BP

GO:0000122

negative regulation of transcription from RNA polymerase II promoter

Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.

IDA

BP

GO:0001666

response to hypoxia

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.

IDA

BP

GO:0001756

somitogenesis

The formation of mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo.

IEA

BP

GO:0002223

stimulatory C-type lectin receptor signaling pathway

Any series of molecular signals generated as a consequence of binding to a C-type lectin receptor capable of cellular activation.

TAS

BP

GO:0006283

transcription-coupled nucleotide-excision repair

The nucleotide-excision repair process that carries out preferential repair of DNA lesions on the actively transcribed strand of the DNA duplex. In addition, the transcription-coupled nucleotide-excision repair pathway is required for the recognition and repair of a small subset of lesions that are not recognized by the global genome nucleotide excision repair pathway.

TAS

BP

GO:0006355

regulation of transcription, DNA-templated

Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.

IDA

BP

GO:0006366

transcription from RNA polymerase II promoter

The synthesis of RNA from a DNA template by RNA polymerase II, originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs).

IEA

BP

GO:0006473

protein acetylation

The addition of an acetyl group to a protein amino acid. An acetyl group is CH3CO-, derived from acetic [ethanoic] acid.

IDA|TAS

BP

GO:0006475

internal protein amino acid acetylation

The addition of an acetyl group to a non-terminal amino acid in a protein.

IDA

BP

GO:0006915

apoptotic process

A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.

IMP

BP

GO:0006977

DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest

A cascade of processes induced by the cell cycle regulator phosphoprotein p53, or an equivalent protein, in response to the detection of DNA damage and resulting in the stopping or reduction in rate of the cell cycle.

TAS

BP

GO:0006990

positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response

The activation of genes whose promoters contain a specific sequence elements such as the unfolded protein response element (UPRE; consensus CAGCGTG) or the ER stress-response element (ERSE; CCAAN(N)9CCACG), as a result of signaling via the unfolded protein response.

ISS

BP

GO:0007219

Notch signaling pathway

A series of molecular signals initiated by the binding of an extracellular ligand to the receptor Notch on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.

TAS

BP

GO:0007399

nervous system development

The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state.

TAS

BP

GO:0007507

heart development

The process whose specific outcome is the progression of the heart over time, from its formation to the mature structure. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood.

IEA

BP

GO:0007519

skeletal muscle tissue development

The developmental sequence of events leading to the formation of adult skeletal muscle tissue. The main events are: the fusion of myoblasts to form myotubes that increase in size by further fusion to them of myoblasts, the formation of myofibrils within their cytoplasm and the establishment of functional neuromuscular junctions with motor neurons. At this stage they can be regarded as mature muscle fibers.

IEA

BP

GO:0007623

circadian rhythm

Any biological process in an organism that recurs with a regularity of approximately 24 hours.

ISS

BP

GO:0009887

animal organ morphogenesis

Morphogenesis of an animal organ. An organ is defined as a tissue or set of tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions.

IEA

BP

GO:0010506

regulation of autophagy

Any process that modulates the frequency, rate or extent of autophagy. Autophagy is the process in which cells digest parts of their own cytoplasm.

TAS

BP

GO:0010742

macrophage derived foam cell differentiation

The process in which a monocyte acquires the specialized features of a foam cell. A foam cell is a type of cell containing lipids in small vacuoles and typically seen in atherosclerotic lesions, as well as other conditions.

IDA

BP

GO:0016032

viral process

A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.

IEA

BP

GO:0018076

N-terminal peptidyl-lysine acetylation

The acetylation of the N-terminal lysine of proteins.

IDA

BP

GO:0018393

internal peptidyl-lysine acetylation

The addition of an acetyl group to a non-terminal lysine residue in a protein.

IDA

BP

GO:0030183

B cell differentiation

The process in which a precursor cell type acquires the specialized features of a B cell. A B cell is a lymphocyte of B lineage with the phenotype CD19-positive and capable of B cell mediated immunity.

IEA

BP

GO:0030220

platelet formation

The process in which platelets bud from long processes extended by megakaryocytes.

