1,454 Works

Long non-coding RNA-PCGEM1 contributes to prostate cancer progression by sponging microRNA miR-129-5p to enhance chromatin licensing and DNA replication factor 1 expression

Qiao Fu, Fangfang Wang, Jun Yang, Wei Sun, Zhi Hu, Lv Xu, Hao Chu, Xiao Wang & Wei Zhang
PCGEM1 facilitates prostate cancer (PCa) progression. This study aimed to elucidate the mechanism of action of PCGEM1 in PCa. The expression of PCGEM1, microRNA miR-129-5p, chromatin licensing, and DNA replication factor 1 (CDT1) was detected by quantitative reverse transcription-PCR (qRT-PCR). A series of function experiments including cell counting kit-8 (CCK-8), caspase-3 activity, and cell cycle assays were performed to evaluate the influence of PCGEM1, miR-129-5p, and CDT1 on the biological processes of PCa cells. CyclinD1,...

Evolutionary analysis of MIR156/157 family during floral induction in walnut (Juglans regia L.)

Xing Yuan, Jianxin Niu, Li Zhou, Shaowen Quan, Li Ma & Hang Xu
The miR156/157 family is widely identified in various plant species and plays important regulatory roles in floral induction and stress response. However, information regarding evolution of miR156/157s and their functions during floral induction in walnut (Juglans regia) remains unknown. In this study, four precursors and four mature miR156/157s were identified in J. regia via small RNA sequencing. We constructed phylogenetic trees for precursor sequences of miR156/157s from different plants, as well as J. regia. The...

Additional file 2 of Genomic and resistome analysis of Alcaligenes faecalis strain PGB1 by Nanopore MinION and Illumina Technologies

Jidong Lang, Yanju Li, Wenjuan Yang, Ruyi Dong, Yuebin Liang, Jia Liu, Lanyou Chen, Weiwei Wang, Binbin Ji, Geng Tian, Nanying Che & Bo Meng
Additional file 2.

Additional file 2 of Genomic and resistome analysis of Alcaligenes faecalis strain PGB1 by Nanopore MinION and Illumina Technologies

Jidong Lang, Yanju Li, Wenjuan Yang, Ruyi Dong, Yuebin Liang, Jia Liu, Lanyou Chen, Weiwei Wang, Binbin Ji, Geng Tian, Nanying Che & Bo Meng
Additional file 2.

Construction of an evenly-distributed genetic map using contig-tag-SNPs for quantitative trait loci (QTL) analysis of fiber-related traits in kenaf (Hibiscus cannabinus L.)

Yi Xu, Xuebei Wan, Siyuan Chen, Ting Liu, Jianmin Qi, Jiantang Xu & Liwu Zhang
Kenaf is one of the most important natural fiber crops worldwide, which aims at harvesting bast fiber. Mining QTL loci of fiber yield and quality traits will facilitate fiber improvement and molecular marker-assisted breeding in kenaf. In this study, Fuhong 952 and Zanyin No. 1 were used as parents to construct two mapping populations, F2 and F2:3, and an evenly distributed genetic linkage map was constructed by re-sequencing. The map contains 2512 contig-tag-SNP markers, and...

Comprehensive comparative analysis and expression profiles and effects on physiological response of DEAD-box RNA helicase genes in Lumnitzera littorea (Jack) Voigt under cold stress

LuLu Hao, Ying Zhang, Yin Li, Linxia Bai, Danfei Yue, Huiyu Zhang & Chunfang Zheng
The DEAD-box family has been shown to play an important role in a variety of abiotic stresses, but little is known in studies of mangrove plants. Here, the effects of cold stress on various physiological changes and the role of the DEAD-box RNA helicase family in response to cold stress were determined. First, we identified 73 DEAD-box RNA helicase family members in L. littorea. Second, the evolutionary relationships between the DEAD family in L. littorea...

Customizable process design for collaborative geographic analysis

Zaiyang Ma, Min Chen, Zhong Zheng, Songshan Yue, Zhiyi Zhu, Beichen Zhang, Jin Wang, Fengyuan Zhang, Yongning Wen & Guonian Lü
Collaborative geographic analysis can lead to better outcomes but requires complicated interactions among participants, support resources and analytic tools. A process expression with explicit structure and content can help coordinate and guide these interactions. For different geographic problems, the structure and content of collaborative geographic analysis are generally distinct. Since the process structure embodies the pathway of problem-solving and the process content contains the information flow and internal interactions, both the structure and the content...

