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MAPKKK cascade

Cascade of at least three protein kinase activities culminating in the phosphorylation and activation of a MAP kinase. MAPKKK cascades lie downstream of numerous signaling pathways.

skeletal system development

The process whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure. The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton).

ossification

The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance.

metabolic process

The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

osteoblast differentiation

The process whereby a relatively unspecialized cell acquires the specialized features of an osteoblast, the mesodermal cell that gives rise to bone.

regulation of protein amino acid phosphorylation

Any process that modulates the frequency, rate or extent of addition of phosphate groups into an amino acid in a protein.

positive regulation of protein amino acid phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein.

signal transduction

The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately effecting a change in the functioning of the cell.

nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

The chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

transcription

The synthesis of either RNA on a template of DNA or DNA on a template of RNA.

transcription, DNA-dependent

The synthesis of RNA on a template of DNA.

regulation of transcription, DNA-dependent

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

regulation of transcription from RNA polymerase II promoter

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

transcription from RNA polymerase II promoter

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

protein modification process

The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).

protein amino acid phosphorylation

The process of introducing a phosphate group on to a protein.

phosphorus metabolic process

The chemical reactions and pathways involving the nonmetallic element phosphorus or compounds that contain phosphorus, usually in the form of a phosphate group (PO4).

phosphate metabolic process

The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid.

cell communication

Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment.

intracellular signaling cascade

A series of reactions within the cell that occur as a result of a single trigger reaction or compound.

protein kinase cascade

A series of reactions, mediated by protein kinases, which occurs as a result of a single trigger reaction or compound.

cell-cell signaling

Any process that mediates the transfer of information from one cell to another.

multicellular organismal development

The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

behavior

The specific actions or reactions of an organism in response to external or internal stimuli. Patterned activity of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions.

biological_process

Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.

biosynthetic process

The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

macromolecule biosynthetic process

The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

response to external stimulus

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 an external stimulus.

regulation of biosynthetic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances.

positive regulation of biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances.

positive regulation of metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.

regulation of signal transduction

Any process that modulates the frequency, rate or extent of signal transduction.

cellular process

Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.

gene expression

The process by which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.

regulation of gene expression

Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.

regulation of macromolecule biosynthetic process

Any process that modulates the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of macromolecule biosynthetic process

Any process that increases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of phosphorus metabolic process

Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus.

positive regulation of macromolecule metabolic process

Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of gene expression

Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.

regulation of cell communication

Any process that modulates the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment.

RNA metabolic process

The chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.

positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

phosphorylation

The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

peptidyl-serine phosphorylation

The posttranslational phosphorylation of peptidyl-serine to form peptidyl-O-phospho-L-serine.

peptidyl-tyrosine phosphorylation

The posttranslational phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.

peptidyl-amino acid modification

The alteration of an amino acid residue in a peptide.

peptidyl-serine modification

The modification of peptidyl-serine.

peptidyl-tyrosine modification

The modification of peptidyl-tyrosine.

regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

regulation of phosphate metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates.

regulation of metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.

protein metabolic process

The chemical reactions and pathways involving a specific protein, rather than of proteins in general. Includes protein modification.

cell differentiation

The process whereby relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate.

regulation of ossification

Any process that modulates the frequency, rate or extent of bone formation.

regulation of cellular metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

positive regulation of cellular metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

regulation of cellular biosynthetic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

positive regulation of cellular biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

regulation of protein modification process

Any process that modulates the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.

positive regulation of protein modification process

Any process that activates or increases the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.

regulation of cellular protein metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

positive regulation of cellular protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

multicellular organismal process

Any biological process, occurring at the level of a multicellular organism, pertinent to its function.

developmental process

A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition.

RNA biosynthetic process

The chemical reactions and pathways resulting in the formation of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers.

regulation of peptidyl-serine phosphorylation

Any process that modulates the frequency, rate or extent of the phosphorylation of peptidyl-serine.

positive regulation of peptidyl-serine phosphorylation

Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-serine.

regulation of tissue remodeling

Any process that modulates the frequency, rate, or extent of tissue remodeling.

cellular macromolecule biosynthetic process

The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells.

cellular biopolymer metabolic process

The chemical reactions and pathways involving biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins, as carried out by individual cells.

cellular biopolymer biosynthetic process

The chemical reactions and pathways resulting in the formation of biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins, as carried out by individual cells.

regulation of phosphorylation

Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule.

positive regulation of phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule.

macromolecule metabolic process

The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

biopolymer metabolic process

The chemical reactions and pathways involving biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins.

biopolymer biosynthetic process

The chemical reactions and pathways resulting in the formation of biopolymers, long, repeating chains of monomers found in nature e.g. polysaccharides and proteins.

biopolymer modification

The covalent alteration of one or more monomeric units in a polypeptide, polynucleotide, polysaccharide, or other biological polymer, resulting in a change in its properties.

post-translational protein modification

The covalent alteration of one or more amino acids occurring in a protein after the protein has been completely translated and released from the ribosome.

cellular metabolic process

The chemical reactions and pathways by which individual cells transform chemical substances.

primary metabolic process

The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism.

cellular biosynthetic process

The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

cellular macromolecule metabolic process

The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells.

cellular protein metabolic process

The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes protein modification.

