MOESM2 of Non-coding RNAs underlie genetic predisposition to breast cancer

Additional file 2: Table S1. Breast derived samples on which RNA CaptureSeq was performed. Table S2. Expression (FPKM) of the mencRNAs across all RNA CaptureSeq samples. Table S3. Breast cancer risk signals and surrounding regions captured by RNA CaptureSeq. Table S4. Control sequences captured by RNA CaptureSeq. Table S5. MencRNAs with FPKM ≥0.5 identified by RNA CaptureSeq. Table S6. Novel mencRNAs with FPKM ≥0.5. Those overlapping with GENCODE, FANTOM-CAT, or NONCODE lncRNAs have been excluded. Table S7. Coding potential of the transcripts from mencRNAs with FPKM ≥0.5 assessed by coding potential calculator (CPC2). Table S8. MencRNAs differentially expressed between MCF7 estrogen-treated and control samples (FDR < 0.01). Table S9. MencRNAs expressed in TCGA with FPKM ≥1 in at least one sample. Table S10. Count of CCVs overlapping transcript features. Table S11. Breast cancer CCVs linked to genomic features. Table S12. MencRNA eQTLs. Table S13. Colocalized mencRNA eQTLs. Table S14. MencRNAs targeted by breast cancer risk signals. Table S15. Primers used for mencRNA validation. Table S16. Publically available genomic data and software.