Table III. List of 45 proteins in BRCA1 deficiency signature.
| Protein description | Mouse IPI identifier | Human gene symbol | Fold change | p value | Regulation comparison mRNA and proteina |
|---|---|---|---|---|---|
| Transformation/transcription domain-associated protein | IPI00330902 | TRRAP | 8.4 | <0.001 | c |
| Bromodomain adjacent to zinc finger domain protein 1B | IPI00130597 | BAZ1B | 4.0 | <0.001 | d |
| Structural maintenance of chromosomes protein 3 | IPI00132122 | SMC3 | 2.4 | <0.001 | c |
| Isoform 2 of condensin complex subunit 1 | IPI00172226 | NCAPD2 | 4.5 | <0.001 | d |
| Replication protein A 70-kDa DNA-binding subunit | IPI00124520 | RPA1 | 6.3 | <0.001 | c |
| Isoform 1 of paired amphipathic helix protein Sin3a | IPI00117932 | SIN3A | 20.0 | <0.001 | d |
| Pold1 DNA polymerase | IPI00313515 | POLD1 | 8.5 | <0.001 | c |
| Activating signal cointegrator 1 complex subunit 3-like 1 | IPI00420329 | SNRNP200 | 1.6 | 0.001 | NAe |
| Structural maintenance of chromosomes protein 1A | IPI00123870 | SMC1A | 3.2 | 0.001 | c |
| DNA topoisomerase 2α | IPI00122223 | TOP2A | 4.0 | 0.001 | NA |
| SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 1 | IPI00125662 | SMARCC1 | 3.0 | 0.001 | f |
| DNA topoisomerase 2β | IPI00135443 | TOP2B | 2.1 | 0.001 | d |
| Host cell factor C1 | IPI00828490 | HCFC1 | 3.5 | 0.002 | c |
| Proliferating cell nuclear antigen | IPI00113870 | PCNA | 1.8 | 0.002 | d |
| Rsf1 hepatitis B virus × associated protein | IPI00122845 | RSF1 | b | 0.002 | c |
| Casein kinase II α subunit | IPI00408176 | CSNK2A1 | 2.4 | 0.002 | NA |
| Cell division cycle 5-related protein | IPI00284444 | CDC5L | 3.1 | 0.002 | NA |
| DNA topoisomerase 1 | IPI00109764 | TOP1 | 2.2 | 0.003 | c |
| Isoform 1 of UDP-N-acetylglucosamine-peptide N-acetylglucosaminyltransferase 110-kDa subunit | IPI00420870 | OGT | 3.8 | 0.004 | d |
| Isoform 2 of E1A-binding protein p400 | IPI00229659 | EP400 | 9.7 | 0.004 | d |
| MutS homolog 6 | IPI00310173 | MSH6 | 7.1 | 0.006 | d |
| Isoform 1 of transcription intermediary factor 1β | IPI00312128 | TRIM28 | 1.9 | 0.008 | c |
| Isoform 1 of splicing factor, arginine/serine-rich 1 | IPI00420807 | SFRS1 | 1.4 | 0.008 | NA |
| Snf2-related CBP activator protein | IPI00620743 | SRCAP | b | 0.008 | NA |
| Poly(ADP-ribose) polymerase) 1 | IPI00139168 | PARP1 | 3.1 | 0.008 | c |
| SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin, subfamily a, member 4 | IPI00460668 | SMARCA4 | 2.3 | 0.009 | c |
| CREB-binding protein | IPI00463549 | CREBBP | 5.5 | 0.010 | d |
| Serine-protein kinase ATM | IPI00124810 | ATM | 6.0 | 0.010 | c |
| Double-strand-break repair protein Rad21 homolog | IPI00329840 | RAD21 | 3.1 | 0.014 | d |
| Pre-mRNA-processing splicing factor 8 | IPI00121596 | PRPF8 | 1.5 | 0.014 | c |
| MRG (MORF4-related gene)-binding protein | IPI00720110 | C20ORF20 | b | 0.019 | d |
| Cleavage stimulation factor 50-kDa subunit | IPI00116747 | CSTF1 | b | 0.020 | c |
| Metastasis-associated 1 | IPI00776055 | MTA1 | b | 0.020 | c |
| DEAD (Asp-Glu-Ala-Asp) box polypeptide 21 | IPI00652987 | DDX21 | 2.3 | 0.020 | c |
| Isoform 1 of heterogeneous nuclear ribonucleoprotein F | IPI00226073 | HNRNPF | 1.4 | 0.022 | NA |
| Nuclear cap-binding protein subunit 1 | IPI00458056 | NCBP1 | 1.9 | 0.028 | NA |
| SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5 | IPI00396739 | SMARCA5 | 1.4 | 0.030 | c |
| DNA mismatch repair protein Msh2 | IPI00118158 | MSH2 | 3.0 | 0.031 | d |
| Isoform long of splicing factor, arginine/serine-rich 3 | IPI00129323 | SFRS3 | 1.4 | 0.035 | d |
| DEAH (Asp-Glu-Ala-His) box polypeptide 9 | IPI00339468 | DHX9 | 1.3 | 0.037 | c |
| FACT complex subunit SPT16 | IPI00120344 | SUPT16H | 2.1 | 0.045 | d |
| Cleavage stimulation factor 77-kDa subunit | IPI00116929 | CSTF3 | 6.4 | 0.046 | d |
| Isoform 2 of FACT complex subunit SSRP1 | IPI00407571 | SSRP1 | 3.1 | 0.047 | d |
| Structural maintenance of chromosome protein 4 | IPI00229397 | SMC4 | 2.4 | 0.049 | d |
| AT rich interactive domain 1A | IPI00648459 | ARID1A | 3.8 | 0.049 | d |
a For mRNA regulation.
b Unique detection in BRCA1-deficient tumors.
c Significantly up-regulated mRNA.
d No significant regulation mRNA.
e NA indicates no mRNA probe on microarray.
f Significant opposite regulation mRNA.