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Issues:
GEPIS Results
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Q. What do those column headers mean?
A. Here is the list of all headers:
| Header |
Description |
| Organs |
Site of expression |
| #Hits |
Number of matched EST clones, listed by descending
order |
| Total |
Number of all ESTs in each category |
| Normal |
Number of matched ESTs in normal libraries |
| NorTotal |
Number of all ESTs in normal libraries |
| Tumor |
Number of matched ESTs in tumor libraries |
| TumTotal |
Number of all ESTs in total libraries |
| Nor-DEL |
relative expression level in normal libraries
in terms of number of hits per 100,000 total ESTs |
| Tum-DEL |
relative expression level in tumor libraries
in terms of number of hits per 100,000 total ESTs |
| Tum/Nor |
ratio of relative expression levels between tumor
and normal libraries |
| T/N ztest: |
ztest P value, showing the statistical significance
of upregulation in tumor |
| Tiss. Spec. ztest: |
ztest P value, showing the statistical
significance of selective expression in that normal tissue. |
GEPIS Graphics:
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Q. What is in tissue profiling chart?
A. It is a bar-chart depicting the Nor-DEL (green) and Tum-DEL
(red) value of each organ.
Q. What is a Regional Gepis Altas?
A. Regional GEPIS Atlas is a composite of visual transcriptome maps depicting the
expression level of all neighboring genes in selected tissues.
Statistics involved:
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The Z-test was applied to determine whether DEL in sample type
A was statistically higher than DEL in sample type B. This comparison
could be made between normal and cancer samples from the same
tissue, or between two different types of tissues.
T/N z-test:
The comparison is made between normal and cancer samples from
the same tissue. Value p is function of four parameters, number
of occurrence in normal tissue, the normal library sample size,
number of occurrence in tumors, and the tumor library sample size.
Tiss. Spec. z-test:
For each tissue, we compared its normal DEL level with that of
each of the rest of the tissues. The highest p value is chosen
to represent the statistical significance of gene's differential
expression in normal tissues.
Contact Information:
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Contact Zemin Zhang (zemin@gene.com) or Yan Zhang (yz5@gene.com)
for any question and feedbacks.
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