61 Works

Vegetation Carbon Accumulation Driven by Stand Characteristics and Climatic Factors in Subtropical Forests of Southeastern China

Zhipeng Ge, Weisong Wen, Lin Xu, Guangsheng Chen, Guomo Zhou, Biyong Ji, Yufeng Zhou, Guoliang Zhu & Yongjun Shi
Subtropical forests act as a carbon sink and play an important role in mitigating global warming. However, the understanding of the effects of stand characteristics and climatic factors on forest carbon sequestration capacity remains limited. Based on multiple regression analyses using structural equation modeling and plot-level data of coniferous and broadleaf forests from the national forest resource inventories, our study quantified vegetation carbon accumulation rate (VCAR) and the underlying influence pattern in Zhejiang Province, Southeastern...

Identification of significant genes and therapeutic agents for breast cancer by integrated genomics

Xiao Sun, Zhenzhen Luo, Liuyun Gong, Xinyue Tan, Jie Chen, Xin Liang & Mengjiao Cai
Breast cancer is the most commonly diagnosed malignancy in women; thus, more cancer prevention research is urgently needed. The aim of this study was to predict potential therapeutic agents for breast cancer and determine their molecular mechanisms using integrated bioinformatics. Summary data from a large genome-wide association study of breast cancer was derived from the UK Biobank. The gene expression profile of breast cancer was from the Oncomine database. We performed a network-wide association study...

Metabolism-related long non-coding RNAs (lncRNAs) as potential biomarkers for predicting risk of recurrence in breast cancer patients

Jian-ying Ma, Shao-hua Liu, Jie Chen & Qin Liu
Metabolism affects the development, progression, and prognosis of various cancers, including breast cancer (BC). Our aim was to develop a metabolism-related long non-coding RNA (lncRNA) signature to assess the prognosis of BC patients in order to optimize treatment. Metabolism-related genes between breast tumors and normal tissues were screened out, and Pearson correlation analysis was used to investigate metabolism-related lncRNAs. In total, five metabolism-related lncRNAs were enrolled to establish prognostic signatures. Kaplan-Meier plots and the receiver...

SUVA: splicing site usage variation analysis from RNA-seq data reveals highly conserved complex splicing biomarkers in liver cancer

Chao Cheng, Lei Liu, Yongli Bao, Jingwen Yi, Weili Quan, Yaqiang Xue, Luguo Sun & Yi Zhang
Most of the current alternative splicing (AS) analysis tools are powerless to analyse complex splicing. To address this, we developed SUVA (Splice sites Usage Variation Analysis) that decomposes complex splicing events into five types of splice junction pairs. By analysing real and simulated data, SUVA showed higher sensitivity and accuracy in detecting AS events than the compared methods. Notably, SUVA detected extensive complex AS events and screened out 69 highly conserved and dominant AS events...

SUVA: splicing site usage variation analysis from RNA-seq data reveals highly conserved complex splicing biomarkers in liver cancer

Chao Cheng, Lei Liu, Yongli Bao, Jingwen Yi, Weili Quan, Yaqiang Xue, Luguo Sun & Yi Zhang
Most of the current alternative splicing (AS) analysis tools are powerless to analyse complex splicing. To address this, we developed SUVA (Splice sites Usage Variation Analysis) that decomposes complex splicing events into five types of splice junction pairs. By analysing real and simulated data, SUVA showed higher sensitivity and accuracy in detecting AS events than the compared methods. Notably, SUVA detected extensive complex AS events and screened out 69 highly conserved and dominant AS events...

Genome-wide comparison of the GRAS protein family in eight Rosaceae species and GRAS gene expression analysis in Chinese white pear (Pyrus bretschneideri Rehder)

Wenjing Chang, Manyi Sun, Mingyue Zhang, Zikai Tang, Jiawen Sheng, Yueyuan Liu, Bobo Song, Jiaming Li, Kejiao Zhao & Jun Wu
The GRAS protein family encodes a family of plant-specific transcription factors that have diverse and significant functions in regulating plant development and anthocyanin biosynthesis. Our study represents the comprehensive identification and comparison of GRAS protein family genes in the Rosaceae. Here, 535 GRAS genes were screened from eight Rosaceae species. Phylogenetic analysis revealed that whole-genome duplication (WGD) events and dispersed duplication events were the major mechanisms promoting the expansion of the GRAS protein family in...

