miRBooking-scan explore miRBooking

The miRBooking-scan Web service provides an exploratory view of reference microtargetomes computed by miRBooking.

Not interested in HEK293 with p21? Choose a different cell line.

HEK293 with p21

HEK293 cell line with a The hek293 cell

You're now looking into HEK293 with p21 cell line. We need more detail such as:

  • link to a reference dataset (i.e. GEO)
  • miRBooking parameters used for the computation
  • initial quantifications

Here's how you can reproduce this:

mirbooking --targets=GCF_000001405.25_GRCh37.p13_rna.fna --mirnas=mature.fa --cds-regions=[...] --score-table=scores --log-base=512 --threshold=0.0179 --quantities=hek293-with-p21.tsv

Download this view:

curl -H Accept:text/tab-separated-values http://major.iric.ca/~poirigui/cgi-bin/mirbooking-scan/app.cgi/cell-lines/hek293-with-p21

target_accession position mirna_accession target_name target_quantity location vacancy mirna_name mirna_quantity probability occupancy silencing
NM_001014.4 6 MIMAT0000762 RPS10 599.21 5'UTR 580.21 hsa-miR-324-3p 19118.1 0.02 19 0.038
NM_001014.4 18 MIMAT0000430 RPS10 599.21 5'UTR 580.21 hsa-miR-138-5p 953.667 0.028 19 0.054
NM_001014.4 35 MIMAT0003272 RPS10 599.21 5'UTR 579.21 hsa-miR-604 333.211 0.02 12 0.024
NM_001014.4 49 MIMAT0000085 RPS10 599.21 5'UTR 579.21 hsa-miR-28-5p 22425.301 0.02 20 0.04
NM_001014.4 82 MIMAT0003272 RPS10 599.21 5'UTR 585.21 hsa-miR-604 333.211 0.025 14 0.035
NM_001014.4 84 MIMAT0002175 RPS10 599.21 5'UTR 585.21 hsa-miR-485-5p 371.543 0.02 12 0.024
NM_001014.4 96 MIMAT0002876 RPS10 599.21 CDS 585.21 hsa-miR-505-3p 2616.54 0.018 14 0.025
NM_001014.4 122 MIMAT0002868 RPS10 599.21 CDS 585.21 hsa-miR-522-3p 328.443 0.019 11 0.021
NM_001014.4 145 MIMAT0003312 RPS10 599.21 CDS 585.21 hsa-miR-642a-5p 742.502 0.021 14 0.03
NM_001014.4 186 MIMAT0003277 RPS10 599.21 CDS 520.21 hsa-miR-609 240.079 0.024 13 0.031
NM_001014.4 190 MIMAT0000756 RPS10 599.21 CDS 520.21 hsa-miR-326 2341.66 0.031 24 0.075
NM_001014.4 199 MIMAT0000773 RPS10 599.21 CDS 520.21 hsa-miR-346 1206.92 0.115 79 0.909
NM_001014.4 200 MIMAT0003302 RPS10 599.21 CDS 520.21 hsa-miR-632 693.18 0.081 52 0.422
NM_001014.4 230 MIMAT0000266 RPS10 599.21 CDS 565.21 hsa-miR-205-5p 226.003 0.065 34 0.22
NM_001014.4 234 MIMAT0000758 RPS10 599.21 CDS 565.21 hsa-miR-135b-5p 338.474 0.019 11 0.021
NM_001014.4 234 MIMAT0000428 RPS10 599.21 CDS 565.21 hsa-miR-135a-5p 463.443 0.019 12 0.023
NM_001014.4 253 MIMAT0001343 RPS10 599.21 CDS 565.21 hsa-miR-425-3p 4210.62 0.022 18 0.039
NM_001014.4 272 MIMAT0001635 RPS10 599.21 CDS 581.21 hsa-miR-452-5p 5418.44 0.018 15 0.027
NM_001014.4 327 MIMAT0003340 RPS10 599.21 CDS 584.21 hsa-miR-542-5p 4584.21 0.018 15 0.027
NM_001014.4 352 MIMAT0000756 RPS10 599.21 CDS 569.21 hsa-miR-326 2341.66 0.031 24 0.075
NM_001014.4 368 MIMAT0003385 RPS10 599.21 CDS 569.21 hsa-miR-363-5p 34554.301 0.029 30 0.088
