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Table 9 Best-Predicted Proteins using LASSO

From: Challenges in proteogenomics: a comparison of analysis methods with the case study of the DREAM proteogenomics sub-challenge

Combined

BRCA

OVA

Protein Name

PCC

Protein Name

PCC

Protein Name

PCC

CMBL

0.8490182

NUCB2

0.8796467

OXCT1

0.9077667

WFDC2

0.8407794

CRAT

0.8784636

PLAA

0.9068848

ASS1

0.8349155

PREX1

0.8697881

DDX58

0.9059744

INPP4B

0.8283892

HSPA2

0.8610863

C9orf64

0.899744

ALCAM

0.8207547

KANK1

0.858247

ABHD14B

0.8889331

TUBB3

0.8137392

SLC9A3R1

0.8511751

SLC34A2

0.8820199

CRAT

0.8101374

H2AFY2

0.8503076

OAS2

0.8815647

LGALS3

0.8087911

STK39

0.8479941

DHX29

0.8793457

CRABP2

0.8033509

FKBP5

0.8478364

NMNAT1

0.878037

CD109

0.7873721

PHGDH

0.8454966

GBP2

0.8727454

  1. The list of proteins with the highest mean correlation between predicted value and actual value across 10-fold cross-validation. These predictions are generated using the LASSO model. PCC: Pearson correlation coefficient