Identifier Base Mean log2 Fold Change Standard Error p-value Adjusted p-value
hsa-miR-1247-3p 1.193 -0.7795 0.3635 0.03198 0.1124
hsa-miR-223-3p 25.94 -0.5967 0.2524 0.01809 0.0743
hsa-miR-128-3p 213.8 -0.6376 0.241 0.008146 0.04453
hsa-miR-181b-5p 1139 -0.6425 0.2055 0.001767 0.01764
hsa-let-7e-5p 658 0.4762 0.1657 0.004059 0.02821
hsa-miR-3065-3p 4.169 -0.7356 0.2501 0.003271 0.0244
hsa-miR-377-3p 1.174 -0.8889 0.3069 0.00378 0.02695
hsa-miR-4705 0.7427 -1.126 0.409 0.005899 0.03578
hsa-miR-654-3p 17.75 -0.4918 0.2309 0.03323 0.1141
hsa-miR-1912 95.33 0.4131 0.1852 0.02569 0.09751
hsa-miR-194-5p 7.451 -0.5242 0.2131 0.01389 0.06219
hsa-miR-4454 283.7 -0.817 0.3264 0.01232 0.05669
hsa-miR-582-5p 1.671 -0.9203 0.3519 0.008917 0.04667
hsa-miR-136-3p 69.79 -0.9724 0.2205 1.036e-05 0.0005857
hsa-miR-219a-5p 99.4 -0.9702 0.3078 0.001624 0.01673
hsa-miR-129-5p 223.9 -0.8943 0.2434 0.0002386 0.004599
hsa-miR-889-3p 21.8 -0.5678 0.2763 0.03987 0.1294
hsa-miR-3620-3p 0.5875 0.9881 0.3761 0.008604 0.04577
hsa-miR-598-3p 29.59 -1.009 0.2447 3.702e-05 0.001335
hsa-miR-4685-3p 1.053 1.007 0.3483 0.00382 0.02695
hsa-miR-1911-3p 60.61 0.637 0.2258 0.004789 0.03108
hsa-miR-518e-3p 4.466 0.6918 0.2825 0.01434 0.06332
hsa-miR-323a-5p 2.499 -0.9685 0.3792 0.01065 0.05118
hsa-miR-299-3p 2.432 -0.8994 0.3446 0.009046 0.04697
hsa-miR-335-5p 230.5 -0.5058 0.1912 0.008165 0.04453
hsa-miR-378h 0.4571 1.09 0.4011 0.006598 0.03858
hsa-miR-199a-3p|hsa-miR-199b-3p 401.3 -0.6741 0.2244 0.002662 0.02159
hsa-miR-487b-3p 7.533 -0.6254 0.2627 0.01731 0.072
hsa-miR-452-5p 6.175 -0.6093 0.2434 0.01232 0.05669
hsa-miR-6500-3p 1.094 -1.071 0.3106 0.000564 0.00838
hsa-miR-191-5p 7269 0.4891 0.1545 0.001549 0.01621
hsa-miR-30a-5p 22540 0.4198 0.1372 0.002218 0.02028
hsa-miR-181c-5p 710.6 -0.4105 0.1517 0.006827 0.03956
hsa-miR-590-3p 1.423 -0.7598 0.3157 0.01611 0.06925
hsa-miR-655-3p 0.9868 -0.9749 0.3766 0.009636 0.04873
hsa-miR-132-5p 3.591 -0.9581 0.2302 3.168e-05 0.001285
hsa-miR-30d-5p 6880 0.4926 0.1657 0.002957 0.02312
hsa-miR-4707-3p 0.5709 -1.17 0.4006 0.003505 0.02556
hsa-miR-151a-3p 2781 0.2392 0.115 0.03758 0.1238
hsa-miR-651-5p 2.969 -0.5739 0.2688 0.03272 0.1136
hsa-miR-3117-3p 0.707 -1.463 0.3583 4.466e-05 0.001404
hsa-miR-329-3p 7.318 -0.959 0.2897 0.0009307 0.01208
hsa-miR-376a-3p 3.282 -0.8949 0.2755 0.001163 0.01368
hsa-miR-219a-2-3p 322.6 -0.5995 0.2785 0.03136 0.1117
hsa-miR-193b-3p 29.39 -0.4864 0.2255 0.03099 0.1115
hsa-miR-409-3p 128 -0.6981 0.2266 0.002062 0.01912
hsa-miR-95-5p 0.7177 -1.006 0.3404 0.003127 0.02388
hsa-miR-433-3p 10.89 -0.8672 0.2885 0.002645 0.02159
