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[[Category:FF_Ontology]]
[[Category:FF_Samples]]

Revision as of 13:59, 17 July 2012

Name:{{{name}}}
Species:{{{sample_species}}}
Genomic View:zenbu , UCSC




Homer de novo Motif Results for CNhs10632_vs_median_8-fold_up-300+50merged

P-value threshold: 1e-15
Matrix similarity threshold: 0.75
Information content threshold: 1.5
Minimum target frequency: 50
Minimum background percentage: -1
Total target sequences = 5327
Total background sequences = 43180

RankMotif (click to see PWM)Target hitsBackgroundP-valueBest Match/Details (click for detailed info)
1 9.14% 1.14%1e-264JUN.p2.SwissRegulon.nucfreq
2 11.38% 2.45%1e-209SOX10_si_HM09
3 7.12% 1.28%1e-153RFX1..5_RFXANK_RFXAP.p2.SwissRegulon.nucfreq
4 14.68% 5.34%1e-140CREB1_f1_HM09
5 60.12% 44.92%1e-109NFYA_f1_HM09
6 14.49% 6.31%1e-99BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer
7 26.46% 15.18%1e-98E4F1_f1_HM09
8 15.02% 7.77%1e-69RFX1_f1_HM09
9 25.03% 15.74%1e-67SP1_f1_HM09
10 5.73% 2.01%1e-55ATF1_si_HM09
11 5.88% 2.10%1e-55NFYB_f1_HM09
12 11.43% 5.88%1e-52NRF1(NRF)/MCF7-NRF1-ChIP-Seq/Homer
13 14.31% 8.32%1e-47ATF5_CREB3.p2.SwissRegulon.nucfreq
14 4.98% 1.78%1e-46RFX2_f1_HM09
15 65.83% 56.15%1e-46MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer
16 5.01% 1.87%1e-44Rfx1(HTH)/NPC-Rfx1-ChIP-Seq/Homer
17 45.42% 36.08%1e-43ATF3_f1_HM09
18 3.57% 1.10%1e-41ATF2.p2.SwissRegulon.nucfreq
19 42.47% 33.66%1e-40PRDM14(Zf)/H1-PRDM14-ChIP-Seq/Homer
20 13.91% 8.44%1e-39ELK1_f1_HM09
21 8.04% 4.06%1e-38MYB.p2.SwissRegulon.nucfreq
22 43.56% 35.32%1e-34E2F5_do_HM09
23 51.05% 42.61%1e-34CDX1_f1_HM09
24 29.05% 22.01%1e-32ELF1(ETS)/Jurkat-ELF1-ChIP-Seq/Homer
25 4.41% 1.84%1e-31BATF_si_HM09
26 9.31% 5.37%1e-30MAFG_si_HM09
27 24.69% 18.41%1e-29HBP1_HMGB_SSRP1_UBTF.p2.SwissRegulon.nucfreq
28 25.03% 18.78%1e-28BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer
29 18.64% 13.45%1e-25ZBTB33/GM12878-ZBTB33-ChIP-Seq/Homer
30 25.25% 19.53%1e-23E2F(E2F)/Cell-Cycle-Exp/Homer
31 22.64% 17.33%1e-22MYB_f1_HM09
32 48.33% 41.62%1e-22SPIB.p2.SwissRegulon.nucfreq
33 5.91% 3.25%1e-22MYB.p2.SwissRegulon.nucfreq
34 1.69% 0.49%1e-22HSF2_si_HM09
35 87.66% 82.97%1e-20Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq/Homer
36 12.20% 8.41%1e-20NRF1.p2.SwissRegulon.nucfreq
37 49.36% 42.96%1e-20TGIF1_f1_HM09
38 1.88% 0.62%1e-20CREB1_f1_HM09
39 3.76% 1.81%1e-20ETS:E-box/HPC7-Scl-ChIP-Seq/Homer
40 13.67% 9.71%1e-19PRGR_f1_HM09
41 9.01% 5.88%1e-19ZBT7B_si_HM09
42 50.54% 44.43%1e-18TBP.p2.SwissRegulon.nucfreq
43 3.32% 1.60%1e-18ELF1(ETS)/Jurkat-ELF1-ChIP-Seq/Homer
44 59.59% 53.74%1e-17ISL1_f1_HM09
45 5.43% 3.16%1e-17SRBP2_f1_HM09
46 2.97% 1.41%1e-16NFY{A,B,C}.p2.SwissRegulon.nucfreq


Details

Transcriptome profiling

hCAGE {{{profile_hcage}}}
RNA-seq {{{profile_rnaseq}}}
smallRNA seq {{{profile_srnaseq}}}
nanoCAGEscan {{{profile_cagescan}}}

Sample info

strain {{{sample_strain}}}
tissue {{{sample_tissue}}}
dev_stage {{{sample_dev_stage}}}
sex {{{sample_sex}}}
age {{{sample_age}}}
ethnicity {{{sample_ethnicity}}}
cell_type {{{sample_cell_type}}}
cell_line {{{sample_cell_line}}}
collaboration {{{sample_collaboration}}}
Experimental condition{{{sample_experimental_condition}}}
disease {{{sample_disease}}}
cell_lot {{{sample_cell_lot}}}
cell_catalog {{{sample_cell_catalog}}}
company {{{sample_company}}}
donor(cell lot) {{{sample_donor(cell lot)}}}
Note {{{sample_note}}}


RNA info

sample_id {{{sample_id}}}
tube_id {{{rna_tube_id}}}
box {{{rna_box}}}
position {{{rna_position}}}
lot_number {{{rna_lot_number}}}
catalog_number {{{rna_catalog_number}}}
RIN {{{rna_rin}}}
OD260/230 {{{rna_od260/230}}}
OD260/280 {{{rna_od260/280}}}
sample_type {{{rna_sample_type}}}
extraction_protocol {{{rna_extraction_protocol}}}
weight_ug {{{rna_weight_ug}}}
concentration{{{rna_concentration}}}

Parent ontology

is_a relathionship
{{{is_a}}}

part_of relathionship
{{{part_of}}}

has_quality relathionship
{{{has_quality}}}

Ancestors in FF ontology

AnatomyCell type Disease

UBERON:

CL:

Property "Ancestors in disease facet" (as page type) with input value "{{{ancestors_in_disease_facet}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.DOID: