User: pablo61991

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pablo6199140
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Posts by pablo61991

<prev • 51 results • page 1 of 6 • next >
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Gene ontology enrichment non model organism (doubts about the methods)
... Hello community, like many others newbies in Bioinformatics, I have found a plethora of methods to perform the same task. What is even more problematic for a non-experienced biologist in bioinformatic is to assume the differences in the final result between them. My supervisor ask me about, how we ...
non-model organism enrichment go rna-seq written 8 weeks ago by pablo6199140
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Comment: C: KEGG mapping from de novo transcriptome annotation
... If you are fine with my edit (its already done) I ll avoid to open more treats. In other case I will fix it as you consider the best way. ...
written 9 weeks ago by pablo6199140
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Comment: C: KEGG mapping from de novo transcriptome annotation
... Could I edit my original post instead open one new? ...
written 9 weeks ago by pablo6199140
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Answer: A: KEGG mapping from de novo transcriptome annotation
... I have one question related with the use of KOBAS to perform the KEGG pathway analysis which I mentioned (data annotated against different organisms). In these papers they annotate against NR or SwissProt, so I suppose they also have their transcripts annotated against several organisms. My question ...
written 9 weeks ago by pablo6199140
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Comment: C: GO enrichment analysis. Non-model organism.
... Annotation > Go enrichmetn and KEGG pathway enrichment are problematic for non model organism researchers. Even more problematic when most of us are PhD students suddenly involved in to transcriptomics form some reasons. ...
written 10 weeks ago by pablo6199140
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Comment: C: KEGG mapping from de novo transcriptome annotation
... Thank you. As I supposed when can not find anything in my search is not an easy task. I will give a try to use the R package. ...
written 11 weeks ago by pablo6199140
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KEGG mapping from de novo transcriptome annotation
... Hi Biostars forum I have a de novo transcriptome annotated mainly against SwissProt, so I have contigs ==> UniProt accession codes. Using the UniProt conversion tool I can obtain GO and also KEGG which corresponds to the UniProt accession, but obviusly I have obtained matches against different o ...
rnaseq annotation kegg kobas written 11 weeks ago by pablo6199140
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Comment: C: Network analysis software
... Sorry I missed the year, as you said it comes from 2016 DAVID 6.8 (current beta release) May. 2016 -- The DAVID Knowledgebase completely rebuilt -- Entrez Gene integrated as the central identifier to allow for more timely updates while still incorporating Ensembl and Uniprot as integral data sourc ...
written 4 months ago by pablo6199140
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Comment: C: Network analysis software
... I think they've a recent update like at the end of 2017 ...
written 4 months ago by pablo6199140
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Comment: C: Differential gene expression from RNAseq data. Before or after annotation?
... The main problem here is the biggest difference of background between forum members when the topic is something as complex as this topic is. You know... (some) supervisors try to take in to their projects fancy "new" technologies and then look for a random PhD student without ANY background on the ...
written 4 months ago by pablo6199140

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