Effect of acupuncture and metformin on insulin sensitivity in women with polycystic ovary syndrome and insulin resistance: a three-armed randomized controlled trial

Qidan Wen, Min Hu, Maohua Lai, Juan Li, Zhenxing Hu, Kewei Quan, Jia Liu, Hua Liu, Yanbing Meng, Suling Wang, Xiaohui Wen, Chuyi Yu, Shuna Li, Shiya Huang, Yanhua Zheng, Han Lin, Xingyan Liang, Lingjing Lu, Zhefen Mai, Chunren Zhang, Taixiang Wu, Ernest HY Ng, Elisabet Stener-Victorin & Hongxia Ma
STUDY QUESTION Does acupuncture improve insulin sensitivity more effectively than metformin or sham acupuncture in women with polycystic ovary syndrome (PCOS) and insulin resistance (IR)? SUMMARY ANSWER Among women with PCOS and IR, acupuncture was not more effective than metformin or sham acupuncture in improving insulin sensitivity. WHAT IS KNOWN ALREADY Uncontrolled trials have shown that acupuncture improved insulin sensitivity with fewer side effects compared with metformin in women with PCOS and IR. However, data...

Aloin decelerates the progression of hepatocellular carcinoma through circ_0011385/miR-149-5p/WT1 axis

Dazhi Fu, Qiang Ji, Chunxiao Wang, Lei Yu & Rui Yu
CircRNA/miRNA/mRNA axis has been reported to play crucial regulatory roles in multiple cancers, including hepatocellular carcinoma (HCC). In addition, recent investigations revealed that aloin exerted anti-tumor functions in HCC. However, the underlying mechanism of aloin on anti-tumor functions in HCC remained elusive. Therefore, this study aimed to investigate whether circRNA/miRNA/mRNA axis medicated the anti-tumor effect of aloin in HCC. Cell viability, invasion, apoptosis and autophagy were accessed by cell counting kit-8 (CCK-8), transwell invasion assay,...

Numbers of individuals and endemicity for birds in three study sites of the Himalayas-Hengduan mountains of China

Yiming Hu, Brett Scheffers, Xinyuan Pan, Huijian Hu, Zhixin Zhou, Dan Liang, Cheng Wenda, Zhixin Wen & Luke Gibson
1. Describing the patterns and revealing the underlying mechanisms responsible for variations in community structure remains a central focus in ecology. However, important gaps remain, including our understanding of species abundance. Most studies on abundance-based relationships are from either temperate ecosystems or tropical ecosystems, and few have explicitly tested abundance-based relationships across a temperate to tropical ecotone. 2. Here, we use a comprehensive dataset of breeding birds across elevation spanning a temperate to subtropical gradient...

The microRNA-451a/chromosome segregation 1-like axis suppresses cell proliferation, migration, and invasion and induces apoptosis in nasopharyngeal carcinoma

Yi Luo, Xiu Qu, Dan Kan & Binlin Cai
MicroRNA-451a (miR-451a) has been implicated in the initiation and progression of multiple cancers. However, the regulatory mechanisms underlying its function in nasopharyngeal carcinoma (NPC) are poorly understood. Thus, we investigated in detail the role of the microRNA-451a/chromosome segregation 1-like (miR-45a/CSE1L) axis and its regulatory mechanism in NPC. We examined the levels of miR-451a and CSE1L in NPC, and assessed the effects of miR-451a and CSE1L on NPC by cell functional experiments. Furthermore, we elucidated the...

The role of CCR2 in prognosis of patients with endometrial cancer and tumor microenvironment remodeling

Lin Xu, Qin Fang, Youqing Miao, Mengting Xu, Yichun Wang, Lizhou Sun & Xuemei Jia
Tumor microenvironment (TME) plays a core role in the genesis and progress of endometrial carcinoma (EC). The immune system, a crucial element of TME, functions in various immune cells. In this paper, we have tried to evaluate the prognosis in EC patients by the status of TME. The ESTIMATE algorithm was implemented to computer the number of immune and stromal components in EC tissues from the Cancer Genome Atlas dataset. The CIBERSORT algorithm was employed...

Immune implication of FAM83D gene in hepatocellular carcinoma

Tao Meng, Zhong Tong, Ming-Ya Yang, Yan Zhang, Yu Liu, Zhen-Zhen Wang, Li-Xin Zhu & Jin Wu
FAM83D has been demonstrated to contribute to tumorigenesis. However, its immune effects in hepatocellular carcinoma (HCC) have not been reported. This study aimed to identify the immune role of FAM83D in HCC. FAM83D was over-expressed in HCC and contributed to poor prognosis according to the results of data analysis based on The Cancer Genome Atlas (TCGA). Afterward, the levels of immune cells infiltration were found to be correlated with the expression level of FAM83D in...

