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GSE53960: rat RNA-Seq transcriptomic Bodymap
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Results for Hcfc1_Six5_Smarcc2_Zfp143
Z-value: 2.43
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Transcription factors associated with Hcfc1_Six5_Smarcc2_Zfp143
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
| ENSRNOG00000051948 | host cell factor C1 | |
| ENSRNOG00000060146 | SIX homeobox 5 | |
| ENSRNOG00000031135 | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2 | |
| ENSRNOG00000010087 | zinc finger protein 143 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| Hcfc1 | rn6_v1_chrX_+_156812064_156812064 | 0.38 | 3.8e-12 | Click! |
| Zfp143 | rn6_v1_chr1_+_174702373_174702373 | 0.26 | 1.7e-06 | Click! |
| Smarcc2 | rn6_v1_chr7_+_2875909_2875909 | 0.24 | 1.0e-05 | Click! |
| Six5 | rn6_v1_chr1_+_80000165_80000165 | -0.04 | 4.6e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr3_-_143063983 Show fit | 37.15 |
ENSRNOT00000006329
|
NSF attachment protein beta |
|
| chr4_-_61573003 Show fit | 32.83 |
ENSRNOT00000012179
|
solute carrier family 35 member B4 |
|
| chr14_-_80169431 Show fit | 31.32 |
ENSRNOT00000079769
ENSRNOT00000058315 |
actin binding LIM protein family, member 2 |
|
| chr15_-_4454958 Show fit | 29.91 |
ENSRNOT00000070933
|
nudix hydrolase 13 |
|
| chr1_-_226255886 Show fit | 28.30 |
ENSRNOT00000027842
|
flap structure-specific endonuclease 1 |
|
| chr7_+_117417687 Show fit | 27.28 |
ENSRNOT00000018240
|
MAF1 homolog, negative regulator of RNA polymerase III |
|
| chr11_+_84396033 Show fit | 26.67 |
ENSRNOT00000002316
|
ATP binding cassette subfamily C member 5 |
|
| chr7_-_12429897 Show fit | 23.80 |
ENSRNOT00000020670
|
ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit |
|
| chr6_+_99883959 Show fit | 23.09 |
ENSRNOT00000010588
|
farnesyltransferase, CAAX box, beta |
|
| chr16_+_36116258 Show fit | 22.40 |
ENSRNOT00000017652
|
Sin3A associated protein 30 |
Network of associatons between targets according to the STRING database.
First level regulatory network of Hcfc1_Six5_Smarcc2_Zfp143
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 122.0 | GO:0006355 | regulation of transcription, DNA-templated(GO:0006355) |
| 1.9 | 44.7 | GO:0060236 | regulation of mitotic spindle organization(GO:0060236) |
| 7.4 | 44.3 | GO:0033567 | DNA replication, Okazaki fragment processing(GO:0033567) |
| 0.3 | 40.4 | GO:0000375 | RNA splicing, via transesterification reactions(GO:0000375) |
| 9.3 | 37.2 | GO:0035494 | SNARE complex disassembly(GO:0035494) |
| 10.9 | 32.8 | GO:0090481 | pyrimidine nucleotide-sugar transmembrane transport(GO:0090481) |
| 4.6 | 32.4 | GO:0032074 | negative regulation of nuclease activity(GO:0032074) |
| 0.1 | 28.6 | GO:0015711 | organic anion transport(GO:0015711) |
| 0.3 | 28.4 | GO:0030518 | intracellular steroid hormone receptor signaling pathway(GO:0030518) |
| 9.1 | 27.3 | GO:0016480 | negative regulation of transcription from RNA polymerase III promoter(GO:0016480) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 94.2 | GO:0005730 | nucleolus(GO:0005730) |
| 0.2 | 55.5 | GO:0005743 | mitochondrial inner membrane(GO:0005743) |
| 0.2 | 55.1 | GO:0005874 | microtubule(GO:0005874) |
| 0.4 | 49.4 | GO:0000784 | nuclear chromosome, telomeric region(GO:0000784) |
