Deep sequencing reads for mature sequence MIMAT0001080

Stem-loop ID hsa-mir-196b
Mature ID hsa-miR-196b-5p
Reads 
             hsa-miR-196b-5p                    hsa-miR-196b-3p                        Count     RPM (mean number of reads per million)
............UUUAGGUAGUUUCCUGUUGUUGGG................................................  2         31.3
..............UAGGUAGUUUCCUGUUGUUGGG................................................  1076      80.5
..............UAGGUAGUUUCCUGUUGUUGG.................................................  269       22.7
..............UAGGUAGUUUCCUGUUGUUGGGA...............................................  155       9.19
..............UAGGUAGUUUCCUGUUGUUGGGAU..............................................  6         0.388
..............UAGGUAGUUUCCUGUUGUUG..................................................  4         0.607
...............AGGUAGUUUCCUGUUGUUGGG................................................  2         0.0491
.................................................UCGACAGCACGACACUGCCUUCA............  24        1.27
.................................................UCGACAGCACGACACUGCCU...............  4         0.116
.................................................UCGACAGCACGACACUGCCUU..............  1         2.67
..................................................CGACAGCACGACACUGCCUUC.............  2         0.061
ACUGGUCGGUGAUUUAGGUAGUUUCCUGUUGUUGGGAUCCACCUUUCUCUCGACAGCACGACACUGCCUUCAUUACUUCAGUUG
(((((..((((((..(((((((.((.(((((((((((..........))))))))))).)).)))))))..))))))))))).. (-34.30)

Filter reads

by experiment
Accession Read count Tissue Link Comment Reference
ER0000000001 7embryonic stem cell GEO : GSM541796 [ Bar M et al.]
ER0000000002 348embryonic stem cell GEO : GSM541797 [ Bar M et al.]
ER0000000103 81melanoblast GEO : GSM458535 [ Stark MS et al.]
ER0000000104 21melanocyte GEO : GSM458536 [ Stark MS et al.]
ER0000000105 3 GEO : GSM458537 cell line: primary giant congental nevus [ Stark MS et al.]
ER0000000106 20melanoma GEO : GSM458538 cell line: secondary acral melanoma [ Stark MS et al.]
ER0000000107 42melanoma GEO : GSM458539 cell line: secondary mucosal melanoma [ Stark MS et al.]
ER0000000108 1194melanoma GEO : GSM458540 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000109 25melanoma GEO : GSM458541 cell line: primary uveal melanoma [ Stark MS et al.]
ER0000000110 3365melanoma GEO : GSM458542 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000111 1141melanoma GEO : GSM458543 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000112 946melanoma GEO : GSM458544 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000113 384melanoma GEO : GSM458545 cell line: secondary cutaneous melanoma from a chronically sun-damaged body site [ Stark MS et al.]
ER0000000114 640melanoma GEO : GSM458546 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000136 1squamous cell GEO : GSM532872 [ Witten D et al.]
ER0000000138 1squamous cell GEO : GSM532874 [ Witten D et al.]
ER0000000142 1squamous cell GEO : GSM532878 [ Witten D et al.]
ER0000000156 1squamous cell GEO : GSM532892 [ Witten D et al.]
ER0000000161 1 GEO : GSM532897 normal cervix [ Witten D et al.]
ER0000000165 1 GEO : GSM532901 normal cervix [ Witten D et al.]
ER0000000166 3squamous cell GEO : GSM532902 [ Witten D et al.]
ER0000000171 1 GEO : GSM532907 normal cervix [ Witten D et al.]
ER0000000174 2squamous cell GEO : GSM532910 [ Witten D et al.]
ER0000000176 4adenosquamous cell GEO : GSM532912 [ Witten D et al.]
ER0000000182 1squamous cell GEO : GSM532918 [ Witten D et al.]
ER0000000184 9squamous cell GEO : GSM532920 [ Witten D et al.]
ER0000000262 118 GEO : GSM337570 antibody: anti-Ago1 4B8
ER0000000263 47 GEO : GSM337571 antibody: anti-Ago2 11A9
ER0000000265 5 GEO : GSM368182 tissue: clinically negative of NPC [ Zhu JY et al.]
ER0000000266 2 GEO : GSM368183 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000267 4 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).