User: Bioinformatician_in_trouble

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Posts by Bioinformatician_in_trouble

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Comment: C: Corona Virus- Sequence alignment-Phylogeny analysis
... Thanks, just checked it, I will still need to choose an accession number for it. My question is how do i select one particular sequence of all? ...
written 7 months ago by Bioinformatician_in_trouble10
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Corona Virus- Sequence alignment-Phylogeny analysis
... Hi there, Just an exercise(as the research is already been done), I wanted to do sequence alignment and phylogeny for the novel corona virus 2019. However, in NCBI we have so many sequences already deposited, on what basis should i select one? Is there a free online tool to perform phylogeny analysi ...
assembly alignment sequencing written 7 months ago by Bioinformatician_in_trouble10
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Comment: C: Short protein sequence alignment
... Thank you Fatima for all your help and also introducing me to MAFFT and guidance :) I shall read more about these. ...
written 7 months ago by Bioinformatician_in_trouble10
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Comment: C: Short protein sequence alignment
... Fatima, I tried MAFFT with my original dataset but I am not sure how to interpret the results since there is no e value/identity/ similarity percentage given. For example; how can I interpret the output below: >id1 SDPLSMVGPSQGRSPSYAS >id2 VNTHAGGTGPEGCR-PFAKF ...
written 7 months ago by Bioinformatician_in_trouble10
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Comment: C: Short protein sequence alignment
... Thanks, Fatima for replying!For example this is the query protein's residues: SDPLSMVGPSQGRSPSYAS and I want to know the identity and similarity of this query protein's residue with subject protein 1: VNTHAGGTGPEGCRPFAKF and subject protein 2: HLESDMFSSPLETDSMDPF Again, these are short and I can do ...
written 7 months ago by Bioinformatician_in_trouble10
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Short protein sequence alignment
... Hello all, I was wondering if there any tools available for doing multiple sequence alignment for N terminal residues (say just 20 residues). I tried Blast but it gives me alignment with only one among the two subject sequences provided. I had separated the two subject sequences using a comma (is th ...
alignment sequence blast written 7 months ago by Bioinformatician_in_trouble10
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RNA seq and Invitro data not matching
... Hi all, Invitro data shows upregulation of certain genes where as RNA seq analysis shows a positive foldchange for same genes but not significant p value and q value. How can i justify this? ...
rna-seq written 10 months ago by Bioinformatician_in_trouble10 • updated 10 months ago by i.sudbery9.1k
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Are there any computationally identified multi targeted drug which are currently or soon to be in clinical trials?
... I searched online, I don't think so there are any. Wanted to know if anyone knows of any. PS: only interested in Clinical trial. I know there are many studies which have used insilico tool and validated the results in-vitro/in-vivo.Thanks! ...
gene written 10 months ago by Bioinformatician_in_trouble10
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Comment: A: Any web based tool to depict long list of GO terms
... Thank you both for your answers, i will probably go ahead with g:Profiler! ...
written 10 months ago by Bioinformatician_in_trouble10
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Comment: C: Volcano plot help code
... I read using read.csv. I am not sure how to upload the image. could you please tell me? or i can send it to you else where if that is okay with you. ...
written 10 months ago by Bioinformatician_in_trouble10

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