nuclear matrix Gene Set

Dataset COMPARTMENTS Text-mining Protein Localization Evidence Scores
Category structural or functional annotations
Type cellular component
Description The dense fibrillar network lying on the inner side of the nuclear membrane. (Gene Ontology, GO_0016363)
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Genes

310 proteins co-occuring with the nuclear matrix cellular component in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.

Symbol Name Standardized Value
MARS methionyl-tRNA synthetase 2.80215
SATB1 SATB homeobox 1 1.94671
MATR3 matrin 3 1.75852
HNRNPU heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) 1.68909
FBXO17 F-box protein 17 1.63242
NUMA1 nuclear mitotic apparatus protein 1 1.62531
SARS seryl-tRNA synthetase 1.61529
SAFB scaffold attachment factor B 1.54404
SATB2 SATB homeobox 2 1.34065
RNASE1 ribonuclease, RNase A family, 1 (pancreatic) 1.23505
HNRNPC heterogeneous nuclear ribonucleoprotein C (C1/C2) 1.19777
ZNF384 zinc finger protein 384 1.18903
HNRNPDL heterogeneous nuclear ribonucleoprotein D-like 1.18646
AKAP8 A kinase (PRKA) anchor protein 8 1.11429
NPM1 nucleophosmin (nucleolar phosphoprotein B23, numatrin) 1.10613
BANP BTG3 associated nuclear protein 1.04884
CIZ1 CDKN1A interacting zinc finger protein 1 1.0413
ARID3A AT rich interactive domain 3A (BRIGHT-like) 1.03829
PML promyelocytic leukemia 1.01734
TNP2 transition protein 2 (during histone to protamine replacement) 1.01486
SRSF2 serine/arginine-rich splicing factor 2 1.01436
RUNX2 runt-related transcription factor 2 0.983906
SAFB2 scaffold attachment factor B2 0.976135
YY1 YY1 transcription factor 0.951619
ZNF74 zinc finger protein 74 0.944956
LMNA lamin A/C 0.881477
TP53 tumor protein p53 0.873647
SERPINB6 serpin peptidase inhibitor, clade B (ovalbumin), member 6 0.868126
AR androgen receptor 0.862149
PRIM1 primase, DNA, polypeptide 1 (49kDa) 0.805689
PRM2 protamine 2 0.803855
CENPF centromere protein F, 350/400kDa 0.801104
CUX1 cut-like homeobox 1 0.785529
LMNB2 lamin B2 0.783241
PARP1 poly (ADP-ribose) polymerase 1 0.759978
HOXA2 homeobox A2 0.759069
NONO non-POU domain containing, octamer-binding 0.749546
ZNF239 zinc finger protein 239 0.746381
ZNF233 zinc finger protein 233 0.746381
ESR1 estrogen receptor 1 0.74322
WDR43 WD repeat domain 43 0.741867
PHB prohibitin 0.736014
LMNB1 lamin B1 0.728389
NCL nucleolin 0.720797
RUNX1 runt-related transcription factor 1 0.71457
ZMPSTE24 zinc metallopeptidase STE24 0.71457
UTP15 UTP15, U3 small nucleolar ribonucleoprotein, homolog (S. cerevisiae) 0.711022
PHACTR3 phosphatase and actin regulator 3 0.692516
FBLL1 fibrillarin-like 1 0.675065
AKAP8L A kinase (PRKA) anchor protein 8-like 0.6638
WDR46 WD repeat domain 46 0.66164
MORC4 MORC family CW-type zinc finger 4 0.659482
TOP2B topoisomerase (DNA) II beta 180kDa 0.653019
TOP1 topoisomerase (DNA) I 0.65001
PRM1 protamine 1 0.647433
IFNA7 interferon, alpha 7 0.646145
PPIL1 peptidylprolyl isomerase (cyclophilin)-like 1 0.645287
CTCF CCCTC-binding factor (zinc finger protein) 0.640145
