Hi
I am new to the field of systems biology, with a background in molecular biology and microbiology. I would like to deduce the proteome and interactome of bacterial pathogens based on the identity and functional prediction of genes and hypothetical proteins as found in genome databases. However, for the successful modelling and deducing the interactome, I need data like transcriptome, proteome and metabolome. I would like to know the entire gene transcripts in response to a particular stimulus like heat or increased salt concentration or antibiotics, etc.
For this I would like to do data mining to extract such data from the various public domain databases and other research databases available. I request you to kindly tell me a few databases where I can get such information.
Thanks.
As you already well understood that you will not find all your required information in one place, you have to search several different databases for this. you can definitely start with ensemble bacteria, NCBI, uniprot, prosite. These are the base databases which can lead you for any other databases for a particular information.
you can also explore the following links which might serve your purpose.
http://metabolomicssociety.org/resources/metabolomics-databases
http://drcat.sourceforge.net/drcatindex.html
Dear, MURTHY Sree Ramchandra Peela
PRIDE Archive - proteomics data repository = https://www.ebi.ac.uk/pride/archive/
Gene expression = https://www.ncbi.nlm.nih.gov/gds/
Best regards,
Leite
Dear Sreeram Chandra Murthy Peela
To access gene expression data, follow this link:
https://www.ncbi.nlm.nih.gov/gds/
Dear Sreeram Chandra Murthy Peela
You can search in archives of "Nature Protocols".
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