Majorbio Cloud: A one‐stop, comprehensive bioinformatic platform for multiomics analyses

Ren, Yi; Guo, Yu; Shi, Caiping; Liu, Linmeng; Guo, Qi; Han, Chang; Zhang, Dan; Zhang, Lei; Liu, Binxu; Gao, Hao; Zeng, Jing; Zhou, Yong; Qiu, Yuhan; Wei, Jian; Luo, Yuanyuan; Zhu, Faming; Li, Xiaojie; Wu, Qingqing; Li, Bing; Fu, Wenyao; Tong, Yanli; Meng, Jian; Fang, Ya-Hong; Dong, Jie; Feng, Yingchao; Xie, Shichang; Yang, Qian; Yang, Hui; Wang, Yan; Zhang, Junbiao; Gu, Haidong; Xuan, Hongdong; Zou, Guanqing; Luo, Chun; Huang, Long; Yang, Bing; Dong, Yuchen; Zhao, Jun; Han, Jichen; Zhang, Xianglin; Huang, Huasheng

doi:10.1002/imt2.12

Cited by 414 publications

(217 citation statements)

References 20 publications

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“…After 24 h, the cells were divided into two groups: control group treated with vehicle and experimental group treated with 1.5 μm LY01 for 6 h. The cells were resuspended with 1 ml Trizol and then frozen at −80°C for testing. Samples prepared according to the above steps were sent to the Shanghai Majorbio Bio-pharm Technology Co., Ltd. for RNA extraction, illumina transcriptome sequencing and bioinformatics analysis ( Ren et al, 2022 ).…”

Section: Methodsmentioning

confidence: 99%

Mechanism of Neural Regeneration Induced by Natural Product LY01 in the 5×FAD Mouse Model of Alzheimer’s Disease

Lü

Zhang

et al. 2022

Front. Pharmacol.

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Background: A sharp decline in neural regeneration in patients with Alzheimer’s disease (AD) exacerbates the decline of cognition and memory. It is of great significance to screen for innovative drugs that promote endogenous neural regeneration. Cytisine N-methylene-(5,7,4′-trihydroxy)-isoflavone (LY01) is a new compound isolated from the Chinese herbal medicine Sophora alopecuroides with both isoflavone and alkaloid characteristic structures. Its pharmacological effects are worth studying.Objective: This study was designed to determine whether LY01 delays the cognitive and memory decline in the early stage of AD and whether this effect of LY01 is related to promoting neural regeneration.Methods: Eight-week-old 5×Familial Alzheimer’s Disease (5×FAD) mice were used as disease models of early AD. Three doses of LY01 administered in two courses (2 and 5 weeks) of treatment were tested. Cognition, memory, and anxiety-like behaviors in mice were evaluated by the Morris water maze, fear conditioning, and open field experiments. Regeneration of neurons in the mouse hippocampus was observed using immunofluorescence staining. The effect of LY01 on cell regeneration was also demonstrated using a series of tests on primary cultured neurons, astrocytes, and neural stem cells (NSCs). In addition, flow cytometry and transcriptome sequencing were carried out to preliminarily explored the mechanisms.Results: We found that LY01 reduced the decline of cognition and memory in the early stage of 5×FAD mice. This effect was related to the proliferation of astrocytes, the proliferation and migration of NSCs, and increases in the number of new cells and neural precursor cells in the dentate gyrus area of 5×FAD mice. This phenomenon could be observed both in 2-week-old female and 5-week-old male LY01-treated 5×FAD mice. The neuronal regeneration induced by LY01 was related to the regulation of the extracellular matrix and associated receptors, and effects on the S phase of the cell cycle.Conclusion: LY01 increases the proliferation of NSCs and astrocytes and the number of neural precursor cells in the hippocampus, resulting in neural regeneration in 5×FAD mice by acting on the extracellular matrix and associated receptors and regulating the S phase of the cell cycle. This provides a new idea for the early intervention and treatment of AD.

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Section: Methodsmentioning

confidence: 99%

Mechanism of Neural Regeneration Induced by Natural Product LY01 in the 5×FAD Mouse Model of Alzheimer’s Disease

Lü

Zhang

et al. 2022

Front. Pharmacol.

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“…Finally, comparative analyses of the alpha diversity, beta diversity, and species classification were applied. Analyses of the 16S rRNA microbiome sequencing data were processed using the online platform Majorbio Cloud ( ), a one-stop, comprehensive bioinformatic platform for multiomics analyses ( Ren et al., 2022 ). The platform consists of three modules: preconfigured bioinformatic pipelines, cloud toolsets, and online omics courses.…”

Section: Methodsmentioning

confidence: 99%

Effect of Fecal Microbiota Transplantation on Non-Alcoholic Fatty Liver Disease: A Randomized Clinical Trial

Xue

Deng

Luo

et al. 2022

Front. Cell. Infect. Microbiol.

