Table 2 List of genes involved in the gene networks that are differentially regulated between mammary epithelial cells in the ( C vs H and C’ vs H’ ) comparison
Gene symbol | Gene name | Accession number | MCF-10A | MCF-7 | MDA-231 | MDA-468 |
|---|---|---|---|---|---|---|
DNA Damage | ||||||
USP1 | Ubiquitin specific peptidase 1, TV3 | NM_001017416.1 | 4.8 | -1.8 | -2.2 | -5.3 |
CDC25A | Cell division cycle 25A, TV1 | NM_001789.2 | 4.6 | -1.3 | 1.2 | 2.0 |
BARD1 | BRCA1 associated RING domain 1 | NM_000465.1 | 3.5 | -1.7 | -2.8 | -1.7 |
MDC1 | Mediator of DNA-damage checkpoint 1 | NM_014641.1 | 3.0 | -1.4 | 1.1 | -1.2 |
NBN | Nibrin | NM_002485.4 | 2.5 | -2.4 | -2.2 | -1.1 |
SLC35B2 | Solute carrier family 35, member B2 | NM_178148.1 | 2.3 | -1.0 | 1.8 | 1.8 |
CHEK1 | Checkpoint kinase 1, TV3 | NM_001274.3 | 2.3 | -1.1 | -1.4 | -2.6 |
CCNE1 | Cyclin E1, TV2 | NM_057182.1 | 2.1 | -1.2 | -1.1 | -1.0 |
CCNA1 | Cyclin A1, TV1 | NM_003914.2 | -2.2 | 1.2 | 1.0 | -1.3 |
GADD45B | Growth arrest and DNA-damage-inducible, beta | NM_015675.2 | -3.8 | 1.1 | 1.8 | -1.1 |
CDKN1A | Cyclin-dependent kinase inhibitor 1A (p21, Cip1), TV1 | NM_000389.2 | -4.7 | 1.1 | 2.5 | 1.1 |
Cell Cycle | ||||||
AURKA | Aurora kinase A, TV5 | NM_198436.1 | 22.0 | -1.3 | -2.1 | 1.2 |
CDC20 | Cell division cycle 20 | NM_001255.2 | 18.0 | 1.1 | -1.1 | -1.2 |
CCNB2 | Cyclin B2 | NM_004701.2 | 17.5 | -1.3 | -2.3 | -1.1 |
NCAPG | Non-SMC condensin I complex, subunit G, TV1 | NM_022346.3 | 14.9 | -1.4 | -2.6 | -1.1 |
BUB1 | Budding uninhibited by benzimidazoles 1 homolog (yeast) | NM_004336.2 | 10.8 | -1.5 | -2.3 | 1.2 |
MAD2L1 | MAD2 mitotic arrest deficient-like 1 (yeast) | NM_002358.2 | 9.8 | -1.5 | -1.6 | 2.1 |
CDC45L | Cell division cycle 45, TV2 | NM_003504.3 | 8.0 | 1.1 | 1.4 | 1.1 |
CENPF | Centromere protein F, 350/400 kDa | NM_016343.3 | 7.8 | -1.3 | -3.0 | 1.1 |
PTTG1 | Pituitary tumor-transforming 1 | NM_004219.2 | 7.2 | 1.0 | -1.0 | 1.4 |
MCM3 | Minichromosome maintenance complex component 3, TV1 | NM_002388.3 | 7.2 | -1.5 | -1.1 | -1.4 |
CCNB1 | Cyclin B1 | NM_031966.2 | 6.9 | -1.2 | -2.5 | 1.1 |
CENPE | Centromere protein E, 312 kDa | NM_001813.2 | 6.6 | -1.4 | -2.5 | -1.5 |
KIF11 | Kinesin family member 11 | NM_004523.2 | 6.5 | -1.4 | -2.7 | -1.0 |
NDC80 | NDC80 kinetochore complex component | NM_006101.1 | 6.5 | -1.1 | -1.8 | 1.4 |