RETRACTED ARTICLE: Hsa_circ_0101432 promotes the development of hepatocellular carcinoma (HCC) by adsorbing miR-1258 and miR-622

Haibo Zou, Xiangang Xu, Lanyun Luo, Yu Zhang, Le Luo, Yutong Yao, Guangming Xiang, Xiaolun Huang & Guan Wang
Hsa_circ_0101432 promotes the development of hepatocellular carcinoma (HCC) by adsorbing miR-1258 and miR-622 We, the Editors and Publisher of the journal Cell Cycle, have retracted the following article: Haibo Zou, Xiangang Xu, Lanyun Luo, Yu Zhang, Le Luo, Yutong Yao, Guangming Xiang, Xiaolun Huang, and Guan Wang. Hsa_circ_0101432 promotes the development of hepatocellular carcinoma (HCC) by adsorbing miR-1258 and miR-622. Cell Cycle. 2019;18(19):2398-2413. doi: 10.1080/15384101.2019.1618120. Since publication, significant concerns have been raised about the integrity...

CCNE1 is a potential target of Metformin for tumor suppression of ovarian high-grade serous carcinoma

Jie Mei, Huixiang Tian, Hsuan-Shun Huang, Nayiyuan Wu, Yu-Ligh Liou, Tang-Yuan Chu, Jing Wang & Wei Zhang
High-grade serous ovarian cancer (HGSOC) is the most common and malignant type of ovarian cancer, accounting for 70%–80% of mortality. However, the treatment of HGSOC has improved little in the past few decades. Metformin is the first-line medication for the treatment of type 2 diabetes and has now gained more attention in cancer treatment. In this study, we sought to identify potential hub genes that metformin could target in the treatment of HGSOC. We downloaded...

Adipose-derived mesenchymal stem cell-secreted extracellular vesicles alleviate non-alcoholic fatty liver disease via delivering miR-223-3p

Qinghui Niu, Ting Wang, Zhiqiang Wang, Feng Wang, Deyu Huang, Huali Sun & Hanyun Liu
Increasing studies have identified the potential of mesenchymal stem cell-derived extracellular vesicles (MSC-EVs) in non-alcoholic fatty liver disease (NAFLD) treatment. Hence, we further focused on the potential of adipose-derived MSC (ADSC)-EVs in NAFLD by delivering miR-223-3p. The uptake of isolated ADSC-EVs by hepatocytes was assessed, and the expression of miR-223-3p in ADSC-EVs and hepatocytes was characterized. It was established that miR-223-3p, enriched in ADSC-EVs, could be delivered by ADSC-EVs into hepatocytes. Using co-culture system and...

Bayesian Spatial Blind Source Separation via the Thresholded Gaussian Process

Ben Wu, Ying Guo & Jian Kang
Blind source separation (BSS) aims to separate latent source signals from their mixtures. For spatially dependent signals in high-dimensional and large-scale data, such as neuroimaging, most existing BSS methods do not take into account the spatial dependence and the sparsity of the latent source signals. To address these major limitations, we propose a Bayesian spatial blind source separation (BSP-BSS) approach for neuroimaging data analysis. We assume the expectation of the observed images as a linear...

Cancer-associated fibroblast-released extracellular vesicles carrying miR-199a-5p induces the progression of​ gastric cancer through regulation of FKBP5-mediated AKT1/mTORC1 signaling pathway

Yan Wang, Tao Li, Lei Yang, Xunlei Zhang, Xiaoli Wang, Xiaoqin Su, Congfei Ji & Zhenxin Wang
Accumulating evidence has unfolded the significance of extracellular vesicles (EVs) in diseases and cancers. Here, we attempted to discuss the role of cancer-associated fibroblasts (CAFs)-derived EVs containing miR-199a-5p in gastric tumorigenesis. Upregulated miR-199a-5p was first identified in cancer cells. Then, we selected CAFs for isolation of EVs which were co-cultured with AGS cells. We observed successful delivery of miR-199a-5p via CAF-derived EVs. Besides, miR-199a-5p promoted malignant properties of AGS cells. Moreover, miR-199a-5p downregulated FKBP5, leading...

