User: amroumouna

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amroumouna0
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Posts by amroumouna

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String using R bioconductor
... Is there a way to use R for manipulating STRING-DB using bioconductor package STRINGdb to extract a network of about 20.000 proteins with max interactions ? without having to cite the proteins of interest ? Thank you ...
R network bioconductor stringdb written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... Sorry I got you wrong , would you please tell me how many proteins does the human genom codesfor ? ...
written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... You are wrong because I already downloaded for homo spiens and it has 11.353.057 interaction . the question is how do I extract from these interactions tumor ones that's it and the final size should fit 100k ...
written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... I don't want an artificial network, For String data , how am I going to manipulate it? because the data I have already mentioned in question has been extracted from STRINGdb. The question is how am I going to reach 100k , still don't get it ...
written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... What I'm trying to do is the integration of the network in Neo4j for performance testing . I need big data (100k as you said ) and the network should have depth . these are the conditions to respect. And it would be great if the data was of human species ...
written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... Okay , then you say I choose randomly proteins from the download page . Thank you ...
written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... Okay I'm editing the question then . Looking forward for an answer thank you ...
written 2.3 years ago by amroumouna0
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Comment: C: String Database download data including interactions
... Yes I did , I have downloaded the proteins_links_file but I'm interested in a specific disease, using R I have extracted as a maximum of 3916 interaction yet I need about 200k protein ...
written 2.3 years ago by amroumouna0
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Comment: A: Build a network out of a mapping identifiers
... what is the largest network I can get for human genome them ? approximatively ...
written 2.3 years ago by amroumouna0
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mapping identifiers uniprot annotations of proteins
... Having a file of for about 10k mapping identifiers how can I get the annotations of the proteins from Uniprot ? As it is not possible to do It manually ...
identifiers mapping proteins uniprot annotations written 2.3 years ago by amroumouna0 • updated 2.3 years ago by Elisabeth Gasteiger1.6k

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