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NonredundantMotifs:1: Difference between revisions

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{{Known_motif
{{Known_motif
|PWM=P0;A;C;G;T!1;28.498291092771634;2.5085445361420007;11.58886317587679;4.515380165055598!2;47.111078969846;0.0;0.0;0.0!3;0.0;0.0;0.0;47.111078969846!4;0.0;0.0;0.0;47.111078969846!5;47.111078969846;0.0;0.0;0.0!6;47.111078969846;0.0;0.0;0.0!7;39.083736454191595;0.0;0.0;8.027342515654405
|entrez_gene_id=1820
|entrez_gene_id=1820
|motif_cluster_2013_march_motif_members= /JASPAR:MA0125.1;Nobox~MA0063.1;Nkx2-5~MA0135.1;Lhx3~MA0075.1;Prrx2~MA0151.1;ARID3A /HOCOMOCO:HXD9_f1~LHX3_f1~DLX3_do~PO4F2_si~PDX1_do~MSX2_f1~DLX2_f1~HXD4_f1~VSX2_si~ZFHX3_f1~BARX2_si~HXC8_f1~PRRX2_f1~NOBOX_si~ARI3A_f1~HXA5_si /SWISSREGULON:NANOG.p2~VSX1,2.p2~LHX3,4.p2~PRRX1,2.p2~PDX1.p2~NKX2-3_NKX2-5.p2~ADNP_IRX_SIX_ZHX.p2 /UNIPROBE:Hoxb5_3122.2;CELL08~Meox1_2310.2;CELL08~Lhx1_2240.2;CELL08~Hmx1_3423.1;CELL08~Hoxc9_2367.2;CELL08~Hoxa1_3425.1;CELL08~Pou3f4_3773.1;CELL08~Gbx2_3110.1;CELL08~Uncx4.1_2281.2;CELL08~Barx2_3447.2;CELL08~Nkx6-3_3446.1;CELL08~Prrx2_3072.1;CELL08~Ipf1_3815.1;CELL08~Hoxb8_3780.2;CELL08~Hoxd1_3448.1;CELL08~Vax2_3500.1;CELL08~Msx3_3206.1;CELL08~Barhl2_3868.1;CELL08~En1_3123.2;CELL08~Hoxb6_3428.2;CELL08~Og2x_3719.1;CELL08~Hoxc5_2630.2;CELL08~Otp_3496.1;CELL08~Isl2_3430.1;CELL08~Dlx1_1741.2;CELL08~Hoxa3_2783.2;CELL08~Nkx6-1_2825.2;CELL08~Hoxb4_2627.1;CELL08~Hlxb9_3422.1;CELL08~Phox2a_3947.1;CELL08~Cart1_1275.1;CELL08~Hoxa4_3426.1;CELL08~Arid3a_primary;SCI09~Lhx6_2272.1;CELL08~Gbx1_2883.2;CELL08~Dbx1_3486.1;CELL08~Pou1f1_3818.1;CELL08~En2_0952.1;CELL08~Hoxd8_2644.1;CELL08~Nkx1-1_3856.3;CELL08~Hoxc8_3429.2;CELL08~Prrx1_3442.1;CELL08~Hoxc4_3491.1;CELL08~Pou6f1_1731.2;CELL08~Nkx1-2_3214.1;CELL08~Lmx1b_3433.2;CELL08~Msx1_3031.2;CELL08~Prop1_3949.1;CELL08~Pou2f1_3081.2;CELL08~Hoxa5_3415.1;CELL08~Hoxa3_primary;SCI09~Pax7_3783.1;CELL08~Evx2_2645.3;CELL08~Pou3f2_2824.1;CELL08~Vsx1_1728.1;CELL08~Cutl1_3494.1;CELL08~Pou4f3_2791.1;CELL08~Dbx2_3487.1;CELL08~Vax1_3499.1;CELL08~Pax6_3838.3;CELL08~Shox2_2641.2;CELL08~Hoxb3_1720.2;CELL08~Dlx3_1030.1;CELL08~Gsh2_3990.2;CELL08~Hoxa2_3079.1;CELL08~Hoxa7_3750.1;CELL08~Lhx4_1719.2;CELL08~Hoxb7_3953.1;CELL08~Lhx8_2247.2;CELL08~Lhx3_3431.1;CELL08~Hoxd3_1742.2;CELL08~Pou3f1_3819.1;CELL08~Hlx1_2350.1;CELL08~Lhx2_0953.2;CELL08~Barx1_2877.1;CELL08~Pax4_3989.2;CELL08~Bapx1_2343.1;CELL08~Hoxc6_3954.2;CELL08~Phox2b_3948.1;CELL08~Msx2_3449.1;CELL08~Rhox6_4251.1;CELL08~Hmx3_3490.2;CELL08~Evx1_3952.2;CELL08~Nkx6-1_2825.1;CELL08~Barhl1_2590.2;CELL08~Emx2_3420.1;CELL08~Lhx6_3432.1;CELL08~Dlx2_2273.2;CELL08~Hoxa6_1040.1;CELL08~Arx_1738.2;CELL08~Rax_3443.1;CELL08~Esx1_3124.2;CELL08~Hoxa7_2668.2;CELL08~Cart1_0997.1;CELL08~Hmx2_3424.3;CELL08~Lbx2_3869.2;CELL08~Nkx3-1_primary;SCI09~Bsx_3483.2;CELL08~Tlx2_3498.2;CELL08~Pou6f1_3733.1;CELL08~Lhx5_2279.1;CELL08~Isx_3445.1;CELL08~Dlx5_3419.2;CELL08~Lhx9_3492.1;CELL08~Alx3_3418.2;CELL08~Dlx4_3488.2;CELL08~Alx4_1744.1;CELL08~Lmx1a_2238.2;CELL08
|motif_cluster_2013_march_motif_members= /SWISSREGULON:NANOG.p2~VSX1,2.p2~LHX3,4.p2~PRRX1,2.p2~PDX1.p2~NKX2-3_NKX2-5.p2~ADNP_IRX_SIX_ZHX.p2 /JASPAR:MA0125.1;Nobox~MA0063.1;Nkx2-5~MA0135.1;Lhx3~MA0075.1;Prrx2~MA0151.1;ARID3A /UNIPROBE:Hoxb5_3122.2;CELL08~Meox1_2310.2;CELL08~Lhx1_2240.2;CELL08~Hmx1_3423.1;CELL08~Hoxc9_2367.2;CELL08~Hoxa1_3425.1;CELL08~Pou3f4_3773.1;CELL08~Gbx2_3110.1;CELL08~Uncx4.1_2281.2;CELL08~Barx2_3447.2;CELL08~Nkx6-3_3446.1;CELL08~Prrx2_3072.1;CELL08~Ipf1_3815.1;CELL08~Hoxb8_3780.2;CELL08~Hoxd1_3448.1;CELL08~Vax2_3500.1;CELL08~Msx3_3206.1;CELL08~Barhl2_3868.1;CELL08~En1_3123.2;CELL08~Hoxb6_3428.2;CELL08~Og2x_3719.1;CELL08~Hoxc5_2630.2;CELL08~Otp_3496.1;CELL08~Isl2_3430.1;CELL08~Dlx1_1741.2;CELL08~Hoxa3_2783.2;CELL08~Nkx6-1_2825.2;CELL08~Hoxb4_2627.1;CELL08~Hlxb9_3422.1;CELL08~Phox2a_3947.1;CELL08~Cart1_1275.1;CELL08~Hoxa4_3426.1;CELL08~Arid3a_primary;SCI09~Lhx6_2272.1;CELL08~Gbx1_2883.2;CELL08~Dbx1_3486.1;CELL08~Pou1f1_3818.1;CELL08~En2_0952.1;CELL08~Hoxd8_2644.1;CELL08~Nkx1-1_3856.3;CELL08~Hoxc8_3429.2;CELL08~Prrx1_3442.1;CELL08~Hoxc4_3491.1;CELL08~Pou6f1_1731.2;CELL08~Nkx1-2_3214.1;CELL08~Lmx1b_3433.2;CELL08~Msx1_3031.2;CELL08~Prop1_3949.1;CELL08~Pou2f1_3081.2;CELL08~Hoxa5_3415.1;CELL08~Hoxa3_primary;SCI09~Pax7_3783.1;CELL08~Evx2_2645.3;CELL08~Pou3f2_2824.1;CELL08~Vsx1_1728.1;CELL08~Cutl1_3494.1;CELL08~Pou4f3_2791.1;CELL08~Dbx2_3487.1;CELL08~Vax1_3499.1;CELL08~Pax6_3838.3;CELL08~Shox2_2641.2;CELL08~Hoxb3_1720.2;CELL08~Dlx3_1030.1;CELL08~Gsh2_3990.2;CELL08~Hoxa2_3079.1;CELL08~Hoxa7_3750