hsa-miR-493-3p 1.488 -0.9126 0.3216 0.004551 0.02983
hsa-miR-5683 1.77 -0.7173 0.3327 0.03111 0.1115
hsa-miR-518f-3p 2.66 0.7492 0.3257 0.02145 0.08489
hsa-miR-664a-3p 75.36 0.6465 0.2559 0.01153 0.05424
hsa-miR-105-5p 27.12 0.6072 0.227 0.007477 0.04147
hsa-miR-758-5p 0.4859 -1.277 0.4134 0.002001 0.01882
hsa-miR-708-5p 9.269 -0.9309 0.2859 0.001132 0.0136
hsa-miR-767-3p 4.775 0.7008 0.2578 0.006558 0.03858
hsa-miR-30b-5p 366.7 0.4354 0.1961 0.02636 0.09947
hsa-miR-151a-5p|hsa-miR-151b 801.2 -0.3716 0.1492 0.01273 0.05779
hsa-miR-363-3p 340.8 0.3906 0.1563 0.01245 0.0569
hsa-miR-192-5p 904.5 -0.6435 0.1656 0.0001016 0.002536
hsa-miR-382-5p 9.042 -0.6891 0.2428 0.004538 0.02983
hsa-miR-124-3p 207.9 -1.75 0.2978 4.212e-09 2.733e-06
hsa-miR-760 14.68 -0.9508 0.2322 4.212e-05 0.001404
hsa-miR-9-3p 55.52 -0.9972 0.2152 3.6e-06 0.000292
hsa-miR-664b-5p 0.4498 -0.7041 0.3401 0.03842 0.1253
hsa-miR-125a-3p 17.53 0.4555 0.2004 0.02301 0.08996
hsa-miR-549a 12.66 -0.6347 0.2602 0.01472 0.06456
hsa-miR-1287-5p 6.571 -0.5291 0.2016 0.008681 0.0458
hsa-miR-3200-3p 13.85 -0.7638 0.2201 0.0005191 0.008022
hsa-miR-190a-5p 10.82 0.6463 0.2399 0.007063 0.04057
hsa-miR-3125 0.5497 -0.9539 0.3805 0.01219 0.05669
hsa-miR-487a-5p 0.4755 -1.126 0.3922 0.004086 0.02821
hsa-miR-101-5p 5.839 -0.8768 0.2015 1.356e-05 0.0006767
hsa-miR-3663-3p 0.4704 -1.473 0.4061 0.0002858 0.005014
hsa-miR-323b-3p 27.61 -0.758 0.25 0.002429 0.02153
hsa-miR-935 1.511 -0.7691 0.3543 0.02992 0.1097
hsa-miR-503-5p 0.626 0.9555 0.4254 0.02468 0.09477
hsa-miR-410-3p 110.5 -0.5745 0.2543 0.02385 0.09214
hsa-miR-432-5p 58.6 -0.6778 0.2533 0.007456 0.04147
hsa-miR-148a-5p 187.5 0.5025 0.184 0.006324 0.038
hsa-miR-744-3p 2.717 -0.9017 0.2596 0.0005141 0.008022
hsa-miR-490-5p 3.273 -0.9614 0.3727 0.009898 0.04904
hsa-miR-128-1-5p 9.605 -0.9042 0.2756 0.001034 0.01298
hsa-miR-539-5p 1.734 -1.196 0.3564 0.0007895 0.01085
hsa-miR-129-1-3p 3.177 -0.7264 0.3089 0.01871 0.07589
hsa-miR-1271-5p 7.173 -0.8382 0.3303 0.01116 0.05323
hsa-miR-137 3.249 -0.8998 0.351 0.01035 0.05051
hsa-miR-451a 1057 -0.8394 0.2836 0.003082 0.02381
hsa-miR-138-2-3p 0.9391 -1.136 0.356 0.001425 0.01567
hsa-miR-496 0.8402 -1.296 0.3633 0.0003602 0.006152
hsa-miR-1224-5p 2.667 -1.2 0.35 0.0006059 0.008587
hsa-miR-221-3p 582.2 -0.2866 0.135 0.0337 0.1145
hsa-miR-1197 0.7815 -0.9415 0.3882 0.0153 0.06665
hsa-miR-6875-5p 0.54 -1.035 0.4082 0.01127 0.05339
hsa-miR-4781-3p 0.5172 0.884 0.3421 0.00976 0.04873
hsa-miR-199b-5p 5.614 -1.433 0.2902 7.902e-07 0.0001282
hsa-miR-641 3.693 0.7797 0.26 0.00271 0.02171
hsa-miR-218-5p 51.33 -0.732 0.1985 0.0002261 0.004585
