For crosslinking, cells were washed once by PBS, then treated by accutase (biolegend, #423201) for 10mins at 37°C. After removing the accutase, cells were resuspended by DMEM. Formaldehyde was added to the final concentration of 1%, incubated at room temperature for 10mins. Glycine was added to the final concentration of 0.2M, incubated at room temperature for 10 mins to quench formaldehyde. HiCAR libraries were constructed following the method in the HiCAR manuascript. RNA libaraies were constructed following the SMART-seq2 protocol. HiCAR