Previous module | Next module Module #9, TG: 3, TC: 2.8, 31 probes, 31 Entrez genes, 3 conditions

Help | Hide | Top Expression data


Expression data for module #9

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Under-expression is coded with green, over-expression with red color.

Help | Hide | Top The GO tree — Biological processes

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Help | Hide | Top The GO tree — Cellular Components

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intracellular

The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

cellular_component

The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

cell

The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

nucleus

A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

nucleoplasm

That part of the nuclear content other than the chromosomes or the nucleolus.

transcription factor complex

A protein complex, distinct from RNA polymerase, that associates with DNA at promoters or at cis-acting regulatory sequences, by direct binding or by interaction with other DNA-binding polypeptides or complexes, and regulates transcription.

transcription factor TFIID complex

A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II), TFIID is believed to recognize at least two distinct elements, the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters.

cytoskeleton

Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.

actin cytoskeleton

The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes.

DNA-directed RNA polymerase II, holoenzyme

Large protein complex composed of the RNA polymerase core complex and a variety of other proteins including transcription factor complexes TFIIA, D, E, F, and H which are required for promoter recognition, and the Mediator subcomplex. Catalyzes the synthesis of eukaryotic pre-mRNA.

membrane-enclosed lumen

The enclosed volume within a sealed membrane or between two sealed membranes. Encompasses the volume enclosed by the membranes of a particular organelle, e.g. endoplasmic reticulum lumen, or the space between the two lipid bilayers of a double membrane surrounding an organelle, e.g. nuclear envelope lumen.

nuclear lumen

The volume enclosed by the nuclear inner membrane.

macromolecular complex

A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which the constituent parts function together.

organelle

Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane.

membrane-bounded organelle

Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.

non-membrane-bounded organelle

Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes.

intracellular organelle

Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.

intracellular membrane-bounded organelle

Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.

intracellular non-membrane-bounded organelle

Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes, the cytoskeleton and chromosomes.

organelle lumen

The internal volume enclosed by the membranes of a particular organelle; includes the volume enclosed by a single organelle membrane, e.g. endoplasmic reticulum lumen, or the volume enclosed by the innermost of the two lipid bilayers of an organelle envelope, e.g. nuclear lumen.

protein complex

Any macromolecular complex composed of two or more polypeptide subunits, which may or may not be identical. Protein complexes may have other associated non-protein prosthetic groups, such as nucleotides, metal ions or other small molecules.

organelle part

Any constituent part of an organelle, an organized structure of distinctive morphology and function. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, but excludes the plasma membrane.

intracellular part

Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

nuclear part

Any constituent part of the nucleus, a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated.

intracellular organelle part

A constituent part of an intracellular organelle, an organized structure of distinctive morphology and function, occurring within the cell. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton but excludes the plasma membrane.

nucleoplasm part

Any constituent part of the nucleoplasm, that part of the nuclear content other than the chromosomes or the nucleolus.

cell part

Any constituent part of a cell, the basic structural and functional unit of all organisms.

intracellular organelle lumen

An organelle lumen that is part of an intracellular organelle.

all

NA

cell part

Any constituent part of a cell, the basic structural and functional unit of all organisms.

organelle part

Any constituent part of an organelle, an organized structure of distinctive morphology and function. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, but excludes the plasma membrane.

organelle lumen

The internal volume enclosed by the membranes of a particular organelle; includes the volume enclosed by a single organelle membrane, e.g. endoplasmic reticulum lumen, or the volume enclosed by the innermost of the two lipid bilayers of an organelle envelope, e.g. nuclear lumen.

intracellular membrane-bounded organelle

Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.

intracellular non-membrane-bounded organelle

Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes, the cytoskeleton and chromosomes.

intracellular organelle part

A constituent part of an intracellular organelle, an organized structure of distinctive morphology and function, occurring within the cell. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton but excludes the plasma membrane.

intracellular organelle lumen

An organelle lumen that is part of an intracellular organelle.

intracellular part

Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

intracellular organelle

Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane.

intracellular organelle part

A constituent part of an intracellular organelle, an organized structure of distinctive morphology and function, occurring within the cell. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton but excludes the plasma membrane.

transcription factor TFIID complex

A complex composed of TATA binding protein (TBP) and TBP associated factors (TAFs); the total mass is typically about 800 kDa. Most of the TAFs are conserved across species. In TATA-containing promoters for RNA polymerase II (Pol II), TFIID is believed to recognize at least two distinct elements, the TATA element and a downstream promoter element. TFIID is also involved in recognition of TATA-less Pol II promoters. Binding of TFIID to DNA is necessary but not sufficient for transcription initiation from most RNA polymerase II promoters.

nuclear lumen

The volume enclosed by the nuclear inner membrane.

nucleoplasm

That part of the nuclear content other than the chromosomes or the nucleolus.

nuclear part

Any constituent part of the nucleus, a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated.

nucleoplasm part

Any constituent part of the nucleoplasm, that part of the nuclear content other than the chromosomes or the nucleolus.

transcription factor complex

A protein complex, distinct from RNA polymerase, that associates with DNA at promoters or at cis-acting regulatory sequences, by direct binding or by interaction with other DNA-binding polypeptides or complexes, and regulates transcription.

