Visualize gene expression data in R using ggplot2 | Bioinformatics for beginners

This is a basic hands-on tutorial to visualize gene expression (RNA-Seq) data from NCBI GEO in #R using the #ggplot2 package.
In this video, I have demonstrated how to generate basic visualizations like barplot, density plot, boxplot, scatterplot, and heatmap using gene expression (RNA-Seq) data.

Chapters:
0:00 Intro
3:01 Basic format for ggplot2
6:51 Barplot: geom_col()
12:26 Density plot: geom_density()
16:17 Boxplot: geom_boxplot()
18:29 Scatter plot: geom_point()
26:24 Heatmap: geom_tile()
32:35 Save plots

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#bioinformagician #bioinformatics #ggplot2 #genomics #beginners #hands-on #tutorial #howto #omics #research #biology #ncbi #GEO #rnaseq #ngs #R #dplyr #tidyverse #GEOquery #data #visualization

[coolalexpcs]

It's a really fantastic lecture teaching ggplot specifically for gene expression data! Really helpful!

[alicemostafa]

you are just amazing. I always felt afraid from R and RNA-seq analysis, but you made it super clear for me. Thanks!

[lavanyakakimallaiah]

I was finding it difficult to understand from online resources.... your video about gene expression really superb...I was able to understand all the things
Thanks for the video

[tulikabhardwaj]

I am so much addicted to your videos. Please kindly made some videos on metatranscriptomics

[kimiaslk]

your videos really help me through my masters, you are so smart and inspiring ! thank you

[setarehsohail]

Unbelievable! you are genius! How do you teach these complex issues so easy and understandable?! Thanks from bottom of heart!

[jowrow]

Thanks sister. You are just doing nothing but a great job.
I wish you all the best.

[usmanasghar]

You are doing really amazing work keep it up.

[sanjaisrao]

Exellent explaination
Thank you very much
Keep uploading 🥰

[okun]

These videos are really really helpful! You really saved my research 🎉

[giulianacoatti]

I simply LOVE YOUR CHANEL!!! THANK YOU SO MUCH FOR SHARING!!!

[bzaruk]

All your content is PRICELESS - thank you so much! :)

[shrishteekandoi]

Fabulous Explanation ! I love how you make things so much easier to understand !

[gaellelelandais]

Very nice ! Thank you, you're doing a great job, very useful for other teachers (as I am). Thank you.

[parthibanm]

Can u please put lectures on comparative metabolomics data analysis, you have been amazing

[tanmoychatterjee]

Ma'am love your videos. Can you make a video on Visualisation of GO and KEGG enrichment data visualization by R software? Please

[umarsheikh]

Hie,
Thank you the helpful tutorial for understanding and analyzing the gene expression data sets.
As u have started the videos series beginning from how to download the data set to visualisation. Could you please add a video where in you can show how to perform differential gene expression with edgeR, limma, and DESeq2 of the same data set. We now we have the data in the dat. Long format, could we explore the differentially expressing gene between tumor and normal sample and plot the data using heatmap.
Regards

[vijethavk]

For the heatmaps, can the sample names be made perpendicular to the columns and therefore more readable?

[sciencetutor]

i think the data set you used is different from the one downloaded as there was no gene BRCA1 AND BRCA2 in the genes in the dataset. While i filtered, it showed no result with the filtering using both gene names. Does anyone face the same challenge?

[neetimittal]

Hi Could you please make a tutorial on workflow for processing, qc and analysis of a DNA methylation data on Illumina 450K or EPIC platforms? Your videos are really helpful!