Deep sequencing reads for stem-loop sequence MI0000269

Stem-loop ID hsa-mir-181a-2
Reads 
                                     hsa-miR-181a-5p                    hsa-miR-181a-2-3p                       Count     RPM (mean number of reads per million)
..................GCCUUCAGAGGACUCCAAGG........................................................................  4         0.0831
...................CCUUCAGAGGACUCCAAGG........................................................................  7         0.112
....................CUUCAGAGGACUCCAAGG........................................................................  7         0.0789
.....................UUCAGAGGACUCCAAGG........................................................................  2         0.0371
.....................................GAACAUUCAACGCUGUCGGUGAG..................................................  24        0.321
.....................................GAACAUUCAACGCUGUCGGUGAGU.................................................  10        0.128
.....................................GAACAUUCAACGCUGUCGGUGAGUUU...............................................  9         0.107
.....................................GAACAUUCAACGCUGUCGGUGA...................................................  9         0.0788
.....................................GAACAUUCAACGCUGUCGGUG....................................................  2         0.0371
......................................AACAUUCAACGCUGUCGGUGAGUUU...............................................  40744     635
......................................AACAUUCAACGCUGUCGGUGAGUU................................................  24042     409
......................................AACAUUCAACGCUGUCGGUGAGU.................................................  9217      158
......................................AACAUUCAACGCUGUCGGUGAG..................................................  3857      71.3
......................................AACAUUCAACGCUGUCGGUGA...................................................  701       12.7
......................................AACAUUCAACGCUGUCGGUG....................................................  406       11
......................................AACAUUCAACGCUGUCGGU.....................................................  111       5.31
......................................AACAUUCAACGCUGUCGGUGAGUUUG..............................................  26        0.432
......................................AACAUUCAACGCUGUCGG......................................................  8         0.162
.......................................ACAUUCAACGCUGUCGGUGAGUU................................................  76        1.29
.......................................ACAUUCAACGCUGUCGGUGAGUUU...............................................  66        1.12
.......................................ACAUUCAACGCUGUCGGUGAGU.................................................  16        0.268
.........................................AUUCAACGCUGUCGGUGAGUUU...............................................  4         0.0833
.........................................AUUCAACGCUGUCGGUGAGU.................................................  2         0.0268
...........................................UCAACGCUGUCGGUGAGUUU...............................................  2         0.0371
............................................CAACGCUGUCGGUGAGUUU...............................................  2         0.0371
.............................................AACGCUGUCGGUGAGUU................................................  2         0.0268
........................................................................AAAAACCACUGACCGUUGACUGUAC.............  1         1.65
.........................................................................AAAACCACUGACCGUUGACUGUAC.............  9         26
.........................................................................AAAACCACUGACCGUUGACUGUACC............  7         70.8
.........................................................................AAAACCACUGACCGUUGACUGU...............  1         1.65
...........................................................................AACCACUGACCGUUGACUGUAC.............  59        0.836
...........................................................................AACCACUGACCGUUGACUGUA..............  41        1.19
...........................................................................AACCACUGACCGUUGACUGU...............  21        0.554
...........................................................................AACCACUGACCGUUGACUGUACC............  11        0.118
............................................................................ACCACUGACCGUUGACUGUACC............  1813      76.5
............................................................................ACCACUGACCGUUGACUGUAC.............  657       16
............................................................................ACCACUGACCGUUGACUGUA..............  330       8.52
............................................................................ACCACUGACCGUUGACUGU...............  143       3.79
............................................................................ACCACUGACCGUUGACUGUACCU...........  43        0.713
............................................................................ACCACUGACCGUUGACUG................  4         0.0685
............................................................................ACCACUGACCGUUGACU.................  2         0.0149
..............................................................................CACUGACCGUUGACUGUACC............  2         0.432
...............................................................................ACUGACCGUUGACUGUACC............  2         0.0371
AGAAGGGCUAUCAGGCCAGCCUUCAGAGGACUCCAAGGAACAUUCAACGCUGUCGGUGAGUUUGGGAUUUGAAAAAACCACUGACCGUUGACUGUACCUUGGGGUCCUUA
.((((((((....)))...))))).(((((((((((((.(((.((((((..(((((((.((((...........))))))))))))))))).))).))))))))))))). (-54.00)

