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ENCODE: ATAC-seq of different tissues during embryonic development
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CREMA is a free online tool that recognizes most
important transcription factors that change the chromatin
state across different samples.
Results for Hnf1b
Z-value: 23.65
Motif logo
Correlations of motif activity and signal intensity at CREs associated with the motif's TFs:
This plot shows correlation between observed signal intensity of a CRE associated with the transcription factor across all samples and activity of the motif.
For each TF, only the top 5 correlated CREs are shown.
| CRE | Gene | Distance | Association probability | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|---|---|
| Hnf1b | chr11_83850510_83850886 | 157 | 0.912912 | 0.85 | 2.4e-16 | Click! |
| Hnf1b | chr11_83852874_83853122 | 38 | 0.966988 | 0.81 | 4.9e-14 | Click! |
| Hnf1b | chr11_83852648_83852819 | 227 | 0.904559 | 0.81 | 1.2e-13 | Click! |
| Hnf1b | chr11_83885322_83885481 | 32441 | 0.117744 | 0.80 | 2.2e-13 | Click! |
| Hnf1b | chr11_83852004_83852325 | 78 | 0.959214 | 0.77 | 4.9e-12 | Click! |
Showing 1 to 5 of 5 entries
Top target CREs of the motif:
| Cis Regulatory Element (CRE) | Target Score | Top associated gene | Gene Info | Distance of CRE to TSS | CRE/Gene association probability |
|---|---|---|---|---|---|
| chr8_20817574_20818579 | 247.83 |
Gm20946 |
predicted gene, 20946 |
10277 |
0.15 |
| chr12_24686000_24686681 | 213.67 |
Cys1 |
cystin 1 |
4527 |
0.16 |
| chr8_33987076_33987405 | 213.07 |
Gm45817 |
predicted gene 45817 |
40 |
0.96 |
| chr8_20024336_20025030 | 206.86 |
Gm45754 |
predicted gene 45754 |
5272 |
0.19 |
| chr8_19719087_19719899 | 201.29 |
Gm7760 |
predicted gene 7760 |
7788 |
0.16 |
| chr10_80975511_80975708 | 147.93 |
Gm3828 |
predicted gene 3828 |
20899 |
0.08 |
| chr17_84156966_84157484 | 145.77 |
Gm19696 |
predicted gene, 19696 |
785 |
0.6 |
| chr17_83999191_83999431 | 142.12 |
8430430B14Rik |
RIKEN cDNA 8430430B14 gene |
757 |
0.52 |
| chr19_43767999_43768210 | 140.04 |
Cutc |
cutC copper transporter |
3231 |
0.18 |
| chr2_119566179_119566455 | 134.27 |
Chp1 |
calcineurin-like EF hand protein 1 |
288 |
0.85 |
Histogram of CRE-TSS distances for CREs targeted by :
Rank distribution of CRE target scores:
Distribution of target CREs across different genomic regions:
Network of associatons between targets according to the STRING database.
