Table 2: Summary of NGS-based studies on prostate cancer.

DiscoveriesMethodReferences

Copy number loss of MTAP, CDKN2, and ARF genes DNA-Seq[34]
Somatic mutations in MTOR, BRCA2, ARHGEF12, and CHD5 genes[11]
NCOA2, p300, the AR corepressor NRIP1/RIP140, and NCOR2/SMRT[6]
Somatic mutations in SPOP, FOXA1, and MED12[35]
Somatic mutations in MLL2 and FOXA1[36]
Somatic mutations in TP53, DLK2, GPC6, and SDF4.[37]

TMPRSS2:ERG, TMPRSS2:ETV1RNA-Seq[38]
TMPRSS2:ETV4 [39]
TMPRSS2:ETV5, SLC45A3:ETV5[40]
TMPRSS2:ELK4[41]
SLC45A3:ETV1, HERV-K_22q11.23:ETV1, HNRPA2B1:ETV1, and C15ORF21:ETV1 [42]
KLK2:ETV4 and CANT1:ETV4 [43]
SLC45A3:BRAF or ESRP1:RAF1[44]
C15orf21:Myc [45]
EPB41:BRAF[46]
TMEM79:SMG5[47]
Differential expression of PCAT-1 [48]
Differential expression of miR-16, miR-34a, miR-126*, miR-145, and miR-205 [49]

HDACs and EZH2 work as ERG corepressorsChip-Seq[50]
AP4 as a novel co-TF of AR[51]
POU2F1 and NKX3-1[52]
Runx2a regulates secretion invasiveness and membrane secretion[53]
A novel transcriptional regulatory network between NKX3-1, AR, and the RAB GTPase signaling pathway[54]

Distinct patterns of promoter methylation around transcription start sites Methyl-Seq[55]