| 0.8 | 48.6 | GO:0000315 | organellar large ribosomal subunit(GO:0000315) mitochondrial large ribosomal subunit(GO:0005762) |
| 0.0 | 41.9 | GO:0005634 | nucleus(GO:0005634) |
| 1.1 | 40.6 | GO:0035861 | site of double-strand break(GO:0035861) |
| 0.8 | 39.3 | GO:0030173 | integral component of Golgi membrane(GO:0030173) |
| 0.2 | 37.6 | GO:0030016 | myofibril(GO:0030016) |
| 6.2 | 37.2 | GO:0070044 | synaptobrevin 2-SNAP-25-syntaxin-1a complex(GO:0070044) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 160.4 | GO:0003676 | nucleic acid binding(GO:0003676) |
| 0.1 | 76.7 | GO:0003700 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.2 | 55.0 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.4 | 43.7 | GO:0042626 | ATPase activity, coupled to transmembrane movement of substances(GO:0042626) |
| 12.4 | 37.2 | GO:0005483 | soluble NSF attachment protein activity(GO:0005483) |
| 8.2 | 32.8 | GO:0015165 | pyrimidine nucleotide-sugar transmembrane transporter activity(GO:0015165) |
| 1.1 | 32.5 | GO:0044183 | protein binding involved in protein folding(GO:0044183) |
| 1.8 | 29.8 | GO:0004467 | long-chain fatty acid-CoA ligase activity(GO:0004467) |
| 1.5 | 29.5 | GO:0046933 | proton-transporting ATP synthase activity, rotational mechanism(GO:0046933) |
| 1.8 | 29.0 | GO:0051400 | BH domain binding(GO:0051400) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.0 | 44.5 | PID PI3KCI AKT PATHWAY | Class I PI3K signaling events mediated by Akt |
| 0.7 | 35.7 | PID ERBB1 INTERNALIZATION PATHWAY | Internalization of ErbB1 |
| 0.9 | 34.4 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.5 | 32.8 | PID HDAC CLASSI PATHWAY | Signaling events mediated by HDAC Class I |
| 2.5 | 32.7 | PID P38 GAMMA DELTA PATHWAY | Signaling mediated by p38-gamma and p38-delta |
| 0.6 | 26.1 | PID ATR PATHWAY | ATR signaling pathway |
| 0.7 | 24.8 | PID FOXM1 PATHWAY | FOXM1 transcription factor network |
| 0.7 | 22.8 | PID LIS1 PATHWAY | Lissencephaly gene (LIS1) in neuronal migration and development |
| 0.6 | 22.5 | PID AURORA B PATHWAY | Aurora B signaling |
| 1.2 | 21.8 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.9 | 66.6 | REACTOME TRANSPORT OF VITAMINS NUCLEOSIDES AND RELATED MOLECULES | Genes involved in Transport of vitamins, nucleosides, and related molecules |
| 1.0 | 66.4 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.5 | 61.6 | REACTOME PROCESSING OF CAPPED INTRON CONTAINING PRE MRNA | Genes involved in Processing of Capped Intron-Containing Pre-mRNA |
| 2.8 | 53.7 | REACTOME PROCESSIVE SYNTHESIS ON THE LAGGING STRAND | Genes involved in Processive synthesis on the lagging strand |
| 0.6 | 51.0 | REACTOME MITOTIC PROMETAPHASE | Genes involved in Mitotic Prometaphase |
| 2.5 | 46.8 | REACTOME INHIBITION OF THE PROTEOLYTIC ACTIVITY OF APC C REQUIRED FOR THE ONSET OF ANAPHASE BY MITOTIC SPINDLE CHECKPOINT COMPONENTS | Genes involved in Inhibition of the proteolytic activity of APC/C required for the onset of anaphase by mitotic spindle checkpoint components |
| 2.0 | 31.5 | REACTOME FORMATION OF ATP BY CHEMIOSMOTIC COUPLING | Genes involved in Formation of ATP by chemiosmotic coupling |
| 1.4 | 26.7 | REACTOME HYALURONAN METABOLISM | Genes involved in Hyaluronan metabolism |
| 0.4 | 25.7 | REACTOME APOPTOTIC EXECUTION PHASE | Genes involved in Apoptotic execution phase |
| 2.3 | 24.8 | REACTOME APOPTOSIS INDUCED DNA FRAGMENTATION | Genes involved in Apoptosis induced DNA fragmentation |