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 7.2 | 223.1 | GO:0006805 | xenobiotic metabolic process(GO:0006805) |
| 64.2 | 192.6 | GO:0016554 | cytidine to uridine editing(GO:0016554) |
| 2.6 | 180.3 | GO:0035023 | regulation of Rho protein signal transduction(GO:0035023) |
| 3.4 | 175.0 | GO:0035725 | sodium ion transmembrane transport(GO:0035725) |
| 1.2 | 143.0 | GO:0007018 | microtubule-based movement(GO:0007018) |
| 0.8 | 140.2 | GO:0006397 | mRNA processing(GO:0006397) |
| 0.3 | 134.9 | GO:0006508 | proteolysis(GO:0006508) |
| 1.5 | 130.2 | GO:0007596 | blood coagulation(GO:0007596) |
| 32.0 | 128.0 | GO:0042524 | negative regulation of tyrosine phosphorylation of Stat5 protein(GO:0042524) |
| 29.9 | 119.8 | GO:0032417 | positive regulation of sodium:proton antiporter activity(GO:0032417) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.8 | 3155.2 | GO:0070062 | extracellular exosome(GO:0070062) |
| 0.9 | 2117.1 | GO:0005737 | cytoplasm(GO:0005737) |
| 1.2 | 1245.0 | GO:0005654 | nucleoplasm(GO:0005654) |
| 0.8 | 793.6 | GO:0043231 | intracellular membrane-bounded organelle(GO:0043231) |
| 0.8 | 711.0 | GO:0005576 | extracellular region(GO:0005576) |
| 3.3 | 710.0 | GO:0016324 | apical plasma membrane(GO:0016324) |
| 0.4 | 665.6 | GO:0016020 | membrane(GO:0016020) |
| 2.0 | 592.5 | GO:0005667 | transcription factor complex(GO:0005667) |
| 1.0 | 585.1 | GO:0005783 | endoplasmic reticulum(GO:0005783) |
| 0.9 | 523.6 | GO:0005739 | mitochondrion(GO:0005739) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.3 | 692.6 | GO:0008270 | zinc ion binding(GO:0008270) |
| 1.0 | 670.3 | GO:0044822 | poly(A) RNA binding(GO:0044822) |
| 0.4 | 593.1 | GO:0005515 | protein binding(GO:0005515) |
| 3.8 | 424.3 | GO:0003774 | motor activity(GO:0003774) |
| 1.8 | 326.3 | GO:0005096 | GTPase activator activity(GO:0005096) |
| 1.3 | 280.4 | GO:0046982 | protein heterodimerization activity(GO:0046982) |
| 1.4 | 273.6 | GO:0019904 | protein domain specific binding(GO:0019904) |
| 0.5 | 242.5 | GO:0003677 | DNA binding(GO:0003677) |
| 14.0 | 210.6 | GO:0016290 | palmitoyl-CoA hydrolase activity(GO:0016290) |
| 0.4 | 191.6 | GO:0004930 | G-protein coupled receptor activity(GO:0004930) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 10.5 | 462.8 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 6.0 | 322.9 | PID HIF1 TFPATHWAY | HIF-1-alpha transcription factor network |
| 1.5 | 281.5 | NABA ECM REGULATORS | Genes encoding enzymes and their regulators involved in the remodeling of the extracellular matrix |
| 7.3 | 189.3 | PID RXR VDR PATHWAY | RXR and RAR heterodimerization with other nuclear receptor |
| 1.4 | 180.8 | NABA ECM AFFILIATED | Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins |
| 1.3 | 180.7 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 4.5 | 176.7 | PID ECADHERIN STABILIZATION PATHWAY | Stabilization and expansion of the E-cadherin adherens junction |
| 0.8 | 170.3 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 3.4 | 167.8 | PID MET PATHWAY | Signaling events mediated by Hepatocyte Growth Factor Receptor (c-Met) |
| 3.8 | 150.0 | PID INTEGRIN3 PATHWAY | Beta3 integrin cell surface interactions |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 14.1 | 408.3 | REACTOME REGULATION OF BETA CELL DEVELOPMENT | Genes involved in Regulation of beta-cell development |
| 3.3 | 330.5 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 8.1 | 242.8 | REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE | Genes involved in Amino acid transport across the plasma membrane |
| 1.7 | 216.6 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 3.0 | 212.3 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 2.2 | 210.6 | REACTOME MRNA PROCESSING | Genes involved in mRNA Processing |
| 0.9 | 202.2 | REACTOME CLASS A1 RHODOPSIN LIKE RECEPTORS | Genes involved in Class A/1 (Rhodopsin-like receptors) |
| 8.9 | 160.8 | REACTOME SYNTHESIS OF PC | Genes involved in Synthesis of PC |
| 2.8 | 154.6 | REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2 | Genes involved in Response to elevated platelet cytosolic Ca2+ |
| 1.2 | 142.3 | REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION | Genes involved in Class I MHC mediated antigen processing & presentation |