XPO1 | Exportin 1 (CRM1 homolog, yeast) | NM_003400.3 | 6.1 | -2.7 | -2.4 | -3.0 |
RFC5 | Replication factor C (activator 1) 5, 36.5 kDa, TV1 | NM_007370.3 | 5.8 | -1.2 | -1.1 | 1.7 |
POLA1 | Polymerase (DNA directed), alpha 1, catalytic subunit | NM_016937.2 | 5.7 | -1.5 | -1.8 | -1.2 |
RFC4 | Replication factor C (activator 1) 4, 37 kDa, TV2 | NM_181573.1 | 5.6 | -1.2 | -1.4 | -1.4 |
CDC2 | Cyclin-dependent kinase 1, TV1 | NM_001786.2 | 5.2 | -1.2 | -2.3 | 1.7 |
CENPA | Centromere protein A, TV2 | NM_001042426.1 | 4.9 | -1.3 | -1.7 | 1.3 |
CKS1B | CDC28 protein kinase regulatory subunit 1B, TV1 | NM_001826.1 | 4.8 | -1.2 | -1.3 | 1.6 |
DSN1 | MIND kinetochore complex component, TV3 | NM_024918.2 | 4.7 | -1.3 | -1.8 | -1.1 |
CDC25A | Cell division cycle 25A, TV1 | NM_001789.2 | 4.6 | -1.3 | 1.2 | 2.0 |
NUF2 | NDC80 kinetochore complex component, TV2 | NM_031423.3 | 4.3 | 1.0 | -2.0 | 1.7 |
PPP2CA | Protein phosphatase 2, catalytic subunit, alpha isozyme | NM_002715.2 | 4.3 | -1.8 | -2.0 | -2.6 |
PRIM1 | Primase, DNA, polypeptide 1 (49 kDa) | NM_000946.2 | 4.2 | 1.0 | -1.0 | 1.8 |
YWHAH | Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, eta polypeptide | NM_003405.3 | 4.0 | -1.9 | -1.6 | -3.9 |
TUBB | Tubulin, beta class I | NM_178014.2 | 3.9 | -1.1 | 1.3 | 1.9 |
STAG2 | Stromal antigen 2, TV2 | NM_001042750.1 | 3.9 | -2.8 | -2.4 | -3.4 |
CSE1L | CSE1 chromosome segregation 1-like (yeast), TV2 | NM_177436.1 | 3.8 | -1.4 | -1.6 | 1.3 |
MCM6 | Minichromosome maintenance complex component 6 | NM_005915.4 | 3.8 | -1.3 | -1.4 | -3.4 |
RPA1 | Replication protein A1, 70 kDa | NM_002945.2 | 3.7 | -1.3 | -1.2 | 1.1 |
TOP2B | Topoisomerase (DNA) II beta 180 kDa | NM_001068.2 | 3.7 | -2.5 | -2.6 | -2.0 |
RALA | V-ral simian leukemia viral oncogene homolog A (ras related) | NM_005402.2 | 3.6 | -1.7 | -1.6 | -2.3 |
SPC25 | SPC25, NDC80 kinetochore complex component | NM_020675.3 | 3.6 | -1.1 | -1.4 | 1.4 |
MAPK13 | Mitogen-activated protein kinase 13, TV1 | NM_002754.3 | 3.6 | 1.1 | 1.3 | -1.2 |
RPA3 | Replication protein A3, 14 kDa | NM_002947.3 | 3.5 | -1.2 | -1.1 | -1.3 |
E2F3 | E2F transcription factor 3, TV1 | NM_001949.2 | 3.5 | -2.0 | -2.2 | -4.5 |
MCM10 | Minichromosome maintenance complex component 10, TV2 | NM_018518.3 | 3.4 | -1.2 | -1.2 | 2.3 |
NEK2 | NIMA-related kinase 2, TV1 | NM_002497.2 | 3.4 | -1.1 | -2.1 | 1.1 |
MAP2K4 | Mitogen-activated protein kinase kinase 4 | NM_003010.2 | 3.3 | -2.3 | -2.5 | -3.1 |
DYNC1H1 | Dynein, cytoplasmic 1, heavy chain 1 | NM_001376.2 | 3.3 | -2.1 | -1.1 | 1.2 |
KIF22 | Kinesin family member 22, TV1 | NM_007317.1 | 3.2 | -1.1 | -1.1 | 1.1 |
RPA2 | Replication protein A2, 32 kDa | NM_002946.3 | 3.2 | -1.0 | 1.0 | 1.4 |
CDC7 | Cell division cycle 7, TV1 | NM_003503.2 | 3.2 | -1.3 | -1.8 | -3.1 |
RBL1 | Retinoblastoma-like 1 (p107), TV1 | NM_002895.2 | 3.2 | -1.1 | -2.0 | 1.4 |
MCM5 | Minichromosome maintenance complex component 5 | NM_006739.3 | 3.1 | 1.1 | 1.8 | 1.8 |
TGFB2 | Transforming growth factor, beta 2 | NM_003238.1 | 3.0 | 1.2 | -1.4 | 1.7 |
E2F2 | E2F transcription factor 2 | NM_004091.2 | 3.0 | -1.7 | 1.2 | -3.7 |
CDCA1 | Cell division cycle associated 1, TV1 | NM_145697.1 | 3.0 | 1.1 | -2.3 | 1.9 |
ITGB1 | Integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12), TV1 | NM_002211.2 | 3.0 | -1.7 | -1.2 | 1.4 |
MCM2 | Minichromosome maintenance complex component 2, TV1 | NM_004526.2 | 3.0 | 1.0 | 1.7 | 1.8 |
RFC3 | Replication factor C (activator 1) 3, 38 kDa, TV1 | NM_002915.3 | 2.9 | -1.7 | -1.8 | -2.2 |
NEDD8 | Neural precursor cell expressed, developmentally down-regulated 8 | NM_006156.2 | 2.9 | -1.1 | -1.0 | 1.4 |
BIRC5 | Baculoviral IAP repeat containing 5, TV3 | NM_001012271.1 | 2.9 | -1.1 | -1.4 | 1.2 |
RPS6KB1 | Ribosomal protein S6 kinase, 70 kDa, polypeptide 1, TV1 | NM_003161.2 | 2.9 | -3.4 | -1.8 | -1.2 |
KPNA4 | Karyopherin alpha 4 (importin alpha 3) | NM_002268.3 | 2.8 | -1.3 | -2.1 | -1.1 |
PPP1CB | Protein phosphatase 1, catalytic subunit, beta isozyme, TV3 | NM_206876.1 | 2.7 | -2.6 | -2.9 | -1.1 |
PLK1 | Polo-like kinase 1 | NM_005030.3 | 2.7 | 1.1 | -1.1 | 1.2 |
CDK6 | Cyclin-dependent kinase 6, TV1 | NM_001259.5 | 2.7 | -1.5 | -2.9 | 2.1 |
NEK6 | NIMA-related kinase 6, TV2 | NM_014397.3 | 2.7 | 1.1 | -1.2 | 1.1 |
KPNB1 | Karyopherin (importin) beta 1, TV1 | NM_002265.4 | 2.7 | -1.2 | -1.2 | 1.1 |
RAD21 | RAD21 homolog (S. pombe) | NM_006265.1 | 2.7 | -1.7 | -1.7 | 1.4 |
DSCC1 | Defective in sister chromatid cohesion 1 | NM_024094.1 | 2.7 | -1.6 | -1.6 | -1.4 |
TNPO1 | Transportin 1, TV2 | NM_153188.2 | 2.7 | -1.6 | -2.4 | 1.1 |
YWHAB | Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide, TV1 | NM_003404.3 | 2.6 | 1.1 | -1.1 | -1.5 |
TUBG1 | Tubulin, gamma 1 | NM_001070.3 | 2.6 | 1.0 | -1.0 | -1.0 |
FBXW11 | F-box and WD repeat domain containing 11, TV1 | NM_033645.2 | 2.6 | -2.3 | -2.3 | 1.4 |
BUB3 | Budding uninhibited by benzimidazoles 3 homolog (yeast), TV2 | NM_001007793.1 | 2.6 | 1.1 | -1.1 | -3.0 |
TUBA1B | Tubulin, alpha 1b | NM_006082.2 | 2.6 | 1.1 | 1.2 | 1.7 |
DYNC1LI2 | Dynein, cytoplasmic 1, light intermediate chain 2 | NM_006141.2 | 2.6 | -2.5 | -1.5 | -1.2 |
TUBB2A | Tubulin, beta 2A class IIa | NM_001069.2 | 2.5 | 1.3 | 1.5 | -1.4 |
CHUK | Conserved helix-loop-helix ubiquitous kinase | NM_001278.3 | 2.5 | -1.9 | -2.1 | 1.7 |
IPO5 | Importin 5 | NM_002271.4 | 2.5 | -1.2 | -2.0 | 1.3 |
RAN | RAN, member RAS oncogene family | NM_006325.2 | 2.5 | -1.4 | -1.5 | 1.6 |
RASSF1 | Ras association (RalGDS/AF-6) domain family member 1, TVA | NM_007182.4 | 2.5 | 1.2 | 1.4 | -1.1 |
INCENP | Inner centromere protein antigens 135/155 kDa, TV1 | NM_001040694.1 | 2.5 | -1.2 | -1.2 | 2.0 |
DYNLT3 | Dynein, light chain, Tctex-type 3 | NM_006520.1 | 2.5 | -1.3 | -1.8 | 1.7 |
NCAPD3 | Non-SMC condensin II complex, subunit D3 | NM_015261.2 | 2.5 | -1.1 | 1.2 | -2.6 |
YWHAQ | Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide | NM_006826.2 | 2.5 | -1.2 | -1.4 | 1.8 |
TFDP1 | Transcription factor Dp-1, TV1 | NM_007111.3 | 2.4 | -1.4 | -1.5 | -3.9 |
PDS5A | PDS5, regulator of cohesion maintenance, TV2 | NM_015200.1 | 2.4 | -2.4 | -2.1 | 1.9 |
MIS12 | MIS12, MIND kinetochore complex component, TV2 | NM_024039.1 | 2.4 | -1.5 | -1.5 | -3.4 |
CDC23 | Cell division cycle 23 | NM_004661.3 | 2.4 | -1.3 | -1.2 | 1.3 |
POLS | PAP associated domain containing 7, TV1 | NM_006999.3 | 2.4 | -1.8 | -1.5 | -3.4 |
CDC25C | Cell division cycle 25C, TV1 | NM_001790.3 | 2.3 | 1.1 | 1.1 | 1.1 |
BUB1B | BUB1 mitotic checkpoint serine/threonine kinase B | NM_001211.4 | 2.3 | -1.1 | -1.4 | -2.0 |
ANAPC11 | Anaphase promoting complex subunit 11, TV4 | NM_001002246.1 | 2.3 | 1.1 | 1.1 | -2.3 |
CHEK1 | Checkpoint kinase 1, TV3 | NM_001274.3 | 2.3 | -1.1 | -1.4 | 1.4 |
ZW10 | Zw10 kinetochore protein | NM_004724.2 | 2.3 | -1.4 | -1.9 | -1.2 |
SMC2 | Structural maintenance of chromosomes 2, TV1 | NM_001042550.1 | 2.3 | -1.6 | -1.8 | -1.3 |
CUL1 | Cullin 1 | NM_003592.2 | 2.3 | -1.6 | -1.8 | -4.5 |