Comparative analysis of circRNA expression profile and circRNA-miRNA-mRNA regulatory network between palmitic and stearic acid-induced lipotoxicity to pancreatic β cells

Yunjin Zhang, Qingrui Zhao, Shenghan Su, Lingfeng Dan, Xuebei Li, Yu Wang, Yuqing Lin, Zhen Tian, Changhao Sun & Huimin Lu
Chronic exposure to high concentrations of circulating palmitic acid and stearic acid leads to impaired β cell function, which accelerates the development of type 2 diabetes. However, differences in the mechanisms underlying this process between these two saturated fatty acids remain largely unknown. In this study, we screened for potential circular RNAs (circRNAs) and their associated regulatory pathways in palmitic acid- and stearic acid-induced mouse β-TC6 cell dysfunction. CircRNA high-throughput sequencing, gene ontology enrichment and...

Comparative analysis of circRNA expression profile and circRNA-miRNA-mRNA regulatory network between palmitic and stearic acid-induced lipotoxicity to pancreatic β cells

Yunjin Zhang, Qingrui Zhao, Shenghan Su, Lingfeng Dan, Xuebei Li, Yu Wang, Yuqing Lin, Zhen Tian, Changhao Sun & Huimin Lu
Chronic exposure to high concentrations of circulating palmitic acid and stearic acid leads to impaired β cell function, which accelerates the development of type 2 diabetes. However, differences in the mechanisms underlying this process between these two saturated fatty acids remain largely unknown. In this study, we screened for potential circular RNAs (circRNAs) and their associated regulatory pathways in palmitic acid- and stearic acid-induced mouse β-TC6 cell dysfunction. CircRNA high-throughput sequencing, gene ontology enrichment and...

Identification of fibronectin 1 (FN1) and complement component 3 (C3) as immune infiltration-related biomarkers for diabetic nephropathy using integrated bioinformatic analysis

Yuejun Wang, Mingming Zhao & Yu Zhang
Immune cell infiltration (ICI) plays a pivotal role in the development of diabetic nephropathy (DN). Evidence suggests that immune-related genes play an important role in the initiation of inflammation and the recruitment of immune cells. However, the underlying mechanisms and immune-related biomarkers in DN have not been elucidated. Therefore, this study aimed to explore immune-related biomarkers in DN and the underlying mechanisms using bioinformatic approaches. In this study, four DN glomerular datasets were downloaded, merged,...

Field evidence reveals conservative water use of poplars under high aerosol conditions in Beijing

Bin Wang, Zhenhua Wang, Chengzhang Wang, Xin Wang, Jing Li, Zhou Jia, Ping Li, Jin Wu, Min Chen & Lingli Liu
Anthropogenic aerosols could alter multiple meteorological processes such as radiation regime and air temperature, thereby modifying plant transpiration. However, the lack of field observations at the leaf- and plant-level hinders our ability to understand how aerosols could affect plant water use. Aerosol concentrations in northern China fluctuates periodically over a wide range. Taking advantage of this unique natural experiment opportunity, we conducted a full series of supporting physiological and environmental measurements to explore aerosols' effect...

Empirical food webs of 12 tropical reservoirs in Singapore

Clare Wilkinson, Rayson B. H. Lim, Jia Huan Liew, Jeffrey T. B. Kwik, Darren C. J. Yeo, Claudia L. Y. Tan & Heok Hui Tan
We present 12 food webs from tropical reservoir communities in Singapore, and summarise the topology of each with widely used network indices (e.g., connectance, link density). Each reservoir was surveyed over 4–6 sampling occasions, during which, representative animal groups (i.e., fish species, and taxonomic/functional groups of zooplankton and benthic macroinvertebrates) and all likely sources of primary production (i.e., macrophytes, periphyton, phytoplankton, and riparian terrestrial plants) were collected. We determined and measured gut content in fishes...

Attenuation of porcine deltacoronavirus disease severity by porcine reproductive and respiratory syndrome virus coinfection in a weaning pig model

Xinrong Zhou, Xinna Ge, Yongning Zhang, Jun Han, Xin Guo, Yanhong Chen, Lei Zhou & Hanchun Yang
Porcine deltacoronavirus (PDCoV) is a potentially emerging zoonotic pathogen that causes severe diarrhea in young pigs, with a risk of fatal dehydration. Its pathogenicity on neonatal piglet has been previously reported, however, it is less known if the coinfection with immunosuppressive pathogens can influence PDCoV disease manifestation. Here, a coinfection model of PDCoV and porcine reproductive and respiratory syndrome virus (PRRSV), a global-spread immunosuppressive virus, was set to study their interaction. Weaning pigs in the...

Vegetation Carbon Accumulation Driven by Stand Characteristics and Climatic Factors in Subtropical Forests of Southeastern China

Zhipeng Ge, Weisong Wen, Lin Xu, Guangsheng Chen, Guomo Zhou, Biyong Ji, Yufeng Zhou, Guoliang Zhu & Yongjun Shi
Subtropical forests act as a carbon sink and play an important role in mitigating global warming. However, the understanding of the effects of stand characteristics and climatic factors on forest carbon sequestration capacity remains limited. Based on multiple regression analyses using structural equation modeling and plot-level data of coniferous and broadleaf forests from the national forest resource inventories, our study quantified vegetation carbon accumulation rate (VCAR) and the underlying influence pattern in Zhejiang Province, Southeastern...