regulation of transcription

Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

regulation of cell differentiation

Any process that modulates the frequency, rate or extent of cell differentiation, the process whereby relatively unspecialized cells acquire specialized structural and functional features.

positive regulation of cell differentiation

Any process that activates or increases the frequency, rate or extent of cell differentiation.

regulation of osteoblast differentiation

Any process that modulates the frequency, rate or extent of osteoblast differentiation.

positive regulation of osteoblast differentiation

Any process that activates or increases the frequency, rate or extent of osteoblast differentiation.

positive regulation of transcription, DNA-dependent

Any process that activates or increases the frequency, rate or extent of DNA-dependent transcription.

positive regulation of phosphate metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving phosphates.

positive regulation of transcription

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

positive regulation of transcription from RNA polymerase II promoter

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

bone remodeling

The continuous turnover of bone matrix and mineral that involves first, an increase in resorption (osteoclastic activity) and later, reactive bone formation (osteoblastic activity). The process of bone remodeling takes place in the adult skeleton at discrete foci. The process ensures the mechanical integrity of the skeleton throughout life and plays an important role in calcium homeostasis. An imbalance in the regulation of bone resorption and bone formation results in many of the metabolic bone diseases, such as osteoporosis.

regulation of bone remodeling

Any process that modulates the frequency, rate or extent of bone remodeling, the processes of bone formation and resorption that combine to maintain skeletal integrity.

organ development

Development of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. 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.

positive regulation of biological process

Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.

positive regulation of cellular process

Any process that activates or increases the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.

system development

The process whose specific outcome is the progression of an organismal system over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process.

tissue remodeling

The reorganization or renovation of existing tissues. This process can either change the characteristics of a tissue such as in blood vessel remodeling, or result in the dynamic equilibrium of a tissue such as in bone remodeling.

anatomical structure development

The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.

cellular developmental process

A biological process whose specific outcome is the progression of a cell over time from an initial condition to a later condition.

regulation of peptidyl-tyrosine phosphorylation

Any process that modulates the frequency, rate or extent of the phosphorylation of peptidyl-tyrosine.

regulation of biological process

Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.

regulation of developmental process

Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

regulation of cellular process

Any process that modulates the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.

response to stimulus

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.

positive regulation of developmental process

Any process that activates or increases the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

regulation of phosphorus metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus.

regulation of multicellular organismal process

Any process that modulates the frequency, rate or extent of a multicellular organismal process, the processes pertinent to the function of a multicellular organism above the cellular level; includes the integrated processes of tissues and organs.

regulation of protein metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein.

positive regulation of protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein.

regulation of RNA metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving RNA.

positive regulation of RNA metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving RNA.

regulation of macromolecule metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

bone development

The process whose specific outcome is the progression of bone over time, from its formation to the mature structure. Bone is the hard skeletal connective tissue consisting of both mineral and cellular components.

biological regulation

Any process that modulates the frequency, rate or extent of any biological process, quality or function.

all

This term is the most general term possible

cellular metabolic process

The chemical reactions and pathways by which individual cells transform chemical substances.

multicellular organismal development

The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

cellular developmental process

A biological process whose specific outcome is the progression of a cell over time from an initial condition to a later condition.

positive regulation of metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.

positive regulation of cellular process

Any process that activates or increases the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.

positive regulation of developmental process

Any process that activates or increases the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

regulation of metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.

positive regulation of biological process

Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.

regulation of developmental process

Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

regulation of cellular process

Any process that modulates the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.

regulation of multicellular organismal process

Any process that modulates the frequency, rate or extent of a multicellular organismal process, the processes pertinent to the function of a multicellular organism above the cellular level; includes the integrated processes of tissues and organs.

regulation of biological process

Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.

positive regulation of biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances.

regulation of biosynthetic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances.

positive regulation of metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.

macromolecule biosynthetic process

The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of macromolecule metabolic process

Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

regulation of macromolecule metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

regulation of cellular metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

positive regulation of cellular metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

cellular biosynthetic process

The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

cellular macromolecule metabolic process

The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells.

nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

The chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

positive regulation of cellular metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

signal transduction

The cascade of processes by which a signal interacts with a receptor, causing a change in the level or activity of a second messenger or other downstream target, and ultimately effecting a change in the functioning of the cell.

regulation of cell communication

Any process that modulates the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment.

regulation of cellular metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

positive regulation of cellular process

Any process that activates or increases the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.

regulation of tissue remodeling

Any process that modulates the frequency, rate, or extent of tissue remodeling.

system development

The process whose specific outcome is the progression of an organismal system over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process.

regulation of ossification

Any process that modulates the frequency, rate or extent of bone formation.

regulation of cell differentiation

Any process that modulates the frequency, rate or extent of cell differentiation, the process whereby relatively unspecialized cells acquire specialized structural and functional features.

positive regulation of developmental process

Any process that activates or increases the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).

positive regulation of cell differentiation

Any process that activates or increases the frequency, rate or extent of cell differentiation.

positive regulation of biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances.

regulation of macromolecule biosynthetic process

Any process that modulates the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of macromolecule biosynthetic process

Any process that increases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

regulation of cellular biosynthetic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

positive regulation of cellular biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

cellular macromolecule biosynthetic process

The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells.

positive regulation of macromolecule biosynthetic process

Any process that increases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of cellular biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

positive regulation of cellular metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances.

regulation of cellular biosynthetic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

regulation of macromolecule biosynthetic process

Any process that modulates the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

positive regulation of macromolecule metabolic process

Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

regulation of gene expression

Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.

positive regulation of gene expression

Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.

protein metabolic process

The chemical reactions and pathways involving a specific protein, rather than of proteins in general. Includes protein modification.

biopolymer biosynthetic process

The chemical reactions and pathways resulting in the formation of biopolymers, long, repeating chains of monomers found in nature e.g. polysaccharides and proteins.

cellular macromolecule biosynthetic process

The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells.

cellular biopolymer metabolic process

The chemical reactions and pathways involving biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins, as carried out by individual cells.

transcription

The synthesis of either RNA on a template of DNA or DNA on a template of RNA.

positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

positive regulation of phosphorus metabolic process

Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus.

regulation of phosphorus metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus.

regulation of protein metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein.

positive regulation of protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein.

regulation of signal transduction

Any process that modulates the frequency, rate or extent of signal transduction.

osteoblast differentiation

The process whereby a relatively unspecialized cell acquires the specialized features of an osteoblast, the mesodermal cell that gives rise to bone.

regulation of cell differentiation

Any process that modulates the frequency, rate or extent of cell differentiation, the process whereby relatively unspecialized cells acquire specialized structural and functional features.

positive regulation of cell differentiation

Any process that activates or increases the frequency, rate or extent of cell differentiation.

positive regulation of cell differentiation

Any process that activates or increases the frequency, rate or extent of cell differentiation.

organ development

Development of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. 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.

regulation of bone remodeling

Any process that modulates the frequency, rate or extent of bone remodeling, the processes of bone formation and resorption that combine to maintain skeletal integrity.

regulation of osteoblast differentiation

Any process that modulates the frequency, rate or extent of osteoblast differentiation.

positive regulation of osteoblast differentiation

Any process that activates or increases the frequency, rate or extent of osteoblast differentiation.

regulation of osteoblast differentiation

Any process that modulates the frequency, rate or extent of osteoblast differentiation.

ossification

The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance.

positive regulation of macromolecule biosynthetic process

Any process that increases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass.

cellular biopolymer biosynthetic process

The chemical reactions and pathways resulting in the formation of biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins, as carried out by individual cells.

positive regulation of cellular biosynthetic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells.

regulation of transcription

Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

positive regulation of transcription

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

positive regulation of transcription

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

positive regulation of cellular protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

positive regulation of transcription

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

positive regulation of RNA metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving RNA.

positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids.

regulation of transcription

Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

regulation of RNA metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving RNA.

positive regulation of cellular protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

positive regulation of phosphorus metabolic process

Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus.

positive regulation of gene expression

Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.

regulation of transcription

Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

regulation of cellular protein metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

positive regulation of protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein.

positive regulation of RNA metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving RNA.

transcription, DNA-dependent

The synthesis of RNA on a template of DNA.

regulation of transcription

Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

positive regulation of transcription

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

RNA metabolic process

The chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage.

cellular biopolymer biosynthetic process

The chemical reactions and pathways resulting in the formation of biopolymers, long, repeating chains of monomers found in nature, such as polysaccharides and proteins, as carried out by individual cells.

cellular protein metabolic process

The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes protein modification.

RNA biosynthetic process

The chemical reactions and pathways resulting in the formation of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers.

regulation of RNA metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving RNA.

positive regulation of RNA metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving RNA.

regulation of phosphate metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates.

positive regulation of phosphate metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving phosphates.

protein modification process

The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).

regulation of cellular protein metabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

positive regulation of cellular protein metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.

positive regulation of osteoblast differentiation

Any process that activates or increases the frequency, rate or extent of osteoblast differentiation.

bone development

The process whose specific outcome is the progression of bone over time, from its formation to the mature structure. Bone is the hard skeletal connective tissue consisting of both mineral and cellular components.

regulation of ossification

Any process that modulates the frequency, rate or extent of bone formation.

regulation of transcription, DNA-dependent

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

positive regulation of transcription

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

positive regulation of transcription, DNA-dependent

Any process that activates or increases the frequency, rate or extent of DNA-dependent transcription.

transcription

The synthesis of either RNA on a template of DNA or DNA on a template of RNA.

regulation of transcription, DNA-dependent

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

positive regulation of transcription, DNA-dependent

Any process that activates or increases the frequency, rate or extent of DNA-dependent transcription.

positive regulation of protein modification process

Any process that activates or increases the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.

positive regulation of phosphate metabolic process

Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving phosphates.

positive regulation of transcription, DNA-dependent

Any process that activates or increases the frequency, rate or extent of DNA-dependent transcription.

regulation of protein modification process

Any process that modulates the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.

positive regulation of protein modification process

Any process that activates or increases the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein.

regulation of phosphorylation

Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule.

positive regulation of phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule.

regulation of transcription from RNA polymerase II promoter

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

positive regulation of transcription from RNA polymerase II promoter

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

positive regulation of protein amino acid phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein.

positive regulation of protein amino acid phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein.

regulation of protein amino acid phosphorylation

Any process that modulates the frequency, rate or extent of addition of phosphate groups into an amino acid in a protein.

positive regulation of phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule.

positive regulation of transcription from RNA polymerase II promoter

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

protein amino acid phosphorylation

The process of introducing a phosphate group on to a protein.

