every now and then you find a really nice video that explains something you have a struggle with because the idyot prof in class don't know how to explain it, and so this video is a gem and in a couple minutes does the unthinkable. Thank you Madam.
This was such an informative video! Helped explain so much for me as I have never been exposed to Volcano plots before. Will definitely be tuning in more for more videos! Thank you.
Thank you for a very nice video. I have trouble understanding the fold change for gene 1 in the table example. Wouldn't the fold change (FC) be 3 (9 divided by 3) and log2(FC) 1.585?
the first example of gene 1 shows the value for A=3 and B=9 so the FC should be 3 of 2 ?????????? Im not sure but plz respond, i want to have a better understanding of the topic
Hi, thanks for your comment and sorry for the confusion, it's just a typo! What I meant to have there is expression in A = 3, expression in B = 6 (so twice the expression) -> 6/3 = 2 -> log2(2) = 1. Hope this makes sense now.
Hi Perla, thanks for your comment, it is a great question. It actually depends on how YOU (or the author of the plot) decide to represent the data, but usually YES, you would like to have upregulated genes (FC > 0) on the right, and downregulated genes (FC < 0) on the left. It's just more intuitive and easier to interpret. But it's all relative. An example. You are comparing DEGs in liver cells versus neural cells. If genes on the right are UPREGULATED in liver cells versus neural cells, then it means they are DOWNREGULATED in neural cells versus liver cells. So it's always important to specify the groups you are comparing and which one is your 'base' or 'control' group. Hope this makes sense!
3:16 The value of gene expression in B should be 6 instead of 9. On a side note, the video provides good explanation.
Keep making videos ma'am. This is the future of biotechnology. You are a saviour. God bless this channel!!
this video saved me... my assignment would have been a fail otherwise, thank you so much!!
What a great explanation! Thank you so very much :)
every now and then you find a really nice video that explains something you have a struggle with because the idyot prof in class don't know how to explain it, and so this video is a gem and in a couple minutes does the unthinkable. Thank you Madam.
Precise and clear..great effort.. waiting for such useful videos
Fantastic video explained in simple yet very applicable terms. Thank you!
Excellent explanation. Greetings from Mexico
Excellent explanation!
As usual, it is very clearly explained and yet very informative, thanks.
Easy and simple to understand! Thank you so much for your comprehensive guidance!
You don’t know just how happy you’ve made me!
Thanks immensely for what you do!!!
More than useful. You’re a star
Very well explained. Easy to understand. Thank you.
Thank you! I'm glad it was useful:)
This was such an informative video! Helped explain so much for me as I have never been exposed to Volcano plots before. Will definitely be tuning in more for more videos! Thank you.
This was really helpful! Thank you :)
The video is really so useful. Thank you!
Fantastic explanation! Thank you very much!
keep on doing this beautiful work
Clear explanation! Thank you
Awesome vid, thanks !
I enjoyed the explanation. it is very clear. Thanks so much
VERY INFORMATIVE VIDEO, THANKS A LOT IT MADE MY LIFR EASIER
this video was so clear and so nice!!! thanks so much. PCA plots next, please!! a super lost Metabolomics student here
Hi Julia thank you very much, this means a lot! PCA plots definitely on the list;)
That was incredible thank you :)
well explained....simple but very effective.
Exceptional. Thanks 🎉
Well explained. Thank you.
Amazing explanation! Thank you very much! Love all your videos, I can understand everything! :)
Very useful thanks
It is very nice and well-explained, thanks!
Very clear presentation
very nice explanation...thank you.
it is a well done video. Thank you so much ;)
Extremely Good and helpful video....I need more videos on MA plot, PCA plot, Kegg ,Bubble plot and Heat Map Analysis..Please .
very useful
thank you!
Glad it was helpful!
you explained this in a very nice way!!
Thank you Nidhi! Glad it helped:)
Amazing. Thank you
exellent thanks
Very helpful
Helpful.
Very great ! But 9/3=2 ????
I was wondering the same...
just a typo, she meant 6/2
6/2 should be there because the purpose was to get 2 fold
Useful thanx
thank you!
That's really clear and thank you: please next OPLS-DA
Glad you found it useful Shoon! And thanks for your suggestion, I will definitely add it to the list:)
amazing. thank u biostats squid
thank you so much
Thank you.
Thank you for a very nice video. I have trouble understanding the fold change for gene 1 in the table example. Wouldn't the fold change (FC) be 3 (9 divided by 3) and log2(FC) 1.585?
Yes, apologies, that was a typo! You are correct:)
please make videos using multiple bioinformatics tools to interpret RNA seq data.
Thanks for your suggestion! Will definitely do:)
the first example of gene 1 shows the value for A=3 and B=9 so the FC should be 3 of 2 ?????????? Im not sure but plz respond, i want to have a better understanding of the topic
Hi, thanks for your comment and sorry for the confusion, it's just a typo! What I meant to have there is expression in A = 3, expression in B = 6 (so twice the expression) -> 6/3 = 2 -> log2(2) = 1. Hope this makes sense now.
thank u @@biostatsquid
What a video
thank you
Thanks
Always the side right is where are upregulating genes and the downregulated genes are in left side?
Hi Perla, thanks for your comment, it is a great question. It actually depends on how YOU (or the author of the plot) decide to represent the data, but usually YES, you would like to have upregulated genes (FC > 0) on the right, and downregulated genes (FC < 0) on the left. It's just more intuitive and easier to interpret.
But it's all relative. An example. You are comparing DEGs in liver cells versus neural cells. If genes on the right are UPREGULATED in liver cells versus neural cells, then it means they are DOWNREGULATED in neural cells versus liver cells. So it's always important to specify the groups you are comparing and which one is your 'base' or 'control' group. Hope this makes sense!
9/3=2 ？
9/3 = 2???? Common dude.
You didn't even explain where does the p-value come from...
Thanks a lot
Very useful thanks
Very useful