view release on metacpan or  search on metacpan

scripts/Data/psi-mi.obo  view on Meta::CPAN

name: cosedimentation in solution
def: "The ultracentrifuge can be used to characterise and/or purify macromolecules in solution according to their mass and hydrodynamic properties. Sedimentation studies provide information about the molecular weight and shape of a molecule. It is al...
subset: PSI-MI slim
synonym: "solution sedimentati" EXACT PSI-MI-short []
is_a: MI:0027 ! cosedimentation

[Term]
id: MI:0029
name: cosedimentation through density gradient
def: "Sedimentation through a density gradient measures the sedimentation rate of a mixture of proteins through either a glycerol or sucrose gradient. Two interacting proteins will sediment mostly as a complex at concentrations above the binding cons...
subset: PSI-MI slim
synonym: "density sedimentatio" EXACT PSI-MI-short []
is_a: MI:0027 ! cosedimentation

[Term]
id: MI:0030
name: cross-linking study
def: "Analysis of complexes obtained by chemical treatments that promote the formation of covalent bonds among molecules in close proximity." [PMID:14755292]
subset: PSI-MI slim
synonym: "crosslink" EXACT PSI-MI-short []
is_a: MI:0401 ! biochemical

[Term]
id: MI:0031
name: protein cross-linking with a bifunctional reagent
def: "A cross-linker is a bifunctional molecule having two reactive ends linked by a spacer, often containing a disulfide bond. Cross-linkers induce the formation of covalent bonds among proteins that are neighbours. When a reducing agent is added th...
subset: PSI-MI slim
synonym: "Label transfer techniques" EXACT PSI-MI-alternate []
synonym: "Photoaffinity labelling" EXACT PSI-MI-alternate []
synonym: "protein crosslink" EXACT PSI-MI-short []
is_a: MI:0030 ! cross-linking study

[Term]
id: MI:0032
name: de novo protein sequencing by mass spectrometry
def: "The strategy to determine the complete amino acid sequence of a protein by mass spectrometry relies on the generation of a nested set of fragments differing by one amino acid. This reveals the identity of the residue that has been removed at ea...
subset: PSI-MI slim
synonym: "ms protein sequence" EXACT PSI-MI-short []
synonym: "MS/MS" RELATED []
is_a: MI:0093 ! protein sequence identification
is_a: MI:0427 ! Identification by mass spectrometry
is_a: MI:0659 ! experimental feature detection

[Term]
id: MI:0033
name: deletion analysis
def: "In this approach, once a molecule is demonstrated to participate in an interaction, several deletion derivatives are produced and tested in the binding assay to identify the minimal fragment (domain) that can still support the interaction." [PM...
subset: PSI-MI slim
is_a: MI:0074 ! mutation analysis

[Term]
id: MI:0034
name: display technology
def: "All the methods that permit the physical linking of a protein/peptide to its coding sequence. As a consequence affinity purification of the displayed peptide results in the genetic enrichment of its coding sequence. By these technologies genes ...
subset: PSI-MI slim
is_a: MI:0400 ! affinity technology

[Term]
id: MI:0035
name: docking
def: "Predicts the structure of a molecular complex from the unbound structures of its components. The initial approach in the majority of docking procedures is based largely on the 'rigid-body' assumption, whereby the proteins are treated as solid o...
subset: PSI-MI slim
is_a: MI:0105 ! structure based prediction
is_a: MI:0577 ! feature prediction from structure

[Term]
id: MI:0036
name: domain fusion
def: "The rosetta stone, or domain fusion procedure, is based on the assumption that proteins whose homologues in other organisms happen to be fused into a single protein chain are likely to interact or to be functionally related." [PMID:10573422]
subset: PSI-MI slim
synonym: "Rosetta Stone" EXACT PSI-MI-alternate []
is_a: MI:0058 ! genome based prediction
is_a: MI:0101 ! sequence based prediction

[Term]
id: MI:0037
name: domain profile pairs
def: "This approach uses a protein interaction network of a given organism to infer interaction in another organism using information about the interacting region. The regions or domains involved in interactions are clustered if they share sequence s...
subset: PSI-MI slim
is_a: MI:0046 ! experimental knowledge based
is_a: MI:0101 ! sequence based prediction
is_a: MI:0660 ! feature prediction

[Term]
id: MI:0038
name: dynamic light scattering
def: "In dynamic light scattering, particle diffusion in solution gives rise to fluctuations in the intensity of the scattered light on the microsecond scale. The hydrodynamic radius of the particles can be easily calculated." [PMID:9013660]
subset: PSI-MI slim
synonym: "dls" EXACT PSI-MI-short []
is_a: MI:0067 ! light scattering

[Term]
id: MI:0039
name: edman degradation
def: "In this procedure the N-terminus amino acid is cleaved from a polypeptide and identified by high-pressure liquid chromatography. The cycle is repeated on the ever-shortening polypeptide until all the residues are identified. On average only 20-...
subset: PSI-MI slim
is_a: MI:0433 ! partial identification of protein sequence

[Term]
id: MI:0040
name: electron microscopy
def: "Electron microscopy methods provide insights into the structure of biological macromolecules and their supramolecular assemblies. Resolution is on average around 10 Angstroms but can reach the atomic level when the samples analysed are 2D cryst...
subset: PSI-MI slim
synonym: "Electron cryomicroscopy" EXACT PSI-MI-alternate []
synonym: "Electron crystallography" EXACT PSI-MI-alternate []
is_a: MI:0428 ! imaging technique

[Term]
id: MI:0041
name: electron nuclear double resonance
def: "A combination of NMR and EPR. The lines in the EPR spectrum that are caused by coupling of an unpaired electron nearby nuclei change in intensity when these nuclei are excited at their NMR frequency." [PMID:11817959, PMID:11988476, PMID for app...
subset: PSI-MI slim
synonym: "ENDOR" EXACT PSI-MI-alternate []
synonym: "endor" EXACT PSI-MI-short []
is_a: MI:0043 ! electron resonance

[Term]
id: MI:0042
name: electron paramagnetic resonance
def: "EPR (also called ESR, Electron Spin Resonance) spectroscopy is analogous to NMR, but is based on the excitation of unpaired electrons instead of nuclei. Unpaired (single) electrons are only found in radicals and some metal ions (paramagnetic sp...
subset: PSI-MI slim