Deep sequencing reads for mature sequence MIMAT0003220

Stem-loop ID hsa-mir-556
Mature ID hsa-miR-556-5p
Reads 
               hsa-miR-556-5p                         hsa-miR-556-3p                              Count     RPM (mean number of reads per million)
............AAAGAUGAGCUCAUUGUAAUAUGA...........................................................  5         31.1
............AAAGAUGAGCUCAUUGUAAUAUG............................................................  3         28.4
.....................................................CAUAUUACCAUUAGCUCAUCUU....................  1         0.375
......................................................AUAUUACCAUUAGCUCAUCUU....................  17        1.22
......................................................AUAUUACCAUUAGCUCAUCU.....................  2         0.202
.......................................................UAUUACCAUUAGCUCAUCUU....................  1         0.632
GAUAGUAAUAAGAAAGAUGAGCUCAUUGUAAUAUGAGCUUCAUUUAUACAUUUCAUAUUACCAUUAGCUCAUCUUUUUUAUUACUACCUUCAACA
..(((((((((((((((((((((.((.((((((((((..............)))))))))).)).)))))))))))))))))))))......... (-37.44)

Filter reads

by experiment
Accession Read count Tissue Link Comment Reference
ER0000000001 1embryonic stem cell GEO : GSM541796 [ Bar M et al.]
ER0000000002 1embryonic stem cell GEO : GSM541797 [ Bar M et al.]
ER0000000103 2melanoblast GEO : GSM458535 [ Stark MS et al.]
ER0000000106 3melanoma GEO : GSM458538 cell line: secondary acral melanoma [ Stark MS et al.]
ER0000000107 6melanoma GEO : GSM458539 cell line: secondary mucosal melanoma [ Stark MS et al.]
ER0000000110 5melanoma GEO : GSM458542 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000114 3melanoma GEO : GSM458546 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000155 1 GEO : GSM532891 normal cervix [ Witten D et al.]
ER0000000159 2 GEO : GSM532895 normal cervix [ Witten D et al.]
ER0000000173 2 GEO : GSM532909 normal cervix [ Witten D et al.]
ER0000000177 1 GEO : GSM532913 normal cervix [ Witten D et al.]
ER0000000185 5 GEO : GSM532921 normal cervix [ Witten D et al.]
ER0000000187 1 GEO : GSM532923 normal cervix [ Witten D et al.]
ER0000000263 1 GEO : GSM337571 antibody: anti-Ago2 11A9
by # mismatches     Display untemplated ends
by read count min max

References

1
PMID:18583537 "MicroRNA discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries" Bar M, Wyman SK, Fritz BR, Qi J, Garg KS, Parkin RK, Kroh EM, Bendoraite A, Mitchell PS, Nelson AM, Ruzzo WL, Ware C, Radich JP, Gentleman R, Ruohola-Baker H, Tewari M Stem Cells. 26:2496-2505(2008).
2
PMID:20300190 "Characterization of the Melanoma miRNAome by Deep Sequencing" Stark MS, Tyagi S, Nancarrow DJ, Boyle GM, Cook AL, Whiteman DC, Parsons PG, Schmidt C, Sturm RA, Hayward NK PLoS One. 5:e9685(2010).
3
PMID:20459774 "Ultra-high throughput sequencing-based small RNA discovery and discrete statistical biomarker analysis in a collection of cervical tumours and matched controls" Witten D, Tibshirani R, Gu SG, Fire A, Lui WO BMC Biol. 8:58(2010).