Gene description for KDM1A
Gene name lysine (K)-specific demethylase 1A
Gene symbol KDM1A
Other names/aliases AOF2
BHC110
KDM1
LSD1
Species Homo sapiens
 Database cross references - KDM1A
ExoCarta ExoCarta_23028
Vesiclepedia VP_23028
Entrez Gene 23028
HGNC 29079
MIM 609132
UniProt O60341  
 KDM1A identified in exosomes derived from the following tissue/cell type
Chondrocytes 35931686    
Chondrocytes 35931686    
Hepatocellular carcinoma cells 26054723    
Mesenchymal stem cells 36408942    
Ovarian cancer cells 23333927    
Ovarian cancer cells 23333927    
Thymus 23844026    
 Gene ontology annotations for KDM1A
Molecular Function
    histone demethylase activity (H3-K4 specific) GO:0032453 IDA
    histone demethylase activity (H3-dimethyl-K4 specific) GO:0034648 IDA
    sequence-specific DNA binding transcription factor activity GO:0003700 IEA
    transcription factor binding GO:0008134 IDA
    enzyme binding GO:0019899 IPI
    demethylase activity GO:0032451 IMP
    RNA polymerase II transcription factor binding GO:0001085 IEA
    oxidoreductase activity GO:0016491 IDA
    ligand-dependent nuclear receptor transcription coactivator activity GO:0030374 IMP
    chromatin binding GO:0003682 IDA
    transcription regulatory region DNA binding GO:0044212 ISS
    histone demethylase activity GO:0032452 IDA
    histone demethylase activity (H3-K9 specific) GO:0032454 IDA
    androgen receptor binding GO:0050681 IDA
    protein binding GO:0005515 IPI
    flavin adenine dinucleotide binding GO:0050660 IDA
    MRF binding GO:0043426 IDA
    p53 binding GO:0002039 IPI
Biological Process
    regulation of primitive erythrocyte differentiation GO:0010725 IEA
    positive regulation of megakaryocyte differentiation GO:0045654 IEA
    oxidation-reduction process GO:0055114 IEA
    negative regulation of DNA binding GO:0043392 IC
    positive regulation of erythrocyte differentiation GO:0045648 IEA
    small GTPase mediated signal transduction GO:0007264 TAS
    protein demethylation GO:0006482 IMP
    positive regulation of neural precursor cell proliferation GO:2000179 IEA
    blood coagulation GO:0007596 TAS
    positive regulation of hormone biosynthetic process GO:0046886 IEA
    muscle cell development GO:0055001 ISS
    regulation of transcription from RNA polymerase II promoter GO:0006357 IMP
    positive regulation of transcription from RNA polymerase II promoter GO:0045944 IDA
    chromatin organization GO:0006325 TAS
    negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator GO:1902166 IMP
    granulocyte differentiation GO:0030851 IEA
    cell proliferation GO:0008283 IEA
    negative regulation of transcription, DNA-templated GO:0045892 IDA
    negative regulation of histone H3-K9 methylation GO:0051573 IEA
    histone H3-K4 demethylation GO:0034720 IDA
    in utero embryonic development GO:0001701 IEA
    transcription, DNA-templated GO:0006351 IEA
    positive regulation of stem cell proliferation GO:2000648 IEA
    negative regulation of DNA damage response, signal transduction by p53 class mediator GO:0043518 IMP
    negative regulation of protein binding GO:0032091 IMP
    negative regulation of histone H3-K4 methylation GO:0051572 IEA
    negative regulation of transcription from RNA polymerase II promoter GO:0000122 ISS
    histone H3-K9 demethylation GO:0033169 IDA
    positive regulation of sequence-specific DNA binding transcription factor activity GO:0051091 IDA
    negative regulation of sequence-specific DNA binding transcription factor activity GO:0043433 IMP
    pituitary gland development GO:0021983 IEA
Subcellular Localization
    nuclear chromatin GO:0000790 ISS
    nucleoplasm GO:0005654 TAS
    transcription factor complex GO:0005667 ISS
    nucleus GO:0005634 IDA
 Experiment description of studies that identified KDM1A in exosomes
1
Experiment ID 497
MISEV standards
✘ EV Biophysical techniques
✔
CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1
EV Enriched markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35931686    
Organism Homo sapiens
Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression
Authors Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD.
Journal name Cell Death Dis
Publication year 2022
Sample Chondrocytes
Sample name T/C-28a2
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
2
Experiment ID 498
MISEV standards
✔
EM
EV Biophysical techniques
✔
CD9|CD151|CD63|CD81|CD82|FLOT1|FLOT2|GAPDH|LAMP1|LAMP2|RAB5A|SDCBP|TFRC|TSG101|UCHL1
EV Enriched markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35931686    
Organism Homo sapiens
Experiment description Extracellular vesicles enriched in connexin 43 promote a senescent phenotype in bone and synovial cells contributing to osteoarthritis progression
Authors Varela-Eirín M, Carpintero-Fernández P, Guitián-Caamaño A, Varela-Vázquez A, García-Yuste A, Sánchez-Temprano A, Bravo-López SB, Yañez-Cabanas J, Fonseca E, Largo R, Mobasheri A, Caeiro JR, Mayán MD.
