Spreadsheet: 7db81bc5-4d18-4ceb-b89a-07906ed44521
Sheet: Sheet1

Table S8 - indirect FFLs in the PicTar dataset taking 5kb regulatory regions for protein coding genes. | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4
Here we list only the pairs which constitue an indirect FFL, and also mention if they also constitute another type of FFL too. In the last column we provide all the data about the indirect FFL: the relevant genomic miR cluster of the partner miR, and the details of the mediator TF which has a TFBS in the partner miR's promoter: it's PSSM and RefSeq gene, upstream of which the partner TF has aTFBS.
miR | TF | has a regular FFL | indirect FFL information
hsa-miR-30a-5p | V$AFP1_Q6 | [NAME] | diamond to cluster224_hsa-mir-30a via NM_004496 ( V$HNF3ALPHA_Q6 V$HNF3_Q6 V$HNF3_Q6_01 )
hsa-miR-9-star | V$AFP1_Q6 | NO | diamond to cluster14_hsa-mir-9-1 via NM_006237 ( V$OCT_Q6 ) | diamond to cluster209_hsa-mir-9-2 via NM_006237 ( V$OCT_Q6 )
hsa-miR-92 | V$AHRARNT_02 | NO | diamond to cluster70_hsa-mir-17 via NM_002131 ( V$HMGIY_Q3 ) | diamond to cluster292_hsa-mir-106a via NM_001964 ( [NAME] V$EGR_Q6 V$KROX_Q6 )NM_005011 ( V$NRF1_Q6 )
hsa-miR-145 | V$AIRE_02 | NO | diamond to cluster212_hsa-mir-143 via NM_012183 ( V$FOXD3_01 V$FOX_Q2 )
hsa-miR-132 | V$AP1_Q4 | [NAME] | diamond to cluster101_hsa-mir-212 via NM_001186 ( V$BACH1_01 V$MAF_Q6_01 )
hsa-miR-212 | V$AP1_Q4 | [NAME] | diamond to cluster101_hsa-mir-212 via NM_001186 ( V$BACH1_01 V$MAF_Q6_01 )
hsa-miR-96 | V$ATF1_Q6 | NO | diamond to cluster242_hsa-mir-183 via NM_002918 ( V$EFC_Q6 [NAME] V$RFX_Q6 )
hsa-miR-1 | V$ATF_B | NO | diamond to cluster122_hsa-mir-1-2 via NM_005920 ( [NAME] )
hsa-miR-206 | V$ATF_B | NO | diamond to cluster222_hsa-mir-206 via NM_005920 ( [NAME] )
hsa-miR-324-5p | V$CART1_01 | NO | diamond to cluster103_hsa-mir-324 via NM_002015 ( V$FOXO1_02 V$FOX_Q2 )
hsa-miR-129 | V$CDP_02 | [NAME] | diamond to cluster40_hsa-mir-129-2 via NM_004599 ( V$SREBP_Q3 )NM_005587 ( V$AMEF2_Q6 V$HMEF2_Q6 [NAME] V$MMEF2_Q6 ) | diamond to cluster241_hsa-mir-129-1 via NM_005587 ( V$AMEF2_Q6 V$HMEF2_Q6 [NAME] V$MMEF2_Q6 )
hsa-miR-153 | V$CDP_02 | NO | diamond to cluster150_hsa-mir-153-1 via NM_000346 ( V$SOX9_B1 V$SOX_Q6 ) | diamond to cluster247_hsa-mir-153-2 via NM_012183 ( V$FOXD3_01 V$FOX_Q2 )
hsa-miR-132 | V$CEBP_Q2 | NO | diamond to cluster101_hsa-mir-212 via NM_003220 ( V$AP2_Q3 V$AP2_Q6 V$AP2_Q6_01 )
hsa-miR-212 | V$CEBP_Q2 | NO | diamond to cluster101_hsa-mir-212 via NM_003220 ( V$AP2_Q3 V$AP2_Q6 V$AP2_Q6_01 )
