Cytoscape PPI Network layouts | High quality network Figures for Publication | Bioinformatics

[@Biomeducated]

0:00 Intro + Installation of Layout Algorithms and STRING App 2:37 Insert 68 genes in STRING plugin in CytoScape 4:33 Style and annotation of the network 13:18 Export network to image Great tutorial, thanks so much BB!

[@jaannawaz2007]

Thanks for that!

[@remyajames986]

Thank you so much for that wonderful explanation. The energizing music add on to its liveliness.

[@jaannawaz2007]

Glad you enjoyed it!

[@olusanyaolasehinde6394]

Thanks so much sir for your helpful video.

[@mishuchoudhary5146]

Thanks for posting such helpful video

[@castilloh.gianmarco1048]

Amazing.. Thanks Good, good

[@daryafarhoomand7594]

Thank's really helpful.

[@Itsmonikaasharma]

video is really valuable for beginners. Do you have any video on Circos plots as wel. thanks!

[@jaannawaz2007]

Ur welcome... Yes, i am preparing some videos on R Beginners, u will also see circos tutorial in R.. soon...

[@anupambhattacharya2130]

Thank you for such a nice explanation. How would I generate the color of these genes based on Ontology in Cytoscape?

[@alexbobrov2131]

please reduce music on your next videos, it's distracts

[@jaannawaz2007]

Thanks u for you suggestion, we removed the music in our recent videos..

[@grsbiosciences]

Thank you sir, after generating graph,should I focus on the hub genes for the writing discussion or should I go for gene ontology enrichment for total differentially expressed genes for discussion writing

[@RajibHossain-bg3zs]

Thanks, It's really helpful. Could you please create a video about Protein Ligand interaction? It would be better to understand for me.

[@kishorebanoth4286]

can you help me if you understood how protein and ligand interaction network happens

[@sourbhrankawat8454]

Sir, please make a video for a large network such as more than 300 proteins. I'm practicing it, but it becomes a mess when our datasets are large

[@amolpreetkaursaini1962]

hello sir, can show also show a step by step video of how to make a hub gens-TF-miRNA network in cytoscape?

[@user-bd4df6gm4f]

hi, i have a question, i have nitrogen and carbon genes, then i want to check relation with different mine treatments, but you did not add any values of genes, becuase my results have values of every gene in every treatment

[@ulupijhala4083]

The presentation is very good.. but the music is so distracting.

[@marishanimarincarrasco3263]

Thanks!!!!

[@jaannawaz2007]

Welcome!

[@johirislam8174]

Hi i analyzed my PPI netwrok by clustalviz which is cytoscape plugin.Here the results came by rank.So now i am confused which one i should pick.

[@johirislam8174]

Can i open the pdf file in photoshop editation because in postsdcript file some time i saw some parts are missing there. I want to kno one thing, some web tools gives file format in PNG or JPG .So if i reshape the PNG or JPG file with photoshp like this tutorial,so will my PNG or JPG gises the figure like this???

[@samjacksam0101]

generate plot from statistics is missing from NetworkAnalyzer in newer version

[@takimsarker929]

helped a lot for a smooth start. I tried to customize my protein node size according to their score(confidence ) but I could not find the score option in the mapping column under the option "column" . Can you please suggest me in this issue?

[@rohithuirem7348]

I have the same issue.

[@kishorebanoth4286]

how do i do network modelling for target proteins and ligands interaction?

[@farahnatela732]

can I know how I want to get contact to you, besause there is confius part occuried in my protein-protein interaction

[@uzmainayat9952]

Can someone help me with large networks images in cytoscape.

[@nabilfaezah]

hi, i have problem viewing the file after save it as .ps file. why?

[@liyababu1930]

Yeah me too..could not open the file

[@wesam4470]

The music is super annoying! Thanks for sharing though.

[@silpasivan6661]

Music is alittle distracting-feel like listening to music than your voice.Thanks

[@hadiaalmahdi3017]

👍👍

[@Just-For-Fun-byPM]

Can you please stop the background music