pml body Gene Set

Dataset COMPARTMENTS Text-mining Protein Localization Evidence Scores
Category structural or functional annotations
Type cellular component
Description A class of nuclear body; they react against SP100 auto-antibodies (PML, promyelocytic leukemia); cells typically contain 10-30 PML bodies per nucleus; alterations in the localization of PML bodies occurs after viral infection. (Gene Ontology, GO_0016605)
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Genes

218 proteins co-occuring with the pml body cellular component in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.

Symbol Name Standardized Value
PML promyelocytic leukemia 3.17531
SP100 SP100 nuclear antigen 2.85941
DAXX death-domain associated protein 2.65768
ATRX alpha thalassemia/mental retardation syndrome X-linked 1.5891
RARA retinoic acid receptor, alpha 1.58276
SUMO2 small ubiquitin-like modifier 2 1.40242
SUMO3 small ubiquitin-like modifier 3 1.39461
TP53 tumor protein p53 1.39294
RNF4 ring finger protein 4 1.34065
USP7 ubiquitin specific peptidase 7 (herpes virus-associated) 1.33304
CALCOCO2 calcium binding and coiled-coil domain 2 1.03228
TOPORS topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase 1.02779
HIPK2 homeodomain interacting protein kinase 2 1.0104
ZBTB16 zinc finger and BTB domain containing 16 0.995632
CREBBP CREB binding protein 0.976619
SP140 SP140 nuclear body protein 0.97178
ARID3A AT rich interactive domain 3A (BRIGHT-like) 0.926543
ASF1A anti-silencing function 1A histone chaperone 0.918111
SENP1 SUMO1/sentrin specific peptidase 1 0.895331
MORC3 MORC family CW-type zinc finger 3 0.89348
ISG20 interferon stimulated exonuclease gene 20kDa 0.892093
TERF1 telomeric repeat binding factor (NIMA-interacting) 1 0.868586
MRE11A MRE11 meiotic recombination 11 homolog A (S. cerevisiae) 0.840564
PARK2 parkin RBR E3 ubiquitin protein ligase 0.840105
MDM2 MDM2 proto-oncogene, E3 ubiquitin protein ligase 0.832761
SUMO1 small ubiquitin-like modifier 1 0.830466
TRIM27 tripartite motif containing 27 0.816699
TDP2 tyrosyl-DNA phosphodiesterase 2 0.807065
CASP8AP2 caspase 8 associated protein 2 0.79927
RCOR1 REST corepressor 1 0.786902
PIAS4 protein inhibitor of activated STAT, 4 0.769539
BRCA1 breast cancer 1, early onset 0.764072
RNF38 ring finger protein 38 0.738713
SP110 SP110 nuclear body protein 0.737813
IFNA1 interferon, alpha 1 0.727047
COIL coilin 0.718125
ZMYM6 zinc finger, MYM-type 6 0.71768
FAM50A family with sequence similarity 50, member A 0.71768
SRSF2 serine/arginine-rich splicing factor 2 0.713682
UBOX5 U-box domain containing 5 0.711465
RANGAP1 Ran GTPase activating protein 1 0.705714
RAD50 RAD50 homolog (S. cerevisiae) 0.703507
AIRE autoimmune regulator 0.69427
PIAS3 protein inhibitor of activated STAT, 3 0.689451
CCND3 cyclin D3 0.687264
MLIP muscular LMNA-interacting protein 0.680719
BACH2 BTB and CNC homology 1, basic leucine zipper transcription factor 2 0.679849
RAD51 RAD51 recombinase 0.675065
RPL34 ribosomal protein L34 0.668126
BARD1 BRCA1 associated RING domain 1 0.666394
NSMCE2 non-SMC element 2, MMS21 homolog (S. cerevisiae) 0.65388
TRIM28 tripartite motif containing 28 0.645716
PDAP1 PDGFA associated protein 1 0.645716
NSFL1C NSFL1 (p97) cofactor (p47) 0.635013
MX1 MX dynamin-like GTPase 1 0.632024
DAP death-associated protein 0.629465
LUZP4 leucine zipper protein 4 0.620104
BBOX1 butyrobetaine (gamma), 2-oxoglutarate dioxygenase (gamma-butyrobetaine hydroxylase) 1 0.616285
H2AFX H2A histone family, member X 0.610355
WRN Werner syndrome, RecQ helicase-like 0.607818
BCL6 B-cell CLL/lymphoma 6 0.603174
ZCCHC12 zinc finger, CCHC domain containing 12 0.598117
JRK Jrk homolog (mouse) 0.58678