NM_001014.4 388 MIMAT0002847 RPS10 599.21 CDS 527.21 hsa-miR-518c-5p 941.397 0.083 55 0.459
NM_001014.4 388 MIMAT0000756 RPS10 599.21 CDS 527.21 hsa-miR-326 2341.66 0.023 17 0.038
NM_001014.4 398 MIMAT0000773 RPS10 599.21 CDS 527.21 hsa-miR-346 1206.92 0.024 17 0.042
NM_001014.4 427 MIMAT0003239 RPS10 599.21 CDS 549.21 hsa-miR-574-3p 4444.43 0.02 17 0.034
NM_001014.4 432 MIMAT0003335 RPS10 599.21 CDS 549.21 hsa-miR-657 288.174 0.031 18 0.057
NM_001014.4 437 MIMAT0001625 RPS10 599.21 CDS 549.21 hsa-miR-431-5p 244.303 0.022 12 0.026
NM_001014.4 440 MIMAT0003296 RPS10 599.21 CDS 549.21 hsa-miR-627-5p 2024.03 0.068 50 0.34
NM_001014.4 449 MIMAT0003312 RPS10 599.21 CDS 549.21 hsa-miR-642a-5p 742.502 0.021 14 0.029
NM_001014.4 452 MIMAT0000762 RPS10 599.21 CDS 549.21 hsa-miR-324-3p 19118.1 0.02 19 0.038
NM_001014.4 453 MIMAT0006778 RPS10 599.21 CDS 549.21 hsa-miR-516a-3p 395.921 0.029 17 0.049
NM_001014.4 486 MIMAT0003228 RPS10 599.21 CDS 543.21 hsa-miR-564 832.834 0.021 14 0.029
NM_001014.4 496 MIMAT0003261 RPS10 599.21 CDS 543.21 hsa-miR-593-5p 288.939 0.101 56 0.568
NM_001014.4 521 MIMAT0000762 RPS10 599.21 CDS 543.21 hsa-miR-324-3p 19118.1 0.018 18 0.032
NM_001014.4 525 MIMAT0002875 RPS10 599.21 CDS 581.21 hsa-miR-504-5p 4000.38 0.02 16 0.031
NM_001014.4 552 MIMAT0000750 RPS10 599.21 CDS 582.21 hsa-miR-340-3p 6058.51 0.019 17 0.033
NM_001014.4 576 MIMAT0000734 RPS10 599.21 CDS 572.21 hsa-miR-380-5p 387.393 0.023 13 0.029
NM_001014.4 576 MIMAT0003227 RPS10 599.21 CDS 572.21 hsa-miR-563 515.528 0.023 14 0.032
NM_001014.4 598 MIMAT0003237 RPS10 599.21 3'UTR 565.21 hsa-miR-572 247.691 0.018 10 0.181
NM_001014.4 604 MIMAT0000456 RPS10 599.21 3'UTR 565.21 hsa-miR-186-5p 6182.99 0.04 34 1.35
NM_001014.4 608 MIMAT0002862 RPS10 599.21 3'UTR 565.21 hsa-miR-527 238.583 0.018 10 0.183
NM_033301.2 26 MIMAT0000272 RPL8 586.204 5'UTR 501.204 hsa-miR-215-5p 2104.03 0.054 39 0.21
NM_033301.2 26 MIMAT0000222 RPL8 586.204 5'UTR 501.204 hsa-miR-192-5p 8243.69 0.054 46 0.248
NM_033301.2 52 MIMAT0002891 RPL8 586.204 5'UTR 501.204 hsa-miR-18a-3p 7434.85 0.024 21 0.051
NM_033301.2 83 MIMAT0003230 RPL8 586.204 5'UTR 573.204 hsa-miR-566 419.484 0.019 11 0.02
NM_033301.2 89 MIMAT0002822 RPL8 586.204 5'UTR 573.204 hsa-miR-512-5p 1232.44 0.019 13 0.025
NM_033301.2 113 MIMAT0003237 RPL8 586.204 5'UTR 560.204 hsa-miR-572 247.691 0.018 10 0.018
NM_033301.2 129 MIMAT0003230 RPL8 586.204 5'UTR 538.204 hsa-miR-566 419.484 0.045 26 0.118
NM_033301.2 141 MIMAT0003312 RPL8 586.204 5'UTR 538.204 hsa-miR-642a-5p 742.502 0.077 48 0.37
NM_033301.2 186 MIMAT0003230 RPL8 586.204 CDS 560.204 hsa-miR-566 419.484 0.045 26 0.118

Cite us

Weill N, Lisi V, Scott N, Dallaire P, Pelloux J, Major F. MirBooking simulates the stoichiometric mode of action of microRNAs, Nucleic Acids Res. 2015 43(14):6730-8.