TUBA1C | Tubulin, alpha 1c | NM_032704.3 | 2.2 | 1.0 | 1.0 | 2.3 |
SMC4 | Structural maintenance of chromosomes 4, TV2 | NM_001002800.1 | 2.2 | 1.4 | -2.0 | 1.1 |
CAPZA2 | Capping protein (actin filament) muscle Z-line, alpha 2 | NM_006136.2 | 2.2 | -2.0 | -1.3 | -3.1 |
PCNA | Proliferating cell nuclear antigen | NM_182649.1 | 2.1 | -1.1 | -1.4 | 1.2 |
PPP2R5C | Protein phosphatase 2, regulatory subunit B', gamma isoform , TV4 | NM_178588.1 | 2.1 | -1.0 | -1.2 | 1.1 |
SKP1A | S-phase kinase-associated protein 1, TV1 | NM_006930.2 | 2.1 | -1.4 | -1.8 | 1.4 |
TGFBR2 | Transforming growth factor, beta receptor II (70/80 kDa), TV1 | NM_001024847.1 | 2.1 | -1.5 | -1.8 | -3.1 |
CHTF18 | CTF18, chromosome transmission fidelity factor 18 | NM_022092.1 | 2.1 | -1.1 | 1.3 | 1.4 |
CCNE1 | Cyclin E1, TV2 | NM_057182.1 | 2.1 | -1.2 | -1.1 | 1.8 |
YWHAZ | Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide | NM_003406.2 | 2.1 | -1.6 | -1.6 | 1.7 |
CCT8 | Chaperonin containing TCP1, subunit 8 (theta) | NM_006585.2 | 2.1 | -1.3 | -1.8 | -3.7 |
TUBB4Q | Tubulin, beta polypeptide 4, member Q, pseudogene | NM_020040.3 | 2.1 | -1.0 | 1.2 | 1.9 |
WEE1 | WEE1 homolog (S. pombe), TV1 | NM_003390.2 | 2.1 | -1.7 | -2.2 | 1.4 |
RB1 | Retinoblastoma 1 | NM_000321.2 | 2.0 | -1.4 | -1.7 | 1.8 |
PPP2R5B | Protein phosphatase 2, regulatory subunit B', beta | NM_006244.2 | -2.0 | -1.0 | 1.2 | -2.2 |
CCNA1 | Cyclin A1, TV1 | NM_003914.2 | -2.2 | 1.2 | 1.0 | 1.4 |
TOB1 | Transducer of ERBB2, 1, TV1 | NM_005749.2 | -2.3 | -1.3 | -1.4 | 1.2 |
LIMK2 | LIM domain kinase 2, TV1 | NM_001031801.1 | -2.3 | 1.2 | 1.5 | -1.2 |
MYL5 | Myosin, light chain 5, regulatory | NM_002477.1 | -2.5 | 1.3 | 1.5 | -1.1 |
TP63 | Tumor protein p63, TV5 | NM_001114981.1 | -3.8 | -1.1 | 3.7 | -1.1 |
JUNB | Jun B proto-oncogene | NM_002229.2 | -4.3 | -1.2 | 1.6 | 1.2 |
PIK3R1 | Phosphoinositide-3-kinase, regulatory subunit 1 (alpha), TV1 | NM_181523.1 | -4.7 | -2.1 | 1.7 | 2.1 |
CDKN1A | Cyclin-dependent kinase inhibitor 1A (p21, Cip1) | NM_000389.2 | -4.7 | 1.1 | 2.5 | 1.1 |
RAC1 | Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1), Rac1b | NM_018890.2 | -7.6 | -1.0 | 1.6 | 1.1 |
FOS | FBJ murine osteosarcoma viral oncogene homolog | NM_005252.2 | -14.9 | 1.0 | 2.4 | 1.4 |
Apoptosis | ||||||
PAK2 | p21 protein (Cdc42/Rac)-activated kinase 2 | NM_002577.3 | 6.0 | -2.9 | -3.1 | -1.3 |
