoli Liu, Linfen Xu, Weiqiang Zhu, Zhaofeng Zhang, Junwei Liu, Lifang Jiang, Yanyan Mao, Jianhua Xu, Xiaoqin Yan, Junjie Sun, Fang Liu, Xiumei Xiong, Xiujuan Chen, Yan Che & Jing Du
Aim: This study aimed to explore the genetic risk factors and validate variants of abnormal uterine bleeding after copper intrauterine device insertion. Methods: Whole-exome sequencing was performed and several variants were validated by Sequenom MassARRAY. Results: Eight variants showed potential clinical damage according to American College of Medical Genetics and Genomics criteria. By combined analysis of screening and validation, NFASC RS2802808 C>G p.Ile971Met (Pallele = 0.009 and Pgenotype = 0.027) and PIGR RS2275531 C>T p.Gly365Ser...

Additional file 1 of Congenital coronary artery-left ventricular multiple micro-fistulas and hypertrophic cardiomyopathy: a case report and literature review

Yue Liu, Zhiyuan Wang, Hong Zeng, Sibao Yang & Xiangdong Li
Additional file 1: Video 1 Left coronary angiography in right anterior oblique 30° + cranial 20°2. Video 2 Left coronary angiography in right anterior oblique 30° + caudal 20°.

Additional file 5 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 5: Table S4. The list of annotated DEGs identified in MXXZ-T vs. JXZ-T.

Additional file 5 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 5: Table S4. The list of annotated DEGs identified in MXXZ-T vs. JXZ-T.

Additional file 7 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 7: Table S6. The results of KEGG enrichment of DEGs in MXXZ-T vs. MXXZ-C.

Down-regulation of HLA-DRs and HLA-DPs reflects the deficiency of antigen-presenting cells in endometrium from infertile women with and without ovarian endometriosis

Li Jiang, Xi Wang, Tingting Zhang, Huan Chen, Zhangming Wei, Tianjiao Li, Yuqing Wu, Zeying Li & Xiaoling Fang
This study aimed to explore common molecular changes in the infertile endometrium from women with and without endometriosis (EM). By analyzing the dataset GSE120103 from Gene Expression Omnibus, a total of 3252 shared differentially expressed genes were identified between ovarian EM in infertile vs. fertile endometrium and EM-free infertile vs. fertile endometrium. In addition, the gene annotation and pathway analysis of the shared differentially expressed genes with the same expression trend indicated that the pathway...

Three periods of gold mineralization in the Liaodong Peninsula, North China Craton

Peng Zhang, Linlin Kou & Yang Zhao
The Liaodong gold province includes voluminous gold deposits, which occur in an Archean gneiss complex, Paleoproterozoic metamorphic rocks, and Mesozoic granite. However, the ore-forming age, the genesis, and the geodynamic setting of the gold deposits are not well constrained. In this study, we have summarized previous geochronology data, H-O-S-Pb isotopes, and He-Ar isotopic compositions of the gold deposits. Based on geochronology data, the gold mineralization was divided into Late Triassic, Early Jurassic, and Early Cretaceous....

Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity

Feng Yang, Jinghao Zhang, Su Wang, Zhaoyang Sun, Jun Zhou, Feng Li, Yue Liu, Li Ding, Yixin Liu, Wenjing Chi, Tao Liu, Yongqun He, Ping Xiang, Zhijun Bao, Michal A. Olszewski, Hu Zhao & Yanmei Zhang
Severe Helicobacter pylori-linked gastric disorders are especially prevalent in the East Asia region. The ability of H. pylori to cause different clinical outcomes is thought to be associated with unique sets of its genetic features. However, only few genetic features have been definitively linked to specific gastrointestinal pathologies. Genome heterogeneity of clinical H. pylori strains from patients with four different gastric disorders was studied to explore the population structure and molecular genomic features and their...