hsa-miR-9-star | V$CHX10_01 | NO | diamond to cluster14_hsa-mir-9-1 via NM_002697 ( V$OCT1_01 V$OCT1_02 V$OCT1_03 V$OCT1_04 V$OCT1_05 V$OCT1_06 V$OCT1_07 V$OCT1_B V$OCT1_Q5_01 V$OCT1_Q6 V$OCT_C V$OCT_Q6 ) | diamond to cluster209_hsa-mir-9-2 via NM_002697 ( V$OCT1_01 V$OCT1_02 V$OCT1_03 V$OCT1_04 V$OCT1_05 V$OCT1_06 V$OCT1_07 V$OCT1_B V$OCT1_Q5_01 V$OCT1_Q6 V$OCT_C V$OCT_Q6 )NM_006195 ( V$PBX_Q3 )
hsa-miR-137 | V$CIZ_01 | [NAME] | diamond to cluster8_hsa-mir-137 via NM_001452 ( V$FOX_Q2 V$FREAC2_01 )
hsa-miR-186 | V$CREB_Q4 | NO | diamond to cluster7_hsa-mir-186 via NM_001489 ( V$GCNF_01 )
hsa-miR-183 | V$E2F_Q3 | NO | diamond to cluster242_hsa-mir-183 via NM_000346 ( V$SOX9_B1 V$SOX_Q6 )NM_004189 ( V$SOX_Q6 )
hsa-miR-93 | V$E2F_Q3_01 | TF2mir mir2TF | diamond to cluster238_hsa-mir-106b via NM_021005 ( V$ARP1_01 V$COUP_DR1_Q6 V$DR1_Q3 V$DR4_Q2 )
hsa-miR-135b | V$E2F_Q4 | NO | diamond to cluster20_hsa-mir-135b via NM_005585 ( V$SMAD_Q6_01 )
hsa-miR-7 | V$ETS_Q4 | NO | diamond to cluster267_hsa-mir-7-1 via NM_001265 ( V$CDX_Q5 )
hsa-miR-129 | V$EVI1_01 | NO | diamond to cluster40_hsa-mir-129-2 via NM_006195 ( V$PBX_Q3 )
hsa-miR-124a | [NAME] | [NAME] | diamond to cluster162_hsa-mir-124a-3 via NM_000457 ( V$COUP_01 V$DR1_Q3 V$HNF4ALPHA_Q6 V$HNF4_01 V$HNF4_01_B V$HNF4_DR1_Q3 ) | diamond to cluster251_hsa-mir-124a-1 via NM_004364 ( V$CEBPA_01 V$CEBP_01 V$CEBP_C V$CEBP_Q2 V$CEBP_Q2_01 V$CEBP_Q3 V$CHOP_01 )
hsa-miR-25 | [NAME] | NO | diamond to cluster238_hsa-mir-106b via NM_021005 ( V$ARP1_01 V$COUP_DR1_Q6 V$DR1_Q3 V$DR4_Q2 )
hsa-miR-92 | [NAME] | [NAME] | diamond to cluster292_hsa-mir-106a via NM_000399 ( V$EGR2_01 V$EGR_Q6 V$KROX_Q6 )NM_014564 ( V$LHX3_01 )
hsa-miR-199a-star | V$FOXJ2_02 | [NAME] | diamond to cluster17_hsa-mir-199a-2 via NM_003199 ( V$TAL1BETAITF2_01 )
hsa-miR-129 | V$FOXM1_01 | NO | diamond to cluster40_hsa-mir-129-2 via NM_006195 ( V$PBX_Q3 )
hsa-miR-128b | V$FOXO3_01 | [NAME] | diamond to cluster176_hsa-mir-128b via NM_004496 ( V$HNF3ALPHA_Q6 V$HNF3_Q6 V$HNF3_Q6_01 )NM_012183 ( V$FOXD3_01 V$FOX_Q2 )
hsa-miR-92 | V$FOXO4_01 | NO | diamond to cluster292_hsa-mir-106a via NM_000280 ( V$PAX6_01 V$PAX6_Q2 V$PAX_Q6 )NM_004852 ( V$HNF6_Q6 )
hsa-miR-23a | [NAME] | NO | diamond to cluster129_hsa-mir-23a via NM_005252 ( V$AP1FJ_Q2 [NAME] )
hsa-miR-199a-star | V$FOX_Q2 | [NAME] | diamond to cluster17_hsa-mir-199a-2 via NM_001455 ( V$FOXO3_01 V$FOX_Q2 )
hsa-miR-28 | V$FREAC2_01 | NO | diamond to cluster191_hsa-mir-28 via NM_005253 ( [NAME] )
hsa-miR-194 | V$FREAC3_01 | NO | diamond to cluster43_hsa-mir-194-2 via NM_000280 ( V$PAX6_01 V$PAX6_Q2 V$PAX_Q6 )NM_006164 ( V$MAF_Q6_01 V$NRF2_Q4 )
