Deep sequencing reads for mature sequence MIMAT0004692

Stem-loop ID hsa-mir-340
Mature ID hsa-miR-340-5p
Reads 
               hsa-miR-340-5p                            hsa-miR-340-3p                           Count     RPM (mean number of reads per million)
..............AUUAUAAAGCAAUGAGACUGA............................................................  6         0.195
...............UUAUAAAGCAAUGAGACUGAUU..........................................................  20117     706
...............UUAUAAAGCAAUGAGACUGAU...........................................................  4537      181
...............UUAUAAAGCAAUGAGACUGA............................................................  761       28.8
...............UUAUAAAGCAAUGAGACUG.............................................................  39        1.25
...............UUAUAAAGCAAUGAGACUGAUUG.........................................................  31        0.995
...............UUAUAAAGCAAUGAGACU..............................................................  5         3.39
...............UUAUAAAGCAAUGAGAC...............................................................  4         0.174
................UAUAAAGCAAUGAGACUGAUU..........................................................  38        1.32
................UAUAAAGCAAUGAGACUGAU...........................................................  8         0.27
.................AUAAAGCAAUGAGACUGAUU..........................................................  8         0.311
.................AUAAAGCAAUGAGACUGAU...........................................................  2         0.0684
.....................................GUCAUAUGUCGUUUGUGGGA......................................  5         0.145
.........................................................UCCGUCUCAGUUACUUUAUAGCC...............  3         6.1
.........................................................UCCGUCUCAGUUACUUUAUAGC................  1         0.354
..........................................................CCGUCUCAGUUACUUUAUAGCC...............  1         2.96
UUGUACCUGGUGUGAUUAUAAAGCAAUGAGACUGAUUGUCAUAUGUCGUUUGUGGGAUCCGUCUCAGUUACUUUAUAGCCAUACCUGGUAUCUUA
..(((((.((((((..(((((((...((((((.((((.(((((.......))))))))).))))))....)))))))..)))))).))))).... (-36.00)

Filter reads

by experiment
Accession Read count Tissue Link Comment Reference
ER0000000002 8embryonic stem cell GEO : GSM541797 [ Bar M et al.]
ER0000000103 2463melanoblast GEO : GSM458535 [ Stark MS et al.]
ER0000000104 942melanocyte GEO : GSM458536 [ Stark MS et al.]
ER0000000105 573 GEO : GSM458537 cell line: primary giant congental nevus [ Stark MS et al.]
ER0000000106 644melanoma GEO : GSM458538 cell line: secondary acral melanoma [ Stark MS et al.]
ER0000000107 4512melanoma GEO : GSM458539 cell line: secondary mucosal melanoma [ Stark MS et al.]
ER0000000108 1724melanoma GEO : GSM458540 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000109 2328melanoma GEO : GSM458541 cell line: primary uveal melanoma [ Stark MS et al.]
ER0000000110 3484melanoma GEO : GSM458542 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000111 3608melanoma GEO : GSM458543 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000112 2979melanoma GEO : GSM458544 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000113 2268melanoma GEO : GSM458545 cell line: secondary cutaneous melanoma from a chronically sun-damaged body site [ Stark MS et al.]
ER0000000114 1999melanoma GEO : GSM458546 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000150 1squamous cell GEO : GSM532886 [ Witten D et al.]
ER0000000156 1squamous cell GEO : GSM532892 [ Witten D et al.]
ER0000000160 8squamous cell GEO : GSM532896 [ Witten D et al.]
ER0000000164 8squamous cell GEO : GSM532900 [ Witten D et al.]
ER0000000174 2squamous cell GEO : GSM532910 [ Witten D et al.]
ER0000000180 1squamous cell GEO : GSM532916 [ Witten D et al.]
ER0000000184 1squamous cell GEO : GSM532920 [ Witten D et al.]
ER0000000188 1squamous cell GEO : GSM532924 [ Witten D et al.]
ER0000000262 5 GEO : GSM337570 antibody: anti-Ago1 4B8
ER0000000263 8 GEO : GSM337571 antibody: anti-Ago2 11A9
ER0000000264 1 GEO : GSM368181 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000265 1 GEO : GSM368182 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).