Thank you for giving informative videos. If we want to draw a venn for 5 sets, how can we do it? Is there any possibility there to add 1 more box (input).
Thank you sir for simplify the things. Sir I also want to prepare Venn diagrams for my data (Characterization of bioactive compounds from plants) I used different processing methods and characterize the bioactive compounds. Sir how I select my raw data for that
How we get other parametets like p value, logFc value, t value etc respective of that common genes ?? Coz if we do ebayes for 3 coefficients and draw venn diagram like u show we only visualize common genes.
Very nice video! Thanks a lot for the help! But how did you find your DEGs within each sample, for example your control DEGs? To my mind the DEGs are always between two samples e.g. control VS treatment. How you get DEGs within each sample? Or you go for pairwise comparisons btw each 2 samples and then you join the DEGs per sample? So in your example you compare ck vs treat1 and then ck vs treat2 and then you joined in a excel list all the DEGs from the previous pairwise comparisons and you import them as DEG list for your control (ck)?
Hi Dr. Thank you so much for your video, excuse me do you have a video to make library from a RNA seq? I am going to work with 16S RNA from a sample of vocal, then I would like to do some bioinformatics tools, but my first question is about the library from the sequences...
@@asifmolbio thanks for the quick response. My question is how do we go from a DEG comparisons (trt1 vs trt2, trt1 vs trt3, trt2 vs trt3) to a venn diagram where every circle is one treatment (trt1, trt2,trt3) with their unique genes as well as overlaps
Thank you for giving informative videos.
If we want to draw a venn for 5 sets, how can we do it? Is there any possibility there to add 1 more box (input).
Yes we can
Thank you sir for simplify the things. Sir I also want to prepare Venn diagrams for my data (Characterization of bioactive compounds from plants) I used different processing methods and characterize the bioactive compounds. Sir how I select my raw data for that
Videos about Venn diagram are already uploaded on my channel please have a look
How we get other parametets like p value, logFc value, t value etc respective of that common genes ?? Coz if we do ebayes for 3 coefficients and draw venn diagram like u show we only visualize common genes.
All available in single click 👇
RNA Seq / Transcriptome data analysis with a webtool | iDEP tool
ua-cam.com/video/6sNyNYH_v2U/v-deo.html
Can we do for point mutations observed in blast result
Can you further clarify your question?
Thank you
It’s very convenient
Another excellent - Can you do another video on the basics of GEO omini bus?
Its already there about in list of IDEP , RNA seq data analysis
Aoa sir very informative video once again.sir kindly make on sweep analysis of Rna Seq data.
Wslam, thanks keep watching i will update soon
Can you please explain about plotting UpSet diagram?
Sure i have noted your request. Please stay tunned
Thank you, it was great!
Glad if it’s helping
Very nice video! Thanks a lot for the help! But how did you find your DEGs within each sample, for example your control DEGs? To my mind the DEGs are always between two samples e.g. control VS treatment. How you get DEGs within each sample? Or you go for pairwise comparisons btw each 2 samples and then you join the DEGs per sample? So in your example you compare ck vs treat1 and then ck vs treat2 and then you joined in a excel list all the DEGs from the previous pairwise comparisons and you import them as DEG list for your control (ck)?
You are exactly right, we cannot refer to a gene as DEG until we compare ck vs trt. I took genes for comparison, not DEGs.
@@asifmolbio thanks a lot! :)
@@asifmolbio sir can u guide me for my thesis?
you can download relevant thesis from google for better understanding@@sidrajaved7676
Hi Dr.
Thank you so much for your video, excuse me do you have a video to make library from a RNA seq? I am going to work with 16S RNA from a sample of vocal, then I would like to do some bioinformatics tools, but my first question is about the library from the sequences...
Hi Reyna,
Sorry, at present I don’t have video for library preparation
Sir here treatment in the sense patient/disease??
You can use
Very cool
It’s very helpful!
Glad if it’s helping
very informative
Glad you like it
Informative sir
Glad you like it
Can we draw this Venn diagrams for protein profiling data ?
Off course, if you are comparing two treatments you can show overlapping proteins by Venn diagram
@@asifmolbio Thank you 😊
@@asifmolbio here treatment in the sense case /patient/disease??
@@nusrathfathima3471 yes then you can use
@@asifmolbio Thanks you
Thank you sir. Very informative video. How can we find DEGs? Can you recommend any video?
ua-cam.com/video/xc2zEI_5pmw/v-deo.html
ua-cam.com/video/HH3Mll4W5WE/v-deo.html
DEG are usually results of contrasts (treatment1 vs treatment2, treatment1 vs treatment3,etc) how to get from that to plotting each treatment alone?
Without comparison we cannot get DEGs from a treatment alone
@@asifmolbio thanks for the quick response. My question is how do we go from a DEG comparisons (trt1 vs trt2, trt1 vs trt3, trt2 vs trt3) to a venn diagram where every circle is one treatment (trt1, trt2,trt3) with their unique genes as well as overlaps
Overlap will represent common genes (DEGs). Only unique to that treatment will give treatment-specific DEGs
Outstanding 🫡
Thanks