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Table 1 Deletions in CLIP, iCLIP and mRNA-seq cDNAs

From: Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

Experiments Unique cDNAs Unique cDNAs with deletions in sequence reads Unique cDNAs with deletions (1 to 25 nucleotides) Proportiona
Nova CLIP 3,852,778 482,871 421,417 11%
Ago mRNA CLIP 1,105,217 79,126 61,211 5.5%
mRNA-Seq 4,857,809 60,110 18,936 0.4%
Nova iCLIP 166,330 6,174 3,749 2.3%
hnRNP C iCLIP 698,046 17,412 8,923 1.3%
TIA1 iCLIP 991,158 6,945 6,261 0.6%
TIAL1 iCLIP 2,786,090 12,011 10,963 0.4%
TDP-43 iCLIP 3,506,515 97,708 48,138 1.4%
  1. aProportion was defined as the percentage of (Unique cDNAs with deletions (1 to 25 nucleotides)/Unique cDNAs).