Identifier Base Mean log2 Fold Change Standard Error p-value Adjusted p-value
hsa-miR-488-3p 0.479 1.48 0.7484 0.048 0.214
hsa-miR-450b-5p 1.667 -0.825 0.416 0.04734 0.2125
hsa-miR-132-3p 9.22 0.5731 0.2721 0.0352 0.1675
hsa-miR-125b-2-3p 477.4 0.7222 0.3014 0.01655 0.1091
hsa-miR-147b 2.321 1.526 0.6253 0.01464 0.09861
hsa-miR-181c-5p 82.32 0.524 0.2278 0.02145 0.1264
hsa-miR-493-3p 2.32 1.245 0.5027 0.01324 0.09213
hsa-miR-146a-5p 3210 0.4361 0.2262 0.05385 0.2289
hsa-miR-320e 20.58 1.214 0.5704 0.03331 0.1616
hsa-miR-181a-5p 7411 0.4518 0.1958 0.02102 0.1255
hsa-miR-4800-5p 3.104 1.634 0.5457 0.002745 0.02996
hsa-miR-129-5p 14.89 1.484 0.4492 0.0009545 0.01313
hsa-miR-4421 2.031 2.446 0.8493 0.003973 0.0381
hsa-miR-182-5p 1175 -1.288 0.279 3.903e-06 0.00019
hsa-miR-3157-3p 0.7536 -0.665 0.4191 0.1126 0.3617
hsa-miR-3200-3p 3.443 0.4985 0.3135 0.1118 0.361
hsa-miR-378h 11.83 0.7964 0.4398 0.07018 0.2613
hsa-miR-1910-5p 1.295 2.369 0.7636 0.00192 0.02275
hsa-miR-767-5p 2.869 2.33 0.6897 0.0007288 0.01073
hsa-miR-21-5p 2905 -0.9165 0.2808 0.001098 0.01478
hsa-miR-320b 4211 1.977 0.4241 3.127e-06 0.000165
hsa-miR-378a-3p 32820 1.462 0.3439 2.122e-05 0.0006717
hsa-miR-592 4.503 1.54 0.5305 0.003703 0.03662
hsa-miR-152-3p 37.69 0.5569 0.3255 0.08705 0.3061
hsa-miR-577 2.043 1.149 0.6301 0.06816 0.2558
hsa-miR-378e 16.54 1.212 0.4316 0.004992 0.04493
hsa-miR-324-5p 12.48 0.4297 0.255 0.09196 0.313
hsa-miR-371b-5p 0.594 -0.8226 0.4802 0.08669 0.3061
hsa-miR-496 0.4968 -1.231 0.655 0.0603 0.2456
hsa-miR-1226-5p 1.032 2.995 0.8388 0.0003556 0.006083
hsa-miR-378b 110.2 2.297 0.4647 7.683e-07 6.079e-05
hsa-miR-769-3p 2.826 2.054 0.5895 0.0004916 0.007779
hsa-miR-200c-3p 2.134 -2.016 0.5386 0.0001825 0.00374
hsa-miR-128-1-5p 3.818 0.6493 0.2743 0.01792 0.117
hsa-miR-22-3p 125200 0.5129 0.2652 0.05308 0.2286
hsa-miR-4745-5p 3.242 0.9451 0.5816 0.1042 0.3425
hsa-miR-26a-5p 2213 0.5032 0.2891 0.08171 0.2906
hsa-miR-338-5p 6.468 0.7504 0.4157 0.07109 0.2632
hsa-miR-671-5p 15.82 1.98 0.4851 4.471e-05 0.001179
hsa-miR-887-3p 11.29 1.621 0.4032 5.821e-05 0.001467
hsa-miR-484 167.3 -0.7818 0.2773 0.00481 0.04413
hsa-miR-151a-5p 7.877 0.5221 0.3097 0.09186 0.313
hsa-miR-200a-3p 6.251 -0.9136 0.4235 0.03098 0.1544
hsa-miR-708-3p 2.411 1.841 0.5179 0.0003785 0.006306
hsa-miR-125a-3p 7.443 1.502 0.424 0.0003957 0.006423
hsa-miR-429 1.24 -1.487 0.5304 0.005065 0.04493
hsa-miR-486-3p 197.8 -0.4713 0.2834 0.09633 0.325
hsa-miR-133b 4.018 -0.8415 0.4568 0.06548 0.2527
hsa-miR-877-5p 22.1 -0.5239 0.2839 0.06499 0.2524
hsa-miR-676-3p 1.778 0.8927 0.4832 0.06469 0.2524