hsa-miR-145-5p 35.06 -0.7679 0.2195 0.0004689 0.007607
hsa-miR-769-5p 1087 -0.8644 0.2189 7.855e-05 0.002217
hsa-miR-548ab 0.9996 -1.077 0.3563 0.002508 0.02153
hsa-miR-127-5p 13.93 -1.076 0.2447 1.083e-05 0.0005857
hsa-let-7f-5p 9888 0.5798 0.1901 0.00229 0.02064
hsa-miR-146a-5p 916.1 -0.5983 0.2027 0.003165 0.02388
hsa-miR-181a-5p 13000 -0.6418 0.17 0.0001597 0.003343
hsa-miR-129-2-3p 21.29 -0.6975 0.2408 0.00377 0.02695
hsa-miR-485-5p 35.37 -1.052 0.2866 0.000241 0.004599
hsa-miR-33a-5p 2.434 -0.7783 0.2586 0.002619 0.02159
hsa-miR-16-2-3p 8.098 -0.5346 0.2564 0.03708 0.1237
hsa-miR-20a-5p 9.595 -0.6621 0.3088 0.03205 0.1124
hsa-miR-93-3p 4.183 0.5067 0.2341 0.03042 0.1103
hsa-miR-1306-3p 0.6994 -0.9156 0.3965 0.02093 0.08385
hsa-miR-154-5p 3.18 -0.701 0.2524 0.005477 0.03418
hsa-miR-1296-5p 23.12 -0.9864 0.2563 0.0001191 0.002761
hsa-miR-139-3p 2.776 -1.081 0.3629 0.002892 0.02289
hsa-miR-181c-3p 106.2 -0.3896 0.1779 0.02852 0.1058
hsa-miR-182-5p 242.6 0.6913 0.2999 0.02114 0.08418
hsa-miR-515-5p 1.737 0.9201 0.3725 0.0135 0.06083
hsa-miR-25-3p 1006 0.3117 0.1435 0.02986 0.1097
hsa-miR-448 360 0.4508 0.2052 0.02801 0.1047
hsa-miR-873-3p 53.67 -0.6712 0.2854 0.01867 0.07589
hsa-miR-381-3p 53.91 -1.162 0.261 8.457e-06 0.0005857
hsa-miR-132-3p 40.2 -0.8564 0.1801 1.974e-06 0.0002367
hsa-miR-518b 2.998 0.761 0.3573 0.03316 0.1141
hsa-miR-3065-5p 4.548 -0.6188 0.2772 0.02563 0.09751
hsa-miR-320a 2467 -0.5025 0.1933 0.009327 0.04766
hsa-miR-377-5p 9.875 -0.9029 0.2634 0.0006087 0.008587
hsa-miR-1303 2.168 0.4398 0.2102 0.0364 0.1224
hsa-miR-181d-5p 104.8 -0.4356 0.1803 0.01565 0.06773
hsa-miR-330-3p 14.43 -0.541 0.2075 0.00914 0.04708
hsa-miR-30e-5p 2745 0.4362 0.1551 0.00492 0.03161
hsa-miR-95-3p 9.356 -1.01 0.2448 3.682e-05 0.001335
hsa-miR-138-5p 79.82 -1.553 0.2807 3.144e-08 1.02e-05
hsa-miR-301a-3p 30 -0.4517 0.2176 0.03794 0.1243
hsa-miR-3928-3p 1.647 -0.6519 0.2862 0.02272 0.08938
hsa-miR-758-3p 2.115 -0.9889 0.327 0.002496 0.02153
hsa-miR-136-5p 37.68 -0.9408 0.2179 1.583e-05 0.0007337
hsa-miR-708-3p 17.41 -0.7665 0.2337 0.00104 0.01298
hsa-miR-4662a-5p 1.26 0.8031 0.337 0.01716 0.07184
hsa-miR-592 113.9 0.7124 0.22 0.001202 0.01368
hsa-miR-9-5p 876.7 -0.6181 0.23 0.007207 0.04103
hsa-miR-1911-5p 2167 0.697 0.2079 0.0008021 0.01085
hsa-miR-1299 11.75 -0.9604 0.2964 0.001196 0.01368
hsa-miR-382-3p 3.293 -0.9755 0.2924 0.0008505 0.01126
hsa-miR-2467-5p 1.968 -0.8235 0.2984 0.005787 0.03543
hsa-miR-488-3p 8.993 -0.9106 0.2488 0.0002514 0.004599
hsa-miR-369-3p 4.031 -0.9407 0.3302 0.004389 0.02967
hsa-miR-383-5p 17.18 -1.004 0.3218 0.001807 0.01776
