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Mapping of terms to MI term ids - iRefIndex 8.0

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In those cases where an interaction data record lists a term where a controlled vocabulary term is expected, and no controlled vocabulary term identifier is found, the term found in the record will be mapped by a curator to the closest possible term identifier using the molecular interaction ontology.

These corrections are made in two cases.

  1. For interaction types where no cv term id is listed.
  2. For interaction detection types where no cv term id is listed.

The mappings used are shown below. Feedback (and corrections) by databases is welcome. ian.donaldson@biotek.uio.no

These mappings are reviewed from one release to another.

Additional details are available at http://www.ebi.ac.uk/ontology-lookup/

These corrections are included in the iRefIndex MITAB files and they are used by the iRefWeb interface.

Interaction Type

term found in record curator-assigned term id assigned term
aggregation MI:0191 aggregation
physical association MI:0915 physical association
direct interaction MI:0407 direct interaction
association MI:0914 association
colocalization MI:0403 colocalization
phosphorylation MI:0217 phosphorylation reaction
phosphotransfer MI:0844 phosphotransfer reaction
atpase reaction MI:0882 atpase reaction
enzymatic reaction MI:0414 enzymatic reaction
ubiquitination MI:0220 ubiquitination reaction
covalent binding MI:0195 covalent binding
gtpase reaction MI:0883 gtpase reaction
methylation MI:0213 methylation reaction
dephosphorylation MI:0203 dephosphorylation reaction
palmitoylation MI:0216 palmitoylation reaction
protein cleavage MI:0570 protein cleavage
demethylation MI:0871 demethylation reaction
cleavage MI:0194 cleavage reaction
neddylation MI:0567 neddylation reaction
acetylation MI:0192 acetylation reaction
deacetylation MI:0197 deacetylation reaction
physical interaction MI:0218 physical interaction
redox reaction MI:0945 redox reaction
elongation MI:0701 dna strand elongation
deubiquitination MI:0204 deubiquitination reaction
rna cleavage MI:0902 rna cleavage
disulfide bond MI:0408 disulfide bond
genetic inequality MI:0931 genetic interaction defined by inequality
sumoylation MI:0566 sumoylation reaction
adp ribosylation MI:0557 adp ribosylation reaction
ncl acid cleavage MI:0910 nucleic acid cleavage
hydroxylation MI:0210 hydroxylation reaction
deneddylation MI:0569 deneddylation reaction
glycosylation MI:0559 glycosylation reaction
amidation MI:0193 amidation reaction
suppressive genetic interaction defined by inequality MI:0796 suppressive genetic interaction defined by inequality
additive genetic interaction defined by inequality MI:0799 additive genetic interaction defined by inequality
synthetic genetic interaction defined by inequality MI:0794 synthetic genetic interaction defined by inequality
Biochemical reaction MI:0915 physical association
covalent interaction MI:0195 covalent binding
phosphorylation reaction MI:0217 phosphorylation reaction
phosphotransfer reaction MI:0844 phosphotransfer reaction
ubiquitination reaction MI:0220 ubiquitination reaction
methylation reaction MI:0213 methylation reaction
dephosphorylation reaction MI:0203 dephosphorylation reaction
palmitoylation reaction MI:0216 palmitoylation reaction
demethylation reaction MI:0871 demethylation reaction
cleavage reaction MI:0194 cleavage reaction
neddylation reaction MI:0567 neddylation reaction
acetylation reaction MI:0192 acetylation reaction
deacetylation reaction MI:0197 deacetylation reaction
oxidoreductase activity electron transfer assay MI:0569 deneddylation reaction
dna strand elongation MI:0701 dna strand elongation
deubiquitination reaction MI:0204 deubiquitination reaction
genetic interaction defined by inequality MI:0931 genetic interaction defined by inequality
sumoylation reaction MI:0566 sumoylation reaction
adp ribosylation reaction MI:0557 adp ribosylation reaction
nucleic acid cleavage MI:0910 nucleic acid cleavage
hydroxylation reaction MI:0210 hydroxylation reaction
deneddylation reaction MI:0569 deneddylation reaction
glycosylation reaction MI:0559 glycosylation reaction
amidation reaction MI:0193 amidation reaction

