#bioinformatics

Application of annotation-agnostic RNA sequencing data analysis tools for biomarker discovery in liquid biopsy Authors: Gabriel Wajnberg, Eric P. Allain, Jeremy W. Roy, Shruti Srivastava, Daniel Saucier,

banner created in canvas   It has been a while since I want to write something about this topic. I work with bioinformatics since 2007 now and every time that I tell people, more than 90% or more

If you have been following my article keenly, you would observe that, I have been gradually drifting from the commonly known to the less unknown here (Probably). This is aimed at making hive and @stemsocial

今天帮忙解释了一个内容，自己也是查阅得到的结果，因此记录一下。 Q:这种图我不会看，是怎么解释的？ 这类图是GSEA。 对某一个特定的情况下（通路/或者其他），针对两个表型（箭头所指，可以是疾病/对照；也可以是野生型和对照组；任何都可以），按我们输入的基因集合更偏向哪边。并且可以找出那部分 图中 1就是选定的通路 2是我们输入的基因在这张图上更偏向DFS good.

Photo by CDC on Unsplash Sometimes we think coding is just a tool for software development. We are so used to reading how coders developed this or that software, we forget there are tons of other applications

在生命过程中，蛋白质往往会和DNA在一起发挥功能。那么，当我们想知道蛋白发挥什么功能的时候？怎么办? 直接点，就是看蛋白处于DNA什么位置，这段DNA区域又是什么基因，这个基因又是有什么功能。这样间接的认为蛋白可能存在该基因的功能。 这里可以通过ChIP-seq 实验得到蛋白binding的区域。 Binding到的区域一般很多，这些区域按照测序的泊松分布累加起来可以分为broad peak 与 narrow

今天记录一下这周分析数据时遇到的几个点。不常用的功能，但是用到的时候，需要google比较久，还需要查阅一些资料。 统计GOterm组份 为什么要做这个？ 因为GOterm 是富集分析，背景的组成成分是GO联盟已经收集完的，如果想知道这个GO的组成成分是什么的话，可以在对应的数据库中下载，比如MGI提供点击下载某一具体的GO

What was difficult to explain before is now easy to visualize. source Visualization and communication of the data is an important step in researches. We have cameras in order to capture the world outside

(One of the "heroes" of the 1st experiment - DUSP2 - with its catalytic domain (cartoon representation) with its conservative (V)-HC-XX-X-XX-R-(S/T) motif (highlighted with magenta). The image

In this post we’re going to continue our “journey” with MKPs (MAP kinase phosphatases). (DUSP2 catalytic domain (surface representation) with its conservative (V)-HC-XX-X-XX-R-(S/T) motif (highlighted

The objects of the entire 1st experiment of this series of posts are MKPs (MAP kinase phosphatases).The subject is possible mechanisms cadmium could “use” to influence MKPs (and thus MAPK signalling

(One of the "heroes" of the 1st experiment - DUSP2 - with its catalytic domain (cartoon representation) with its conservative (V)-HC-XX-X-XX-R-(S/T) motif (highlighted with magenta). The image

(The image above was created by me with the help of PyMol (open-source tool for molecules visualization/exploration). You can use the image if you want) The purpose of this series of posts is to demonstrate

A small post about my graduation, new job, and my 3D keychain to honor my Master Last Tuesday, I did my final presentation of my 6-month Internship, in front of a (very small) amphitheater with 5 of my