hsa-miR-520d-5p 0.8816 1.134 0.3472 0.001093 0.01338
hsa-miR-134-5p 42.24 -0.7608 0.2443 0.001844 0.01786
hsa-miR-184 18.71 -0.9876 0.2422 4.542e-05 0.001404
hsa-miR-153-3p 16.8 -0.6382 0.2677 0.01715 0.07184
hsa-miR-5588-5p 0.556 0.8909 0.3471 0.01026 0.05044
hsa-miR-148a-3p 8096 0.544 0.173 0.001663 0.01686
hsa-miR-524-3p 1.389 0.9829 0.346 0.004499 0.02983
hsa-miR-30c-5p 1094 0.5092 0.1833 0.005468 0.03418
hsa-miR-539-3p 1.868 -0.7016 0.3367 0.03716 0.1237
hsa-miR-574-3p 215.9 0.477 0.1864 0.01051 0.0509
hsa-miR-495-3p 7.134 -1.195 0.3045 8.726e-05 0.002265
hsa-miR-376a-5p 1.961 -0.8226 0.3019 0.006441 0.03835
hsa-miR-409-5p 3.647 -0.8309 0.3672 0.02365 0.09189
hsa-miR-376c-3p 10.96 -0.7983 0.2981 0.007414 0.04147
hsa-miR-212-3p 3.259 -1.414 0.2701 1.644e-07 3.556e-05
hsa-miR-30c-2-3p 98.38 0.6701 0.1764 0.0001452 0.00325
hsa-miR-455-5p 4.511 -0.7606 0.2669 0.004379 0.02967
hsa-miR-193b-5p 5.804 -1.148 0.3039 0.0001589 0.003343
hsa-miR-148b-5p 4.034 0.4832 0.2322 0.03742 0.1238
hsa-miR-145-3p 22.54 -0.5723 0.244 0.019 0.07657
hsa-miR-92a-3p 2150 0.5528 0.2096 0.008365 0.04524
hsa-miR-769-3p 2.687 -1.208 0.3125 0.0001113 0.002675
hsa-miR-874-3p 100.7 -0.8509 0.2016 2.435e-05 0.001053
hsa-miR-767-5p 249.8 0.6422 0.2194 0.003425 0.02526
hsa-miR-125b-2-3p 799.7 -0.2372 0.113 0.03581 0.121
hsa-miR-100-5p 6392 -0.4942 0.2283 0.03039 0.1103
hsa-miR-338-3p 497.9 -0.5836 0.2383 0.01431 0.06332
hsa-miR-124-5p 2.07 -0.9481 0.3667 0.00972 0.04873
hsa-miR-370-3p 12.54 -0.8046 0.3055 0.008435 0.04524
hsa-miR-127-3p 3613 -1.181 0.2499 2.307e-06 0.0002367
hsa-miR-1298-3p 1600 0.6357 0.2278 0.005263 0.03349
hsa-miR-375 468 0.392 0.1844 0.03348 0.1144
hsa-miR-520a-3p 5.435 0.7554 0.3512 0.03149 0.1117
hsa-miR-770-5p 1.179 -1.733 0.3684 2.553e-06 0.0002367
hsa-miR-181a-3p 54.87 -0.6971 0.1993 0.0004687 0.007607
hsa-miR-421 87.94 -0.4284 0.1353 0.001543 0.01621
hsa-miR-4665-5p 0.835 0.9035 0.3768 0.0165 0.06999
hsa-miR-139-5p 24.86 -0.8967 0.2452 0.0002551 0.004599
hsa-miR-122-5p 34.77 -1.027 0.2533 4.978e-05 0.001468
hsa-miR-431-3p 7.541 -1.119 0.2844 8.372e-05 0.002264
hsa-miR-326 15.56 -0.7 0.2323 0.002584 0.02159
hsa-miR-323a-3p 45.24 -0.8022 0.2491 0.001282 0.01434
hsa-miR-636 0.6453 1.056 0.4448 0.01759 0.0727
hsa-miR-138-1-3p 4.254 -1.418 0.3203 9.543e-06 0.0005857
hsa-miR-628-5p 3.087 -0.9161 0.2892 0.001535 0.01621
hsa-miR-92b-3p 1898 0.5357 0.2506 0.03256 0.1136
hsa-miR-2114-5p 1.12 -0.766 0.3487 0.02806 0.1047
hsa-miR-490-3p 5.992 -0.7758 0.3235 0.01648 0.06999
hsa-miR-199a-5p 58.64 -0.712 0.2572 0.005638 0.03485
hsa-miR-30c-1-3p 22.04 0.4521 0.146 0.001965 0.01875
