User: Learner

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Learner 90
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Posts by Learner

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Comment: C: how to find metabolites
... @ivanarg2 do you know anyway to plot the metabolic pathways found by your strategy? ...
written 1 day ago by Learner 90
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Comment: C: how to find metabolites
... @ivanarg2 I did not check it yet but I accepted it. however, you have few **df** in your code which maybe should be named differently otherwise it will mess up the analysis! ...
written 2 days ago by Learner 90
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Comment: C: how to find metabolites
... @ivanarg2 Please look at my question. I provided the data there in a R format ...
written 2 days ago by Learner 90
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Comment: C: how to find metabolites
... @ivanarg2 Can you help me to apply it on this list ? `"GPX3", "GLRX", "LBP", "CRYAB", "DEFB1", "HCLS1", "SOD2", "HSPA2", "ORM1", "IGFBP1", "PTHLH", "GPC3", "IGFBP3","TOB1", "MITF", "NDRG1", "NR1H4", "FGFR3", "PVR", "IL6", "PTPRM", "ERBB2", "NID2", "LAMB1", "COMP", "PLS3", "MCAM", "SPP1", "LAMC1", " ...
written 2 days ago by Learner 90 • updated 2 days ago by genomax49k
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Comment: C: how to find metabolites
... @ivanarg2 here is what I undestood. You extract the gene and metabolits assigned to them from KEGG. Then I have a list of genes which are upregulated and I already did the differential experission , so I have their names. I want to just see what metabolites are upregulated with the list of the genes ...
written 2 days ago by Learner 90
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Comment: C: how to find metabolites
... @ivanarg2 thanks for your help. how then I can use my gene list to find the metabolites? ...
written 2 days ago by Learner 90
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how to find metabolites
... I have a list of genes and I want to know which metabolites are assigned to those genes. is there anyone who can tell me what are the options? I prefer to have access to a database rather than web app so feel free to comment on any package or script etc df <- structure(list(X = structure(c( ...
metabolomics genomics written 9 days ago by Learner 90 • updated 2 days ago by genomax49k
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Comment: C: breast cancer transcriptome
... @genomax can I assume that Solid Tissue Normal as Normal and Primary Tumor as tumor sample? is that correct? ...
written 7 weeks ago by Learner 90
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Comment: C: breast cancer transcriptome
... @Kevin Blighe Yes the problem is how to identify Normal from Tumor. the clinical data is very poor for this project. I am just wondering how to identify which one is Normal and which ones are Tumor. I can then use avaiable software for annotation, enrichment analsysi etc etc. ...
written 7 weeks ago by Learner 90
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Comment: C: breast cancer transcriptome
... @genomax I want to obtain the htseq-count for normal samples and tumor samples. This is what I am trying to find ...
written 7 weeks ago by Learner 90

Latest awards to Learner

Supporter 2 days ago, voted at least 25 times.
Popular Question 7 weeks ago, created a question with more than 1,000 views. For how to convert SwissProt or UniProt gene names to standard ID
Centurion 19 months ago, created 100 posts.
Rising Star 23 months ago, created 50 posts within first three months of joining.

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