ANTIELAB Research Data Archive - Mobilization Map Data

King Wa Fu & Elgar Teo
Microdata of the ANTIELAB Research Data Archive - Mobilization Map
Field definition (event.csv):
event-id: an unique event identifier date: date of the event time: hour of a day of the event link: url link(s) to the call for action posts on the Telegram channel type: type of the event district: one of the 18 Hong Kong districts (in Chinese) location1-13: specific locations identified in the post(s) (in Chinese)
The shape file contains...

Quasispecies of SARS-CoV-2 revealed by single nucleotide polymorphisms (SNPs) analysis

Rongsui Gao, Wenhong Zu, Yang Liu, Junhua Li, Zeyao Li, Yanling Wen, Haiyan Wang, Jing Yuan, Lin Cheng, Shengyuan Zhang, Yu Zhang, Shuye Zhang, Weilong Liu, Xun Lan, Lei Liu, Feng Li & Zheng Zhang
New SARS-CoV-2 mutants have been continuously indentified with enhanced transmission ever since its outbreak in early 2020. As an RNA virus, SARS-CoV-2 has a high mutation rate due to the low fidelity of RNA polymerase. To study the single nucleotide polymorphisms (SNPs) dynamics of SARS-CoV-2, 158 SNPs with high confidence were identified by deep meta-transcriptomic sequencing, and the most common SNP type was C > T. Analyses of intra-host population diversity revealed that intra-host quasispecies’...

Identification of significant genes and therapeutic agents for breast cancer by integrated genomics

Xiao Sun, Zhenzhen Luo, Liuyun Gong, Xinyue Tan, Jie Chen, Xin Liang & Mengjiao Cai
Breast cancer is the most commonly diagnosed malignancy in women; thus, more cancer prevention research is urgently needed. The aim of this study was to predict potential therapeutic agents for breast cancer and determine their molecular mechanisms using integrated bioinformatics. Summary data from a large genome-wide association study of breast cancer was derived from the UK Biobank. The gene expression profile of breast cancer was from the Oncomine database. We performed a network-wide association study...

Genome-wide comparison of the GRAS protein family in eight Rosaceae species and GRAS gene expression analysis in Chinese white pear (Pyrus bretschneideri Rehder)

Wenjing Chang, Manyi Sun, Mingyue Zhang, Zikai Tang, Jiawen Sheng, Yueyuan Liu, Bobo Song, Jiaming Li, Kejiao Zhao & Jun Wu
The GRAS protein family encodes a family of plant-specific transcription factors that have diverse and significant functions in regulating plant development and anthocyanin biosynthesis. Our study represents the comprehensive identification and comparison of GRAS protein family genes in the Rosaceae. Here, 535 GRAS genes were screened from eight Rosaceae species. Phylogenetic analysis revealed that whole-genome duplication (WGD) events and dispersed duplication events were the major mechanisms promoting the expansion of the GRAS protein family in...

Antioxidant and antibacterial activities of 13 ornamental herbaceous peony cultivars: a comparative study with stems and leaves

Lei Liu, Yingdan Yuan & Jun Tao
Paeonia lactiflora is an important ornamental and medicinal plant, but after the flowering period, the above-ground parts of ornamental cultivars are often discarded as waste. When considering the development of medicinal plant resources, attention should be paid to the comprehensive development and utilisation of the plant. In this study, 13 ornamental herbaceous peony cultivars were selected, and their stems and leaves were analysed for antioxidant and antibacterial activities. The results showed that total phenolic content...

Safe traveling in public transport amid COVID-19

Donggyun Ku, Chihyung Yeon, Seungjae Lee, Kyuhong Lee, Keeyeon Hwang, Y.C. Li & S.C. Wong
Several intense policies, such as mandatorily wearing masks and practicing social distancing, have been implemented in South Korea to prevent the spread of the novel coronavirus disease (COVID-19). In this study, we analyzed and measured the impact of the aforementioned policies by calculating the degree of infection exposure in public transportation. Specifically, we simulated how passengers encounter and infect each other during their journeys in public transportation by tracking movements of passengers. The probabilities of...

Registration Year

  • 2021
    61

Resource Types

  • Dataset
    61

Affiliations

  • University of Hong Kong
    61
  • Zhejiang University
    30
  • Fudan University
    28
  • Sun Yat-sen University
    27
  • West China Hospital of Sichuan University
    27
  • Shanghai Jiao Tong University
    26
  • Sichuan University
    24
  • Nanjing Medical University
    23
  • Capital Medical University
    21
  • Southern Medical University
    21