hsa-miR-873-5p 27.98 -0.791 0.2295 0.0005682 0.00838
hsa-miR-33b-5p 16.34 -0.7845 0.2597 0.002521 0.02153

Understanding Your Results

The table above displays differentially expressed miRNAs for selected Atlas data.
  • The Checkbox column allows you to select a given miRNA for further downstream analysis.
    You can click the checkbox in the upper left corner of the table to select all visible miRNAs.
  • The Identifiers column contains all of your miRNA identifiers.
  • The Base Mean column contains "the average of the normalized count values, divided by the size factors, taken over all samples [in the original dataset]" for each miRNA.[1]
  • The log2 Fold Change column contains the "effect size estimate" for each miRNA.[1]
  • The Standard Error column contains the "standard error estimate for the log2 fold change estimate" for each miRNA.[1]
  • The p-value column contains the Wald test p-value for each miRNA.[1]
  • The Adjusted p-value column contains the Benjamini-Hochberg adjusted p-value for each miRNA.[1]
By default, the table is sorted by adjusted p-value, but you can sort by any of the columns.

Downstream Analysis

When you have selected your miRNAs of interest (via the checkboxes on the left side of the table),
you can perform downstream analyses by clicking the "Analyze Selected miRNAs" button above the table.

See descriptions of all available downstream analysis tools below.

Pathway Finder
  • Use Pathway Finder (hosted by WikiPathways) to find pathways containing miRNAs of interest (or protein targets of those miRNAs).
  • Click a given pathway title to visualize its contents at the bottom of the page.
  • Then, select a given miRNA to highlight its associated target(s).
  • The pathway visualization is interactive - zoom in or out by using the + and - icons, and click a given gene product to learn more about it.
  • Designed and implemented by Kristina Hanspers, Anders Riutta, and Alexander Pico at the Gladstone Institutes, San Francisco, CA.
  • Integrated into the exRNA Atlas by William Thistlethwaite and Neethu Shah at the Bioinformatics Research Lab, Baylor College of Medicine, Houston, TX.

References

[1] Love, M. I., Anders, S., Kim V., & Huber W. (2017, Aug 9). RNA-seq workflow: gene-level exploratory analysis and differential expression. Retrieved from http://www.bioconductor.org/help/workflows/rnaseqGene/
DESeq2 designed and implemented by Michael Love, Simon Anders, and Wolfgang Huber (PubMed).
DESeq2 integrated into the exRNA Atlas by William Thistlethwaite and Neethu Shah at the Bioinformatics Research Lab, Baylor College of Medicine, Houston, TX.