TMBIM4 transmembrane BAX inhibitor motif containing 4 0.584686
ZMYM4 zinc finger, MYM-type 4 0.583849
HDAC9 histone deacetylase 9 0.565508
REXO4 REX4, RNA exonuclease 4 homolog (S. cerevisiae) 0.546885
HIPK1 homeodomain interacting protein kinase 1 0.546885
ZBED1 zinc finger, BED-type containing 1 0.546885
N4BP1 NEDD4 binding protein 1 0.5149
STAT2 signal transducer and activator of transcription 2, 113kDa 0.514493
PFAS phosphoribosylformylglycinamidine synthase 0.509604
MZF1 myeloid zinc finger 1 0.477233
SKOR1 SKI family transcriptional corepressor 1 0.476027
PIAS1 protein inhibitor of activated STAT, 1 0.474018
TPD52L2 tumor protein D52-like 2 0.468401
HDAC1 histone deacetylase 1 0.4672
HIPK3 homeodomain interacting protein kinase 3 0.461998
ANKRD12 ankyrin repeat domain 12 0.461599
CDK4 cyclin-dependent kinase 4 0.454019
GEMIN4 gem (nuclear organelle) associated protein 4 0.446465
DAPK3 death-associated protein kinase 3 0.431041
ATF7IP activating transcription factor 7 interacting protein 0.42396
PGM3 phosphoglucomutase 3 0.421604
SENP7 SUMO1/sentrin specific peptidase 7 0.414164
SSBP2 single-stranded DNA binding protein 2 0.410259
FBXW5 F-box and WD repeat domain containing 5 0.410259
BCKDHB branched chain keto acid dehydrogenase E1, beta polypeptide 0.409089
TAF1A TATA box binding protein (TBP)-associated factor, RNA polymerase I, A, 48kDa 0.407529
YTHDC1 YTH domain containing 1 0.403248
ZMYM3 zinc finger, MYM-type 3 0.397423
PIAS2 protein inhibitor of activated STAT, 2 0.388909
ZKSCAN7 zinc finger with KRAB and SCAN domains 7 0.387365
UBE2H ubiquitin-conjugating enzyme E2H 0.383509
KLHL20 kelch-like family member 20 0.378122
HIC2 hypermethylated in cancer 2 0.37697
NFYC nuclear transcription factor Y, gamma 0.367771
TRIM16 tripartite motif containing 16 0.366241
HMBOX1 homeobox containing 1 0.363185
RB1 retinoblastoma 1 0.36204
XPO1 exportin 1 0.360896
NR3C1 nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) 0.358609
ATM ATM serine/threonine kinase 0.354802
TPD52L1 tumor protein D52-like 1 0.353282
SAP30L SAP30-like 0.352522
ZNF24 zinc finger protein 24 0.352142
ELF4 E74-like factor 4 (ets domain transcription factor) 0.351762
RSU1 Ras suppressor protein 1 0.351762
NPRL3 nitrogen permease regulator-like 3 (S. cerevisiae) 0.350243
BLM Bloom syndrome, RecQ helicase-like 0.348725
SPTBN4 spectrin, beta, non-erythrocytic 4 0.348725
ZBTB14 zinc finger and BTB domain containing 14 0.347587
RAD9A RAD9 homolog A (S. pombe) 0.346829
SATB1 SATB homeobox 1 0.34645
SOX13 SRY (sex determining region Y)-box 13 0.34645
EIF4E eukaryotic translation initiation factor 4E 0.338128
TERT telomerase reverse transcriptase 0.336241
ATXN3 ataxin 3 0.334356
HDAC7 histone deacetylase 7 0.330966
NBN nibrin 0.327205
CLOCK clock circadian regulator 0.326453
RAB9A RAB9A, member RAS oncogene family 0.324576
MAF v-maf avian musculoaponeurotic fibrosarcoma oncogene homolog 0.323825
ZFHX3 zinc finger homeobox 3 0.322325
RNF168 ring finger protein 168, E3 ubiquitin protein ligase 0.319328
THAP1 THAP domain containing, apoptosis associated protein 1 0.318579
HNRNPU heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) 0.31596
APBB1 amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65) 0.314091
CHFR checkpoint with forkhead and ring finger domains, E3 ubiquitin protein ligase 0.312597
IFI16 interferon, gamma-inducible protein 16 0.309986
CAPN5 calpain 5 0.307004
HN1L hematological and neurological expressed 1-like 0.304399
RLIM ring finger protein, LIM domain interacting 0.29994
WBP11 WW domain binding protein 11 0.298826
LBX1 ladybird homeobox 1 0.293267
SMC5 structural maintenance of chromosomes 5 0.291787
KAT6A K(lysine) acetyltransferase 6A 0.280349
