Difference between revisions of "Paul Magnano: Week 12 Individual Journal"

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==10 Gene Ontology Terms==
 
==10 Gene Ontology Terms==
 
*protein folding: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.  
 
*protein folding: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.  
*cytosol:
+
*cytosol: The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
*chaperone binding
+
*chaperone binding: Interacting selectively and non-covalently with a chaperone protein, a class of proteins that bind to nascent or unfolded polypeptides and ensure correct folding or transport.
*unfolded protein binding
+
*unfolded protein binding: Interacting selectively and non-covalently with an unfolded protein.
*ribosomal subunit
+
*ribosomal subunit: Either of the two subunits of a ribosome: the ribosomal large subunit or the ribosomal small subunit.
*oxidoreductase activity
+
*oxidoreductase activity: Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
*NAD binding
+
*NAD binding: Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
*hexose metabolic process
+
*hexose metabolic process: The chemical reactions and pathways involving a hexose, any monosaccharide with a chain of six carbon atoms in the molecule.
*carbohydrate biosynthetic process
+
*carbohydrate biosynthetic process: The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
*monosaccharide metabolic process
+
*monosaccharide metabolic process: The chemical reactions and pathways involving monosaccharides, the simplest carbohydrates. They are polyhydric alcohols containing either an aldehyde or a keto group and between three to ten or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides.

Revision as of 14:29, 11 April 2013

Analyzing and Interpreting STEM Results

  • Profile #9 selected
  • Why did you select this profile? In other words, why was it interesting to you?
    • I selected this profile because it seemed interesting that the genes were immediately down-regulated at the early time points but later up-regulated as time increased. This seemed indicative of some necessary change being made and then corrected as the intended action resulted.
  • How many genes belong to this profile?
    • 170
  • How many genes were expected to belong to this profile?
    • 44
  • What is the p value for the enrichment of genes in this profile?
    • 2.0 E-49
  • How many GO terms are associated with this profile at p value <0.05?
    • 91
  • How many GO terms are associated with this profile with a corrected p value <0.05?
    • 8

10 Gene Ontology Terms

  • protein folding: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
  • cytosol: The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • chaperone binding: Interacting selectively and non-covalently with a chaperone protein, a class of proteins that bind to nascent or unfolded polypeptides and ensure correct folding or transport.
  • unfolded protein binding: Interacting selectively and non-covalently with an unfolded protein.
  • ribosomal subunit: Either of the two subunits of a ribosome: the ribosomal large subunit or the ribosomal small subunit.
  • oxidoreductase activity: Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • NAD binding: Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
  • hexose metabolic process: The chemical reactions and pathways involving a hexose, any monosaccharide with a chain of six carbon atoms in the molecule.
  • carbohydrate biosynthetic process: The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
  • monosaccharide metabolic process: The chemical reactions and pathways involving monosaccharides, the simplest carbohydrates. They are polyhydric alcohols containing either an aldehyde or a keto group and between three to ten or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides.