FF:18-22I9: Difference between revisions
From FANTOM5_SSTAR
(Created page with "{{f5samples
|id=FF:18-22I9
|name=olfactory brain, adult, biol_rep1
|sample_id=18
|rna_tube_id=18-22I9
|rna_box=18-22I9
|rna_position=18-22I9
|sample_cell_lot=
|sample_...") |
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|fonse_cell_line_closure= | |fonse_cell_line_closure= | ||
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|top_motifs=PRRX1,2:3.37412843567;EGR1..3:2.79515101759;REST:2.74978714368;PBX1:2.72496652415;STAT1,3:2.70669185324;CUX2:2.65435198639;ZFP161:2.60444725156;MTE{core}:2.55374743782;MED-1{core}:2.51601351297;POU6F1:2.40320595529;POU3F1..4:2.39758926058;NKX3-2:2.3403812135;AHR_ARNT_ARNT2:2.32592457825;NANOG:2.32454078836;MYFfamily:2.31398246481;OCT4_SOX2{dimer}:2.20299856926;HMGA1,2:2.19236546124;NHLH1,2:2.18092490772;ZBTB6:2.16418018235;FOXD3:2.14320268171;MTF1:2.09212837234;MZF1:2.08477634143;BREu{core}:2.02746876069;ATF2:1.97532007514;RBPJ:1.95783717284;TFAP2B:1.92941980439;VSX1,2:1.91230526028;RREB1:1.89772271103;CREB1:1.81748120576;GTF2I:1.75837957637;ATF5_CREB3:1.75588090142;NANOG{mouse}:1.73271980886;TEF:1.71587515378;PAX6:1.70001525549;HAND1,2:1.68956941861;JUN:1.67371037445;HIC1:1.66702946853;HOX{A4,D4}:1.63394370243;TGIF1:1.62534118894;SMAD1..7,9:1.54657403094;LMO2:1.50723076565;PRDM1:1.49534515136;MAFB:1.48356269459;DBP:1.43980199227;RFX1:1.43333626412;GFI1B:1.4172286927;NFIL3:1.39301303174;FOXM1:1.38616521839;ADNP_IRX_SIX_ZHX:1.37362898462;PAX4:1.31762027818;KLF4:1.26921259992;LHX3,4:1.24550877825;SOX2:1.22900097921;TFAP2{A,C}:1.21898528456;SPZ1:1.18702811909;PATZ1:1.17479473444;RFX2..5_RFXANK_RFXAP:1.17446516166;POU1F1:1.14125677016;PAX5:1.13470828637;TFDP1:1.12412921993;MAZ:1.10842961423;NRF1:1.08597603962;GZF1:1.07487300018;GTF2A1,2:1.05733065715;SREBF1,2:1.05318683844;PAX2:1.0310739305;FOXP1:1.02043322812;MYOD1:1.01946749116;NKX2-3_NKX2-5:0.997265753278;PAX8:0.986488536777;RORA:0.923921366056;NFE2L2:0.911504811099;NKX6-1,2:0.877019478228;EVI1:0.830654950516;HES1:0.827243326794;ZNF423:0.808709702568;HBP1_HMGB_SSRP1_UBTF:0.792728742551;ZNF143:0.77354480554;ZIC1..3:0.735021885679;BPTF:0.682313540281;CDC5L:0.66889274217;bHLH_family:0.657324947483;NR3C1:0.649486137606;LEF1_TCF7_TCF7L1,2:0.643132056517;FOXN1:0.622179767769;SOX{8,9,10}:0.616833142765;POU5F1:0.609316766442;FOX{F1,F2,J1}:0.602004096675;ALX1:0.595824017284;FOXA2:0.500008139881;HSF1,2:0.483609714898;TOPORS:0.444370336918;FOXQ1:0.389314688535;SOX5:0.350867175927;ZEB1:0.348565504126;TBX4,5:0.325201714463;YY1:0.289022054751;ZNF384:0.281911579893;FOSL2:0.267136946853;TFAP4:0.212942002748;TAL1_TCF{3,4,12}:0.15919768901;PPARG:0.146265136548;EP300:0.12866887931;SOX17:0.117965353005;ATF4:0.110420892368;MYBL2:0.094239814603;UFEwm:0.0813849824339;IKZF1:0.0647069548308;PDX1:0.0336415859968;IRF7:0.00975693704629;AIRE:0.00670036012021;TLX1..3_NFIC{dimer}:0.00273946266429;MEF2{A,B,C,D}:-0.000563091002124;CRX:-0.0149269644163;HOXA9_MEIS1:-0.0339221583884;HOX{A5,B5}:-0.0491777797081;FOXL1:-0.0752098779399;FOXP3:-0.0816003580047;GATA4:-0.0880552547533;CDX1,2,4:-0.10587822968;ZBTB16:-0.12604267053;EN1,2:-0.129891028312;ZNF148:-0.135749994668;GCM1,2:-0.162112801347;FOS_FOS{B,L1}_JUN{B,D}:-0.166617362191;HIF1A:-0.170723675152;TLX2:-0.183782191892;NFATC1..3:-0.197002312778;NFE2:-0.207133845758;ESRRA:-0.21768856473;STAT2,4,6:-0.226797822827;AR:-0.245243367571;GLI1..3:-0.265328617057;SNAI1..3:-0.312755912321;ONECUT1,2:-0.33631780675;SP1:-0.38953615787;ZNF238:-0.448487356264;NR5A1,2:-0.456527101885;ARID5B:-0.46516447085;NFY{A,B,C}:-0.474444350608;FOX{I1,J2}:-0.485212421027;ATF6:-0.498426528542;PAX1,9:-0.499292448607;HMX1:-0.523300059888;ESR1:-0.53041019669;STAT5{A,B}:-0.554170053972;EBF1:-0.619210806743;GFI1:-0.648915797357;ELK1,4_GABP{A,B1}:-0.662347836194;NKX2-1,4:-0.671105396402;XCPE1{core}:-0.681952192386;MYB:-0.780300821855;IRF1,2:-0.800583624783;NR6A1:-0.802631342892;POU2F1..3:-0.817161129726;SPI1:-0.817621073661;CEBPA,B_DDIT3:-0.82081345934;HNF1A:-0.87801786305;FOX{D1,D2}:-0.884770485679;HNF4A_NR2F1,2:-0.885877673087;RXR{A,B,G}:-0.886212608999;NFKB1_REL_RELA:-0.900626866452;RUNX1..3:-0.90519706849;BACH2:-0.911702638188;HLF:-0.923573179629;NFE2L1:-0.967382358489;TEAD1:-0.979531036221;NR1H4:-0.979745468994;GATA6:-0.987242159445;TFCP2:-1.01848617101;PITX1..3:-1.03049449263;NKX3-1:-1.05758189995;SPIB:-1.05810269244;TBP:-1.16964442494;IKZF2:-1.18615640229;RXRA_VDR{dimer}:-1.23792197095;ETS1,2:-1.24882551802;DMAP1_NCOR{1,2}_SMARC:-1.26494905331;FOXO1,3,4:-1.333898186;ELF1,2,4:-1.39816125033;NKX2-2,8:-1.39913966478;TP53:-1.51300331264;T:-1.52327359265;SRF:-1.5370202454;ALX4:-1.544699436;RXR{A,B,G}_{NR1H2,PPAR}dimers:-1.60209995587;E2F1..5:-1.62460918407;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-1.67856007995;NFIX:-2.65064672459 | |||
}} | }} |
Revision as of 15:20, 15 February 2012
Name: | olfactory brain, adult, biol_rep1 |
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Species: | Mouse (Mus musculus) |
Library ID: | {{{library_id}}} |
Sample type: | {{{sample_category}}} |
Genomic View: | UCSC |
CAGEd-oPOSSUM: | link |
ExpandAdditional information |
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ExpandDownload raw sequence, BAM & CTSS |
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Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed. <br>Analyst:NA <br><br>link to dataset.<br>data
CNhs10489
Repeat families with enriched expression in this sample<b>Summary:</b>Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed.<br><b>Analyst:</b>NA<br><br>link to dataset.<br>data
no result for this sample
TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample
JASPAR motifs<b>Summary:</b>Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data
library id: CNhs10489
FANTOM5 phase1 novel unique motifs<b>Summary:</b>Association of the 169 novel and unique motifs discovered in FANTOM5 phase1 in this sample. Among the de-novo motifs discovered by DMF, HOMER,ChIPMunk, and ScanAll, only novel motifs are selected after comparison with known motif sets, and their clustering based on MACRO-APE resulted in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data
library id: CNhs10489
de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br>
library id: CNhs10489
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
{{{is_a}}}
part_of relathionship
{{{part_of}}}
has_quality relathionship
{{{has_quality}}}
Ancestor terms (non development)<b>Summary:</b>Connected ontology terms with is_a, part_of or located_in relationship <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source data<br>data
UBERON: Anatomy
0000033 (head)
0000061 (anatomical structure)
0000073 (regional part of nervous system)
0000153 (anterior region of body)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000475 (organism subdivision)
0000479 (tissue)
0000480 (anatomical group)
0000481 (multi-tissue structure)
0000922 (embryo)
0000923 (germ layer)
0000924 (ectoderm)
0000955 (brain)
0001016 (nervous system)
0001017 (central nervous system)
0001062 (anatomical entity)
0002050 (embryonic structure)
0002532 (epiblast (generic))
0004121 (ectoderm-derived structure)
0005423 (developing anatomical structure)
0007023 (adult organism)
FF: FANTOM5
NA
Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
NA