hsa-miR-29a | V$GATA1_04 | NO | diamond to cluster244_hsa-mir-29b-1 via NM_006163 ( V$MAF_Q6_01 V$NFE2_01 )
hsa-miR-182 | V$HIF1_Q3 | NO | diamond to cluster242_hsa-mir-183 via NM_003108 ( V$SOX_Q6 )
hsa-miR-153 | V$HIF1_Q5 | NO | diamond to cluster150_hsa-mir-153-1 via NM_003106 ( V$SOX_Q6 )NM_004496 ( V$HNF3ALPHA_Q6 V$HNF3_Q6 V$HNF3_Q6_01 ) | diamond to cluster247_hsa-mir-153-2 via NM_001455 ( V$FOXO3_01 V$FOX_Q2 )
hsa-miR-30a-5p | V$HIF1_Q5 | NO | diamond to cluster224_hsa-mir-30a via NM_004496 ( V$HNF3ALPHA_Q6 V$HNF3_Q6 V$HNF3_Q6_01 )
hsa-miR-30a-5p | V$HNF3B_01 | [NAME] | diamond to cluster224_hsa-mir-30a via NM_021784 ( V$HNF3_Q6 V$HNF3_Q6_01 )
hsa-miR-30c | V$HNF3B_01 | NO | diamond to cluster223_hsa-mir-30c-2 via NM_000325 ( V$PITX2_Q2 )
hsa-miR-200b | V$HNF6_Q6 | NO | diamond to cluster1_hsa-mir-200b via NM_002697 ( V$OCT1_01 V$OCT1_02 V$OCT1_03 V$OCT1_04 V$OCT1_05 V$OCT1_06 V$OCT1_07 V$OCT1_B V$OCT1_Q5_01 V$OCT1_Q6 V$OCT_C V$OCT_Q6 )
hsa-miR-10a | V$IRF7_01 | [NAME] | diamond to cluster111_hsa-mir-10a via NM_002199 ( V$IRF2_01 V$IRF_Q6 V$IRF_Q6_01 )
hsa-miR-30a-5p | V$IRF7_01 | NO | diamond to cluster224_hsa-mir-30a via NM_012183 ( V$FOXD3_01 V$FOX_Q2 )
hsa-miR-215 | V$IRF_Q6 | NO | diamond to cluster23_hsa-mir-194-1 via NM_000176 ( [NAME] )
hsa-miR-23a | V$IRF_Q6 | mir2TF | diamond to cluster129_hsa-mir-23a via NM_000438 ( V$PAX3_01 V$PAX3_B V$PAX_Q6 )
hsa-miR-23b | V$IRF_Q6 | mir2TF | diamond to cluster269_hsa-mir-23b via NM_001913 ( V$CDPCR1_01 V$CDPCR3HD_01 [NAME] )
hsa-miR-30a-5p | V$IRF_Q6 | mir2TF | diamond to cluster224_hsa-mir-30a via NM_005604 ( V$BRN2_01 V$OCT_Q6 [NAME] )
hsa-miR-30c | V$IRF_Q6 | mir2TF | diamond to cluster223_hsa-mir-30c-2 via NM_000325 ( V$PITX2_Q2 )
hsa-miR-302a | V$ISRE_01 | NO | diamond to cluster201_hsa-mir-302b via NM_182894 ( V$CHX10_01 )
hsa-miR-302b | V$ISRE_01 | NO | diamond to cluster201_hsa-mir-302b via NM_182894 ( V$CHX10_01 )
hsa-miR-302c | V$ISRE_01 | NO | diamond to cluster201_hsa-mir-302b via NM_182894 ( V$CHX10_01 )
hsa-miR-302d | V$ISRE_01 | NO | diamond to cluster201_hsa-mir-302b via NM_182894 ( V$CHX10_01 )
hsa-miR-200c | V$LMO2COM_02 | NO | diamond to cluster50_hsa-mir-200c via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )
hsa-miR-29a | V$LMO2COM_02 | NO | diamond to cluster244_hsa-mir-29b-1 via NM_006163 ( V$MAF_Q6_01 V$NFE2_01 )
hsa-miR-29b | V$LMO2COM_02 | NO | diamond to cluster21_hsa-mir-29b-2 via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )NM_006163 ( V$MAF_Q6_01 V$NFE2_01 )NM_172373 ( V$ELF1_Q6 ) | diamond to cluster244_hsa-mir-29b-1 via NM_006163 ( V$MAF_Q6_01 V$NFE2_01 )