IEA

BP

GO:0030324

lung development

The process whose specific outcome is the progression of the lung over time, from its formation to the mature structure. In all air-breathing vertebrates the lungs are developed from the ventral wall of the oesophagus as a pouch which divides into two sacs. In amphibians and many reptiles the lungs retain very nearly this primitive sac-like character, but in the higher forms the connection with the esophagus becomes elongated into the windpipe and the inner walls of the sacs become more and more divided, until, in the mammals, the air spaces become minutely divided into tubes ending in small air cells, in the walls of which the blood circulates in a fine network of capillaries. In mammals the lungs are more or less divided into lobes, and each lung occupies a separate cavity in the thorax.

IEA

BP

GO:0032092

positive regulation of protein binding

Any process that activates or increases the frequency, rate or extent of protein binding.

IEA

BP

GO:0032481

positive regulation of type I interferon production

Any process that activates or increases the frequency, rate, or extent of type I interferon production. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families.

TAS

BP

GO:0034644

cellular response to UV

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers.

IDA

BP

GO:0035855

megakaryocyte development

The process whose specific outcome is the progression of a megakaryocyte cell over time, from its formation to the mature structure. Megakaryocyte development does not include the steps involved in committing a cell to a megakaryocyte fate. A megakaryocyte is a giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow.

IEA

BP

GO:0042771

intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator

A series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway is induced by the cell cycle regulator phosphoprotein p53, or an equivalent protein, in response to the detection of DNA damage, and ends when the execution phase of apoptosis is triggered.

IDA

BP

GO:0043627

response to estrogen

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by an estrogen, C18 steroid hormones that can stimulate the development of female sexual characteristics.

IDA

BP

GO:0043923

positive regulation by host of viral transcription

Any process in which a host organism activates or increases the frequency, rate or extent of viral transcription, the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

IDA

BP

GO:0043967

histone H4 acetylation

The modification of histone H4 by the addition of an acetyl group.

IMP

BP

GO:0043969

histone H2B acetylation

The modification of histone H2B by the addition of an acetyl group.

IDA

BP

GO:0045444

fat cell differentiation

The process in which a relatively unspecialized cell acquires specialized features of an adipocyte, an animal connective tissue cell specialized for the synthesis and storage of fat.

ISS

BP

GO:0045815

positive regulation of gene expression, epigenetic

Any epigenetic process that activates or increases the rate of gene expression.

TAS

BP

GO:0045944

positive regulation of transcription from RNA polymerase II promoter

Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.

IDA|IMP

BP

GO:0050821

protein stabilization

Any process involved in maintaining the structure and integrity of a protein and preventing it from degradation or aggregation.

ISS

BP

GO:0051091

positive regulation of sequence-specific DNA binding transcription factor activity

Any process that activates or increases the frequency, rate or extent of activity of a transcription factor, any factor involved in the initiation or regulation of transcription.

IDA

BP

GO:0051726

regulation of cell cycle

Any process that modulates the rate or extent of progression through the cell cycle.

TAS

BP

GO:0060765

regulation of androgen receptor signaling pathway

Any process that modulates the rate, frequency, or extent of the androgen receptor signaling pathway.

IDA

BP

GO:0061418

regulation of transcription from RNA polymerase II promoter in response to hypoxia

Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of a hypoxia stimulus.

TAS

BP

GO:0090043

regulation of tubulin deacetylation

Any process that modulates the frequency, rate or extent of tubulin deacetylation. Tubulin deacetylation is the removal of an acetyl group from a protein amino acid.

IDA

BP

GO:1900034

regulation of cellular response to heat

Any process that modulates the frequency, rate or extent of cellular response to heat.

TAS

BP

GO:1901796

regulation of signal transduction by p53 class mediator

Any process that modulates the frequency, rate or extent of signal transduction by p53 class mediator.

TAS

BP

GO:1904837

beta-catenin-TCF complex assembly

The aggregation, arrangement and bonding together of a set of components to form a beta-catenin-TCF complex.

