Table 7

Comparison of Brca1 Δ exon 11 MEFs versus exogenous wtBRCA1 in DU-145/MCF-7 (this study)

A. Concordance of BRCA1-regulated gene expression in different cell types
Accession no.Gene name (symbol)MEFsDU-145MCF-7 (−E2)MCF-7 (+E2)
T74192Plasma protein S (α) [PROS1]↓ in Brca1 Δ exon 11 MEFs3.3 ± 0.6 (3)
AA664180Glutathione peroxidase 3 (plasma) [GPX3]↓ in Brca1 Δ exon 11 MEFs2.4 ± 0.5 (2)
AA063521E1B 19K/Bcl-2 binding protein Nip3 (BNIP3)↓ in Brca1 Δ exon 11 MEFs1.6 (1)2.8 ± 0.1 (2)
H27379Transcription elongation factor (S-II)↓ in Brca1 Δ exon 11 MEFs2.1 ± 0.5 (2)
N77754Lysosome-associated membrane protein 2 (LAMP2)↓ in Brca1 Δ exon 11 MEFs2.0 ± 0.1 (2)
R24543Guanine nucleotide regulatory protein (NET1)↓ in Brca1 Δ exon 11 MEFs2.0 ± 0.2 (2)
AA496013Protein serine/threonine kinase (STK2)↓ in Brca1 Δ exon 11 MEFs1.9 ± 0.0 (2)
AA482328Myristolated ala-rich C-kinase substrate (MACS)↓ in Brca1 Δ exon 11 MEFs1.7 ± 0.1 (2)
AA233809Transforming growth factor β2 (TGFB2)↓ in Brca1 Δ exon 11 MEFs1.6 ± 0.1 (2)
B. Comparison of results from this study versus previously published data
Gene NamePublished data (reference)Our results
Concordant findings
 Rho-associated coiled-coil forming kinase 2 (Rock2)↓ in Brca1-deficient embryonic stem cells (39)↓ in Brca1-deficient MEFs
 Creatine kinase B (Ckb)↓ in Brca1-deficient embryonic stem cells (39)↑ in DU-145 wtBRCA1 clones
 Quaking (Qk)↓ in Brca1-deficient embryonic stem cells (39)↓ in Brca1-deficient MEFs
 Multifunctional aminoacyl tRNA synthtase (Syhuqt)↓ in Brca1-deficient embryonic stem cells (39)↑ in DU-145 wtBRCA1 clones
 Neurofilament, light polypeptide (68 kDa) [Nfl, NF68]↓ in Brca1-deficient embryonic stem cells (39)↓ in Brca1-deficient MEFs
 26S proteasome regulatory subunit 7 (Psmc2)↓ in Brca1-deficient embryonic stem cells (39)↑ in DU-145 wtBRCA1 clones
 UDP-N-acteylglucosamine transferase (MGAT2)↑ by wtBRCA1 in 293T cells (37)↑ in DU-145 wtBRCA1 clones
 Cyclin G2 [CCNG2]↑ by wtBRCA1 in 293T cells (37)↑ by wtBRCA1 in MCF-7 cells
 Follistatin-like 1 [FSTL1]↑ by wtBRCA1 in 293T cells (37)↑ by wtBRCA1 in MCF-7 cells
 Selenoprotein plasma protein 1 [SEPP1]↑ by wtBRCA1 in 293T cells (37)↓ in Brca1-deficient MEFs
 Zing finger protein 148 (ZNF148)↑ by wtBRCA1 in 293T cells (37)↓ in Brca1-deficient MEFs
 Laminin α-3 (LAMA3)↑ by wtBRCA1 in 293T cells (37)↑ in DU-145 wtBRCA1 clones
 Ectonucleotide phosphodiesterase 2 (ENPP2)↑ by wtBRCA1 in 293T cells (37)↓ in Brca1-deficient MEFs
 Potassium channel KCNK1 (= TWIK1)↑ by wtBRCA1 in 293T cells (37)↑ in DU-145 wtBRCA1 clones
 DNA topoisomerase I (TOP1)↑ by wtBRCA1 in colon cancer cells (38)↓ in Brca1-deficient MEFs
 Superoxide dismutase 1 (Sod1)↑ by wtBRCA1 in colon cancer cells (38)↓ in Brca1-deficient MEFs
 CD59 antigen (CD59)↓ by wtBRCA1 in colon cancer cells (38)↓ in wtBRCA1 clones
Nonconcordant Findings
 Janus kinase 1 (JAK1)↑ by wtBRCA1 in 293T cells (37)↓ in DU-145 wtBRCA1 clones
 COP9 subunit 3 (COP9S3)↑ by wtBRCA1 in 293T cells (37)↓ in DU-145 wtBRCA1 clones
 Lim and senescent cell antigen-like domain 1 (LIMS1)↑ by wtBRCA1 in 293T cells (37)↓ in DU-145 wtBRCA1 clones
 HIV Tat-interacting protein (HTATIP)↑ by wtBRCA1 in 293T cells (37)↓ in DU-145 wtBRCA1 clones