Autoantibody+Signatures+Involving+Glycolysis+and+Splicesome+Proteins+Precede+a+Diagnosis+of+Breast+Cancer+among+Postmenopausal+Women

Autoantibody Signatures Involving Glycolysis and Splicesome Proteins Precede a Diagnosis of Breast Cancer among Postmenopausal Women

3-21-13 paper recommend by Shen "C:\kurt\storage\CIM Research Folder\DR\2013\3-21-13\paper\Autoantibody Signatures Involving Glycolysis and Splicesome Proteins Precede a Diagnosis of Breast Cancer among Postmenopausal Women paper.pdf"

annotated file "C:\kurt\storage\CIM Research Folder\DR\2013\4-10-13\autoantibody paper 4-10-13\Autoantibody Signatures Involving Glycolysis and Splicesome Proteins Precede a Diagnosis of Breast Cancer among Postmenopausal Women.pdf"

extracted comments Autoantibody Signatures Involving Glycolysis and Splicesome Proteins Precede a Diagnosis of Breast Cancer among Postmenopausal Women Page: 4 Page: 4 Author: Kurt Whittemore Subject: Peptide Prophet Date: 2013-03-17 10:07:39-07 Page: 4 Author: Kurt Whittemore Subject: Brie?y, LC/MS-MS data were ?rst converted to mzXML format using ReAdW software (version 1.2) Date: 2013-03-19 20:11:18-07 Page: 5 Page: 5 Author: Kurt Whittemore Subject: were identi?ed in the glycolysis gene set (Fig. 2C) with an estimated false discovery rate (FDR ¼ 0.0037 Date: 2013-03-22 21:23:59-07 Page: 5 Author: Kurt Whittemore Subject: Interestingly some of the immunogenic proteins identi?ed (Hist1h1d, Eno1, Hnrnpa2b1, Sfrs3, Nme2, and Krt18) were previously associated with auto- immune disease (25, 27–31) indicative of an overlapping set of antigens between autoimmune disease and the humoral response observed in tumor-bearing mice. Date: 2013-03-22 21:24:13-07 Page: 5 Author: Kurt Whittemore Subject: Thirty-?ve percent of iden- ti?ed proteins were ofnuclear origin(Fig. 2B), concordant with the mouse model dat Date: 2013-03-22 21:25:12-07 Page: 5 Author: Kurt Whittemore Subject: mouse model data. Analysis of gene sets represented in the human KEGG biologic pathway database revealed signi?cant enrichment of proteins in the glycolysis gene set (FDR ¼ 7.5E-6) and spliceo- some gene se Date: 2013-03-22 21:27:30-07 Page: 5 Author: Kurt Whittemore Subject: As with the mouse model, some of the identi?ed proteins have been associated with autoimmune disease Date: 2013-03-22 21:27:47-07 Page: 6 Page: 6 Author: Kurt Whittemore Subject: Sticky note Date: 2013-04-10 21:59:09-07 Autoantibodies against lots of nuclear proteins Page: 7 Page: 7 Author: Kurt Whittemore Subject: immunogenic proteins identi?ed inthe glycolysis pathway Date: 2013-04-10 22:01:24-07 Page: 11 Page: 11 Author: Kurt Whittemore Subject: The AUCs obtained may be optimistic, as ROC curves were based on the same data used in generating the pathways of interest. Because these signatures were chosen based on their biologic signi?cance, their use and additivity as biomarker panels maybelimited. The sensitivity ofbiomarkers in prediagnostic samples can also be limited depending on disease progression (55). Date: 2013-04-10 22:59:37-07