Eryunjian A team specializing in scientific research
Follow us
On November 1, the famous scientist Yan Ning announced that he would return from the United States and create the Shenzhen Academy of Medical Sciences. The news that he had attracted the attention of many scientific researchers and netizens
Professor Yan Ning is committed to overcoming the structural and functional research of one of the most challenging areas in structural biology - membrane protein , and has made important contributions to the field of ion channel structural biology. Then her return to China will inevitably bring about a new research trend in the field of "ion channel"
, who claims to be a life-threatening person on the frontline of scientific research, must pursue a hot topic
, although this direction is mostly experiments, out of the intuition of a life-threatening person, Xiaoyun's first idea is to quickly see if it can be a life-threatening person?
Otherwise, girls’ intuition is still quite accurate. Hehe, you can really make a living (but someone is already ahead of Xiaoyun, so we can’t fall behind, continue to find breakthrough points).
Currently, most of the existing ion channel-related bioinformatics articles are used for single gene analysis for a certain channel gene. There are not many articles that use the ion channel gene set to make prognosis models or disease classification. The idea is relatively simple, and the score is not low. Isn’t this a breakthrough point? ~ ~ ~
has a breakthrough direction and is the first to share with my fans. 8 points + bioinformatics idea. Let me reveal first: ’s idea is really quite simple. The article directly gives the ion channel-related gene set (you can use it directly). It is reproduced so easy. The easily recreated bioinformatics idea delivered to your hand. You can turn it!
- Topic: Predictive model of squamous cell carcinoma in the head and neck based on ion channel genes: prognostic evaluation and treatment guidance
- Journal: Frontiers in immunology
- impact factor: IF=8.786
- Publication time: October 2022
Research background
ion channel is a transmembrane protein that selectively transports ions through the cell membrane . Ion channels exist in almost every cell and play a role in various physiological activities, including excitability , cell cycle progression, contraction and metabolism, so defects in ion channel function damage key cellular processes, leading to the occurrence of various channel diseases. At the same time, ion channels are also related to tumor cell biology. For example, they play an important role in regulating gene expression, , cell proliferation, , tumor immunomodulation and other tumor pathophysiology processes. Therefore, the value of ion channels in tumor diagnosis, prognosis and as membrane therapy targets has received widespread attention.
Data source
Research process and main results
in the TCGA-HNSCC cohort was used to identify ion channel genes related to HNSCC prognosis. According to ion channel gene expression, the clustering analysis was performed using the K-means algorithm, and the co-clustered into two subtypes, and the immune infiltration status between the two subtypes was compared. According to the results of univariate Cox analysis, genes related to prognosis were further screened out using LASSO analysis in the TCGA cohort and a prognosis model was constructed. Then, KM survival analysis was performed, and its predictive performance was verified using ROC curves to establish a nomogram. The relationship between risk scores, tumor immune infiltration and gene mutation status was analyzed. Assess the predictive ability of risk scores to immunotherapy response and the correlation between drug sensitivity and risk scores. Finally, the expression levels of characteristic genes were detected by qPCR, WB and IHC.
Main results
323 ion channel genes were performed in the TCGA cohort for univariate Cox regression analysis, and 20 ion channel genes related to HNSCC prognosis were identified.
HNSCC patients were stratified according to 20 prognostic-related ion channel genes using clustering analysis, clustered into 2 subtypes, and the immune infiltration of these two subtypes and functional enrichment analysis of DEGs were evaluated.
20 genes were further analyzed using LASSO regression analysis, 12 genes were screened to establish a prognostic model, KM survival analysis was performed, and their predictive performance was verified using ROC curves. In addition, a nomogram containing clinical indicators (stage, N, and T) and risk scores was created to better predict survival time for patients with HNSCC disease and to verify their performance using the DCA curve.
small link
This article uses ion channel-related genes to perform tumor typing and construct risk models. The overall analysis content belongs to routine tumor generation and information analysis, which is clear and comprehensive. The final ion channel gene expression verification only requires the most common qPCR, WB and other experiments, and there is no complex patch clamp technology (no need to worry that the ion channel protein verification experiment is too complicated).
Because ion channel research is usually mainly based on experiments, it is absolutely innovative to use it as a bio-credit. It can be easily sent to 8 minutes +! In addition, the article also provides a collection of ion channel-related genes, which can be used directly, and it will be a piece of cake to reproduce it!
If you want to know more about the ideas of life and faith, please continue to pay attention to Xiaoyun. For more innovative ideas, please welcome Xiaoyun.
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-