Deep sequencing reads for mature sequence MIMAT0004557

Stem-loop ID hsa-mir-34a
Mature ID hsa-miR-34a-3p
Reads 
                     hsa-miR-34a-5p                            hsa-miR-34a-3p                                    Count     RPM (mean number of reads per million)
...................UUUGGCAGUGUCUUAGCUGGUUGU...................................................................  1         0.268
....................UUGGCAGUGUCUUAGCUGGUU.....................................................................  3         7.29
....................UUGGCAGUGUCUUAGCUGGUUGU...................................................................  3         2.15
....................UUGGCAGUGUCUUAGCUGGUUGUU..................................................................  2         30.4
....................UUGGCAGUGUCUUAGCUGGUUG....................................................................  1         0.268
.....................UGGCAGUGUCUUAGCUGGUUGU...................................................................  2253      577
.....................UGGCAGUGUCUUAGCUGGUUGUU..................................................................  942       194
.....................UGGCAGUGUCUUAGCUGGUUG....................................................................  92        60.2
.....................UGGCAGUGUCUUAGCUGGUU.....................................................................  43        24.3
.....................UGGCAGUGUCUUAGCUGGU......................................................................  17        1.06
.....................UGGCAGUGUCUUAGCUGGUUGUUG.................................................................  7         1.66
.....................UGGCAGUGUCUUAGCUGG.......................................................................  2         0.537
......................GGCAGUGUCUUAGCUGGUUGUU..................................................................  98        21.4
......................GGCAGUGUCUUAGCUGGUUGU...................................................................  51        12.6
............................................GUGAGCAAUAGUAAGGAAG...............................................  1         0.268
...............................................................CAAUCAGCAAGUAUACUGCCCUA........................  38        2.26
...............................................................CAAUCAGCAAGUAUACUGCCCU.........................  31        1.68
...............................................................CAAUCAGCAAGUAUACU..............................  1         2.51
................................................................AAUCAGCAAGUAUACUGCCCUA........................  51        1.45
................................................................AAUCAGCAAGUAUACUGCCCU.........................  12        25.5
................................................................AAUCAGCAAGUAUACUG.............................  1         2.11
GGCCAGCUGUGAGUGUUUCUUUGGCAGUGUCUUAGCUGGUUGUUGUGAGCAAUAGUAAGGAAGCAAUCAGCAAGUAUACUGCCCUAGAAGUGCUGCACGUUGUGGGGCCC
((((.((((((((..(((((..(((((((((((.((((((((((....((....)).....))))))))))))).))))))))..)))))..)).))))..))..)))). (-50.70)

Filter reads

by experiment
Accession Read count Tissue Link Comment Reference
ER0000000001 778embryonic stem cell GEO : GSM541796 [ Bar M et al.]
ER0000000002 2307embryonic stem cell GEO : GSM541797 [ Bar M et al.]
ER0000000103 52melanoblast GEO : GSM458535 [ Stark MS et al.]
ER0000000104 5melanocyte GEO : GSM458536 [ Stark MS et al.]
ER0000000105 56 GEO : GSM458537 cell line: primary giant congental nevus [ Stark MS et al.]
ER0000000107 3melanoma GEO : GSM458539 cell line: secondary mucosal melanoma [ Stark MS et al.]
ER0000000109 5melanoma GEO : GSM458541 cell line: primary uveal melanoma [ Stark MS et al.]
ER0000000110 218melanoma GEO : GSM458542 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000111 2melanoma GEO : GSM458543 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000112 512melanoma GEO : GSM458544 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000113 58melanoma GEO : GSM458545 cell line: secondary cutaneous melanoma from a chronically sun-damaged body site [ Stark MS et al.]
ER0000000114 143melanoma GEO : GSM458546 cell line: secondary cutaneous melanoma [ Stark MS et al.]
ER0000000136 6squamous cell GEO : GSM532872 [ Witten D et al.]
ER0000000142 9squamous cell GEO : GSM532878 [ Witten D et al.]
ER0000000158 1squamous cell GEO : GSM532894 [ Witten D et al.]
ER0000000159 23 GEO : GSM532895 normal cervix [ Witten D et al.]
ER0000000163 1 GEO : GSM532899 normal cervix [ Witten D et al.]
ER0000000167 4 GEO : GSM532903 normal cervix [ Witten D et al.]
ER0000000173 1 GEO : GSM532909 normal cervix [ Witten D et al.]
ER0000000174 1squamous cell GEO : GSM532910 [ Witten D et al.]
ER0000000176 2adenosquamous cell GEO : GSM532912 [ Witten D et al.]
ER0000000177 15 GEO : GSM532913 normal cervix [ Witten D et al.]
ER0000000182 2squamous cell GEO : GSM532918 [ Witten D et al.]
ER0000000184 2squamous cell GEO : GSM532920 [ Witten D et al.]
ER0000000185 1 GEO : GSM532921 normal cervix [ Witten D et al.]
ER0000000189 1whole body GEO : GSM532925 normal cervix [ Witten D et al.]
ER0000000190 1squamous cell GEO : GSM532926 [ Witten D et al.]
ER0000000262 7 GEO : GSM337570 antibody: anti-Ago1 4B8
ER0000000263 5 GEO : GSM337571 antibody: anti-Ago2 11A9
ER0000000264 14 GEO : GSM368181 tissue: undifferentiated NPC [ Zhu JY et al.]
ER0000000265 2 GEO : GSM368182 tissue: clinically negative of NPC [ Zhu JY et al.]
ER0000000266 25 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).