ZNF638 zinc finger protein 638 0.639717
MAGEF1 melanoma antigen family F1 0.639289
ENC1 ectodermal-neural cortex 1 (with BTB domain) 0.633305
PIAS1 protein inhibitor of activated STAT, 1 0.632878
NDN necdin, melanoma antigen (MAGE) family member 0.623079
HNRNPM heterogeneous nuclear ribonucleoprotein M 0.623079
SCAF8 SR-related CTD-associated factor 8 0.622229
RUNX1T1 runt-related transcription factor 1; translocated to, 1 (cyclin D-related) 0.621804
EMD emerin 0.618406
TBRG4 transforming growth factor beta regulator 4 0.611201
PCNA proliferating cell nuclear antigen 0.59896
BGLAP bone gamma-carboxyglutamate (gla) protein 0.597276
HDAC1 histone deacetylase 1 0.596435
BCKDHB branched chain keto acid dehydrogenase E1, beta polypeptide 0.568416
CSN1S1 casein alpha s1 0.563432
MYB v-myb avian myeloblastosis viral oncogene homolog 0.560114
CIRH1A cirrhosis, autosomal recessive 1A (cirhin) 0.552251
DCAF13 DDB1 and CUL4 associated factor 13 0.54194
NR3C1 nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) 0.533309
HNRNPA2B1 heterogeneous nuclear ribonucleoprotein A2/B1 0.525113
TSC22D4 TSC22 domain family, member 4 0.524294
NOL10 nucleolar protein 10 0.521841
DDX5 DEAD (Asp-Glu-Ala-Asp) box helicase 5 0.519798
FOS FBJ murine osteosarcoma viral oncogene homolog 0.510011
LGALS4 lectin, galactoside-binding, soluble, 4 0.50879
CALML5 calmodulin-like 5 0.504318
DNASE1 deoxyribonuclease I 0.501476
ARID3C AT rich interactive domain 3C (BRIGHT-like) 0.499853
SP100 SP100 nuclear antigen 0.486096
PIK3C2B phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta 0.482064
CD8A CD8a molecule 0.481661
ATM ATM serine/threonine kinase 0.477233
COIL coilin 0.477233
PRKDC protein kinase, DNA-activated, catalytic polypeptide 0.469203
DHFR dihydrofolate reductase 0.4672
DGKA diacylglycerol kinase, alpha 80kDa 0.465598
EIF6 eukaryotic translation initiation factor 6 0.464798
STK4 serine/threonine kinase 4 0.4608
WIZ widely interspaced zinc finger motifs 0.460001
PRPF4B pre-mRNA processing factor 4B 0.458803
REXO4 REX4, RNA exonuclease 4 homolog (S. cerevisiae) 0.454418
SNRNP70 small nuclear ribonucleoprotein 70kDa (U1) 0.450438
TLK1 tousled-like kinase 1 0.45004
NPRL3 nitrogen permease regulator-like 3 (S. cerevisiae) 0.446862
IFNA10 interferon, alpha 10 0.446465
OSGIN2 oxidative stress induced growth inhibitor family member 2 0.446069
INSL4 insulin-like 4 (placenta) 0.443292
MAP4K5 mitogen-activated protein kinase kinase kinase kinase 5 0.4425
MKI67 marker of proliferation Ki-67 0.440124
DYRK4 dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 4 0.43696
FGFR1 fibroblast growth factor receptor 1 0.434196
MORC3 MORC family CW-type zinc finger 3 0.433407
NDNL2 necdin-like 2 0.426711
DYRK1A dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1A 0.425138
HNRNPK heterogeneous nuclear ribonucleoprotein K 0.423174
HSPA4 heat shock 70kDa protein 4 0.417685
THOC1 THO complex 1 0.415337
PRKD3 protein kinase D3 0.415337
TSC22D1 TSC22 domain family, member 1 0.414164