regulation of protein amino acid phosphorylation

Any process that modulates the frequency, rate or extent of addition of phosphate groups into an amino acid in a protein.

positive regulation of protein amino acid phosphorylation

Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein.

positive regulation of peptidyl-serine phosphorylation

Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-serine.

peptidyl-serine phosphorylation

The posttranslational phosphorylation of peptidyl-serine to form peptidyl-O-phospho-L-serine.

peptidyl-tyrosine phosphorylation

The posttranslational phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.

regulation of peptidyl-serine phosphorylation

Any process that modulates the frequency, rate or extent of the phosphorylation of peptidyl-serine.

positive regulation of peptidyl-serine phosphorylation

Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-serine.

regulation of peptidyl-tyrosine phosphorylation

Any process that modulates the frequency, rate or extent of the phosphorylation of peptidyl-tyrosine.

extracellular region

The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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.

extracellular space

That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

extracellular region part

Any constituent part of the extracellular region, the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers constituent parts of the host cell environment outside an intracellular parasite.

all

This term is the most general term possible

extracellular region part

Any constituent part of the extracellular region, the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers constituent parts of the host cell environment outside an intracellular parasite.

protein binding

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

molecular_function

Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.

receptor binding

Interacting selectively with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.

cytokine activity

Functions to control the survival, growth, differentiation and effector function of tissues and cells.

binding

The selective, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule.

growth factor activity

The function that stimulates a cell to grow or proliferate. Most growth factors have other actions besides the induction of cell growth or proliferation.

all

This term is the most general term possible

Id	Pvalue	ExpCount	Count	Size	Term
GO:0033135	2.067e-04	0.02686	3 IL11, IL6, LIF	4	regulation of peptidyl-serine phosphorylation
GO:0033138	2.067e-04	0.02686	3 IL11, IL6, LIF	4	positive regulation of peptidyl-serine phosphorylation
GO:0001932	2.943e-04	0.3761	6 BMP2, IL11, IL6, LIF, PDGFD, TGFBR1	56	regulation of protein amino acid phosphorylation
GO:0010646	4.135e-04	2.821	13 BMP2, DKK2, EGR2, IL11, IL1RL1, IL6, LIF, REL, SPRED2, SPRY2, TGFBR1, TRIB1, VEGFA	420	regulation of cell communication
GO:0001934	5.020e-04	0.2351	5 BMP2, IL11, IL6, LIF, TGFBR1	35	positive regulation of protein amino acid phosphorylation
GO:0006357	5.631e-04	2.451	12 BMP2, EGR2, FOSB, FOXO3, IL11, IL6, JMJD3, JUND, LIF, LMCD1, NR4A1, NR4A3	365	regulation of transcription from RNA polymerase II promoter
GO:0045944	7.076e-04	0.9738	8 BMP2, EGR2, FOXO3, IL11, IL6, LIF, NR4A1, NR4A3	145	positive regulation of transcription from RNA polymerase II promoter
GO:0009966	7.583e-04	2.532	12 BMP2, DKK2, IL11, IL1RL1, IL6, LIF, REL, SPRED2, SPRY2, TGFBR1, TRIB1, VEGFA	377	regulation of signal transduction
GO:0018105	7.853e-04	0.1209	4 IL11, IL6, LIF, TGFBR1	18	peptidyl-serine phosphorylation
GO:0007154	9.260e-04	13.08	28 ANGPTL4, BMP2, CCL7, CXCR7, DKK2, EGR2, EGR3, FGF1, GEM, HBEGF, IL11, IL1RL1, IL6, LIF, MAP2K3, MFAP4, NFATC1, NR4A1, PMEPA1, REL, RRAD, SPRED2, SPRY2, SPSB1, TGFBR1, TRIB1, VEGFA, WISP2	1947	cell communication
GO:0045941	9.313e-04	1.733	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	258	positive regulation of transcription
GO:0010628	1.112e-03	1.773	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	264	positive regulation of gene expression
GO:0042327	1.132e-03	0.2821	5 BMP2, IL11, IL6, LIF, TGFBR1	42	positive regulation of phosphorylation
GO:0007267	1.210e-03	1.793	10 BMP2, CCL7, EGR2, EGR3, FGF1, IL11, IL6, LIF, SPRY2, WISP2	267	cell-cell signaling
GO:0018209	1.389e-03	0.141	4 IL11, IL6, LIF, TGFBR1	21	peptidyl-serine modification
GO:0010562	1.389e-03	0.2955	5 BMP2, IL11, IL6, LIF, TGFBR1	44	positive regulation of phosphorus metabolic process
GO:0045937	1.389e-03	0.2955	5 BMP2, IL11, IL6, LIF, TGFBR1	44	positive regulation of phosphate metabolic process
GO:0031399	1.632e-03	0.5238	6 BMP2, IL11, IL6, LIF, PDGFD, TGFBR1	78	regulation of protein modification process
GO:0042325	1.632e-03	0.5238	6 BMP2, IL11, IL6, LIF, PDGFD, TGFBR1	78	regulation of phosphorylation
GO:0045893	1.657e-03	1.471	9 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3	219	positive regulation of transcription, DNA-dependent
GO:0045935	1.696e-03	1.874	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	279	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process
GO:0051254	1.764e-03	1.484	9 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3	221	positive regulation of RNA metabolic process
GO:0031401	2.016e-03	0.3224	5 BMP2, IL11, IL6, LIF, TGFBR1	48	positive regulation of protein modification process
GO:0006366	2.027e-03	3.331	13 BMP2, EGR2, FOSB, FOXO3, IL11, IL6, JMJD3, JUND, LIF, LMCD1, NFATC1, NR4A1, NR4A3	496	transcription from RNA polymerase II promoter
GO:0007165	2.245e-03	12.09	26 ANGPTL4, BMP2, CCL7, CXCR7, DKK2, FGF1, GEM, HBEGF, IL11, IL1RL1, IL6, LIF, MAP2K3, MFAP4, NFATC1, NR4A1, PMEPA1, REL, RRAD, SPRED2, SPRY2, SPSB1, TGFBR1, TRIB1, VEGFA, WISP2	1800	signal transduction
GO:0019220	2.347e-03	0.5641	6 BMP2, IL11, IL6, LIF, PDGFD, TGFBR1	84	regulation of phosphate metabolic process
GO:0051174	2.347e-03	0.5641	6 BMP2, IL11, IL6, LIF, PDGFD, TGFBR1	84	regulation of phosphorus metabolic process
GO:0010557	2.429e-03	1.968	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	293	positive regulation of macromolecule biosynthetic process
GO:0009605	3.047e-03	2.485	11 BMP2, CCL7, CXCL3, EGR2, HBEGF, IL6, JMJD3, MAP2K3, NR4A3, THBD, VEGFA	370	response to external stimulus
GO:0031328	3.327e-03	2.055	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	306	positive regulation of cellular biosynthetic process
GO:0050730	3.360e-03	0.1813	4 IL11, IL6, LIF, PDGFD	27	regulation of peptidyl-tyrosine phosphorylation
GO:0009891	3.483e-03	2.069	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	308	positive regulation of biosynthetic process
GO:0007275	3.672e-03	8.623	21 ANGPTL4, BMP2, DKK2, EGR2, EGR3, FGF1, FOSB, FOXO3, HBEGF, HLX, IL11, IL6, JUND, LIF, NR4A3, PPL, SPRED2, SPRY2, TGFBR1, THBD, VEGFA	1284	multicellular organismal development
GO:0030278	5.958e-03	0.2149	4 BMP2, EGR2, IL6, JUND	32	regulation of ossification
GO:0048513	6.730e-03	4.99	15 ANGPTL4, BMP2, EGR2, EGR3, FGF1, FOXO3, HBEGF, IL11, IL6, LIF, NR4A3, PPL, SPRY2, TGFBR1, VEGFA	743	organ development
GO:0046850	7.949e-03	0.2351	4 BMP2, EGR2, IL6, JUND	35	regulation of bone remodeling
GO:0030154	8.734e-03	4.527	14 ANGPTL4, BMP2, EGR2, FGF1, FOXO3, HLX, IL11, IL6, JUND, LIF, PPL, SPRY2, TGFBR1, VEGFA	674	cell differentiation
GO:0000165	9.274e-03	0.7589	6 IL11, IL6, LIF, MAP2K3, TGFBR1, TRIB1	113	MAPKKK cascade
GO:0045669	9.281e-03	0.09402	3 BMP2, IL6, JUND	14	positive regulation of osteoblast differentiation
GO:0048518	9.682e-03	5.829	16 ANGPTL4, BMP2, EGR2, FGF1, FOXO3, HBEGF, IL11, IL6, JUND, LIF, MAP2K3, NR4A1, NR4A3, REL, TGFBR1, VEGFA	868	positive regulation of biological process
GO:0007610	9.897e-03	1.115	7 CCL7, CXCL3, EGR2, FOSB, IL6, NR4A3, VEGFA	166	behavior
GO:0010604	9.979e-03	2.411	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	359	positive regulation of macromolecule metabolic process
GO:0034103	1.028e-02	0.2552	4 BMP2, EGR2, IL6, JUND	38	regulation of tissue remodeling
GO:0031325	1.091e-02	2.445	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	364	positive regulation of cellular metabolic process
