MetaBridge: An Integrative Multi-Omics Tool for Metabolite-Enzyme Mapping [0.03%]
元桥：代谢物-酶映射的综合多组学工具
Travis Blimkie,Amy Huei-Yi Lee,Robert E W Hancock
Travis Blimkie
MetaBridge is a web-based tool designed to facilitate the integration of metabolomics with other "omics" data types such as transcriptomics and proteomics. It uses data from the MetaCyc metabolic pathway database and the Kyoto Encyclopedia ...
Guangchuang Yu
Guangchuang Yu
Ggtree is an R/Bioconductor package for visualizing tree-like structures and associated data. After 5 years of continual development, ggtree has been evolved as a package suite that contains treeio for tree data input and output, tidytree f...
Visualizing Human Protein-Protein Interactions and Subcellular Localizations on Cell Images Through CellMap [0.03%]
通过CellMap在细胞图像上可视化人类蛋白质相互作用和亚细胞定位分布
Christian Dallago,Tatyana Goldberg,Miguel Angel Andrade-Navarro et al.
Christian Dallago et al.
Visualizing protein data remains a challenging and stimulating task. Useful and intuitive visualization tools may help advance biomolecular and medical research; unintuitive tools may bar important breakthroughs. This protocol describes two...
D Izak,A Gromadka,S Kaczanowski
D Izak
We present Mothulity-a novel interface for Mothur, a well-established tool for 16S/ITS biodiversity analysis. Although Mothur is a well-documented and virtually complete software suite, its proper execution might be challenging for first-ti...
Constructing and Analyzing Computational Models of Cell Signaling with BioModelAnalyzer [0.03%]
用BioModelAnalyzer构建和分析细胞信号转导的计算模型
Benjamin A Hall,Jasmin Fisher
Benjamin A Hall
BioModelAnalyzer (BMA) is an open-source graphical tool for the development of executable models of protein and gene networks within cells. Based upon the Qualitative Networks formalism, the user can rapidly construct large networks, either...
Alberto Calderone,Marta Iannuccelli,Daniele Peluso et al.
Alberto Calderone et al.
The Molecular INTeractions Database (MINT) is a public database designed to store information about protein interactions. Protein interactions are extracted from scientific literature and annotated in the database by expert curators. Curren...
Timothy Sheils,Stephen L Mathias,Vishal B Siramshetty et al.
Timothy Sheils et al.
Pharos is an integrated web-based informatics platform for the analysis of data aggregated by the Illuminating the Druggable Genome (IDG) Knowledge Management Center, an NIH Common Fund initiative. The current version of Pharos (as of Octob...
The MathIOmica Toolbox: General Analysis Utilities for Dynamic Omics Datasets [0.03%]
MathIOmica工具箱：动态组学数据集的通用分析实用程序
George I Mias,Minzhang Zheng
George I Mias
MathIOmica is a package for bioinformatics, written in the Wolfram language, that provides multiple utilities to facilitate the analysis of longitudinal data generated from omics experiments, including transcriptomics, proteomics, and metab...
Mingzhang Yang,Myra K Derbyshire,Roxanne A Yamashita et al.
Mingzhang Yang et al.
The Conserved Domain Database (CDD) is a freely available resource for the annotation of sequences with the locations of conserved protein domain footprints, as well as functional sites and motifs inferred from these footprints. It includes...
Using MetaboAnalyst 4.0 for Comprehensive and Integrative Metabolomics Data Analysis [0.03%]
使用MetaboAnalyst 4.0实现全面系统的代谢组数据集成分析
Jasmine Chong,David S Wishart,Jianguo Xia
Jasmine Chong
MetaboAnalyst (https://www.metaboanalyst.ca) is an easy-to-use web-based tool suite for comprehensive metabolomic data analysis, interpretation, and integration with other omics data. Since its first release in 2009, MetaboAnalyst has evolv...