UNC50 unc-50 homolog (C. elegans) 0.412601
CD74 CD74 molecule, major histocompatibility complex, class II invariant chain 0.41182
TBP TATA box binding protein 0.409869
MSX2 msh homeobox 2 0.40714
RNASEL ribonuclease L (2',5'-oligoisoadenylate synthetase-dependent) 0.406361
ZNF222 zinc finger protein 222 0.406361
RB1 retinoblastoma 1 0.402859
ADAD1 adenosine deaminase domain containing 1 (testis-specific) 0.397423
PLCB1 phospholipase C, beta 1 (phosphoinositide-specific) 0.397035
TSNAX translin-associated factor X 0.396648
HP haptoglobin 0.395485
MEN1 multiple endocrine neoplasia I 0.390455
VDR vitamin D (1,25- dihydroxyvitamin D3) receptor 0.390068
ADH1A alcohol dehydrogenase 1A (class I), alpha polypeptide 0.387751
C1D C1D nuclear receptor corepressor 0.384665
RARA retinoic acid receptor, alpha 0.380429
TOP3A topoisomerase (DNA) III alpha 0.37966
HPR haptoglobin-related protein 0.378122
AES amino-terminal enhancer of split 0.372366
ACTG1 actin gamma 1 0.371599
CENPB centromere protein B, 80kDa 0.37045
SRRM2 serine/arginine repetitive matrix 2 0.368919
CASP6 caspase 6, apoptosis-related cysteine peptidase 0.367771
RNASEH2A ribonuclease H2, subunit A 0.365477
POLR2C polymerase (RNA) II (DNA directed) polypeptide C, 33kDa 0.364713
MAEA macrophage erythroblast attacher 0.363949
TRIM27 tripartite motif containing 27 0.361277
HMG20B high mobility group 20B 0.360133
SMPD2 sphingomyelin phosphodiesterase 2, neutral membrane (neutral sphingomyelinase) 0.359371
MYC v-myc avian myelocytomatosis viral oncogene homolog 0.355944
CALM3 calmodulin 3 (phosphorylase kinase, delta) 0.354802
CALM2 calmodulin 2 (phosphorylase kinase, delta) 0.354802
CALM1 calmodulin 1 (phosphorylase kinase, delta) 0.354422
PRPF19 pre-mRNA processing factor 19 0.351382
TRDMT1 tRNA aspartic acid methyltransferase 1 0.349863
LHX3 LIM homeobox 3 0.347587
XRCC6 X-ray repair complementing defective repair in Chinese hamster cells 6 0.346829
PGR progesterone receptor 0.341151
ARFGEF1 ADP-ribosylation factor guanine nucleotide-exchange factor 1 (brefeldin A-inhibited) 0.340773
NUFIP1 nuclear fragile X mental retardation protein interacting protein 1 0.338884
STARD7 StAR-related lipid transfer (START) domain containing 7 0.336619
MCM2 minichromosome maintenance complex component 2 0.333979
FRG2B FSHD region gene 2 family, member B 0.332848
FRG2 FSHD region gene 2 0.332848
TBL3 transducin (beta)-like 3 0.332848
CDK2 cyclin-dependent kinase 2 0.330966
MYL4 myosin, light chain 4, alkali; atrial, embryonic 0.327581
EBNA1BP2 EBNA1 binding protein 2 0.325702
NHLH2 nescient helix loop helix 2 0.323825
GNA13 guanine nucleotide binding protein (G protein), alpha 13 0.32345
CCND3 cyclin D3 0.32195
LIG4 ligase IV, DNA, ATP-dependent 0.320826
HNRNPF heterogeneous nuclear ribonucleoprotein F 0.319702
SNW1 SNW domain containing 1 0.318579
PNMA1 paraneoplastic Ma antigen 1 0.317456
MARK2 MAP/microtubule affinity-regulating kinase 2 0.316334
EIF1 eukaryotic translation initiation factor 1 0.314839
RBL2 retinoblastoma-like 2 0.309986