hsa-miR-3155a|hsa-miR-3155b 2.349 1.37 0.7206 0.05719 0.2397
hsa-miR-3614-5p 6.71 1.039 0.3998 0.00936 0.07139
hsa-miR-370-3p 12.08 1.183 0.4265 0.005531 0.04796
hsa-miR-193a-5p 63.19 0.8613 0.3707 0.02017 0.1251
hsa-miR-181a-2-3p 43.66 0.5667 0.2274 0.01269 0.08933
hsa-miR-3127-5p 5.343 0.6566 0.3861 0.08901 0.3101
hsa-miR-5589-3p 1.198 -1.474 0.6924 0.03329 0.1616
hsa-miR-34b-3p 12.3 2.762 0.5832 2.172e-06 0.000125
hsa-miR-4523 5.185 2.471 0.8426 0.003357 0.03483
hsa-miR-4717-3p 1.572 1.38 0.6036 0.02223 0.1275
hsa-miR-30c-1-3p 8.219 0.5744 0.3149 0.06815 0.2558
hsa-miR-30b-5p 32.34 0.6196 0.3329 0.06275 0.2468
hsa-miR-3173-5p 0.5522 -1.05 0.5426 0.05305 0.2286
hsa-miR-3176 12.73 1.047 0.4047 0.009644 0.07259
hsa-miR-219a-2-3p 17.94 2.747 0.5684 1.341e-06 9.431e-05
hsa-miR-3605-3p 4.426 0.6418 0.3299 0.05171 0.2273
hsa-miR-873-5p 14.32 0.8259 0.3747 0.02751 0.1427
hsa-miR-181d-5p 18.7 0.5602 0.2462 0.02287 0.1275
hsa-miR-5001-5p 0.6028 1.014 0.6318 0.1084 0.352
hsa-miR-100-5p 1258 0.6113 0.326 0.06081 0.2456
hsa-miR-195-5p 33.52 0.8295 0.4052 0.04063 0.1877
hsa-miR-296-3p 6.043 1.849 0.4499 3.976e-05 0.001144
hsa-miR-485-5p 9.223 1.144 0.4313 0.007985 0.06318
hsa-miR-503-5p 0.9559 -0.8069 0.5098 0.1135 0.3622
hsa-miR-4732-5p 6.046 -0.7364 0.3806 0.05299 0.2286
hsa-miR-4775 0.6611 -1.339 0.6274 0.03279 0.1616
hsa-miR-483-5p 570.1 1.847 0.4611 6.216e-05 0.001467
hsa-miR-5588-5p 2.893 0.899 0.3953 0.02296 0.1275
hsa-miR-5189-5p 17.12 0.6385 0.4049 0.1148 0.3622
hsa-miR-378i 11.05 0.8621 0.4836 0.07465 0.2731
hsa-miR-4668-5p 2.948 1.514 0.6999 0.0305 0.1532
hsa-miR-365a-3p|hsa-miR-365b-3p 3.696 -1.03 0.4717 0.02898 0.1479
hsa-miR-215-5p 87.86 -2.162 0.4143 1.8e-07 1.899e-05
hsa-miR-6128 1.326 1.39 0.4872 0.004321 0.04023
hsa-miR-320c 276.6 2.103 0.3944 9.707e-08 1.229e-05
hsa-miR-26a-2-3p 2.457 -0.8784 0.5376 0.1023 0.3391
hsa-miR-618 2.785 0.7302 0.4298 0.08936 0.3101
hsa-miR-940 0.4905 -1.003 0.5391 0.06276 0.2468
hsa-miR-204-5p 15600 1.814 0.4301 2.458e-05 0.0007409
hsa-miR-125b-5p 264 0.7319 0.3218 0.02296 0.1275
hsa-miR-181c-3p 34.58 0.8865 0.2968 0.002823 0.03029
hsa-miR-378f 23.83 2.271 0.3823 2.848e-09 9.014e-07
hsa-miR-3130-3p 5.056 1.195 0.577 0.03843 0.1802
hsa-miR-181a-3p 33.28 0.8852 0.2851 0.001905 0.02275
hsa-miR-378c 61.74 1.664 0.3766 9.959e-06 0.000394
hsa-miR-34b-5p 19.8 1.936 0.582 0.0008824 0.01241
hsa-miR-184 7.961 2.401 0.4794 5.476e-07 4.952e-05
hsa-miR-501-5p 2.194 -0.7821 0.4133 0.05847 0.2414
hsa-miR-448 7.339 1.367 0.619 0.02727 0.1426
hsa-miR-3150b-3p 15.4 1.236 0.467 0.008132 0.06355