Journal name Cell Death Dis
Publication year 2022
Sample Chondrocytes
Sample name T/C-28a2
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
3
Experiment ID 235
MISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|Alix|HSC70|GAPDH
EV Enriched markers
✔
HSP90B1
EV Negative markers
✔
qNano
EV Particle analysis
Identified molecule mRNA
Identification method RNA Sequencing
PubMed ID 26054723    
Organism Homo sapiens
Experiment description Hepatocellular carcinoma-derived exosomes promote motility of immortalized hepatocyte through transfer of oncogenic proteins and RNAs
Authors He M, Qin H, Poon TC, Sze SC, Ding X, Co NN, Ngai SM, Chan TF, Wong N
Journal name Carcinogenesis
Publication year 2015
Sample Hepatocellular carcinoma cells
Sample name HKCI-8
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Sucrose density gradient
Flotation density 1.13-1.19 g/mL
Molecules identified in the study Protein
RNA
Methods used in the study Western blotting
Mass spectrometry
RT-PCR
RNA Sequencing
4
Experiment ID 488
MISEV standards
✔
EM
EV Biophysical techniques
✔
CD9|CD81|CD63|GAPDH|SDCBP|LAMP1|TFRC|UCHL1|FLOT2|LAMP2|FLOT1|ICAM1|RAB5B|CD151|RAB35|TSG101|RAB5A|CD82
EV Enriched markers
✔
CANX
EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Homo sapiens
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ.
Journal name Proteomics
Publication year 2023
Sample Mesenchymal stem cells
Sample name UCMSC
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
5
Experiment ID 211
MISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|Alix|EpCAM|TFRC
EV Enriched markers
✔
cytochrome c|GOLGA2
EV Negative markers
✘ EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23333927    
Organism Homo sapiens
Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes.
Authors Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K.
Journal name J Proteomics
Publication year 2013
Sample Ovarian cancer cells
Sample name IGROV1
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.09-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
6
Experiment ID 212
MISEV standards
✔
CEM
EV Biophysical techniques
✔
TSG101|Alix|EpCAM|TFRC
EV Enriched markers
✔
Cytochrome C|GOLGA2
EV Negative markers
✘ EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23333927    
Organism Homo sapiens
Experiment description Characterization and proteomic analysis of ovarian cancer-derived exosomes.
Authors Liang B, Peng P, Chen S, Li L, Zhang M, Cao D, Yang J, Li H, Gui T, Li X, Shen K.
Journal name J Proteomics
Publication year 2013
Sample Ovarian cancer cells
Sample name OVCAR-3
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Sucrose density gradient
Flotation density 1.09-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
7
Experiment ID 217
MISEV standards
✔
EM
EV Biophysical techniques
✔
TSG101|CD81|CD9|CD63
EV Enriched markers
✘ EV Negative markers
✔
NTA
EV Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23844026    
Organism Homo sapiens
Experiment description Characterization of human thymic exosomes.
Authors Skogberg G, Gudmundsdottir J, van der Post S, Sandstrom K, Bruhn S, Benson M, Mincheva-Nilsson L, Baranov V, Telemo E, Ekwall O.
Journal name PLoS One
Publication year 2013
Sample Thymus
Sample name Normal-Thymus
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for KDM1A
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 HMG20B  
Co-purification Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
2 IMMT 10989
Two-hybrid Homo sapiens
3 ZNF217 7764
Affinity Capture-MS Homo sapiens
4 ASCC2 84164
Two-hybrid Homo sapiens
5 ZNF261  
Affinity Capture-MS Homo sapiens
6 HDAC1 3065
Co-purification Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
7 ZNF198  
Affinity Capture-MS Homo sapiens
8 GDF9 2661
Two-hybrid Homo sapiens
9 ATP5J2 9551
Two-hybrid Homo sapiens
10 KDM1A 23028
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
11 UNC119 9094
Two-hybrid Homo sapiens
12 HDAC2 3066
Co-purification Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
13 MDS025  
Two-hybrid Homo sapiens
14 GSE1 23199
Affinity Capture-MS Homo sapiens
15 RCOR1  
Co-purification Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
16 SIN3A  
Affinity Capture-Western Homo sapiens
17 PHF21A  
Co-purification Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
18 SETDB1  
Two-hybrid Homo sapiens
19 GTF2I 2969
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-Western Homo sapiens
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