This guide consists of four parts. I will elaborate on them one by one.
Assuming that readers have a biology/horticulture background, some computer utilization skills are required to start the journey into bioinfomatics. Just to list a few: familirity with unix-like environment and using command-line, text editor setting, running scripts (maybe R or Python).
RNA-Sequencing (RNA-Seq) is one of the major game changing technologies in crop research. It is also the main reason for normal biology/horticulture students to further dive into bioinformatics. Although most of the sequencing service providers nowadays would generate a basic report containing figures and tables that can be directly used for publication, understanding the principles and algorithms is still a must for correct interpretation.
After acquiring differentially expressed genes from RNA-Seq, there are various ways to discover biological meanings from the data. Interesting results can be yielded by using heatmap to visualize transcript abundance, gene clustering according to expression pattern, or accessing online database using custom script.
Besides the technical materials regarding data processing or sequence analysis, I included a part to talk about how to make use of digital tools to strengthen academic integrity and build personal brand as early-career researcher.
At the end of September 2019, I challenged myself by joining a campaign named “Iron man challenge: Continuous writing 30 days“ hosted by “ITHelp“, one of the biggest information technology communities in Taiwan, and generated the very first version of this quick guide in Chinese. There are many bioinformatics learning resources on the internet with technical details in English. In this quick guide, I intended to bypass the technical details, try to focus on the building of self-teaching habits, the value of academic integrity and growth mindset. Once the readers get an overview of what should be expected to learn, they should go on and acquire new knowledge from primary sources such as original research articles published by international academic journals. I plan to keep updating this quick guide as short term objective in terms of not only expanding and deepening the content but also turning it into multimedia tutorials. The long term goal is to make the learning environment and community more supportive and friendly for interdisciplinary learners.
Last modified data: Jan 14 2020