Deep sequencing reads for stem-loop sequence MI0000786

Stem-loop ID hsa-mir-378a
Reads 
   hsa-miR-378a-5p                      hsa-miR-378a-3p             Count     RPM (mean number of reads per million)
.GGGCUCCUGACUCCAGGUCCUGUG.........................................  17        32.3
.GGGCUCCUGACUCCAGGUCCUGUGU........................................  17        31.7
.GGGCUCCUGACUCCAGGUCCUGU..........................................  4         10.2
.GGGCUCCUGACUCCAGGU...............................................  1         1.41
.GGGCUCCUGACUCCAGGUCCUG...........................................  1         2.27
....CUCCUGACUCCAGGUCCUGUGU........................................  71        256
....CUCCUGACUCCAGGUCCUGUG.........................................  6         57.4
....CUCCUGACUCCAGGUCCUGU..........................................  4         26.1
.....UCCUGACUCCAGGUCCUGUGU........................................  6         13.1
........................................GCACUGGACUUGGAGUCAGAAG....  28        0.401
........................................GCACUGGACUUGGAGUCAGAAGGC..  3         0.0223
........................................GCACUGGACUUGGAGUCAGAAGG...  2         0.0149
.........................................CACUGGACUUGGAGUCAGAAGGC..  236       3.64
.........................................CACUGGACUUGGAGUCAGAAGG...  116       2.04
.........................................CACUGGACUUGGAGUCAGAAG....  7         0.133
..........................................ACUGGACUUGGAGUCAGAAGGC..  222729    5.97e+03
..........................................ACUGGACUUGGAGUCAGAAGG...  52752     1.07e+03
..........................................ACUGGACUUGGAGUCAGAAG....  10582     212
..........................................ACUGGACUUGGAGUCAGA......  448       25
..........................................ACUGGACUUGGAGUCAGAAGGCC.  246       5.1
..........................................ACUGGACUUGGAGUCAGAA.....  161       3.61
..........................................ACUGGACUUGGAGUCAG.......  60        3.16
..........................................ACUGGACUUGGAGUCAGAAGGCCU  23        0.463
...........................................CUGGACUUGGAGUCAGAAGGC..  12047     356
...........................................CUGGACUUGGAGUCAGAAGG...  2582      49.7
...........................................CUGGACUUGGAGUCAGAAG....  175       3.65
...........................................CUGGACUUGGAGUCAGAAGGCC.  121       2.74
...........................................CUGGACUUGGAGUCAGAAGGCCU  15        0.327
...........................................CUGGACUUGGAGUCAGA......  2         0.0417
...........................................CUGGACUUGGAGUCAGAA.....  2         0.0417
............................................UGGACUUGGAGUCAGAAGGC..  114       2.06
............................................UGGACUUGGAGUCAGAAGG...  21        0.446
............................................UGGACUUGGAGUCAGAAGGCC.  4         0.0297
.............................................GGACUUGGAGUCAGAAGGC..  37        0.686
..............................................GACUUGGAGUCAGAAGGC..  2         0.0268
AGGGCUCCUGACUCCAGGUCCUGUGUGUUACCUAGAAAUAGCACUGGACUUGGAGUCAGAAGGCCU
(((.((.((((((((((((((...((((((........)))))).)))))))))))))).)).))) (-39.20)

Filter reads

by experiment
Accession Read count Tissue Link Comment Reference
ER0000000001 9embryonic stem cell GEO : GSM541796 [ Bar M et al.]
ER0000000002 15embryonic stem cell GEO : GSM541797 [ Bar M et al.]
ER0000000103 139658melanoblast GEO : GSM458535 [ Stark MS et al.]
ER0000000104 28061melanocyte GEO : GSM458536 [ Stark MS et al.]
ER0000000105 1500 GEO : GSM458537 cell line: primary giant congental nevus [ Stark MS et al.]
ER0000000106 20100melanoma GEO : GSM458538 cell line: secondary acral melanoma [ Stark MS et al.]
ER0000000107 10686melanoma GEO : GSM458539 cell line: secondary mucosal melanoma [ Stark MS et al.]
ER0000000108 38793melanoma GEO : GSM458540 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000109 47039melanoma GEO : GSM458541 cell line: primary uveal melanoma [ Stark MS et al.]
ER0000000110 18972melanoma GEO : GSM458542 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000111 41794melanoma GEO : GSM458543 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000112 60366melanoma GEO : GSM458544 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000113 6661melanoma GEO : GSM458545 cell line: secondary cutaneous melanoma from a chronically sun-damaged body site [ Stark MS et al.]
ER0000000114 25295melanoma GEO : GSM458546 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000138 2squamous cell GEO : GSM532874 [ Witten D et al.]
ER0000000140 4squamous cell GEO : GSM532876 [ Witten D et al.]
ER0000000144 1squamous cell GEO : GSM532880 [ Witten D et al.]
ER0000000150 3squamous cell GEO : GSM532886 [ Witten D et al.]
ER0000000154 1squamous cell GEO : GSM532890 [ Witten D et al.]
ER0000000156 15squamous cell GEO : GSM532892 [ Witten D et al.]
ER0000000157 2 GEO : GSM532893 normal cervix [ Witten D et al.]
ER0000000160 36squamous cell GEO : GSM532896 [ Witten D et al.]
ER0000000161 1 GEO : GSM532897 normal cervix [ Witten D et al.]
ER0000000164 22squamous cell GEO : GSM532900 [ Witten D et al.]
ER0000000165 3 GEO : GSM532901 normal cervix [ Witten D et al.]
ER0000000168 1adenosquamous cell GEO : GSM532904 [ Witten D et al.]
ER0000000169 1 GEO : GSM532905 normal cervix [ Witten D et al.]
ER0000000171 2 GEO : GSM532907 normal cervix [ Witten D et al.]
ER0000000174 7squamous cell GEO : GSM532910 [ Witten D et al.]
ER0000000178 6squamous cell GEO : GSM532914 [ Witten D et al.]
ER0000000180 2squamous cell GEO : GSM532916 [ Witten D et al.]
ER0000000181 2 GEO : GSM532917 normal cervix [ Witten D et al.]
ER0000000186 38squamous cell GEO : GSM532922 [ Witten D et al.]
ER0000000188 37squamous cell GEO : GSM532924 [ Witten D et al.]
ER0000000193 2 GEO : GSM532929 normal cervix [ Witten D et al.]
ER0000000262 87 GEO : GSM337570 antibody: anti-Ago1 4B8
ER0000000263 42 GEO : GSM337571 antibody: anti-Ago2 11A9
ER0000000264 42 GEO : GSM368181 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000265 21 GEO : GSM368182 tissue: clinically negative of NPC [ Zhu JY et al.]
ER0000000266 212 GEO : GSM368183 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000267 79 GEO : GSM368184 tissue: clinically negative of NPC [ Zhu JY et al.]
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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).