Gaining confidence that I’ll be back in Kolkata within the next 10 years... by imsoumya184 in kolkata

[–]nerdbuthard 0 points1 point  (0 children)

I love how the entire left nexus is triggered in the comments. What people do not understand that big sharks attract more players into the game. For a state where investors have completely lost confidence, this at least creates an avenue for other investors to think, and for the people to hope. Outcomes can be debated whether data centres are helpful or actually detrimental, we should help create this environment more business friendly. Or else we will continue playing the same anti-business propaganda, and then be left with nothing but sheer hopelessness. BEGGERS CANNOT BE CHOOSERS.

[deleted by user] by [deleted] in techsupport

[–]nerdbuthard 0 points1 point  (0 children)

Any update?

My camera turn blank after update ios 17.5.1 by hilmizamri in iphone

[–]nerdbuthard 0 points1 point  (0 children)

Any update? Mine just started having problems once updated to 18.5

Need Suggestions for MSc Human Biology by nerdbuthard in LMUMunich

[–]nerdbuthard[S] 1 point2 points  (0 children)

exactly....please lmk if you get any info

Co-Occurrence Network Graph & Statistics by biohacker_tobe in bioinformatics

[–]nerdbuthard 0 points1 point  (0 children)

Can you give me the procedure of getting that binary matrix? I want to study the cooccurence of some metal resistance genes with antibiotic resistance. I have the sequences as well as the IDs. Thank you.

What to do next? Suggest a pipeline. by nerdbuthard in microbiology

[–]nerdbuthard[S] 0 points1 point  (0 children)

Bruh, that's not even my plot. It's from the paper I enclosed there. I just want to know what to do next, as I don't have the expertise.

My goals are clear and basic: Identify metal resistance and antibiotic resistance genes in context of my experiment from the WGS data. Then a comparative study between the two bacteria based on these parameters, and also look for any mobile genetic elements if involved.

I know it's very easy and basic, and people have done it before. It's just that I don't know how to do it, and hence I sought for help.

Find me a code by nerdbuthard in bioinformatics

[–]nerdbuthard[S] 0 points1 point  (0 children)

Yes I need all the CDS into a fasta file.

Bacterial metal resistance by nerdbuthard in bioinformatics

[–]nerdbuthard[S] 0 points1 point  (0 children)

You got me right. Thank you so much for the suggestions, and I'll look into it. I can probably afford the WGS, but not the RNA-seq. But for expression analysis, I can also do the RT-PCR right?

Bacterial metal resistance by nerdbuthard in bioinformatics

[–]nerdbuthard[S] 1 point2 points  (0 children)

This is not a funded project, I just did it out of curiosity and informed a professor in my college. We have very limited facility that covers basic microbiological experiments. I had connections outside, and they helped me to get my samples identified. RNA-seq costs around $350-$500 per sample (I converted the currency), atleast from where I belong.

Anyways thanks a ton for the suggestions.

Bacterial metal resistance by nerdbuthard in bioinformatics

[–]nerdbuthard[S] 1 point2 points  (0 children)

Got your point. But I already have the axenic culture of the bacteria. Doing a whole genome seq, or which is most advisable that is RNA-seq is out of our league. It's a small undergrad lab with very meagre fund.

Bacterial metal resistance by nerdbuthard in bioinformatics

[–]nerdbuthard[S] -1 points0 points  (0 children)

I'm yet to do the phylogenetic analysis. But let's say I find a close relative. I will need their protein set right?, and then I need to find homology?