Find genes whose expression was found to be up-regulated or down-regulated in a particular microarray study based upon <a href="http://www.cbil.upenn.edu/PaGE/">PaGE</a> differential expression analysis. Determination of strain-specific differential expression by profiling wildtype tachyzoites from the RH, Pru, GT1, VEG, ME49 and CTG strains of <i>T. gondii</i>
<br /> <center> <img src="images/toxo_microarray_strains.jpg"> </center> <BR> For further information on the strains, refer to: <BR> Howe, D. K., and L. D. Sibley. 1995. Toxoplasma gondii comprises three clonal lineages: correlation of parasite genotype with human disease. J. Infect. Dis. 172:1561-1566 <BR> <BR>
lineages_b |
Denominator in Fold Change Calculation. fold chage less than 0 means the expression is higher in this sample |
lineages_a |
Numerator in Fold Change Calculation. fold change greater than 0 means the expression is higher in this sample |
confidence |
PaGE reports 1 - False Discovery Rate (FDR), which is called the "confidence" for the predictions. The FDR of a set of predictions is the expected percent of false predictions in the set of predictions. For example if the algorithm returns 100 genes with a false discovery rate of .3 (confidence=0.7) then we should expect 70 of them to be correct. |
fold_change |
Enter a non-negative number. NOTE: Fold change is reported in the summary as positive numbers for up-regulated genes and negative numbers for down-regulated genes |
regulated_dir |
For ConditionA vs. ConditionB, select up-regulated for genes where ConditionA > ConditionB and select down-regulated for genes where ConditionB > ConditionA. |
o-fields |
Single valued attributes of the feature. Provide one or more values. Use comma as a delimter. |
o-tables |
Multi-valued attributes of the feature. Provide one or more values. Use comma as a delimter. |
.convert |
a logical value or a function that controls how the result of the method is returned. If this is a function, the character string or raw vector is passed to this function and it converts it appropriately. If this is a logical value and |
.url |
the URL for the Web request. This defaults to the correct value, but can be specified by the caller if the method is available at a different URL, e.g. locally or in a mirror server. |
.json |
a logical value controlling whether to use the JSON or the XML version of the method |
text/xml text/plain
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