To study the expression profile change after treatment of ZN-c5 and 4-OH Tamaxifen in MCF-7 cells

Endocrine therapy has proven to be beneficial for patients with estrogen receptor (ER) positive, HER2 negative (ER+/HER2-) breast cancer; however, de novo or acquired resistance remains a major clinical challenge. Upon progression, many of the cancers continue to be ER dependent, highlighting the opportunities for novel ER targeting therapies. Fulvestrant, a selective estrogen receptor degrader (SERD) that antagonizes and degrades ER simultaneously, has demonstrated activity in ER+/HER2- breast cancers the ability to overcome endocrine resistance. Fulvestrant has limitations including challenging administration by intramuscular injection and poor bioavailability, resulting in sub-optimal drug exposure, hence several next generation oral SERDs with improved drug properties have been developed and are currently being evaluated in the clinic for their therapeutic benefit. Here, we describe the discovery of ZN-c5, an orally bioavailable SERD with favorable pharmacokinetic properties and potent activities against both wild-type and mutant ER. In vivo studies showed that ZN-c5 treatment resulted in significant tumor growth inhibition in a variety of breast cancer models and patient-derived xenograft models that harbor ESR1 mutations. Combination with CDK4/6 inhibitors or PI3K pathway inhibition enhanced anti-tumor effects compared with single agent alone. ZN-c5 also demonstrated bone protective effect as observed in a mouse osteoporosis model. These data support the clinical utility of ZN-c5 as monotherapy and as a combination therapy for patients with ER+/HER2- breast cancers. While encouraging plasma exposure and tolerability have been observed for ZN-c5 in patients, further studies are needed to optimize its therapeutic efficacy. Overall design: MCF-7 cells were seeded in phenol red free medium supplemented with 10% charcoal stripped FBS. 48 hours later, the cells were treated with ZN-c5 or 4-OH tamoxifen at 1 µM for 24 hours. RNA was extracted using the methods described above. The Poly (A) tail RNA selection strand-specific cDNA library was prepared by LC Sciences. The aggregated gene counts were used for differential gene expression analyses using StringTie by calculating FPKM. Poly(A) RNA sequencing library was prepared following Illumina's TruSeq-stranded-mRNA sample preparation protocol. RNA integrity was checked with Agilent Technologies 2100 Bioanalyzer. Poly(A) tail-containing mRNAs were purified using oligo-(dT) magnetic beads with two rounds of purification. After purification, poly(A) RNA was fragmented using divalent cation buffer in elevated temperature. The DNA library construction is shown in the following workflow. Quality control analysis and quantification of the sequencing library were performed using Agilent Technologies 2100 Bioanalyzer High Sensitivity DNA Chip. Paired-ended sequencing was performed on Illumina's NovaSeq 6000 sequencing system.