Annotation Conf. Call 2016-10-25: Difference between revisions

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Revision as of 15:34, 24 October 2016

Bluejeans URL: https://bluejeans.com/993661940

Agenda

Meetings

Next GOC Meeting - USC, Los Angeles, CA, November 4-6, 2016

  • Link to a registration form is now available for the USC Meeting on the Meeting Logistics Page.
  • Register for meeting and dinner, just dinner, just meeting.
  • No registration fee for the Noctua workshop.

Discussion of Outstanding github Tickets

Annotation Consistency Exercise

Abstract AIM:To elucidate the sequential transfer of iron amongst ferritin, transferrin and transferrin receptor under various iron status conditions. METHODS:Incorporation of 59Fe into mucosal and luminal proteins was carried out in control WKY rats. The sequential transfer of iron amongst ferritin, transferrin and transferrin receptor was carried out in iron deficient, control and iron overloaded rats. The duodenal proteins were subjected to immunoprecipitation and quantitation by specific ELISA and in situ localization by microautoradiography and immunohistochemistry in tandem duodenal sections. Human duodenal biopsy (n = 36) collected from subjects with differing iron status were also stained for these proteins. RESULTS:Ferritin was identified as the major protein that incorporated iron in a time-dependent manner in the duodenal mucosa. The concentration of mucosal ferritin was significantly higher in the iron excess group compared to control, iron deficient groups (731.5 +/- 191.96 vs 308.3 +/- 123.36, 731.5 +/- 191.96 vs 256.0 +/- 1.19, P < 0.005), while that of luminal transferrin which was significantly higher than the mucosal did not differ among the groups (10.9 +/- 7.6 vs 0.87 +/- 0.79, 11.1 +/- 10.3 vs 0.80 +/- 1.20, 6.8 +/- 4.7 vs 0.61 +/- 0.63, P < 0.001). In situ grading of proteins and iron, and their superimposition, suggested the occurrence of a sequential transfer of iron. This was demonstrated to occur through the initial binding of iron to luminal transferrin then to absorptive cell surface transferrin receptors. The staining intensity of these proteins varied according to the iron nutrition in humans, with intense staining of transferrin receptor observed in iron deficient subjects. CONCLUSION:It is concluded that the intestine takes up iron through a sequential transfer involving interaction of luminal transferrin, transferrin-transferrin receptor and ferritin.

Discussion Points

  1. What can be done with ferritin annotations, since a specific subunit was non identified in the paper?
  2. Should colocalization (IEP) data be used for biological process annotations?
  3. If an iron transport annotation is made, does an iron homeostasis annotation impart any additional information?
  4. Is "intestinal absorption" too broad? Should an intestinal iron absorption term be requested?

Annotations

Gene/Marker Name GO ID/term Evidence Code Annotation Source Annotation Extension Comment
Biological Process
Tf, transferrin iron ion transport GO:0006826 IDA transport is inferred from radioactive Fe sequential colocalizing with location of each of the proteins in different parts of the duodenum
ferritin iron ion transport GO:0006826 IDA Which ferritin subunit?
Tfrc, transferrin receptor iron ion transport GO:0006826 IDA Tfrc or Tfr2?
Cellular Component
gene GOID term evidence code comment
Molecular Function
ferritin iron ion binding, GO:0005506 IDA Which ferritin subunit?
Tf, transferrin iron ion binding, GO:0005506 IDA

Minutes

  • On call: