-
Recent Posts
Archives
Categories
Meta
Category Archives: Comment
Metascape与社区共建的十年之路
我们欣喜地宣布：发表在 Nature Communications 的 Metascape 已正式迈过一个重要里程碑,文章的引用次数突破 10,000 次。 这一数字不仅是学术认可的象征，更是全球生物信息学社区十年来共同推动的成果。 从一个想法到全球科研者的常用工具 2015 年 10 月，Metascape 带着一个朴素的愿景诞生： 让每一位生物学家都能轻松完成基因列表的功能富集分析。当时许多富集分析工具对计算背景的门槛太高，实验科学家往往望而却步。Metascape 的出现打破了这一壁垒，让复杂的生物学解释变得直观、快速、人人可用。 随着科研需求不断升级，Metascape 也在持续成长：多基因列表支持让比较分析成为可能，蛋白互作网络分析帮助用户从基因层面走向系统层面，物种覆盖不断扩展，数据库与注释质量持续优化。Metascape 正是在这样的迭代中，逐步成为一个功能基因组学领域的综合性平台。 2019 年 4 月，Metascape 论文发表于 Nature Communications，这是一个真正意义上的转折点。 它让 Metascape 走向全球，也让更多科研者认识到它的价值。值得特别一提的是，中国科研社区的力量。通过微信等社交媒体平台的传播，Metascape 在中国迅速走红，成为众多实验室的常备工具，推动其影响力进一步扩大。 影响力的量化：引用、传播与社区力量 截至今日，Google Scholar 显示 Metascape 论文引用量已超过 15,000 次。 （截图：2026 … Continue reading
Celebrating a Milestone: Metascape Surpasses 10,000 Citations
A Decade of Impact, Innovation, and Community Growth in Functional Genomics We are delighted to announce that Metascape, published in Nature Communications, has achieved a significant milestone — surpassing 10,000 citations. This remarkable accomplishment reflects Metascape’s lasting scientific impact and … Continue reading
Metascape for Bioinformaticians (MSBio)
We are extremely excited to make MSBio available to the bioinformatics community, including a commercial license option for for-profit entities (this post was updated on Dec 5, 2021). Why MSBio? Metascape was initially designed to support biologists, as we observed … Continue reading
Protein-Protein Interaction Data Sources
Why Include STRING Database Metascape provides a rather unique protein-protein interaction (PPI) network analysis capability. In many gene list analysis resources, PPI analysis results in a rather massy hairball network. Besides stating such networks are statistically significant, there is not … Continue reading
Posted in Comment, News, Protein Network
Comments Off on Protein-Protein Interaction Data Sources
How Dose Metascape Compute Orthologs
Homologene is Outdated Ortholog mapping is an important component in Metascape as explained in our Nature Communication paper: Many gene annotation, pathway, and protein interaction databases are primarily compiled for human genes/proteins. For instance, the size of the mouse interactome … Continue reading
Research in China Shows Resistance to Coronavirus
Note: It was merely two weeks after I wrote this blog, China has turned into a sanctuary and we, in U.S., are in the deepest panic about Covid-19. Today is March 20. We made an update to the Metascape database. … Continue reading
Visualize Networks Online and Offline
Metascape provides intuitive visualizations for either pathway enrichment networks or protein-protein interaction networks. By default, we do not display labels for the nodes within the .png and .pdf outputs, because displaying them will make both networks and labels unreadable (Figure … Continue reading
Statistics for Enrichment Analysis
Requested by some users, we here provide some technical details regarding gene enrichment metrics found in Metascape analysis results. First a few constants: There are \(N\) total number of genes in our study pool (this is also known as the … Continue reading
Metascape is a gene list analysis website designed for biologists
Background The analysis of genomics and proteomics datasets is not an easy task. Most of the current gene list analysis sites are limited to the enrichment analysis of pathways, thus the value of omics-scale datasets is not fully explored. A … Continue reading
Posted in Comment, News, Visualization
Leave a comment
Announcing Upgraded AI Gene Annotations in Metascape
In 2023, Metascape introduced AI-generated summaries for gene functions and disease implications [see previous Blog]. Powered by ChatGPT-3 at the time, these summaries served as a highly beneficial complement to NCBI’s human annotations by filling critical gaps in disease context. … Continue reading →