Management guideline for the off-label use of medicine in China (2021)

Wei Zuo, Yajia Sun, Rongji Liu, Liping Du, Nan Yang, Wenjuan Sun, Ping Wang, Xiaowan Tang, Yunlan Liu, Yuanyuan Ma, Min Meng, Ruobing Lei, Xuelian Yan, Hua Peng, Qing Chang, Hui Pan, Bo Zhang, Yaolong Chen & Shuyang Zhang
Off-label drug use embodies a thorough clinical diagnosis and evaluation of treatment needs and should not be confused with unreasonable drug use, but it also faces potential risks with drug safety and legal issues. We first established a guideline working group. Following the guideline development process recommended by the World Health Organization Handbook and the Chinese Medical Association, the key questions were determined through literature searches of PubMed, CNKI (Chinese National Knowledge Infrastructure) and other...

Management guideline for the off-label use of medicine in China (2021)

Wei Zuo, Yajia Sun, Rongji Liu, Liping Du, Nan Yang, Wenjuan Sun, Ping Wang, Xiaowan Tang, Yunlan Liu, Yuanyuan Ma, Min Meng, Ruobing Lei, Xuelian Yan, Hua Peng, Qing Chang, Hui Pan, Bo Zhang, Yaolong Chen & Shuyang Zhang
Off-label drug use embodies a thorough clinical diagnosis and evaluation of treatment needs and should not be confused with unreasonable drug use, but it also faces potential risks with drug safety and legal issues. We first established a guideline working group. Following the guideline development process recommended by the World Health Organization Handbook and the Chinese Medical Association, the key questions were determined through literature searches of PubMed, CNKI (Chinese National Knowledge Infrastructure) and other...

Additional file 4 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 4: Table S8. Associations between genetically inferred ancestry and phecodes within ATLAS while adjusting for SIRE.

Additional file 8 of Leveraging genomic diversity for discovery in an electronic health record linked biobank: the UCLA ATLAS Community Health Initiative

Ruth Johnson, Yi Ding, Vidhya Venkateswaran, Arjun Bhattacharya, Kristin Boulier, Alec Chiu, Sergey Knyazev, Tommer Schwarz, Malika Freund, Lingyu Zhan, Kathryn S. Burch, Christa Caggiano, Brian Hill, Nadav Rakocz, Brunilda Balliu, Christopher T. Denny, Jae Hoon Sul, Noah Zaitlen, Valerie A. Arboleda, Eran Halperin, Sriram Sankararaman, Manish J. Butte, Clara Lajonchere, Daniel H. Geschwind & Bogdan Pasaniuc
Additional file 8: Table S12. Effective sample sizes and effect sizes of correlated phenotypes for chronic nonalcoholic liver disease. Table S13. Role of phecode occurrences for defining cases. Table S14. Summary of methods. Table S15. Comparison of GIA clusters when restricting to unrelated individuals. Table S16. Comparison of genetic ancestry proportions within SIREs when using unrelated individuals.

Leading trait dimensions in flood-tolerant plants

Yingji Pan, Ellen Cieraad, Jean Armstrong, William Armstrong, Beverley Clarkson, Ole Pedersen, Eric Visser, Laurentius Voesenek & Peter Van Bodegom
Background and Aims While trait-based approaches have provided critical insights into general plant functioning, we lack a comprehensive quantitative view on plant strategies in flooded conditions. Plants adapted to flooded conditions have specific traits (e.g. root porosity, low root/shoot ratio and shoot elongation) to cope with the environmental stressors including anoxic sediments, and the subsequent presence of phytotoxic compounds. In flooded habitats, plants also respond to potential nutrient and light limitations, e.g. through the expression...

Transcriptomic insights into the regulatory networks of chilling-induced early flower in tobacco (Nicotiana tabacum L.)

Guoyun Xu, Wuxia Guo, Zunqiang Li, Chen Wang, Yalong Xu, Jingjing Jin, Huina Zhou & Shulin Deng
Appropriate timing of flowering is pivotal for tobacco, while chilling stress occurring at the seedling stage often undesirably leads to early flowering. However, the potential mechanism underlying chilling-induced early flowering remains unknown. Here, transcriptome sequencing was performed in tobacco with or without chilling at both seedling and budding stages. Chilling affected the expression of numerous genes at the seedling stage, while these dramatic expression changes were largely eliminated at the budding stage. A small number...