CircCLTH promotes skeletal muscle development and regeneration

Mengjie Chen, Qingyou Liu, Mingming Song, Xingyu Liu, Kongwei Huang, Dandan Zhong, Yaling Chen, Mingsheng Jiang, Junming Sun, Yiqiang Ouyang, Suren R Sooranna, Deshun Shi & Hui Li
Buffalo holds an excellent potential for beef production, and circRNA plays an important role in regulating myogenesis. However, the regulatory mechanism of circRNAs during buffalo skeletal muscle development has not been fully explored. In this study, circRNA expression profiles during the proliferation and differentiation stages of buffalo myoblasts were analysed by RNA-seq. Here, a total of 3,142 circRNAs candidates were identified, and 110 of them were found to be differentially expressed in the proliferation and...

Additional file 3 of Interaction of miR-200a-3p with YAP regulates cell proliferation and metastasis differentially in HPV-positive and HPV-negative cervical cancer cells

Hong Chen, Lingling Gu, Min Zhang, Huifen Chen, Hong Liao, Xueping Cao, Lu Yu & Jun Zhang
Additional file 3.

Additional file 1 of Clinical value of fetal facial profile markers during the first trimester

Xiaofeng Zhou, Chunya Ji, Lingling Sun, Linliang Yin, Xuedong Deng, Qi Pan, Jun Zhang, Zhong Yang, Chenhan Zheng, Chen Ling, Liping Shi & Yanqing Wu
Additional file 1.

Late Carboniferous bimodal volcanic rocks of the West Junggar Terrane, NW China: Implications for the postcollisional tectonic setting of the southwestern CAOB

Xi Wang, Ran Wang, Pan Qu, Sanyou Cheng & Yonghui Xin
The West Junggar terrain (WJT), as a crucial part of the Central Asian Orogenic Belt (CAOB), is distributed with numerous igneous rocks, which provide critical information for crustal growth. However, the closure of the Junggar Ocean (JO) and the beginning of the postcollisional tectonic stage of the WJT have been controversial. This study delimited the regional lithologic units based on remote sensing geological mapping and recognized a series of bimodal volcanic rocks (BVR) in Hala’alate...

Late Carboniferous bimodal volcanic rocks of the West Junggar Terrane, NW China: Implications for the postcollisional tectonic setting of the southwestern CAOB

Xi Wang, Ran Wang, Pan Qu, Sanyou Cheng & Yonghui Xin
The West Junggar terrain (WJT), as a crucial part of the Central Asian Orogenic Belt (CAOB), is distributed with numerous igneous rocks, which provide critical information for crustal growth. However, the closure of the Junggar Ocean (JO) and the beginning of the postcollisional tectonic stage of the WJT have been controversial. This study delimited the regional lithologic units based on remote sensing geological mapping and recognized a series of bimodal volcanic rocks (BVR) in Hala’alate...

Additional file 14 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 14: Table S13. The general information of sequencing reads and reads that mapped to the reference genome.

Additional file 4 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 4: Table S3. The list of annotated DEGs identified in MXXZ-C vs. JXZ-C.

Additional file 8 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 8: Table S7. Summary of GO results of the DEGs in JXZ-T vs. JXZ-C.

Additional file 3 of Comparative transcriptomic analysis provides insights into the molecular basis underlying pre-harvest sprouting in rice

Dong Liu, Mingyang Zeng, Yan Wu, Yanli Du, Jianming Liu, Shaoqiang Luo & Yongjun Zeng
Additional file 3: Table S2. The list of annotated DEGs identified in MXXZ-T vs. MXXZ-C.

Registration Year

  • 2023
    2
  • 2022
    57
  • 2021
    12
  • 2019
    3

Resource Types

  • Dataset
    74

Affiliations

  • Binzhou Medical College Hospital
    74
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    61
  • Shanghai Jiao Tong University
    59
  • Zhejiang University
    55
  • Capital Medical University
    52
  • Huazhong University of Science and Technology
    48
  • Peking University
    44
  • Army Medical University
    43
  • Jiangxi Agricultural University
    38
  • ShenZhen People’s Hospital
    38