.1;CELL08~Lhx4_1719.2;CELL08~Hoxb7_3953.1;CELL08~Lhx8_2247.2;CELL08~Lhx3_3431.1;CELL08~Hoxd3_1742.2;CELL08~Pou3f1_3819.1;CELL08~Hlx1_2350.1;CELL08~Lhx2_0953.2;CELL08~Barx1_2877.1;CELL08~Pax4_3989.2;CELL08~Bapx1_2343.1;CELL08~Hoxc6_3954.2;CELL08~Phox2b_3948.1;CELL08~Msx2_3449.1;CELL08~Rhox6_4251.1;CELL08~Hmx3_3490.2;CELL08~Evx1_3952.2;CELL08~Nkx6-1_2825.1;CELL08~Barhl1_2590.2;CELL08~Emx2_3420.1;CELL08~Lhx6_3432.1;CELL08~Dlx2_2273.2;CELL08~Hoxa6_1040.1;CELL08~Arx_1738.2;CELL08~Rax_3443.1;CELL08~Esx1_3124.2;CELL08~Hoxa7_2668.2;CELL08~Cart1_0997.1;CELL08~Hmx2_3424.3;CELL08~Lbx2_3869.2;CELL08~Nkx3-1_primary;SCI09~Bsx_3483.2;CELL08~Tlx2_3498.2;CELL08~Pou6f1_3733.1;CELL08~Lhx5_2279.1;CELL08~Isx_3445.1;CELL08~Dlx5_3419.2;CELL08~Lhx9_3492.1;CELL08~Alx3_3418.2;CELL08~Dlx4_3488.2;CELL08~Alx4_1744.1;CELL08~Lmx1a_2238.2;CELL08 /HOCOMOCO:HXD9_f1~LHX3_f1~DLX3_do~PO4F2_si~PDX1_do~MSX2_f1~DLX2_f1~HXD4_f1~VSX2_si~ZFHX3_f1~BARX2_si~HXC8_f1~PRRX2_f1~NOBOX_si~ARI3A_f1~HXA5_si
|name=known1
|name=known1
|representative_motif_db=HOCOMOCO
|representative_motif_db=HOCOMOCO

Revision as of 10:45, 13 May 2013

Representative Motif

<br>Analyst: Ivan Kulakovskiy,Ilya Vorontsov, Vsevolod Makeev, Michiel de Hoon <br>May 2013, Collection Name: Non-redundant known motifs<br>Analysis information: 208 clusters of known motifs were produced by MACRO-APE [1] using the general phase1 motif clustering procedure applied for known motif collections.<br>207 of 208 clusters had at least one member passing motif-promoter correlation procedure.For these clusters representative motifs were selected based on motif-promoter correlation values.For each cluster only motifs with an average distance to of ther members not greater than mean+SD were considered as representatives.

  • Name :known1
  • db :HOCOMOCO
  • Id :ARI3A_f1
  • name  :
  • score :0.16970272024724345
  • External refs:
EntrezGene:1820
UniProt:1820

  • Internal refs:
EntrezGene:1820


Motif matrix
P0ACGT
128.4982910927716342.508544536142000711.588863175876794.515380165055598
247.1110789698460.00.00.0
30.00.00.047.111078969846
40.00.00.047.111078969846
547.1110789698460.00.00.0
647.1110789698460.00.00.0
739.0837364541915950.00.08.027342515654405

Sub Motif Members

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