Interaction Detection Method

term found in record curator-assigned term id assigned term
gdp/gtp exchange assay MI:0949 array technology
bead aggregation assay MI:0947 aggregation
mass spectrometry study of hydrogen/deuterium exchange MI:0943 mass spectrometry
proteinchip[r] on a surface-enhanced laser desorption/ionization MI:0095 protein
proximity enzyme linked immunosorbent assay MI:0813 proximity enzyme linked immunosorbent assay
BacterioMatch MI:0655 lambda repressor two hybrid
SPRImager MI:0921 surface plasmon resonance array
SPRi-Plex MI:0921 surface plasmon resonance array
AFM MI:0872 atomic force microscopy
SELDI ProteinChip MI:0095 proteinchip(r) on a surface-enhanced laser desorption/ionization
elisa MI:0411 enzyme linked immunosorbent assay
footprinting MI:0417 footprinting
interologs mapping MI:0064 interologs mapping
confirmational text mining MI:0024 confirmational text mining
vv MI:0493 in vivo
2 hybrid MI:0018 two hybrid
protein array MI:0089 protein array
solution sedimentati MI:0028 cosedimentation in solution
comig non denat gel MI:0404 comigration in non denaturing gel electrophoresis
toxcat MI:0370 tox-r dimerization assay
anti bait coip MI:0006 anti bait coimmunoprecipitation
pull down MI:0096 pull down
far western blotting MI:0047 far western blotting
molecular sieving MI:0071 molecular sieving
tap MI:0676 tandem affinity purification
anti tag coip MI:0007 anti tag coimmunoprecipitation
fluorescence imaging MI:0416 fluorescence microscopy
ch-ip MI:0402 chromatin immunoprecipitation assay
enzymatic study MI:0415 enzymatic study
bifc MI:0809 bimolecular fluorescence complementation
crosslink MI:0030 cross-linking study
density sedimentatio MI:0029 cosedimentation through density gradient
confocal microscopy MI:0663 confocal microscopy
coip MI:0019 coimmunoprecipitation
spr MI:0107 surface plasmon resonance
x-ray diffraction MI:0114 x-ray crystallography
affinity chrom MI:0004 affinity chromatography technology
light scattering MI:0067 light scattering
protein kinase assay MI:0424 protein kinase assay
electron microscopy MI:0040 electron microscopy
fret MI:0055 fluorescent resonance energy transfer
fluorescence spectr MI:0017 classical fluorescence spectroscopy
affinity techniques MI:0400 affinity technology
cosedimentation MI:0027 cosedimentation
phosphotransfer assa MI:0841 phosphotransfer assay
in gel kinase assay MI:0423 in-gel kinase assay
phage display MI:0084 phage display
itc MI:0065 isothermal titration calorimetry
nmr MI:0077 nuclear magnetic resonance
emsa MI:0413 electrophoretic mobility shift assay
filter binding MI:0049 filter binding
atpase assay MI:0880 atpase assay
imaging technique MI:0428 imaging technique
biochemical MI:0401 biochemical
beta galactosidase MI:0010 beta galactosidase complementation
nucl ac uv crosslink MI:0430 nucleic acid uv cross-linking assay
competition binding MI:0405 competition binding
gtpase assay MI:0419 gtpase assay
bn-page MI:0276 blue native page
fluorescence MI:0051 fluorescence technology
chromatography MI:0091 chromatography technology
two hybrid array MI:0397 two hybrid array
facs MI:0054 fluorescence-activated cell sorting
complementation MI:0090 protein complementation assay
methyltransferase as MI:0515 methyltransferase assay
radiolabeled methyl MI:0516 methyltransferase radiometric assay
transcription compl MI:0232 transcriptional complementation assay
one hybrid MI:0432 one hybrid
two hybrid pooling MI:0398 two hybrid pooling approach
ub reconstruction MI:0112 ubiquitin reconstruction
biophysical MI:0013 biophysical
phosphatase assay MI:0434 phosphatase assay
ion exchange chrom MI:0226 ion exchange chromatography
sem MI:0410 electron tomography
dls MI:0038 dynamic light scattering
saturation binding MI:0440 saturation binding
protease assay MI:0435 protease assay
light microscopy MI:0426 light microscopy
kinase htrf MI:0420 kinase homogeneous time resolved fluorescence
peptide array MI:0081 peptide array
cd MI:0016 circular dichroism
ms of complexes MI:0069 mass spectrometry studies of complexes
dhfr reconstruction MI:0111 dihydrofolate reductase reconstruction
solid phase assay MI:0892 solid phase assay
inferred by author MI:0363 inferred by author
lambda phage MI:0066 lambda phage display
demethylase assay MI:0870 demethylase assay
3 hybrid method MI:0588 3 hybrid method
dnase 1 footprinting MI:0606 DNase I footprinting
comigration in sds MI:0808 comigration in sds page
2h fragment pooling MI:0399 two hybrid fragment pooling approach
fps MI:0053 fluorescence polarization spectroscopy
reverse phase chrom MI:0227 reverse phase chromatography
comigration in gel MI:0807 comigration in gel electrophoresis
fcs MI:0052 fluorescence correlation spectroscopy
deacetylase assay MI:0406 deacetylase assay
sls MI:0104 static light scattering
lambda two hybrid MI:0655 lambda repressor two hybrid
emsa supershift MI:0412 electrophoretic mobility supershift assay
bret MI:0012 bioluminescence resonance energy transfer
adenylate cyclase MI:0014 adenylate cyclase complementation
mappit MI:0231 mammalian protein protein interaction trap
gfp complementation MI:0229 green fluorescence protein complementation assay
protein tri hybrid MI:0437 protein tri hybrid
protein crosslink MI:0031 protein cross-linking with a bifunctional reagent
rna rna pol assay MI:0700 rna directed rna polymerase assay
spa MI:0099 scintillation proximity assay
reverse rrs MI:0097 reverse ras recruitment system
array technology MI:0008 array technology
spr array MI:0921 surface plasmon resonance array
gal4 vp16 complement MI:0728 gal4 vp16 complementation
ribonuclease assay MI:0920 ribonuclease assay
yeast display MI:0115 yeast display
immunodepletion MI:0858 immunodepleted coimmunoprecipitation
dna dna pol assay MI:0697 dna directed dna polymerase assay
kinase spa MI:0425 kinase scintillation proximity assay
saxs MI:0826 x ray scattering
enzymatic footprint MI:0605 enzymatic footprinting
reverse two hybrid MI:0726 reverse two hybrid
selex MI:0657 systematic evolution of ligands by exponential enrichment
htrf MI:0510 homogeneous time resolved fluorescence
acetylation assay MI:0889 acetylation assay
chip-chip MI:0225 chromatin immunoprecipitation array
gallex MI:0369 lex-a dimerization assay
lumier MI:0729 luminescence based mammalian interactome mapping
display technology MI:0034 display technology
atomic force microsc MI:0872 atomic force microscopy
antibody array MI:0678 antibody array
t7 phage MI:0108 t7 phage display
tem MI:0020 transmission electron microscopy
inferred by curator MI:0364 inferred by curator
experimental interac MI:0045 experimental interaction detection
beta lactamase MI:0011 beta lactamase complementation
coloc fluoresc probe MI:0021 colocalization by fluorescent probes cloning
tap tag coip MI:0109 tap tag coimmunoprecipitation
zymography MI:0512 zymography
filamentous phage MI:0048 filamentous phage display
experimental info MI:0046 experimental knowledge based
epr MI:0042 electron paramagnetic resonance
unspecified method MI:0686 unspecified method
membrane compl MI:0230 membrane bound complementation assay
predict from struct MI:0105 structure based prediction
predicted interac MI:0063 interaction prediction
cytoplasmic compl MI:0228 cytoplasmic complementation assay
seldi chip MI:0095 proteinchip(r) on a surface-enhanced laser desorption/ionization
two hybrid MI:0018 two hybrid
affinity chromatography technology MI:0004 affinity chromatography technology
density sedimentation MI:0029 cosedimentation through density gradient
atomic force microscopy MI:0872 atomic force microscopy
isotope footprinting MI:0901 isotope label footprinting
genetic interference MI:0254 genetic interference