112

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Background and AimsThe clinical efficacy of fecal microbiota transplantation (FMT) in patients with non-alcoholic fatty liver disease (NAFLD) and the variant effects of FMT on lean and obese NAFLD patients remain elusive. Our study aimed to determine the clinical efficacy and safety of FMT for patients with NAFLD, elucidating its different influences on lean and obese patients with NAFLD.MethodsWe performed a randomized and controlled clinical trial. Patients in the non-FMT group were administered oral probiotics. In the FMT group, patients were randomized to receive FMT with donor stool (heterologous) via colonoscopy, followed by three enemas over 3 days. Both groups were also required to maintain a healthy diet and keep regular exercise for more than 40 min every day. They returned to the hospital for reexamination 1 month after treatment.ResultsFMT can decrease the fat accumulation in the liver by improving the gut microbiota dysbiosis, thus attenuating fatty liver disease. Significant differences in the clinical features and gut microbiota between lean and obese NAFLD patients were unveiled. Moreover, FMT had better effects on gut microbiota reconstruction in lean NAFLD than in obese NAFLD patients.ConclusionsFMT could successfully improve the therapeutic effects on patients with NAFLD, and its clinical efficacy was higher in lean NAFLD than in obese NAFLD patients.

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“…We performed beta diversity analysis online using the free online platform of Majorbio Cloud Platform. 3 The Unweighted pair-group method with arithmetic mean (UPGMA), partial least squares-discriminant analysis (PLS-DA), non-metric multidimensional scaling (NMDS), redundancy analysis (RDA), canonical correspondence analysis (CCA), variation partition analysis (VPA), correlation test and mantel test were conducted on this platform ( Ren et al, 2022 ). Phylogenetic molecular ecological networks (pMENs) analysis was performed using the Molecular Ecological Network Analyses Pipeline (MENAP) 4 ( Zhou J.…”

Section: Methodsmentioning

confidence: 99%

The Seasonal Patterns, Ecological Function and Assembly Processes of Bacterioplankton Communities in the Danjiangkou Reservoir, China

Liu

Lin

et al. 2022

Front. Microbiol.

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As the water source for the Middle Route Project of the South-to-North Water Diversion Project (MR-SNWD) of China, the Danjiangkou Reservoir (DJR) is in the process of ecosystem reassembly, but the composition, function, and assembly mechanisms of bacterioplankton communities are not yet clear. In this study, the composition, distribution characteristics and influencing factors of bacterioplankton communities were analyzed by high-throughput sequencing (HTS); PICRUSt2 was used to predict community function; a molecular ecological network was used to analyze bacterioplankton interactions; and the assembly process of bacterioplankton communities was estimated with a neutral model. The results indicated that the communities, function and interaction of bacterioplankton in the DJR had significant annual and seasonal variations and that the seasonal differences were greater than that the annual differences. Excessive nitrogen (N) and phosphorus (P) nutrients in the DJR are the most important factors affecting water quality in the reservoir, N and P nutrients are the main factors affecting bacterial communities. Season is the most important factor affecting bacterioplankton N and P cycle functions. Ecological network analysis indicated that the average clustering coefficient and average connectivity of the spring samples were lower than those of the autumn samples, while the number of modules for the spring samples was higher than that for the autumn samples. The neutral model explained 66.3%, 63.0%, 63.0%, and 70.9% of the bacterioplankton community variations in samples in the spring of 2018, the autumn of 2018, the spring of 2019, and the autumn of 2019, respectively. Stochastic processes dominate bacterioplankton community assembly in the DJR. This study revealed the composition, function, interaction, and assembly of bacterioplankton communities in the DJR, providing a reference for the protection of water quality and the ecological functions of DJR bacterioplankton.

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Majorbio Cloud: A one‐stop, comprehensive bioinformatic platform for multiomics analyses

Cited by 414 publications

References 20 publications

Mechanism of Neural Regeneration Induced by Natural Product LY01 in the 5×FAD Mouse Model of Alzheimer’s Disease

Mechanism of Neural Regeneration Induced by Natural Product LY01 in the 5×FAD Mouse Model of Alzheimer’s Disease

Effect of Fecal Microbiota Transplantation on Non-Alcoholic Fatty Liver Disease: A Randomized Clinical Trial

The Seasonal Patterns, Ecological Function and Assembly Processes of Bacterioplankton Communities in the Danjiangkou Reservoir, China

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