Fig. 2

CRISPRi screen reveals functional human pseudogenes. A Schema depicting the workflow for construction of lentiviral vectors encoding sgRNA library and experimental design of CRISPRi screens. B The scatter plot showing the log₂ Fold-Change (FC) and the statistical significance (− log₁₀P value) of sgRNA abundance difference between day 21 and day 0 for the negatively selected pseudogenes (log₂ FC < 0), and the pie chart showing the percentage of unitary, processed, and unprocessed pseudogenes among all pseudogenes hits in MCF7 cells. The dots corresponding to the pseudogene hits are shown in red. The examples of pseudogene hits MGAT4EP, DDX12P, TUBBP5, and PRELID1P1 are highlighted in different colors. C The scatter plot showing the log₂FC and the statistical significance (− log₁₀P value) of sgRNA abundance difference between day 21 and day 0 for the negatively selected parent genes (log₂FC < 0). The dots corresponding to the parent gene hits are shown in red. The examples of parent gene hits RPL27A, MRPS31, EIF3E, and LHDA are shown in different colors. D The scatter plot showing the log₂FC of sgRNA abundance difference between day 21 and day 0 for pseudogenes and their corresponding parent genes. The dots corresponding to the pseudogene hits, whose parent gene does not pass the statistical significance threshold, are shown in red. The examples of these pseudogene hits PSPHP1, COX20P1, and CD99P1 are shown in different colors