x-ray crystallography MI:0114 x-ray crystallography
fluorescent resonance energy transfer MI:0055 fluorescent resonance energy transfer
protein complementation assay MI:0090 protein complementation assay
p3 filamentous phage display MI:0899 p3 filamentous phage display
electron diffraction MI:0894 electron diffraction
small angle neutron scattering MI:0888 small angle neutron scattering
chromatin immunoprecipitation assay MI:0402 chromatin immunoprecipitation assay
nucleic acid uv cross-linking assay MI:0430 nucleic acid uv cross-linking assay
DNase I footprinting MI:0606 DNase I footprinting
surface plasmon resonance array MI:0921 surface plasmon resonance array
chromatin immunoprecipitation array MI:0225 chromatin immunoprecipitation array
luminescence based mammalian interactome mapping MI:0729 luminescence based mammalian interactome mapping
membrane bound complementation assay MI:0230 membrane bound complementation assay
structure based prediction MI:0105 structure based prediction
cytoplasmic complementation assay MI:0228 cytoplasmic complementation assay
other MI:0686 unspecified method
immunoprecipitation MI:0019 coimmunoprecipitation
affinity-chromatography MI:0004 affinity chromatography technology
three-dimensional-structure MI:0114 x-ray crystallography
cross-linking MI:0030 cross-linking study
not-specified MI:0686 unspecified method
two-hybrid-test MI:0018 two hybrid
NA MI:0686 unspecified method
colocalization MI:0428 imaging technique
gel-retardation-assays MI:0413 electrophoretic mobility shift assay
competition-binding MI:0405 competition binding
immunostaining MI:0428 imaging technique
far-western MI:0047 far western blotting
phage-display MI:0084 phage display
surface-plasmon-resonance-chip MI:0921 surface plasmon resonance array
gel-filtration-chromatography MI:0071 molecular sieving
sucrose-gradient-sedimentation MI:0029 cosedimentation through density gradient
resonance-energy-transfer MI:0055 fluorescent resonance energy transfer
monoclonal-antibody-blockade MI:0686 unspecified method
fluorescence-anisotropy MI:0053 fluorescence polarization spectroscopy
autoradiography MI:0833 autoradiography
mass-spectrometry MI:0069 mass spectrometry studies of complexes
light-scattering MI:0067 light scattering
electron-microscopy MI:0040 electron microscopy
hybridization MI:0079 other biochemical technologies
equilibrium-dialysis MI:0071 molecular sieving
atomic-force-microscopy MI:0872 atomic force microscopy
transient-coexpression MI:0686 unspecified method
membrane-filtration MI:0071 molecular sieving
interaction-adhesion-assay MI:0686 unspecified method
immunoblotting MI:0113 western blot
electron-spin-resonance MI:0043 electron resonance
Y2H MI:0018 two hybrid
copurification MI:0401 biochemical
coip: coimmunoprecipitation MI:0019 coimmunoprecipitation
experimental knowledge based MI:0046 experimental knowledge based
colocalization/visualisation technologies MI:0428 imaging technique
cross-linking studies MI:0030 cross-linking study
elisa: enzyme-linked immunosorbent assay MI:0411 enzyme linked immunosorbent assay
x-ray: x-ray crystallography MI:0114 x-ray crystallography
electron resonance MI:0043 electron resonance
two-hybrid MI:0018 two hybrid
yeast two hybrid MI:0018 two hybrid
2-hybrid MI:0018 two hybrid
Gal4 transcription regeneration MI:0018 two hybrid
classical two hybrid MI:0018 two hybrid
Affinity blotting MI:0047 far western blotting
Size Exclusion Chromatography MI:0071 molecular sieving
Siezing column MI:0071 molecular sieving
Gel Filtration MI:0071 molecular sieving
Co-IP MI:0019 coimmunoprecipitation
co-immunoprecipitation MI:0019 coimmunoprecipitation
Optical biosensor MI:0107 surface plasmon resonance
BIAcore[r] MI:0107 surface plasmon resonance
X-ray MI:0114 x-ray crystallography
Affinity purification MI:0004 affinity chromatography technology