CBX5 chromobox homolog 5 0.278877
SETDB1 SET domain, bifurcated 1 0.278509
H3F3B H3 histone, family 3B (H3.3B) 0.275202
H3F3A H3 histone, family 3A 0.275202
CDC34 cell division cycle 34 0.273367
CDKN2A cyclin-dependent kinase inhibitor 2A 0.2708
ATXN7 ataxin 7 0.269701
SENP6 SUMO1/sentrin specific peptidase 6 0.267871
KDM1A lysine (K)-specific demethylase 1A 0.267505
RANBP2 RAN binding protein 2 0.267505
ATXN1 ataxin 1 0.267139
CENPC centromere protein C 0.255107
LGALS2 lectin, galactoside-binding, soluble, 2 0.255107
SKI SKI proto-oncogene 0.249664
RPAIN RPA interacting protein 0.249664
DNAJA2 DnaJ (Hsp40) homolog, subfamily A, member 2 0.244962
SIAH1 siah E3 ubiquitin protein ligase 1 0.243879
UBE2M ubiquitin-conjugating enzyme E2M 0.241356
HIST1H3I histone cluster 1, H3i 0.241356
HIST1H3J histone cluster 1, H3j 0.241356
HIST1H3D histone cluster 1, H3d 0.241356
HIST1H3F histone cluster 1, H3f 0.241356
HIST1H3B histone cluster 1, H3b 0.241356
HIST1H3G histone cluster 1, H3g 0.241356
TNPO2 transportin 2 0.240996
TAX1BP1 Tax1 (human T-cell leukemia virus type I) binding protein 1 0.23776
KAT5 K(lysine) acetyltransferase 5 0.234174
SPIN1 spindlin 1 0.232386
AKAP8L A kinase (PRKA) anchor protein 8-like 0.229532
EIF3K eukaryotic translation initiation factor 3, subunit K 0.228819
ZNF331 zinc finger protein 331 0.226686
RAD51D RAD51 paralog D 0.225622
MAP2K4 mitogen-activated protein kinase kinase 4 0.219969
ABCA7 ATP-binding cassette, sub-family A (ABC1), member 7 0.209513
RNF31 ring finger protein 31 0.200999
RAD17 RAD17 homolog (S. pombe) 0.198658
HES6 hes family bHLH transcription factor 6 0.198325
PPIB peptidylprolyl isomerase B (cyclophilin B) 0.196999
LMNA lamin A/C 0.195681
MUS81 MUS81 structure-specific endonuclease subunit 0.195681
KHDRBS1 KH domain containing, RNA binding, signal transduction associated 1 0.195025
NCOA2 nuclear receptor coactivator 2 0.194698
SMARCA2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 0.190175
CBX8 chromobox homolog 8 0.186708
TOP1 topoisomerase (DNA) I 0.183328
DEAF1 DEAF1 transcription factor 0.182122
RGS12 regulator of G-protein signaling 12 0.182122
USP2 ubiquitin specific peptidase 2 0.181524
MDM4 MDM4, p53 regulator 0.180634
CIAPIN1 cytokine induced apoptosis inhibitor 1 0.179167
RBX1 ring-box 1, E3 ubiquitin protein ligase 0.178299
STAT1 signal transducer and activator of transcription 1, 91kDa 0.177724
LBR lamin B receptor 0.177724
UBE2L3 ubiquitin-conjugating enzyme E2L 3 0.177154
RGPD3 RANBP2-like and GRIP domain containing 3 0.177154
HIST1H3E histone cluster 1, H3e 0.173543
HIST1H3C histone cluster 1, H3c 0.173003
HIST1H3H histone cluster 1, H3h 0.173003
HIC1 hypermethylated in cancer 1 0.171149
PRKCD protein kinase C, delta 0.170888
CRADD CASP2 and RIPK1 domain containing adaptor with death domain 0.170371
TADA3 transcriptional adaptor 3 0.168101
DHX9 DEAH (Asp-Glu-Ala-His) box helicase 9 0.168101
JUN jun proto-oncogene 0.167125
CDKN1A cyclin-dependent kinase inhibitor 1A (p21, Cip1) 0.166405
UBE3A ubiquitin protein ligase E3A 0.165932
SENP3 SUMO1/sentrin/SMT3 specific peptidase 3 0.165697
RGPD1 RANBP2-like and GRIP domain containing 1 0.16477
CUL3 cullin 3 0.16477
MARS methionyl-tRNA synthetase 0.16477
BCOR BCL6 corepressor 0.163641
CDK2 cyclin-dependent kinase 2 0.162546
PQBP1 polyglutamine binding protein 1 0.161693
SMARCA4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 0.161484
CCNG2 cyclin G2 0.161484
IFNB1 interferon, beta 1, fibroblast 0.160254
RBM14 RNA binding motif protein 14 0.159462
IRF1 interferon regulatory factor 1 0.158692
HIST1H3A histone cluster 1, H3a 0.157578
UBP1 upstream binding protein 1 (LBP-1a) 0.157397
MSL3 male-specific lethal 3 homolog (Drosophila) 0.157218