GO:0046849	1.113e-02	0.2619	4 BMP2, EGR2, IL6, JUND	39	bone remodeling
GO:0010627	1.118e-02	0.7925	6 IL11, IL1RL1, IL6, LIF, REL, TGFBR1	118	regulation of protein kinase cascade
GO:0009611	1.161e-02	1.551	8 BMP2, CCL7, CXCL3, HBEGF, IL6, JMJD3, MAP2K3, THBD	231	response to wounding
GO:0032501	1.227e-02	11.07	23 ANGPTL4, BMP2, DKK2, EGR2, EGR3, FGF1, FOSB, FOXO3, HBEGF, HLX, IL11, IL6, JUND, LIF, MAP2K3, NR4A3, PPL, SLC19A2, SPRED2, SPRY2, TGFBR1, THBD, VEGFA	1648	multicellular organismal process
GO:0009893	1.340e-02	2.525	10 BMP2, EGR2, FOXO3, IL11, IL6, LIF, MAP2K3, NR4A1, NR4A3, TGFBR1	376	positive regulation of metabolic process
GO:0018108	1.394e-02	0.2821	4 IL11, IL6, LIF, PDGFD	42	peptidyl-tyrosine phosphorylation
GO:0048522	1.405e-02	5.42	15 BMP2, EGR2, FGF1, FOXO3, HBEGF, IL11, IL6, JUND, LIF, MAP2K3, NR4A1, NR4A3, REL, TGFBR1, VEGFA	807	positive regulation of cellular process
GO:0002237	1.487e-02	0.1142	3 IL6, THBD, TRIB1	17	response to molecule of bacterial origin
GO:0050794	1.491e-02	23.23	36 ANGPTL4, BMP2, CCL7, CXCR7, DKK2, EGR2, EGR3, FGF1, FOSB, FOXO3, GEM, HBEGF, HLX, IL11, IL1RL1, IL6, JMJD3, JUND, LIF, LMCD1, MAP2K3, MFAP4, NFATC1, NR4A1, NR4A3, PDGFD, PMEPA1, REL, RRAD, SPRED2, SPRY2, SPSB1, TGFBR1, TRIB1, VEGFA, WISP2	3459	regulation of cellular process
GO:0018212	1.602e-02	0.2955	4 IL11, IL6, LIF, PDGFD	44	peptidyl-tyrosine modification
GO:0051272	1.602e-02	0.2955	4 HBEGF, IL6, TGFBR1, VEGFA	44	positive regulation of cell motion
GO:0048869	1.676e-02	5.534	15 ANGPTL4, BMP2, EGR2, FGF1, FOXO3, HLX, IL11, IL6, JUND, LIF, PPL, SPRY2, TGFBR1, VEGFA, WISP2	824	cellular developmental process
GO:0045667	1.695e-02	0.1209	3 BMP2, IL6, JUND	18	regulation of osteoblast differentiation
GO:0050731	1.695e-02	0.1209	3 IL11, IL6, LIF	18	positive regulation of peptidyl-tyrosine phosphorylation
GO:0032270	1.699e-02	0.5574	5 BMP2, IL11, IL6, LIF, TGFBR1	83	positive regulation of cellular protein metabolic process
GO:0051239	1.801e-02	2.149	9 ANGPTL4, BMP2, EGR2, FOXO3, HBEGF, IL6, JUND, LIF, MAP2K3	320	regulation of multicellular organismal process
GO:0008284	1.839e-02	1.269	7 FGF1, HBEGF, IL11, IL6, LIF, TGFBR1, VEGFA	189	positive regulation of cell proliferation
GO:0045597	1.863e-02	0.5709	5 BMP2, FOXO3, IL6, JUND, LIF	85	positive regulation of cell differentiation
GO:0043410	1.934e-02	0.1276	3 IL11, IL6, LIF	19	positive regulation of MAPKKK cascade
GO:0051247	2.020e-02	0.5843	5 BMP2, IL11, IL6, LIF, TGFBR1	87	positive regulation of protein metabolic process
GO:0051270	2.266e-02	0.6044	5 HBEGF, IL6, TGFBR1, TRIB1, VEGFA	90	regulation of cell motion
GO:0009967	2.268e-02	0.9402	6 IL11, IL6, LIF, REL, TGFBR1, VEGFA	140	positive regulation of signal transduction
GO:0048660	2.425e-02	0.141	3 HBEGF, IL6, TRIB1	21	regulation of smooth muscle cell proliferation
GO:0045165	2.466e-02	0.3425	4 BMP2, FGF1, SPRY2, TGFBR1	51	cell fate commitment
GO:0048646	2.685e-02	0.9805	6 ANGPTL4, EGR2, FGF1, IL6, NR4A3, VEGFA	146	anatomical structure formation
GO:0048659	2.695e-02	0.1478	3 HBEGF, IL6, TRIB1	22	smooth muscle cell proliferation
GO:0050789	2.743e-02	24	36 ANGPTL4, BMP2, CCL7, CXCR7, DKK2, EGR2, EGR3, FGF1, FOSB, FOXO3, GEM, HBEGF, HLX, IL11, IL1RL1, IL6, JMJD3, JUND, LIF, LMCD1, MAP2K3, MFAP4, NFATC1, NR4A1, NR4A3, PDGFD, PMEPA1, REL, RRAD, SPRED2, SPRY2, SPSB1, TGFBR1, TRIB1, VEGFA, WISP2	3574	regulation of biological process
GO:0048771	2.890e-02	0.3627	4 BMP2, EGR2, IL6, JUND	54	tissue remodeling
GO:0010647	2.893e-02	1.001	6 IL11, IL6, LIF, REL, TGFBR1, VEGFA	149	positive regulation of cell communication
GO:0010740	3.020e-02	0.6582	5 IL11, IL6, LIF, REL, TGFBR1	98	positive regulation of protein kinase cascade
GO:0032879	3.124e-02	1.431	7 HBEGF, IL11, IL6, LIF, TGFBR1, TRIB1, VEGFA	213	regulation of localization
GO:0006954	3.192e-02	1.028	6 BMP2, CCL7, CXCL3, IL6, JMJD3, MAP2K3	153	inflammatory response
GO:0065007	3.209e-02	25.31	37 ANGPTL4, BMP2, CCL7, CXCR7, DKK2, EGR2, EGR3, FGF1, FOSB, FOXO3, GEM, HBEGF, HLX, IL11, IL1RL1, IL6, JMJD3, JUND, LIF, LMCD1, MAP2K3, MFAP4, NFATC1, NR4A1, NR4A3, PDGFD, PMEPA1, REL, RRAD, SPRED2, SPRY2, SPSB1, TGFBR1, THBD, TRIB1, VEGFA, WISP2	3768	biological regulation
GO:0006350	3.250e-02	9.637	20 BMP2, EGR2, EGR3, FOSB, FOXO3, HIVEP2, HLX, IL11, IL6, JMJD3, JUND, LIF, LMCD1, MAP2K3, NFATC1, NR4A1, NR4A3, REL, TGFBR1, TRIB1	1435	transcription
GO:0046879	3.531e-02	0.1679	3 IL11, IL6, LIF	25	hormone secretion
GO:0045449	3.577e-02	8.966	19 BMP2, EGR2, EGR3, FOSB, FOXO3, HLX, IL11, IL6, JMJD3, JUND, LIF, LMCD1, MAP2K3, NFATC1, NR4A1, NR4A3, REL, TGFBR1, TRIB1	1335	regulation of transcription
GO:0048731	3.582e-02	6.776	16 ANGPTL4, BMP2, EGR2, EGR3, FGF1, FOXO3, HBEGF, IL11, IL6, JUND, LIF, NR4A3, PPL, SPRY2, TGFBR1, VEGFA	1009	system development
GO:0007243	3.633e-02	1.948	8 IL11, IL1RL1, IL6, LIF, MAP2K3, REL, TGFBR1, TRIB1	290	protein kinase cascade
GO:0018193	3.749e-02	0.7052	5 IL11, IL6, LIF, PDGFD, TGFBR1	105	peptidyl-amino acid modification
GO:0040011	4.144e-02	1.531	7 CCL7, CXCL3, HBEGF, IL6, TGFBR1, TRIB1, VEGFA	228	locomotion
GO:0001649	4.406e-02	0.188	3 BMP2, IL6, JUND	28	osteoblast differentiation
GO:0009914	4.406e-02	0.188	3 IL11, IL6, LIF	28	hormone transport
GO:0042127	4.441e-02	2.559	9 BMP2, FGF1, HBEGF, IL11, IL6, LIF, TGFBR1, TRIB1, VEGFA	381	regulation of cell proliferation
GO:0042517	4.694e-02	0.04701	2 IL6, LIF	7	positive regulation of tyrosine phosphorylation of Stat3 protein
GO:0043408	4.738e-02	0.1948	3 IL11, IL6, LIF	29	regulation of MAPKKK cascade
GO:0009887	4.950e-02	2.095	8 ANGPTL4, BMP2, FGF1, IL6, NR4A3, SPRY2, TGFBR1, VEGFA	312	organ morphogenesis
GO:0001503	4.994e-02	0.45	4 BMP2, EGR2, IL6, JUND	67	ossification
GO:0060348	4.994e-02	0.45	4 BMP2, EGR2, IL6, JUND	67	bone development