DNA-directed RNA polymerase II, holoenzyme

Large protein complex composed of the RNA polymerase core complex and a variety of other proteins including transcription factor complexes TFIIA, D, E, F, and H which are required for promoter recognition, and the Mediator subcomplex. Catalyzes the synthesis of eukaryotic pre-mRNA.

Help | Hide | Top The GO tree — Molecular Function

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Help | Show | Top GO BP test for over-representation

Help | Show | Top GO CC test for over-representation

Help | Show | Top GO MF test for over-representation

Help | Hide | Top KEGG Pathway test for over-representation

No enriched terms

Help | Hide | Top miRNA test for over-representation

No enriched terms

Help | Hide | Top Chromosome test for over-representation

No enriched terms

Help | Hide | Top Genes

Entrez genes

ACAD9acyl-CoA dehydrogenase family, member 9 (ENSG00000177646), score: 0.61 ADAT1adenosine deaminase, tRNA-specific 1 (ENSG00000065457), score: 0.65 ADIPOQadiponectin, C1Q and collagen domain containing (ENSG00000181092), score: 0.64 APBB3amyloid beta (A4) precursor protein-binding, family B, member 3 (ENSG00000113108), score: -0.66 BEST3bestrophin 3 (ENSG00000127325), score: 0.65 C13orf39chromosome 13 open reading frame 39 (ENSG00000139780), score: 0.74 CA13carbonic anhydrase XIII (ENSG00000185015), score: 0.63 CD40LGCD40 ligand (ENSG00000102245), score: 0.61 CDCP2CUB domain containing protein 2 (ENSG00000157211), score: 1 CLEC3AC-type lectin domain family 3, member A (ENSG00000166509), score: 0.87 CMAScytidine monophosphate N-acetylneuraminic acid synthetase (ENSG00000111726), score: -0.65 CTTNBP2NLCTTNBP2 N-terminal like (ENSG00000143079), score: 0.59 F2RL2coagulation factor II (thrombin) receptor-like 2 (ENSG00000164220), score: 0.73 FAM109Bfamily with sequence similarity 109, member B (ENSG00000177096), score: 0.73 FGD6FYVE, RhoGEF and PH domain containing 6 (ENSG00000180263), score: 0.61 GALNT5UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 5 (GalNAc-T5) (ENSG00000136542), score: 0.7 IMPG2interphotoreceptor matrix proteoglycan 2 (ENSG00000081148), score: 0.67 LYPD6LY6/PLAUR domain containing 6 (ENSG00000187123), score: 0.67 MPLmyeloproliferative leukemia virus oncogene (ENSG00000117400), score: 0.66 MYOTmyotilin (ENSG00000120729), score: 0.62 NHSNance-Horan syndrome (congenital cataracts and dental anomalies) (ENSG00000188158), score: 0.6 OLFML2Aolfactomedin-like 2A (ENSG00000185585), score: 0.59 PANX3pannexin 3 (ENSG00000154143), score: 0.62 RAB8ARAB8A, member RAS oncogene family (ENSG00000167461), score: 0.72 RHAGRh-associated glycoprotein (ENSG00000112077), score: 0.87 SEPT2septin 2 (ENSG00000168385), score: -0.65 SLBPstem-loop binding protein (ENSG00000163950), score: -0.62 ST8SIA2ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 2 (ENSG00000140557), score: 0.61 SYDE2synapse defective 1, Rho GTPase, homolog 2 (C. elegans) (ENSG00000097096), score: 0.62 TAF3TAF3 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 140kDa (ENSG00000165632), score: 0.6 TAF5TAF5 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 100kDa (ENSG00000148835), score: 0.6

Non-Entrez genes

Unknown, score:

Help | Hide | Top Conditions

Id species tissue sex individual
gga_kd_m_ca1 gga kd m _
gga_ht_f_ca1 gga ht f _
gga_ht_m_ca1 gga ht m _

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