hsa-miR-29c | V$LMO2COM_02 | NO | diamond to cluster21_hsa-mir-29b-2 via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )NM_006163 ( V$MAF_Q6_01 V$NFE2_01 )NM_172373 ( V$ELF1_Q6 )
hsa-miR-30a-3p | V$MEF2_04 | NO | diamond to cluster224_hsa-mir-30a via NM_021784 ( V$HNF3_Q6 V$HNF3_Q6_01 )
hsa-miR-196a | V$MMEF2_Q6 | [NAME] | diamond to cluster53_hsa-mir-196a-2 via NM_005604 ( V$BRN2_01 V$OCT_Q6 [NAME] )NM_006352 ( V$RP58_01 ) | diamond to cluster112_hsa-mir-196a-1 via NM_006352 ( V$RP58_01 )
hsa-miR-194 | V$MRF2_01 | NO | diamond to cluster23_hsa-mir-194-1 via NM_002509 ( V$NKX22_01 )
hsa-miR-301 | V$MRF2_01 | NO | diamond to cluster114_hsa-mir-301 via NM_002142 ( [NAME] )
hsa-miR-135b | V$MYOD_Q6_01 | NO | diamond to cluster20_hsa-mir-135b via NM_000376 ( V$DR3_Q4 V$VDR_Q3 V$VDR_Q6 )
hsa-miR-129 | V$NKX61_01 | [NAME] | diamond to cluster40_hsa-mir-129-2 via NM_001913 ( V$CDPCR1_01 V$CDPCR3HD_01 [NAME] )
hsa-miR-129 | V$NKX62_Q2 | NO | diamond to cluster40_hsa-mir-129-2 via NM_002697 ( V$OCT1_01 V$OCT1_02 V$OCT1_03 V$OCT1_04 V$OCT1_05 V$OCT1_06 V$OCT1_07 V$OCT1_B V$OCT1_Q5_01 V$OCT1_Q6 V$OCT_C V$OCT_Q6 )
hsa-miR-135a | V$NRSF_01 | NO | diamond to cluster64_hsa-mir-135a-2 via NM_014564 ( V$LHX3_01 )
hsa-miR-132 | V$OCT1_06 | NO | diamond to cluster101_hsa-mir-212 via NM_005252 ( V$AP1FJ_Q2 [NAME] )
hsa-miR-212 | V$OCT1_06 | NO | diamond to cluster101_hsa-mir-212 via NM_005252 ( V$AP1FJ_Q2 [NAME] )
hsa-miR-28 | V$OCT1_06 | [NAME] | diamond to cluster191_hsa-mir-28 via NM_005252 ( V$AP1FJ_Q2 [NAME] )
hsa-miR-141 | V$OCT1_07 | NO | diamond to cluster50_hsa-mir-200c via NM_004348 ( V$AML_Q6 V$PEBP_Q6 )
hsa-miR-199a-star | V$OCT_C | NO | diamond to cluster17_hsa-mir-199a-2 via NM_003131 ( V$SRF_01 V$SRF_C V$SRF_Q4 V$SRF_Q5_01 V$SRF_Q5_02 V$SRF_Q6 )NM_004496 ( V$HNF3ALPHA_Q6 V$HNF3_Q6 V$HNF3_Q6_01 ) | diamond to cluster128_hsa-mir-199a-1 via NM_000280 ( V$PAX6_01 V$PAX6_Q2 V$PAX_Q6 )NM_003131 ( V$SRF_01 V$SRF_C V$SRF_Q4 V$SRF_Q5_01 V$SRF_Q5_02 V$SRF_Q6 )
hsa-miR-24 | V$OCT_Q6 | NO | diamond to cluster129_hsa-mir-23a via NM_003131 ( V$SRF_01 V$SRF_C V$SRF_Q4 V$SRF_Q5_01 V$SRF_Q5_02 V$SRF_Q6 )NM_004599 ( V$SREBP_Q3 )NM_005354 ( [NAME] )NM_005920 ( [NAME] )
hsa-miR-30a-3p | V$OCT_Q6 | TF2mir mir2TF | diamond to cluster224_hsa-mir-30a via NM_000458 ( V$HNF1_Q6 V$HNF1_Q6_01 )NM_005354 ( [NAME] )
hsa-miR-199a | V$PAX6_Q2 | [NAME] | diamond to cluster128_hsa-mir-199a-1 via NM_000280 ( V$PAX6_01 V$PAX6_Q2 V$PAX_Q6 )
hsa-miR-302a | [NAME] | NO | diamond to cluster201_hsa-mir-302b via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )
hsa-miR-302b | [NAME] | NO | diamond to cluster201_hsa-mir-302b via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )
hsa-miR-302d | [NAME] | NO | diamond to cluster201_hsa-mir-302b via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )
hsa-miR-199a-star | V$POU3F2_01 | NO | diamond to cluster17_hsa-mir-199a-2 via NM_003107 ( V$SOX_Q6 )NM_012183 ( V$FOXD3_01 V$FOX_Q2 )
hsa-miR-26a | V$POU3F2_02 | NO | diamond to cluster177_hsa-mir-26a-1 via NM_002955 ( V$RREB1_01 )
hsa-miR-10a | V$POU6F1_01 | [NAME] | diamond to cluster111_hsa-mir-10a via NM_003106 ( V$SOX_Q6 )
hsa-miR-23a | V$RFX_Q6 | [NAME] | diamond to cluster129_hsa-mir-23a via NM_005354 ( [NAME] )
hsa-miR-92 | V$RFX_Q6 | TF2mir mir2TF | diamond to cluster292_hsa-mir-106a via NM_000280 ( V$PAX6_01 V$PAX6_Q2 V$PAX_Q6 )
hsa-miR-302a | V$SOX_Q6 | NO | diamond to cluster201_hsa-mir-302b via NM_005604 ( V$BRN2_01 V$OCT_Q6 [NAME] )
hsa-miR-302b | V$SOX_Q6 | NO | diamond to cluster201_hsa-mir-302b via NM_005604 ( V$BRN2_01 V$OCT_Q6 [NAME] )
hsa-miR-302c | V$SOX_Q6 | NO | diamond to cluster201_hsa-mir-302b via NM_005604 ( V$BRN2_01 V$OCT_Q6 [NAME] )
hsa-miR-129 | V$SP3_Q3 | mir2TF | diamond to cluster40_hsa-mir-129-2 via NM_005920 ( [NAME] )
hsa-miR-302c | V$SP3_Q3 | mir2TF | diamond to cluster201_hsa-mir-302b via NM_005938 ( V$FOXO4_01 V$FOXO4_02 V$FOX_Q2 )
hsa-miR-142-5p | V$SPZ1_01 | NO | diamond to cluster113_hsa-mir-142 via NM_002049 ( V$GATA1_01 V$GATA1_02 V$GATA1_03 V$GATA1_04 V$GATA1_05 V$GATA_C )
hsa-miR-199a | V$SREBP_Q3 | NO | diamond to cluster17_hsa-mir-199a-2 via NM_000346 ( V$SOX9_B1 V$SOX_Q6 )
hsa-miR-141 | V$TATA_01 | NO | diamond to cluster50_hsa-mir-200c via NM_003131 ( V$SRF_01 V$SRF_C V$SRF_Q4 V$SRF_Q5_01 V$SRF_Q5_02 V$SRF_Q6 )
hsa-miR-199a | [NAME] | mir2TF | diamond to cluster128_hsa-mir-199a-1 via NM_015859 ( V$TFIIA_Q6 )
hsa-miR-132 | V$TEL2_Q6 | NO | diamond to cluster101_hsa-mir-212 via NM_003670 ( V$DEC_Q1 )
hsa-miR-212 | V$TEL2_Q6 | NO | diamond to cluster101_hsa-mir-212 via NM_003670 ( V$DEC_Q1 )
hsa-miR-10a | V$TFIII_Q6 | NO | diamond to cluster111_hsa-mir-10a via NM_007084 ( V$SOX_Q6 )
hsa-miR-219 | V$TFIII_Q6 | NO | diamond to cluster276_hsa-mir-219-2 via NM_003367 ( V$USF_Q6 V$USF_Q6_01 )
hsa-miR-93 | V$TFIII_Q6 | NO | diamond to cluster238_hsa-mir-106b via NM_005654 ( V$COUP_01 V$COUP_DR1_Q6 V$DR1_Q3 V$DR4_Q2 )NM_005693 ( V$DR4_Q2 V$LXR_Q3 )
hsa-miR-194 | V$TST1_01 | NO | diamond to cluster43_hsa-mir-194-2 via NM_000278 ( V$PAX2_01 V$PAX_Q6 )
hsa-miR-194 | V$YY1_Q6 | NO | diamond to cluster23_hsa-mir-194-1 via NM_000176 ( [NAME] )