CDKN1A cyclin-dependent kinase inhibitor 1A (p21, Cip1) 0.308494
RAD21 RAD21 homolog (S. pombe) 0.304399
ACTB actin, beta 0.304399
ZNF692 zinc finger protein 692 0.304027
PRPF8 pre-mRNA processing factor 8 0.304027
HIST1H4K histone cluster 1, H4k 0.302168
HIST1H4D histone cluster 1, H4d 0.302168
HIST1H4C histone cluster 1, H4c 0.302168
HIST1H4E histone cluster 1, H4e 0.302168
HIST1H4F histone cluster 1, H4f 0.302168
HIST1H4A histone cluster 1, H4a 0.302168
HIST1H4B histone cluster 1, H4b 0.302168
HIST1H4J histone cluster 1, H4j 0.302168
HIST2H4B histone cluster 2, H4b 0.302168
HIST1H4H histone cluster 1, H4h 0.302168
HIST2H4A histone cluster 2, H4a 0.302168
HIST1H4I histone cluster 1, H4i 0.302168
HIST4H4 histone cluster 4, H4 0.301797
HIST1H4L histone cluster 1, H4l 0.301797
ARID3B AT rich interactive domain 3B (BRIGHT-like) 0.298084
ISG20 interferon stimulated exonuclease gene 20kDa 0.296972
PMS1 PMS1 postmeiotic segregation increased 1 (S. cerevisiae) 0.29623
CDK10 cyclin-dependent kinase 10 0.292897
PLK4 polo-like kinase 4 0.292157
SF3B4 splicing factor 3b, subunit 4, 49kDa 0.289569
RAD51 RAD51 recombinase 0.28846
BCR breakpoint cluster region 0.286614
ARSI arylsulfatase family, member I 0.282926
NAT8 N-acetyltransferase 8 (GCN5-related, putative) 0.282189
DYRK3 dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 3 0.280349
SPTBN4 spectrin, beta, non-erythrocytic 4 0.277774
SMC1A structural maintenance of chromosomes 1A 0.274835
HBB hemoglobin, beta 0.2708
SRPK1 SRSF protein kinase 1 0.270434
CCNA1 cyclin A1 0.269335
HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 0.267871
CEP83 centrosomal protein 83kDa 0.267871
SAP30L SAP30-like 0.267505
RTCB RNA 2',3'-cyclic phosphate and 5'-OH ligase 0.266042
CEBPD CCAAT/enhancer binding protein (C/EBP), delta 0.264946
DNTT DNA nucleotidylexotransferase 0.260931
MMP7 matrix metallopeptidase 7 0.259837
PDLIM2 PDZ and LIM domain 2 (mystique) 0.259109
LTK leukocyte receptor tyrosine kinase 0.258016
ZNF350 zinc finger protein 350 0.256197
RPF2 ribosome production factor 2 homolog (S. cerevisiae) 0.254743
TLE2 transducin-like enhancer of split 2 0.254743
APBB1 amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65) 0.24894
PIAS3 protein inhibitor of activated STAT, 3 0.248578
PIAS4 protein inhibitor of activated STAT, 4 0.24713
ZBTB16 zinc finger and BTB domain containing 16 0.244601
SRRM1 serine/arginine repetitive matrix 1 0.241716
WRN Werner syndrome, RecQ helicase-like 0.240276
MIR93 microRNA 93 0.233817
CDK4 cyclin-dependent kinase 4 0.232386
TPR translocated promoter region, nuclear basket protein 0.231672
CREBBP CREB binding protein 0.230958
RAI1 retinoic acid induced 1 0.229176
HTN3 histatin 3 0.226686
LHX6 LIM homeobox 6 0.226331
ATXN3 ataxin 3 0.223143
SUMO3 small ubiquitin-like modifier 3 0.223143
UTP18 UTP18 small subunit (SSU) processome component homolog (yeast) 0.22173
KLK3 kallikrein-related peptidase 3 0.219969
BRD2 bromodomain containing 2 0.217861
GTF2F1 general transcription factor IIF, polypeptide 1, 74kDa 0.21716
