Table 1

Summary of CLIPZ mapping statistics and annotation categories for PAR-CLIP samples.

Feature

FBL

FBL (MNase)

NOP56

NOP58 rep A

NOP58 rep B

DKC1

Ago2 rep A

HuR rep A


Mapping rate

60.47%

73.3%

26.6%

41.4%

46.6%

47.5%

67.9%

72.4%

Library size

3,755,090

7,396,138

2,789,209

3,678,032

3,798,895

7,727,966

5,899,130

5,491,479

T→C mutations among all observed mutations

64.8%

57.7%

48.6%

67.9%

73.0%

19.7%

55.8%

58.8%

snoRNAs

33.79%

31.55%

29.95%

39.05%

44.10%

13.13%

0.18%

0.01%

snRNAs

20.87%

33.17%

15.45%

22.36%

25.60%

10.18%

0.28%

0.02%

rRNAs

18.64%

13.83%

8.12%

7.42%

7.16%

15.53%

1.07%

0.17%

mRNAs

14.47%

11.61%

22.27%

19.42%

15.14%

17.40%

50.07%

47.87%

Repeats

6.42%

1.60%

15.51%

6.08%

3.36%

18.39%

11.29%

42.08%

tRNAs

1.57%

2.67%

2.44%

0.99%

0.57%

5.10%

0.75%

0.14%

miRNAs

0.07%

0.18%

0.02%

0.01%

0.01%

0.05%

20.41%

00.00%

Other Categories

2.74%

3.66%

3.01%

2.98%

2.78%

2.80%

3.86%

1.99%

No annotation

1.43%

1.74%

3.21%

1.69%

1.27%

17.43%

12.10%

7.71%


Ago2: Argonaute 2; DKC1: Dyskerin; FBL: Fibrillarin; miRNA: micro RNA; MNase: micrococcal nuclease; PAR-CLIP: photoactivatable-ribonucleoside-enhanced cross-linking and immunoprecipitation; rRNA: ribosomal RNA; snoRNA: small nucleolar RNA; snRNA: small nuclear RNA; tRNA: transfer RNA

Kishore et al. Genome Biology 2013 14:R45   doi:10.1186/gb-2013-14-5-r45

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