Electron crystallography MI:0040 electron microscopy
Electron cryomicroscopy MI:0040 electron microscopy
RET MI:0055 fluorescent resonance energy transfer
FRET analysis MI:0055 fluorescent resonance energy transfer
Gel retardation assay MI:0413 electrophoretic mobility shift assay
band shift MI:0413 electrophoretic mobility shift assay
Filter overlay assay MI:0049 filter binding
microscopy MI:0428 imaging technique
gtp hydrolisis MI:0419 gtpase assay
column chromatography MI:0091 chromatography technology
Flow cytometry MI:0054 fluorescence-activated cell sorting
PCA MI:0090 protein complementation assay
yeast one hybrid MI:0432 one hybrid
yeast one-hybrid MI:0432 one hybrid
one-hybrid MI:0432 one hybrid
IEC MI:0686 unspecified method
homogeneous time-resolved fluorescence MI:0510 homogeneous time resolved fluorescence
modelled by author MI:0363 inferred by author
modeled by author MI:0363 inferred by author
Fluorescence anisotropy MI:0053 fluorescence polarization spectroscopy
LRET MI:0012 bioluminescence resonance energy transfer
bacterial two-hybrid MI:0014 adenylate cyclase complementation
trihybrid MI:0437 protein tri hybrid
bridge assay MI:0437 protein tri hybrid
Photoaffinity labelling MI:0031 protein cross-linking with a bifunctional reagent
Label transfer techniques MI:0031 protein cross-linking with a bifunctional reagent
RIA Radio Immuno Assay MI:0099 scintillation proximity assay
karyoplasmic interaction ion strategy MI:0728 gal4 vp16 complementation
KISS MI:0728 gal4 vp16 complementation
mammalian two hybrid MI:0728 gal4 vp16 complementation
immunodepleted coip MI:0858 immunodepleted coimmunoprecipitation
in vitro evolution of nucleic acids MI:0657 systematic evolution of ligands by exponential enrichment
sandwich immunoassay MI:0695 sandwich immunoassay
antigen capture assay MI:0678 antibody array
modelled by curator MI:0364 inferred by curator
modeled by curator MI:0364 inferred by curator
ESR MI:0042 electron paramagnetic resonance
in silico methods MI:0063 interaction prediction
in vivo MI:0686 unspecified method
in vitro MI:0686 unspecified method
anti tag coimmunoprecipitation MI:0007 anti tag coimmunoprecipitation
experimental interaction detection MI:0045 experimental interaction detection
anti bait coimmunoprecipitation MI:0006 anti bait coimmunoprecipitation
x ray scattering MI:0826 x ray scattering
nuclear magnetic resonance MI:0077 nuclear magnetic resonance
coimmunoprecipitation MI:0019 coimmunoprecipitation
isothermal titration calorimetry MI:0065 isothermal titration calorimetry
classical fluorescence spectroscopy MI:0017 classical fluorescence spectroscopy
cross-linking study MI:0030 cross-linking study
surface plasmon resonance MI:0107 surface plasmon resonance
tandem affinity purification MI:0676 tandem affinity purification
comigration in sds page MI:0808 comigration in sds page
transmission electron microscopy MI:0020 transmission electron microscopy
cosedimentation in solution MI:0028 cosedimentation in solution
comigration in non denaturing gel electrophoresis MI:0404 comigration in non denaturing gel electrophoresis
cosedimentation through density gradient MI:0029 cosedimentation through density gradient
two hybrid pooling approach MI:0398 two hybrid pooling approach
electron tomography MI:0410 electron tomography
mass spectrometry studies of complexes MI:0069 mass spectrometry studies of complexes
fluorescence polarization spectroscopy MI:0053 fluorescence polarization spectroscopy
fluorescence technology MI:0051 fluorescence technology
blue native page MI:0276 blue native page
ubiquitin reconstruction MI:0112 ubiquitin reconstruction
lambda repressor two hybrid MI:0655 lambda repressor two hybrid
fluorescence microscopy MI:0416 fluorescence microscopy
electron paramagnetic resonance MI:0042 electron paramagnetic resonance