hsa-miR-3180|hsa-miR-3180-3p 14.75 1.838 0.4955 0.0002081 0.003875
hsa-miR-1908-5p 7.629 1.372 0.4765 0.003971 0.0381
hsa-miR-183-5p 87.33 -0.7674 0.3033 0.01139 0.08286
hsa-miR-122-5p 10780 -1.171 0.4381 0.007523 0.06028
hsa-miR-30a-3p 203.2 0.5024 0.3099 0.105 0.3425
hsa-miR-3913-5p 2.449 0.5114 0.2862 0.0739 0.272
hsa-miR-188-5p 2.538 1.028 0.4536 0.02337 0.1287
hsa-miR-6729-5p 3.082 3.078 0.7952 0.0001085 0.002452
hsa-miR-124-3p 8.981 1.413 0.5538 0.01074 0.07905
hsa-miR-1298-5p 234.3 2.009 0.4717 2.051e-05 0.0006717
hsa-miR-92a-1-5p 1.838 -0.9731 0.5048 0.05389 0.2289
hsa-miR-885-3p 1.705 1.377 0.5994 0.02156 0.1264
hsa-miR-1911-5p 23.42 1.332 0.5346 0.0127 0.08933
hsa-miR-205-5p 32.14 1.293 0.4128 0.001726 0.02185
hsa-miR-4787-3p 0.9629 1.303 0.5358 0.015 0.09997
hsa-miR-495-3p 0.8378 -0.8231 0.5221 0.1149 0.3622
hsa-miR-671-3p 19.63 0.7162 0.376 0.0568 0.2397
hsa-miR-338-3p 19.53 1.489 0.3392 1.138e-05 0.0004236
hsa-miR-3177-3p 1.072 1.342 0.4605 0.003575 0.0365
hsa-miR-27b-3p 9734 -0.6211 0.2778 0.02537 0.1368
hsa-miR-149-5p 7.685 0.8717 0.3902 0.0255 0.1368
hsa-miR-92b-5p 3.078 1.394 0.5062 0.005905 0.05051
hsa-miR-5010-5p 6.207 -1.74 0.4347 6.255e-05 0.001467
hsa-miR-151a-3p 2943 0.3565 0.1541 0.02075 0.1251
hsa-miR-93-5p 396.5 -0.3692 0.2257 0.1019 0.3391
hsa-miR-98-5p 151.4 0.6514 0.3663 0.0754 0.2743
hsa-let-7e-5p 94.79 0.6714 0.3552 0.05874 0.2414
hsa-miR-375 555.8 -1.054 0.3421 0.002067 0.02371
hsa-miR-4429 11.26 2.619 0.5913 9.441e-06 0.000394
hsa-miR-3200-5p 1.024 -0.885 0.5233 0.09077 0.3123
hsa-miR-9-3p 2.646 1.102 0.6494 0.08964 0.3101
hsa-miR-326 32.66 0.5786 0.3154 0.0666 0.2547
hsa-miR-1247-5p 14.09 -0.8737 0.4767 0.0668 0.2547
hsa-miR-4746-5p 1.631 -0.8167 0.4116 0.04726 0.2125
hsa-miR-7850-5p 0.9811 1.488 0.7432 0.04528 0.2062
hsa-miR-550a-3p 2.743 -1.158 0.4725 0.01428 0.0972
hsa-miR-211-5p 7.157 1.519 0.4381 0.0005237 0.008085
hsa-miR-1285-3p 59.35 1.393 0.3732 0.0001891 0.00374
hsa-miR-664a-5p 5.12 0.9268 0.299 0.001941 0.02275
hsa-miR-1249-3p 1.165 1.116 0.6716 0.09651 0.325
hsa-miR-2355-3p 0.4822 0.8339 0.4772 0.08055 0.2897
hsa-miR-1255a 0.6717 -1.176 0.6284 0.0613 0.2456
hsa-miR-760 8.565 0.7591 0.3569 0.03344 0.1616
hsa-miR-574-5p 4.801 0.9271 0.3963 0.01933 0.1212
hsa-miR-549a 0.8276 1.379 0.5962 0.02073 0.1251
hsa-let-7c-5p 364.4 1.095 0.3174 0.0005595 0.008433
hsa-miR-219a-5p 5.441 1.132 0.483 0.01905 0.1208
hsa-miR-30c-5p 95.63 0.5457 0.3129 0.08113 0.2901
hsa-miR-99b-5p 1282 0.6809 0.3275 0.03761 0.1777
hsa-miR-34c-3p 6.907 3.32 0.6185 8.024e-08 1.229e-05