CDC2 | Cyclin-dependent kinase 1, TV1 | NM_001786.2 | 5.2 | -1.2 | -2.3 | 1.7 |
BARD1 | BRCA1 associated RING domain 1 | NM_000465.1 | 3.5 | -1.7 | -2.8 | -1.7 |
MAP2K4 | Mitogen-activated protein kinase kinase 4 | NM_003010.2 | 3.3 | -2.3 | -2.5 | -3.1 |
MAP3K4 | Mitogen-activated protein kinase kinase kinase 4, TV1 | NM_005922.2 | 2.6 | -1.6 | -2.2 | -2.5 |
MAP3K1 | Mitogen-activated protein kinase kinase kinase 1, E3 ubiquitin protein ligase | NM_005921.1 | 2.6 | -2.4 | -1.6 | -3.8 |
BIRC2 | Baculoviral IAP repeat containing 2, TV1 | NM_001166.3 | 2.6 | -1.4 | -2.1 | 1.5 |
SENP2 | SUMO1/sentrin/SMT3 specific peptidase 2 | NM_021627.2 | 2.5 | -1.7 | -1.8 | -1.6 |
RIPK1 | Receptor (TNFRSF)-interacting serine-threonine kinase 1 | NM_003804.3 | 2.5 | -1.7 | -2.1 | -4.5 |
YWHAQ | Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide | NM_006826.2 | 2.5 | -1.2 | -1.4 | -2.1 |
MAPK9 | Mitogen-activated protein kinase 9, TV JNK2-a2 | NM_002752.3 | 2.4 | -1.3 | -1.5 | -2.5 |
CASP3 | Caspase 3, apoptosis-related cysteine peptidase, TV beta | NM_032991.2 | 2.2 | -1.3 | -1.7 | -4.0 |
APAF1 | Apoptotic peptidase activating factor 1, TV1 | NM_013229.2 | 2.2 | -1.5 | -1.4 | -2.0 |
BMF | Bcl2 modifying factor, TV2 | NM_033503.3 | -2.0 | 1.0 | 1.1 | -1.2 |
CFLAR | CASP8 and FADD-like apoptosis regulator | NM_003879.3 | -2.3 | 1.2 | 1.1 | -1.9 |
HSPB1 | Heat shock 27 kDa protein 1 | NM_001540.2 | -2.7 | 1.2 | 1.5 | -1.1 |
GADD45B | Growth arrest and DNA-damage-inducible, beta | NM_015675.2 | -3.8 | 1.1 | 1.8 | -1.1 |
TNFRSF6B | Tumor necrosis factor receptor superfamily, member 6b, decoy, transcript variant M68C | NM_032945.2 | -4.3 | -1.0 | 1.2 | 1.8 |
Heat Shock | ||||||
HSP90AA1 | Heat shock protein 90 kDa, class A member 1 | NM_001017963.2 | 4.0 | -1.4 | -1.7 | 1.1 |
CARHSP1 | Calcium regulated heat stable protein 1, 24 kDa | NM_001042476.1 | 3.2 | 1.0 | 1.1 | -1.1 |
HSPA12A | Heat shock protein 70 kDa 12A | NM_025015.2 | 2.3 | -1.2 | -1.7 | 1.4 |
HSPB1 | Heat shock protein 27 kDa protein 1 | NM_001540.2 | -2.7 | 1.2 | 1.5 | -1.1 |
HSPBL2 | Heat shock 27 kDa protein 1 pseudogene 1 | NR_024392.1 | -3.2 | 1.2 | 1.6 | -1.0 |
HSPA6 | Heat shock 70 kDa protein 6 | NM_002155.3 | -5.3 | 1.2 | 1.1 | 1.3 |
HSPA7 | Heat shock 70 kDa protein 7 | NR_024151.1 | -4.0 | 1.2 | 1.4 | 1.2 |