enzyme linked immunosorbent assay MI:0411 enzyme linked immunosorbent assay
protease accessibility laddering MI:0814 protease accessibility laddering
dynamic light scattering MI:0038 dynamic light scattering
bimolecular fluorescence complementation MI:0809 bimolecular fluorescence complementation
ion exchange chromatography MI:0226 ion exchange chromatography
neutron diffraction MI:0893 neutron diffraction
fluorescence correlation spectroscopy MI:0052 fluorescence correlation spectroscopy
electrophoretic mobility shift assay MI:0413 electrophoretic mobility shift assay
comigration in gel electrophoresis MI:0807 comigration in gel electrophoresis
phosphotransfer assay MI:0841 phosphotransfer assay
circular dichroism MI:0016 circular dichroism
methyltransferase radiometric assay MI:0516 methyltransferase radiometric assay
affinity technology MI:0400 affinity technology
static light scattering MI:0104 static light scattering
protein cross-linking with a bifunctional reagent MI:0031 protein cross-linking with a bifunctional reagent
x-ray fiber diffraction MI:0825 x-ray fiber diffraction
intermolecular force MI:0859 intermolecular force
methyltransferase assay MI:0515 methyltransferase assay
tox-r dimerization assay MI:0370 tox-r dimerization assay
bioluminescence resonance energy transfer MI:0012 bioluminescence resonance energy transfer
imaging techniques MI:0428 imaging technique
adenylate cyclase complementation MI:0014 adenylate cyclase complementation
t7 phage display MI:0108 t7 phage display
fluorescence-activated cell sorting MI:0054 fluorescence-activated cell sorting
chromatography technology MI:0091 chromatography technology
chromatin immunoprecipitation assays MI:0402 chromatin immunoprecipitation assay
coloc by immunost MI:0428 imaging technique
two hybrid fragment pooling approach MI:0399 two hybrid fragment pooling approach
tap tag coimmunoprecipitation MI:0676 tandem affinity purification
reverse phase chromatography MI:0227 reverse phase chromatography
in-gel kinase assay MI:0423 in-gel kinase assay
beta galactosidase complementation MI:0010 beta galactosidase complementation
transcriptional complementation assay MI:0232 transcriptional complementation assay
kinase homogeneous time resolved fluorescence MI:0420 kinase homogeneous time resolved fluorescence
dihydrofolate reductase reconstruction MI:0111 dihydrofolate reductase reconstruction
lambda phage display MI:0066 lambda phage display
electrophoretic mobility supershift assay MI:0412 electrophoretic mobility supershift assay
mammalian protein protein interaction trap MI:0231 mammalian protein protein interaction trap
green fluorescence protein complementation assay MI:0229 green fluorescence protein complementation assay
rna directed rna polymerase assay MI:0700 rna directed rna polymerase assay
scintillation proximity assay MI:0099 scintillation proximity assay
reverse ras recruitment system MI:0097 reverse ras recruitment system
gal4 vp16 complementation MI:0728 gal4 vp16 complementation
immunodepleted coimmunoprecipitation MI:0858 immunodepleted coimmunoprecipitation
dna directed dna polymerase assay MI:0697 dna directed dna polymerase assay
kinase scintillation proximity assay MI:0425 kinase scintillation proximity assay
enzymatic footprinting MI:0605 enzymatic footprinting
systematic evolution of ligands by exponential enrichment MI:0657 systematic evolution of ligands by exponential enrichment
homogeneous time resolved fluorescence MI:0510 homogeneous time resolved fluorescence
lex-a dimerization assay MI:0369 lex-a dimerization assay
beta lactamase complementation MI:0011 beta lactamase complementation
colocalization by fluorescent probes cloning MI:0428 imaging technique
filamentous phage display MI:0048 filamentous phage display
interaction prediction MI:0063 interaction prediction