Table 1.
Differentially Expressed Glycoproteinsa
| UniProt accession | gene name | common name | cell line data
|
CPTAC data
|
||
|---|---|---|---|---|---|---|
| t | q | t | q | |||
| Q9Y624 | F11R | junctional adhesion molecule A | −6.7 | 2.0 × 10−4 | −9.8 | 7.8 × 10−11 |
| P16422 | EPCAM | epithelial cell adhesion molecule | −5.2 | 1.8 × 10−3 | −11.1 | 3.5 × 10−13 |
| O95274 | LYPD3 | Ly6/PLAUR domain-containing protein | −5.2 | 1.8 × 10−3 | −1.6 | 0.03 |
| P15529 | CD46 | membrane cofactor protein | −5.1 | 1.8 × 10−3 | −12.8 | 9.2 × 10−12 |
| O43278 | SPINT1 | Kunitz-type protease inhibitor 1 | −4.9 | 1.8 × 10−3 | −4.8 | 4.2 × 10−5 |
| Q92896 | GLG1 | Golgi apparatus protein 1 | −4.8 | 1.8 × 10−3 | −9.4 | 6.9 × 10−11 |
| Q8IWA5 | SLC44A2 | choline transporter-like protein 2 | −4.3 | 5.5 × 10−3 | −1.7 | 0.11 |
| O14672 | ADAM10 | disintegrin and metalloproteinase domain-containing protein 10 | −4.2 | 5.6 × 10−3 | −4.1 | 2.9 × 10−4 |
| O43291 | SPINT2 | Kunitz-type protease inhibitor 2 | −4.2 | 6.3 × 10−3 | −11.9 | 7.0 × 10−12 |
| Q9UHL4 | DPP7 | dipeptidyl peptidase 2 | −4.2 | 6.1 × 10−3 | 2.7 | 3.7 × 10−3 |
| P09758 | TACSTD2 | tumor-associated calcium signal transducer 2 | −4.0 | 7.6 × 10−3 | −4.5 | 9.4 × 10−5 |
| Q92542 | NCSTN | nicastrin | −3.8 | 1.0 × 10−3 | 5.2 | 1.2 × 10−5 |
| P50454 | SERPINH1 | serine-type endopeptidase inhibitor | 2.7 | 0.07 | 7.6 | 3.4 × 10−8 |
| P27797 | CALR | calreticulin | 2.8 | 0.07 | 5.0 | 2.6 × 10−5 |
| P16070 | CD44 | hyaluronic acid receptor | 4.1 | 0.01 | −13.7 | 4.6 × 10−15 |
a
For each protein, a t statistic (Welch’s two-sample test) was calculated for the difference in expression between the claudin-low cells or tumor samples and the rest. The dozen proteins with the greatest reduction in expression in the cell line data and the three proteins with the greatest increase are shown. q values were calculated using qvalue() by John D. Storey with contributions from Andrew J. Bass, Alan Dabney and David Robinson (2015). qvalue: Q-value estimation for false discovery rate control. R package, version 2.2.2 (http://github.com/jdstorey/qvalue).