悟空云数据分析交流_第二十一期——“motifeR软件使用”

原创 omicsolution omicsolution

为了方便更多用户使用，我们邀请悟空云平台开发者诗盛定期以视频讲解的方式给大家介绍悟空云平台的使用，本期给大家带来第二十一期的介绍内容---“motifeR软件使用”。motifeR软件主要用来进行修饰肽段的motif分析，最常见的是磷酸化修饰，其次还可以进行相应的激酶底物分析。做修饰组学，尤其是磷酸化修饰的老师和同学，可以来试试我们这个工具。本系列视频会收录在我们公众号菜单：技术动态->悟空云系列讲座

使用悟空云平台，可在文章中如下描述：

1) 比如在正文Methods部分：We use 'Wu Kong' platform (https://www.omicsolution.com/wkomics/main/) for relative xxx analysis.

2) 比如在致谢(Acknowledgements)部分：Thank Dr. Shisheng Wang (West China Hospital, Sichuan University) and Dr. Chengpin Shen (Omicsolution Co., Ltd) for giving some advices about data analysis and 'Wu Kong' platform (https://www.omicsolution.com/wkomics/main/) for relative xxx analysis.

目前基于悟空平台开发的分析工具已发表以下文章：

软件应用

(2022) Huilin Yu, Haiyu Luo, Luping Chang, Shisheng Wang （共一作） , ..., Hao Yang, Wenying Fan & Bing-Qiao Zhao, The NEDD8-activating enzyme inhibitor MLN4924 reduces ischemic brain injury in mice. Proceedings of the National Academy of Sciences, 119(6). (2020 IF: 11.205).

StatsPro 模块

(2021) Shisheng Wang , et al. StatsPro: Systematic integration and evaluation of statistical approaches for detecting differential expression in label-free quantitative proteomics, Journal of Proteomics, 10.1016/j.jprot.2021.104386. (2020 IF: 4.04).

EnrichVisBox模块：

(2021) Shisheng Wang , Yi Zhong, Jingqiu Cheng, Hao Yang, EnrichVisBox: A Versatile and Powerful Web Toolbox for Visualizing Complex Functional Enrichment Results of Omics Data, Journal of computational biology, 10.1089/cmb.2020.0564. (2020 IF: 1.479).

NAguideR模块：

(2020) Shisheng Wang , Wenxue Li, Liqiang Hu, Jingqiu Cheng, Hao Yang, Yansheng Liu, NAguideR: performing and prioritizing missing value imputations for consistent bottom-up proteomic analyses, Nucleic Acids Research, gkaa498. (IF: 11).

motifeR模块：

(2019) Shisheng Wang , Yue Cai, Jingqiu Cheng, Wenxue Li, Yansheng Liu and Hao Yang. motifeR: An Integrated Web Software for Identification and Visualization of Protein Post‐Translational Modification Motifs. Proteomics: 201900245. (IF: 3).

pseudoQC模块：

(2019) Shisheng Wang and Hao Yang. pseudoQC: A Regression‐Based Simulation Software for Correction and Normalization of Complex Metabolomics and Proteomics Datasets. Proteomics: 1900264. (IF: 3).

MetaboGroupS模块：

(2018) Shisheng Wang , ..., and Meng Gong. MetaboGroupS: A Group Entropy-Based Web Platform for Evaluating Normalization Methods in Blood Metabolomics Data from Maintenance Hemodialysis Patients. Anal Chem 90, 11124-11130. (IF: 6).

MixProTool模块：

(2018) Shisheng Wang , ..., and Hao Yang. MixProTool: A Powerful and Comprehensive Web Tool for Analyzing and Visualizing Multigroup Proteomics Data. Journal of computational biology : a journal of computational molecular cell biology 25, 1123-1127. (IF: 1).

同时悟空平台整合上百个分析模块，包括且远不止以下功能

而围绕上游质谱数据解析和下游组学应用，易算近期也发表了多篇文章：

Circulating proteomic panels for risk stratification of intracranial aneurysm and its rupture

Yueting Xiong, ...,Hebin Liu,...,Xiaohui Liu EMBO Mol Med, IF12.3,2022

Multi-Omic Profiling of Multi-Biosamples Reveals the Role of Amino Acid and Nucleotide Metabolism in Endometrial Cancer

Runqiu Yi, Liying Xie, Xiaoqing Wang, Chengpin Shen, Xiaojun Chen*, Liang Qiao*，Frontiers in Oncology，IF6.3,2022

Mesoporous Silica as Sorbents and Enzymatic Nanoreactors for Microbial Membrane Proteomics

J. Zhao, R. Jian, Y. Wang, B. Yang, D. Zhao, C. Shen, L. Qiao, B. Liu, ACS Applied Materials & Interfaces, IF9,2021

Direct MALDI-TOF Profiling of Gingival Crevicular Fluid Sediments for Periodontitis Diagnosis,

J. Yi, Y. Shen, Y. Yang, C. Shen, B. Liu, L. Qiao, Y. Wang, Talanta, IF5,2021

Proteomic and Metabolic Elucidation of Solar-Powered Biomanufacturing by Bio-Abiotic Hybrid System.

Rutan Zhang, ..., Chengpin Shen, ..., Liang Qiao Chem IF18,2020

In silico spectral libraries by deep learning facilitate data-independent acquisition proteomics.

Yi Yang, ...,Chengpin Shen,... and Liang Qiao Nature Communications IF13,2020

Metaproteomics characterizes human gut microbiome function in colorectal cancer.

Shuping Long, ..., Chengpin Shen,.. and Liang Qiao npj Biofilms and Microbiomes IF5,2020

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悟空云数据分析交流_第二十一期——“motifeR软件使用”

(2022) Huilin Yu, Haiyu Luo, Luping Chang, Shisheng Wang （共一作） , ..., Hao Yang, Wenying Fan & Bing-Qiao Zhao, The NEDD8-activating enzyme inhibitor MLN4924 reduces ischemic brain injury in mice. Proceedings of the National Academy of Sciences, 119(6). (2020 IF: 11.205).

StatsPro 模块

(2021) Shisheng Wang , et al. StatsPro: Systematic integration and evaluation of statistical approaches for detecting differential expression in label-free quantitative proteomics, Journal of Proteomics, 10.1016/j.jprot.2021.104386. (2020 IF: 4.04).

Circulating proteomic panels for risk stratification of intracranial aneurysm and its rupture

Yueting Xiong, ...,Hebin Liu,...,Xiaohui Liu EMBO Mol Med, IF12.3,2022

Multi-Omic Profiling of Multi-Biosamples Reveals the Role of Amino Acid and Nucleotide Metabolism in Endometrial Cancer

Mesoporous Silica as Sorbents and Enzymatic Nanoreactors for Microbial Membrane Proteomics

J. Zhao, R. Jian, Y. Wang, B. Yang, D. Zhao, C. Shen, L. Qiao*, B. Liu*, ACS Applied Materials & Interfaces, IF9,2021

J. Yi, Y. Shen, Y. Yang, C. Shen, B. Liu, L. Qiao*, Y. Wang*, Talanta, IF5,2021

J. Zhao, R. Jian, Y. Wang, B. Yang, D. Zhao, C. Shen, L. Qiao, B. Liu, ACS Applied Materials & Interfaces, IF9,2021

J. Yi, Y. Shen, Y. Yang, C. Shen, B. Liu, L. Qiao, Y. Wang, Talanta, IF5,2021