TAS

CC

GO:0000123

histone acetyltransferase complex

A protein complex that possesses histone acetyltransferase activity.

IEA

CC

GO:0005634

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.

IDA

CC

GO:0005654

nucleoplasm

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

IDA|TAS

CC

GO:0005667

transcription factor complex

A protein complex that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription.

IEA

CC

GO:0005737

cytoplasm

All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

IDA

MF

GO:0000979

RNA polymerase II core promoter sequence-specific DNA binding

Interacting selectively and non-covalently with the regulatory region composed of the transcription start site and binding sites for transcription factors of the RNA polymerase II basal transcription machinery.

IEA

MF

GO:0001047

core promoter binding

Interacting selectively and non-covalently with the regulatory region composed of the transcription start site and binding sites for the basal transcription machinery. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.

IDA

MF

GO:0001102

RNA polymerase II activating transcription factor binding

Interacting selectively and non-covalently with an RNA polymerase II transcription activating factor, a protein involved in positive regulation of transcription.

IPI

MF

GO:0001228

transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding

Interacting selectively and non-covalently with a sequence of DNA that is in the transcription regulatory region for RNA polymerase II (RNAP II) in order to activate or increase the frequency, rate or extent of transcription from the RNAP II promoter.

IEA

MF

GO:0002039

p53 binding

Interacting selectively and non-covalently with one of the p53 family of proteins.

IEA

MF

GO:0003677

DNA binding

Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

IDA

MF

GO:0003682

chromatin binding

Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.

IDA|IMP

MF

GO:0003684

damaged DNA binding

Interacting selectively and non-covalently with damaged DNA.

IDA

MF

GO:0003713

transcription coactivator activity

Interacting selectively and non-covalently with a activating transcription factor and also with the basal transcription machinery in order to increase the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between activating transcription factors and the basal transcription machinery.

IDA

MF

GO:0004402

histone acetyltransferase activity

Catalysis of the reaction: acetyl-CoA + histone = CoA + acetyl-histone.

IDA|TAS

MF

GO:0004468

lysine N-acetyltransferase activity, acting on acetyl phosphate as donor

Catalysis of the reaction: acetyl phosphate + L-lysine = phosphate + N6-acetyl-L-lysine.

IDA

MF

GO:0005515

protein binding

Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).

IPI

MF

GO:0008013

beta-catenin binding

Interacting selectively and non-covalently with the beta subunit of the catenin complex.

IPI

MF

GO:0008022

protein C-terminus binding

Interacting selectively and non-covalently with a protein C-terminus, the end of any peptide chain at which the 1-carboxy function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.

IDA

MF

GO:0008134

transcription factor binding

Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.

IPI

MF

GO:0008270

zinc ion binding

Interacting selectively and non-covalently with zinc (Zn) ions.

IEA

MF

GO:0016407

acetyltransferase activity

Catalysis of the transfer of an acetyl group to an acceptor molecule.

EXP|IDA|IMP

MF

GO:0016746

transferase activity, transferring acyl groups

Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).

IDA

MF

GO:0031490

chromatin DNA binding

Interacting selectively and non-covalently with DNA that is assembled into chromatin.

IEA

MF

GO:0033613

activating transcription factor binding

Interacting selectively and non-covalently with an activating transcription factor, any protein whose activity is required to initiate or upregulate transcription.

IPI

MF

GO:0034212

peptide N-acetyltransferase activity

Catalysis of the acetylation of an amino acid residue of a peptide or protein, according to the reaction: acetyl-CoA + peptide = CoA + N-acetylpeptide.

TAS

MF

GO:0035257

nuclear hormone receptor binding

Interacting selectively and non-covalently with a nuclear hormone receptor, a ligand-dependent receptor found in the nucleus of the cell.

IPI

MF

GO:0050681

androgen receptor binding

Interacting selectively and non-covalently with an androgen receptor.

IPI

MF

GO:0097157

pre-mRNA intronic binding

Interacting selectively and non-covalently with an intronic sequence of a pre-messenger RNA (pre-mRNA).

IEA