TXLNG taxilin gamma 0.21681
PPL periplakin 0.215761
HDAC2 histone deacetylase 2 0.215412
XPC xeroderma pigmentosum, complementation group C 0.215063
MAGED1 melanoma antigen family D1 0.215063
PARP4 poly (ADP-ribose) polymerase family, member 4 0.214714
NMS neuromedin S 0.21228
SERPINA4 serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 4 0.211587
SPRR2A small proline-rich protein 2A 0.21124
SURF6 surfeit 6 0.210549
MAP2 microtubule-associated protein 2 0.210549
KRT18 keratin 18, type I 0.208481
SUMO2 small ubiquitin-like modifier 2 0.208481
NUP54 nucleoporin 54kDa 0.208137
ZNF274 zinc finger protein 274 0.207108
TSN translin 0.206082
IFNB1 interferon, beta 1, fibroblast 0.20574
ADGRG2 adhesion G protein-coupled receptor G2 0.205399
LBR lamin B receptor 0.205399
ZBTB17 zinc finger and BTB domain containing 17 0.205059
XPO6 exportin 6 0.203361
HNRNPUL1 heterogeneous nuclear ribonucleoprotein U-like 1 0.202009
HOXB2 homeobox B2 0.201672
HDAC9 histone deacetylase 9 0.200999
HBG2 hemoglobin, gamma G 0.200663
CTCFL CCCTC-binding factor (zinc finger protein)-like 0.199993
ATXN1 ataxin 1 0.199659
LPAR4 lysophosphatidic acid receptor 4 0.198991
KAZN kazrin, periplakin interacting protein 0.197993
DPF2 D4, zinc and double PHD fingers family 2 0.197993
P4HB prolyl 4-hydroxylase, beta polypeptide 0.190814
IL5 interleukin 5 0.190175
ATXN7 ataxin 7 0.189539
XRCC4 X-ray repair complementing defective repair in Chinese hamster cells 4 0.189222
FRG1 FSHD region gene 1 0.188905
GFI1 growth factor independent 1 transcription repressor 0.188274
TLX3 T-cell leukemia homeobox 3 0.186087
HIST2H2AC histone cluster 2, H2ac 0.182723
HIST2H2AA4 histone cluster 2, H2aa4 0.182422
HIST2H2AA3 histone cluster 2, H2aa3 0.182422
DES desmin 0.181524
KLHL2 kelch-like family member 2 0.181524
BIRC5 baculoviral IAP repeat containing 5 0.180339
XPA xeroderma pigmentosum, complementation group A 0.176024
IER3 immediate early response 3 0.174361
SRSF4 serine/arginine-rich splicing factor 4 0.174087
MED1 mediator complex subunit 1 0.173543
PRG1 p53-responsive gene 1 0.173543
UBTF upstream binding transcription factor, RNA polymerase I 0.171937
RMI2 RecQ mediated genome instability 2 0.171937
H2AFX H2A histone family, member X 0.169859
SP140 SP140 nuclear body protein 0.169099
MARCO macrophage receptor with collagenous structure 0.168598
BRCA2 breast cancer 2, early onset 0.167125
CALR calreticulin 0.166884
INS insulin 0.166643
TEP1 telomerase-associated protein 1 0.166405
IMMT inner membrane protein, mitochondrial 0.165697
NUBPL nucleotide binding protein-like 0.165463
SPEN spen family transcriptional repressor 0.163865
CENPW centromere protein W 0.162546
FFAR2 free fatty acid receptor 2 0.161693
MAGEA1 melanoma antigen family A1 0.161275
MBD1 methyl-CpG binding domain protein 1 0.160053
HBE1 hemoglobin, epsilon 1 0.159658
SPTA1 spectrin, alpha, erythrocytic 1 0.159462
RUNX3 runt-related transcription factor 3 0.158692
BMP2 bone morphogenetic protein 2 0.156688
KIF4A kinesin family member 4A 0.156342