Id	Pvalue	ExpCount	Count	Size	Term
GO:0005615	1.284e-06	1.489	12 ANGPTL4, BMP2, CCL7, CXCL3, DKK2, FGF1, HBEGF, IL11, IL6, LIF, THBD, VEGFA	246	extracellular space
GO:0044421	1.965e-05	2.343	13 ANGPTL4, BMP2, CCL7, CXCL3, DKK2, FGF1, HBEGF, IL11, IL6, LIF, MFAP4, THBD, VEGFA	387	extracellular region part
GO:0005576	2.035e-05	4.238	17 ANGPTL4, BMP2, CCL7, CXCL3, DKK2, FGF1, HBEGF, IL11, IL1RL1, IL6, LIF, MFAP4, PDGFD, ST3GAL1, THBD, VEGFA, WISP2	700	extracellular region

Id	Pvalue	ExpCount	Count	Size	Term
GO:0008083	3.902e-05	0.5592	8 BMP2, FGF1, HBEGF, IL11, IL6, LIF, PDGFD, VEGFA	94	growth factor activity
GO:0005102	7.933e-04	2.427	12 ANGPTL4, BMP2, CCL7, FGF1, HBEGF, IL11, IL6, LIF, MFAP4, PDGFD, TGFBR1, VEGFA	408	receptor binding
GO:0005125	9.857e-04	0.4343	6 BMP2, CCL7, IL11, IL6, LIF, VEGFA	73	cytokine activity
GO:0008201	1.620e-02	0.2737	4 CCL7, FGF1, HBEGF, VEGFA	46	heparin binding
GO:0005126	2.094e-02	0.119	3 IL11, IL6, LIF	20	hematopoietin/interferon-class (D200-domain) cytokine receptor binding
GO:0005539	3.128e-02	0.3451	4 CCL7, FGF1, HBEGF, VEGFA	58	glycosaminoglycan binding
GO:0030247	3.279e-02	0.351	4 CCL7, FGF1, HBEGF, VEGFA	59	polysaccharide binding
GO:0003700	3.509e-02	2.874	10 EGR2, EGR3, FOSB, FOXO3, HLX, JUND, NFATC1, NR4A1, NR4A3, REL	483	transcription factor activity
GO:0001871	3.745e-02	0.3689	4 CCL7, FGF1, HBEGF, VEGFA	62	pattern binding

Id	Pvalue	ExpCount	Count	Size	Term
04060	1.845e-03	1.208	8 BMP2, CCL7, CXCL3, IL11, IL6, LIF, TGFBR1, VEGFA	122	Cytokine-cytokine receptor interaction

