Paper Overview Title Research Progress of Machine Learning in Protein Function Prediction Authors Chi Yanfei, Li Chun, Feng Xudong Citation Chi Yanfei, Li Chun, Feng Xudong. Research Progress of Machine Learning in Protein Function Prediction [J]. Journal of Biotechnology, 2023, 39(6): 2141-2157. Abstract:Proteins are essential compounds in organic life forms, playing various important roles in … Read more
Previously, we shared a comprehensive overview that described various tools for each step of ATAC-seq data analysis, see “Overview: A Complete Guide to ATAC-seq Data Analysis Tools.” This time, we introduce another overview that presents an updated and optimized ATAC-seq protocol called Omni-ATAC. The literature information is as follows: Title: Chromatin accessibility profiling by ATAC-seq … Read more
MCPcounter Hello everyone, welcome to Xiaoyang’s column! In previous posts, we introduced ssGSEA, which stands for single-sample Gene Set Enrichment Analysis, an extension of the GSEA method designed for situations where GSEA cannot be performed on a single sample. Interested friends can check it out in Xiaoyang’s column. Today, I will introduce a method for … Read more
/Medical Bioinformatics/ ABOUT US ⌈ Medical Bioinformatics ⌋ is a public account operated by the “Medical Genetics and Bioinformatics Research Group” at Central South University. The research group develops new tools, platforms, and databases for accurately interpreting gene variations and identifying candidate genes using bioinformatics, artificial intelligence, deep learning, etc., applying them to neuropsychiatric diseases … Read more
With the continuous development of genetics, breeding, and the increasing advancements in the Human Genome Project and molecular biology, biological data has experienced explosive growth over just a few decades. For example, algorithms such as regression analysis, random forests, and support vector machines in bioinformatics are already quite mature. Recently, while reading literature, I came … Read more
A Powerful Tool in Kaggle: The XGBoost Algorithm Hi, everyone, I am Chenxi. This article is also based on a request from a friend who has been pushed by their boss to build a model, so they reached out to me for some guidance. Student A: Chenxi, Ionly know R, is there a model that … Read more
1 What Is Artificial Intelligence Artificial Intelligence (AI) has many definitions. One definition of AI is: “Artificial intelligence is a science and a set of computational techniques inspired by how humans use their nervous systems and bodily perceptions to learn, reason, and take action, but is often fundamentally different from these techniques. AI can be … Read more
This issue uses cursor to solve the problems encountered in learning basic skills in bioinformatics. Cursor is a code editor based on ChatGPT4, which can significantly shorten the learning cycle if used correctly. The following records the problem-solving process, and the code included in the article is from Chapter 3 of ‘Practical R Programming’. Problem … Read more
———————————— Exclusive arrangement, unauthorized use will be pursued In life science research, the interaction between proteins and nucleic acids plays a crucial role. Accurately predicting nucleic acid binding sites on protein surfaces is significant for understanding life regulatory mechanisms and developing new drugs. Recently, a research team from the University of Hong Kong and ShanghaiTech … Read more
SnpEff: Mutation Site Annotation Reference tutorial: https://www.jianshu.com/p/ad1ab3d7fcd0 SnpEff download link: http://snpeff.sourceforge.net/download.html Download and Install Software $ wget -c http://sourceforge.net/projects/snpeff/files/snpEff_latest_core.zip $ unzip snpEff_latest_core.zip Check the installation status: (wes) root@1100150:~/wes_cancer/biosoft# ll total 607405 drwxr-xr-x 6 root root 9 Jun 27 01:04 ./ drwxr-xr-x 5 root root 5 Jun 18 08:37 ../ drwxr-xr-x 4 1002 jmzeng 19 Jun … Read more