China's Gridded Manufacturing Dataset

Chenjing Fan, Xinran Huang, Lin Zhou, Zhenyu Gai, Chaoyang Zhu & Haole Zhang
The growth of the manufacturing industry is the engine of rapid economic growth in developing regions. Characterizing the geographical distribution of manufacturing firms is critically important for scientists and policymakers. However, data on the manufacturing industry used in previous studies either have a low spatial resolution (or fuzzy classification) or high-resolution information is lacking. Here, we propose a map point-of-interest classification method based on machine learning technology and build a dataset of the distribution of...

Additional file 1 of Identification of HMGB2 associated with proliferation, invasion and prognosis in lung adenocarcinoma via weighted gene co-expression network analysis

Xie Qiu, Wei Liu, Yifan Zheng, Kai Zeng, Hao Wang, Haijun Sun & Jianhua Dai
Additional file 1: Table S1. Clinical informations and IHC score of patients with LUAD.

Knockdown of GSG2 inhibits the development and progression of non-small cell lung cancer in vitro and in vivo

Fan Zhang, Bin Qiu, Ying Ji, Hao Zhang, Peng Song, Nan Sun, Liang Zhao, Fang Lv, Lixia Yin, Yibo Gao, Qi Xue, Shugeng Gao & Jie He
Lung cancer has been recognized as the most common malignant neoplasm of the respiratory system with extremely high morbidity, among which non-small cell lung cancer (NSCLC) accounts for the majority. Many published literatures have revealed the roles of GSG2 in the progression of ovarian cancer, bladder cancer and breast cancer. However, there were no reports on the relationship between GSG2 and NSCLC. Herein, GSG2 was identified as a potential tumor promoter in NSCLC development, whose...

The Cauchy Combination Test under Arbitrary Dependence Structures

Mingya Long, Zhengbang Li, Wei Zhang & Qizhai Li
Combining individual p-values to perform an overall test is often encountered in statistical applications. The Cauchy combination test (CCT) (Journal of the American Statistical Association, 2020, 115, 393–402) is a powerful and computationally efficient approach to integrate individual p-values under arbitrary dependence structures for sparse signals. We revisit this test to additionally show that (i) the tail probability of the CCT can be approximated just as well when more relaxed assumptions are imposed on individual...

Nonparametric Prediction Distribution from Resolution-Wise Regression with Heterogeneous Data

Jialu Li, Wan Zhang, Peiyao Wang, Qizhai Li, Kai Zhang & Yufeng Liu
Modeling and inference for heterogeneous data have gained great interest recently due to rapid developments in personalized marketing. Most existing regression approaches are based on the conditional mean and may require additional cluster information to accommodate data heterogeneity. In this article, we propose a novel nonparametric resolution-wise regression procedure to provide an estimated distribution of the response instead of one single value. We achieve this by decomposing the information of the response and the predictors...

Additional file 2 of A genome-wide association study of mammographic texture variation

Yuxi Liu, Hongjie Chen, John Heine, Sara Lindstrom, Constance Turman, Erica T. Warner, Stacey J. Winham, Celine M. Vachon, Rulla M. Tamimi, Peter Kraft & Xia Jiang
Additional file 2: Table S1. Number of GWAS subjects by study and platform. Table S4. GWAS results of significant V loci for all V assessments and models. Table S5. Lookup results of 72 MD phenotype SNPs in GWAS of V. Table S6. Lookup results of 195 breast cancer SNPs in GWAS of V. Table S7. Genetic correlation results of all V assessments and models. Table S8. SNP-set test results of all V assessments and models.

Additional file 6 of MAPK8IP2 is a potential prognostic biomarker and promote tumor progression in prostate cancer

Zhenhao Zeng, Wenrui He, Yi Jiang, Hao Jiang, Xiaofeng Cheng, Wen Deng, Xiaochen Zhou, Cheng Zhang & Gongxian Wang
Additional file 6 Table S1. Browse interactions in tabular form.

Registration Year

  • 2022
    1,454

Resource Types

  • Dataset
    1,454

Affiliations

  • Sichuan University
    1,454
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    960
  • Zhejiang University
    807
  • Shanghai Jiao Tong University
    795
  • Fudan University
    787
  • Huazhong University of Science and Technology
    738
  • Capital Medical University
    654
  • Sun Yat-sen University
    636
  • Chinese Academy of Sciences
    627
  • West China Hospital of Sichuan University
    571