Freiburg RNA Tools
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metaMIR 5275471

Input and runtime details for job 5275471 (precomputed example)

Input

? List of genes analyzed*YAP1 *WWTR1 *TP73 *TEAD1 *TEAD2 *AJUBA MYC PAX3 PAX7 DLX5 DLX6 FOXI1 GBX2 HES1 HES5 MSX1 MSX2 SMAD2 SMAD3 SMAD4 TFAP2A ZIC1 ZIC5
? Minimum number of genes per cluster5
? Maximum number of genes per cluster15
? Minimum score to return1.1

Job ID 5275471 (server version 4.3.0)

?Job Submitted & Queued@ Mon Aug 08 10:15:17 CEST 2016
?metaMIR Started@ Mon Aug 08 10:15:24 CEST 2016
?metaMIR Finished & Post-Processing@ Mon Aug 08 10:16:28 CEST 2016
?Job Completed@ Mon Aug 08 10:16:28 CEST 2016
 DIRECT ACCESS: https://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=5275471&toolName=metaMIR ( 30 days expiry )

Description of the job

example2

An example investigating potential miRNA-mediated cross regulation between two cellular processes: the Hippo/YAP signaling pathway and transcription factors involved in neural crest (NC) development. Specifically, co-regulation here is investigated between those factors promoting Hippo/YAP transcriptional co-activity and transcription factors involved in the neural plate border specification during NC development.

The Hippo/YAP genes are marked with asterisks, to ensure that any combination returned in the analysis will have at least one YAP-related component subject to simultaneous co-regulation with NC genes. Otherwise, the results could be overwhelmed by the much longer list of NC genes, returning combinations that contain no Hippo/YAP elements.

? Output download complete results [zip]

Result table

Show rows: 1-10 11-20 21-30 31-40 41-50 51-60 61-70 71-80 81-90 91-100 101-110 111-120 121-130 131-140 141-150 151-160 161-170 171-180 181-190 191-200 201-210 211-220 221-230 231-240 241-250 251-260 261-270 271-280 281-290 291-300 301-310 311-320 321-330 331-340 341-350 351-360 361-370 371-380 381-390 391-400 401-410 411-420 421-426 all
Sort by selecting a column name.
miRNA Final Score Positive Combo Positive Score Positive Group Positive List
hsa-miR-8085 3.61 AJUBA,DLX6,MSX2,SMAD2,SMAD3,TEAD1,TFAP2A,TP73,WWTR1,ZIC1 4.613 10 L03
hsa-miR-550a-5p 3.23 AJUBA,FOXI1,MSX2,PAX3,SMAD2,SMAD3,SMAD4,TP73,WWTR1,YAP1 4.079 10 L04
hsa-miR-6760-5p 2.85 AJUBA,DLX6,MSX2,SMAD3,TEAD1,TFAP2A,TP73,YAP1,ZIC1 3.745 9 L03
hsa-miR-7113-5p 2.86 MSX2,PAX7,SMAD3,SMAD4,TEAD1,TEAD2,TFAP2A,YAP1 3.481 8 L08
hsa-miR-3183 2.7 AJUBA,MSX1,MSX2,PAX7,SMAD2,SMAD3,SMAD4,TEAD1,TP73,ZIC1 3.43 10 L07
hsa-miR-550a-3-5p 3.23 AJUBA,MSX2,PAX3,SMAD2,SMAD3,SMAD4,TP73,WWTR1,YAP1 3.386 9 L01
hsa-miR-203b-3p 2.54 AJUBA,MSX1,PAX3,SMAD2,SMAD4,TFAP2A,TP73,YAP1,ZIC1 3.301 9 L07
hsa-miR-193a-3p 2.19 AJUBA,HES1,PAX7,SMAD2,SMAD4,TEAD1,WWTR1,YAP1,ZIC5 3.3 9 L05
hsa-miR-193b-3p 2.06 AJUBA,HES1,MSX2,PAX7,SMAD2,SMAD3,WWTR1,YAP1,ZIC5 3.195 9 L05
hsa-miR-4715-5p 2.02 AJUBA,HES1,PAX7,SMAD2,SMAD3,WWTR1,ZIC1,ZIC5 3.156 8 L05
Rows: 1-10 11-20 21-30 31-40 41-50 51-60 61-70 71-80 81-90 91-100 101-110 111-120 121-130 131-140 141-150 151-160 161-170 171-180 181-190 191-200 201-210 211-220 221-230 231-240 241-250 251-260 261-270 271-280 281-290 291-300 301-310 311-320 321-330 331-340 341-350 351-360 361-370 371-380 381-390 391-400 401-410 411-420 421-426 all

Result table - repPos

Show rows: 1-10 11-20 21-23 all
Sort by selecting a column name.
Gene name Rep
AJUBA 100
GBX2 100
MSX2 100
PAX3 100
PAX7 100
SMAD2 100
SMAD3 100
SMAD4 100
TEAD1 100
TFAP2A 100
Rows: 1-10 11-20 21-23 all

Result table - clusterPos

Show rows: 1-10 11-20 21-30 31-33 all
Sort by selecting a column name.
Gene 1 Inter Gene 2 Norm
AJUBA pp GBX2 19
MSX2 pp MYC 15
PAX3 pp PAX7 23
SMAD2 pp SMAD3 23
SMAD4 pp TEAD1 23
TFAP2A pp TP73 21
WWTR1 pp YAP1 23
ZIC1 pp AJUBA 21
GBX2 pp MSX2 20
MYC pp PAX3 15
Rows: 1-10 11-20 21-30 31-33 all

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Results are computed with metaMIR version 1.0.0 using R 3.2.1