hsa-miR-769-5p 468.2 0.7711 0.2653 0.003659 0.03662
hsa-miR-873-3p 62.64 1.586 0.4117 0.0001175 0.002566
hsa-miR-195-3p 3.219 0.5639 0.2974 0.05795 0.2414
hsa-miR-3691-5p 3.972 -1.077 0.5343 0.04388 0.2013
hsa-miR-383-5p 0.8831 1.274 0.5866 0.02982 0.151
hsa-miR-223-3p 215 -0.6448 0.2941 0.02836 0.1459
hsa-miR-1538 2.102 -1.43 0.4805 0.002926 0.03087
hsa-miR-665 1.825 1.25 0.5333 0.01909 0.1208
hsa-miR-378g 78.83 0.8993 0.3925 0.02195 0.1274
hsa-miR-22-5p 23.2 0.9796 0.311 0.001633 0.0211
hsa-miR-1307-5p 238.6 0.8936 0.3457 0.009748 0.07259
hsa-miR-320a 41970 2.632 0.388 1.17e-11 7.405e-09
hsa-miR-3620-3p 0.5106 -1.278 0.5748 0.02615 0.1383
hsa-let-7i-3p 25.1 0.7503 0.2774 0.006835 0.05619
hsa-miR-378d 129.6 1.833 0.3852 1.957e-06 0.0001239
hsa-miR-3611 1.412 1.638 0.6648 0.01374 0.09453
hsa-miR-30c-2-3p 8.607 1.397 0.3866 0.0003002 0.005279
hsa-miR-141-3p 28.18 -1.264 0.4061 0.00186 0.02275
hsa-miR-101-5p 3.313 0.684 0.365 0.06094 0.2456
hsa-miR-10a-3p 0.9348 -1.094 0.5151 0.0337 0.1616
hsa-miR-1269b 2.364 2.65 0.7874 0.0007648 0.011
hsa-miR-6515-5p 5.111 1.641 0.454 0.0003 0.005279
hsa-miR-127-3p 1554 0.9561 0.3346 0.004274 0.04023
hsa-miR-3180-3p 2.314 3.746 1.002 0.0001836 0.00374
hsa-miR-204-3p 35.67 3.274 0.563 6.058e-09 1.278e-06
hsa-miR-6761-5p 2.402 1.478 0.5279 0.005111 0.04493
hsa-miR-589-5p 181.3 0.7096 0.3113 0.02263 0.1275
hsa-miR-939-5p 11.12 1.345 0.438 0.002135 0.02371
hsa-miR-3912-3p 0.5125 -0.7859 0.4841 0.1045 0.3425
hsa-miR-92a-3p 7584 -0.6576 0.253 0.009344 0.07139
hsa-miR-548j-5p 0.5785 1.628 0.651 0.01241 0.08924
hsa-miR-3928-3p 11.02 1.348 0.4242 0.001486 0.0196
hsa-miR-125b-1-3p 54.55 1.486 0.3261 5.179e-06 0.0002342
hsa-miR-193b-5p 122.2 1.124 0.4134 0.006535 0.05443
hsa-miR-1287-5p 9.107 0.5051 0.3078 0.1008 0.3376
hsa-miR-194-5p 73.15 -0.8815 0.3931 0.02492 0.136
hsa-miR-5699-5p 0.4818 1.457 0.6291 0.02059 0.1251
hsa-miR-6875-5p 0.5452 -1.527 0.5659 0.006961 0.0565
hsa-miR-660-3p 0.5518 0.9009 0.4942 0.06831 0.2558
hsa-miR-3607-5p 0.5177 1.529 0.7398 0.03882 0.1807
hsa-mir-378c 340.6 1.252 0.4073 0.002107 0.02371
hsa-miR-1912 2.024 1.626 0.6921 0.01881 0.1208
hsa-miR-34c-5p 428.2 2.045 0.4676 1.23e-05 0.0004327
hsa-miR-4767 5.073 1.984 0.5335 0.0002006 0.003847
hsa-miR-6511a-3p 3.301 0.6654 0.3785 0.07873 0.2848
hsa-miR-296-5p 5.35 0.7693 0.4119 0.06183 0.2461
hsa-miR-148a-5p 227.3 0.5548 0.2811 0.04844 0.2144
hsa-miR-1298-3p 29.01 1.284 0.5774 0.02622 0.1383
hsa-miR-135a-5p 5.735 2.703 0.6598 4.183e-05 0.001151
hsa-miR-452-5p 11.92 1.075 0.3922 0.00613 0.05174

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.