No enriched terms

No enriched terms

Entrez genes

ADH1Balcohol dehydrogenase 1B (class I), beta polypeptide (209612_s_at), score: -0.64 ANGPTL4angiopoietin-like 4 (221009_s_at), score: -0.71 B3GNT2UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2 (219326_s_at), score: -0.51 BMP2bone morphogenetic protein 2 (205289_at), score: -0.61 CCL7chemokine (C-C motif) ligand 7 (208075_s_at), score: -0.59 CXCL3chemokine (C-X-C motif) ligand 3 (207850_at), score: -0.71 CXCR7chemokine (C-X-C motif) receptor 7 (212977_at), score: -0.53 DKK2dickkopf homolog 2 (Xenopus laevis) (219908_at), score: -0.8 EGR2early growth response 2 (Krox-20 homolog, Drosophila) (205249_at), score: -0.61 EGR3early growth response 3 (206115_at), score: -0.66 FBXW7F-box and WD repeat domain containing 7 (218751_s_at), score: -0.61 FGF1fibroblast growth factor 1 (acidic) (205117_at), score: -0.52 FOSBFBJ murine osteosarcoma viral oncogene homolog B (202768_at), score: -1 FOXO3forkhead box O3 (204132_s_at), score: -0.51 FOXO3Bforkhead box O3B pseudogene (210655_s_at), score: -0.66 GEMGTP binding protein overexpressed in skeletal muscle (204472_at), score: -0.6 GFPT2glutamine-fructose-6-phosphate transaminase 2 (205100_at), score: -0.52 HBEGFheparin-binding EGF-like growth factor (203821_at), score: -0.67 HIVEP2human immunodeficiency virus type I enhancer binding protein 2 (212642_s_at), score: -0.61 HLXH2.0-like homeobox (214438_at), score: -0.51 IDI1isopentenyl-diphosphate delta isomerase 1 (204615_x_at), score: -0.55 IL11interleukin 11 (206924_at), score: -0.54 IL1RL1interleukin 1 receptor-like 1 (207526_s_at), score: -0.58 IL6interleukin 6 (interferon, beta 2) (205207_at), score: -0.56 INSIG1insulin induced gene 1 (201627_s_at), score: -0.72 JHDM1Djumonji C domain containing histone demethylase 1 homolog D (S. cerevisiae) (221778_at), score: -0.72 JMJD3jumonji domain containing 3, histone lysine demethylase (213146_at), score: -0.93 JUNDjun D proto-oncogene (203751_x_at), score: -0.57 KIAA1024KIAA1024 (215081_at), score: -0.55 LIFleukemia inhibitory factor (cholinergic differentiation factor) (205266_at), score: -0.69 LMCD1LIM and cysteine-rich domains 1 (218574_s_at), score: -0.66 LOH3CR2Aloss of heterozygosity, 3, chromosomal region 2, gene A (220244_at), score: -0.82 MAP2K3mitogen-activated protein kinase kinase 3 (215498_s_at), score: -0.52 MFAP4microfibrillar-associated protein 4 (212713_at), score: -0.51 NFATC1nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1 (210162_s_at), score: -0.76 NR4A1nuclear receptor subfamily 4, group A, member 1 (202340_x_at), score: -0.52 NR4A3nuclear receptor subfamily 4, group A, member 3 (209959_at), score: -0.8 PDGFDplatelet derived growth factor D (219304_s_at), score: -0.55 PMEPA1prostate transmembrane protein, androgen induced 1 (217875_s_at), score: -0.74 PPLperiplakin (203407_at), score: -0.59 RELv-rel reticuloendotheliosis viral oncogene homolog (avian) (206036_s_at), score: -0.52 RRADRas-related associated with diabetes (204803_s_at), score: -0.83 SLC19A2solute carrier family 19 (thiamine transporter), member 2 (209681_at), score: -0.6 SMOXspermine oxidase (210357_s_at), score: -0.64 SPRED2sprouty-related, EVH1 domain containing 2 (212458_at), score: -0.59 SPRY2sprouty homolog 2 (Drosophila) (204011_at), score: -0.5 SPSB1splA/ryanodine receptor domain and SOCS box containing 1 (219677_at), score: -0.57 ST3GAL1ST3 beta-galactoside alpha-2,3-sialyltransferase 1 (208322_s_at), score: -0.52 TGFBR1transforming growth factor, beta receptor 1 (206943_at), score: -0.51 THBDthrombomodulin (203887_s_at), score: -0.73 TRIB1tribbles homolog 1 (Drosophila) (202241_at), score: -0.59 VEGFAvascular endothelial growth factor A (211527_x_at), score: -0.66 WISP2WNT1 inducible signaling pathway protein 2 (205792_at), score: -0.55

Non-Entrez genes

Unknown, score:

Id	sample	Experiment	ExpName	Array	Syndrome	Cell.line
ctrl b 08-03.CEL	2	1	DS-CC	hgu133a	none	DS-CC 2
ctrl a 08-03.CEL	1	1	DS-CC	hgu133a	none	DS-CC 1
E-TABM-263-raw-cel-1515486231.cel	30	6	Cycle	hgu133a2	none	Cycle 1
E-TABM-263-raw-cel-1515486331.cel	35	6	Cycle	hgu133a2	none	Cycle 1
E-TABM-263-raw-cel-1515485851.cel	11	6	Cycle	hgu133a2	none	Cycle 1
1Twin.CEL	1	2	DS-twin	hgu133plus2	Down	DS-twin 1