Additional file 2: of QsRNA-seq: a method for high-throughput profiling and quantifying small RNAs

Table S1. Sizes of nucleic acid fragments used and generated during QsRNA-seq library preparation process. Figure S1. Comparing the yield of PAGE-based method versus QsRNA-seq small RNA library preparation methods. Table S2. Comparison between libraries prepared by PAGE-based method and libraries prepared by QsRNA-seq from the same RNA sample. Figure S2. Estimation of ligation and PCR derived biases when adding UMI. Figure S3. Quantity and purity of QsRNA-seq generated libraries. Table S3. Summary of libraries generated in the study. Figure S4. Reducing starting RNA quantity by 10-fold produces similar results. Figure S5. There is a high correlation between samples generated from the same RNA by PAGE-based method and by QsRNA-seq. Figure S6. Variance between collapsed and non-collapsed biological and technical replica samples at C. elegans L4 stage is low. Figure S7. Collapsing sequences using UMI reduces PCR biases. Figure S8. Collapsing sequences using UMI does not change differential expression results of miRNAs. Figure S9. The 26-nt-long sequences primarily start with 5’ G. Figure S10. Size distribution of C. elegans sRNA library sequences with and without UMI. Figure S11. Size distribution of C. elegans sRNA library sequences generated by the PAGE-based method or by QsRNA-seq. Figure S12. Size distribution of sequences from human brain sRNA library generated by QsRNA-seq. Figure S13. Size distribution of C. elegans sRNA library sequences generated by QsRNA-seq after phosphatase treatment. Figure S14. The 22-nt-long microRNAs are expressed similarly in C. elegans embryo and L4 stages. (PDF 3458 kb