GSE121179
Next generation seuquencing of 3D breast cancer cell culture in synthetic hydrogels presenting either a collagen mimic or laminin mimic
MDA-MB-231 (ER-) and T47D (ER+)  breast cancer cells were encapsulated in synthetic hydrogels, formed with a multi-arm bioinert polymer poly(ethylene glycol), cell-degradable peptide crosslinks, and receptor-binding pendant peptides, and cultured for 3 days to assess initial cell responses to different matrix compositions. The synthetic matrices had a Young's modulus (E) ~ 0.6 kPa, in the range of bone marrow and healthy mammary tissue, and biochemcial cues to mimic binding sites found in collagen (GFOGER peptide) or laminin (IKVAV peptide). After 3 days in culture, mRNA was collected and RNA-seq performed to compare cell responses between the collagen and laminin mimetic cultures. Overall design: Examination of two different peptide compositions, collagen (GFOGER) and laminin (IKVAV), on two breast cancer cell lines MDA-MB-231 (ER-) and T47D (ER+) cultured in three dimensional PEG hydrogels for 3 days.