Filter reads

by experiment
Accession Read count Tissue Link Comment Reference
ER0000000002 69embryonic stem cell GEO : GSM541797 [ Bar M et al.]
ER0000000103 16487melanoblast GEO : GSM458535 [ Stark MS et al.]
ER0000000104 2216melanocyte GEO : GSM458536 [ Stark MS et al.]
ER0000000105 7659 GEO : GSM458537 cell line: primary giant congental nevus [ Stark MS et al.]
ER0000000106 649melanoma GEO : GSM458538 cell line: secondary acral melanoma [ Stark MS et al.]
ER0000000107 1140melanoma GEO : GSM458539 cell line: secondary mucosal melanoma [ Stark MS et al.]
ER0000000108 15161melanoma GEO : GSM458540 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000109 1969melanoma GEO : GSM458541 cell line: primary uveal melanoma [ Stark MS et al.]
ER0000000110 20501melanoma GEO : GSM458542 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000111 4053melanoma GEO : GSM458543 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000112 10896melanoma GEO : GSM458544 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000113 4924melanoma GEO : GSM458545 cell line: secondary cutaneous melanoma from a chronically sun-damaged body site [ Stark MS et al.]
ER0000000114 7769melanoma GEO : GSM458546 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000138 23squamous cell GEO : GSM532874 [ Witten D et al.]
ER0000000139 1 GEO : GSM532875 normal cervix [ Witten D et al.]
ER0000000140 27squamous cell GEO : GSM532876 [ Witten D et al.]
ER0000000150 18squamous cell GEO : GSM532886 [ Witten D et al.]
ER0000000155 16 GEO : GSM532891 normal cervix [ Witten D et al.]
ER0000000156 115squamous cell GEO : GSM532892 [ Witten D et al.]
ER0000000159 65 GEO : GSM532895 normal cervix [ Witten D et al.]
ER0000000160 163squamous cell GEO : GSM532896 [ Witten D et al.]
ER0000000163 5 GEO : GSM532899 normal cervix [ Witten D et al.]
ER0000000164 188squamous cell GEO : GSM532900 [ Witten D et al.]
ER0000000167 8 GEO : GSM532903 normal cervix [ Witten D et al.]
ER0000000168 18adenosquamous cell GEO : GSM532904 [ Witten D et al.]
ER0000000173 9 GEO : GSM532909 normal cervix [ Witten D et al.]
ER0000000174 86squamous cell GEO : GSM532910 [ Witten D et al.]
ER0000000177 35 GEO : GSM532913 normal cervix [ Witten D et al.]
ER0000000178 37squamous cell GEO : GSM532914 [ Witten D et al.]
ER0000000179 5 GEO : GSM532915 normal cervix [ Witten D et al.]
ER0000000180 58squamous cell GEO : GSM532916 [ Witten D et al.]
ER0000000185 21 GEO : GSM532921 normal cervix [ Witten D et al.]
ER0000000186 69squamous cell GEO : GSM532922 [ Witten D et al.]
ER0000000187 6 GEO : GSM532923 normal cervix [ Witten D et al.]
ER0000000188 315squamous cell GEO : GSM532924 [ Witten D et al.]
ER0000000262 2 GEO : GSM337570 antibody: anti-Ago1 4B8
ER0000000263 3 GEO : GSM337571 antibody: anti-Ago2 11A9
ER0000000264 12 GEO : GSM368181 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000265 2 GEO : GSM368182 tissue: clinically negative of NPC [ Zhu JY et al.]
ER0000000266 6 GEO : GSM368183 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000267 1 GEO : GSM368184 tissue: clinically negative of NPC [ Zhu JY et al.]
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:19144710 "Identification of novel Epstein-Barr virus microRNA genes from nasopharyngeal carcinomas" Zhu JY, Pfuhl T, Motsch N, Barth S, Nicholls J, Grasser F, Meister G J Virol. 83:3333-3341(2009).
3
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).
4
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).