I have a list of micro RNA's and I am looking for a database which houses their expression values along with the disease to which these are linked.
for example:
say I have hsamirqqq (hypothetical) and it has some expression value X in colorectal cancer. I am looking for this kind of information, where I only need to enter miRNA and the rest can be delivered.
One, try the mimiRNA web tool to identify miR-mRNA predictions with co-expression evidence. The mimiRNA tool provides expression data for 564 mRNAs and 636 microRNAs, normalized across samples, from four large scale microRNA expression studies, and one mRNA expression study. (courtesy of this article).
Two, some microRNAs can be queried at the EMBL-EBI gene atlas expression portal. See this link. You will not be able to use the hsa-mir-nnn format. Most genes appear to be in MIRnnn or MIRNnnn format. The tool is nice in allowing selection of tissue and many other parameters/filters that describe conditions of a gene expression experiment. One that is helpful is "up-/down-regulated in X (number of ) experiments."
In the end, you may be forced to query supplemental data or GEO entries from individual expts/reports. This is particularly so as the microRNA platforms have matured greatly in the last couple years, going from ~100 to ~500 to over 1000 different genes for interrogation of expression.
Thank you Larry for your answer. I shall be bit more precise to you (as it seems you are the only one who knew/understood the problem) in exactly what I am searching. I have a list of mi RNAs (in format MIRXXX) and what I want to know, if any of these miRNAs have been cited in any of the databases (especially related to patients). Like MIRxx2 is expressed in patient data of colorectal cancer. Is GEO answer to this situation?
Thank you Larry for your answer. I shall be bit more precise to you (as it seems you are the only one who knew/understood the problem) in exactly what I am searching. I have a list of mi RNAs (in format MIRXXX) and what I want to know, if any of these miRNAs have been cited in any of the databases (especially related to patients). Like MIRxx2 is expressed in patient data of colorectal cancer. Is GEO answer to this situation?