nuclear chromatin Gene Set

Dataset COMPARTMENTS Text-mining Protein Localization Evidence Scores
Category structural or functional annotations
Type cellular component
Description The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus. (Gene Ontology, GO_0000790)
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Genes

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

Symbol Name Standardized Value
SETD2 SET domain containing 2 1.29371
HDAC3 histone deacetylase 3 1.19365
HIST2H3PS2 histone cluster 2, H3, pseudogene 2 1.12041
UBTF upstream binding transcription factor, RNA polymerase I 1.11684
H3F3B H3 histone, family 3B (H3.3B) 1.11582
H3F3A H3 histone, family 3A 1.11582
DNTT DNA nucleotidylexotransferase 1.03479
HDAC9 histone deacetylase 9 1.03378
H2AFZ H2A histone family, member Z 0.998086
SUDS3 suppressor of defective silencing 3 homolog (S. cerevisiae) 0.997595
CASP3 caspase 3, apoptosis-related cysteine peptidase 0.944007
HIST2H2AC histone cluster 2, H2ac 0.939742
HIST2H2AA4 histone cluster 2, H2aa4 0.939269
HIST2H2AA3 histone cluster 2, H2aa3 0.939269
HSPE1 heat shock 10kDa protein 1 0.86169
ACTR8 ARP8 actin-related protein 8 homolog (yeast) 0.801562
SRCAP Snf2-related CREBBP activator protein 0.799728
NCOR1 nuclear receptor corepressor 1 0.785071
DICER1 dicer 1, ribonuclease type III 0.779583
SMARCA4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 0.725705
SRSF2 serine/arginine-rich splicing factor 2 0.717236
PRM1 protamine 1 0.708366
SMARCA2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 0.703067
BAX BCL2-associated X protein 0.678978
HIST1H2AM histone cluster 1, H2am 0.666827
HIST1H2AJ histone cluster 1, H2aj 0.666827
HIST1H2AD histone cluster 1, H2ad 0.666827
H2AFJ H2A histone family, member J 0.666827
HIST1H2AH histone cluster 1, H2ah 0.666394
HIST1H2AG histone cluster 1, H2ag 0.665096
H2AFY2 H2A histone family, member Y2 0.662935
SETD1A SET domain containing 1A 0.662503
HIST1H2AE histone cluster 1, H2ae 0.662503
HIST1H2AB histone cluster 1, H2ab 0.662503
H2AFV H2A histone family, member V 0.662072
H2AFB1 H2A histone family, member B1 0.65905
H2AFB2 H2A histone family, member B2 0.655172
H2AFY H2A histone family, member Y 0.651299
HIST2H4A histone cluster 2, H4a 0.641429
HIST1H4C histone cluster 1, H4c 0.641429
HIST2H4B histone cluster 2, H4b 0.641429
HIST1H4B histone cluster 1, H4b 0.641429
HIST1H4F histone cluster 1, H4f 0.641429
HIST1H4E histone cluster 1, H4e 0.641429
HIST1H4D histone cluster 1, H4d 0.641429
HIST1H4J histone cluster 1, H4j 0.641429
HIST1H4H histone cluster 1, H4h 0.641429
HIST1H4K histone cluster 1, H4k 0.641429
HIST1H4I histone cluster 1, H4i 0.641429
HIST1H4A histone cluster 1, H4a 0.641429
HIST4H4 histone cluster 4, H4 0.641001
HIST1H4L histone cluster 1, H4l 0.641001
PARP1 poly (ADP-ribose) polymerase 1 0.624355
INO80C INO80 complex subunit C 0.618406
ZNF106 zinc finger protein 106 0.611625
HDAC1 histone deacetylase 1 0.609086
SWI5 SWI5 recombination repair homolog (yeast) 0.598538
SFR1 SWI5-dependent recombination repair 1 0.598538
BAZ2A bromodomain adjacent to zinc finger domain, 2A 0.588037
FBLL1 fibrillarin-like 1 0.58678
RUVBL2 RuvB-like AAA ATPase 2 0.582176
TP53 tumor protein p53 0.575912
YEATS4 YEATS domain containing 4 0.573828
AGGF1 angiogenic factor with G patch and FHA domains 1 0.554318
TTI1 TELO2 interacting protein 1 0.541529
YY1 YY1 transcription factor 0.537827
CASP9 caspase 9, apoptosis-related cysteine peptidase 0.535361
CD5 CD5 molecule 0.534951
ACTR3B ARP3 actin-related protein 3 homolog B (yeast) 0.531258
TAF9 TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa 0.525113
SAP30 Sin3A-associated protein, 30kDa 0.517756
H2AFX H2A histone family, member X 0.5149
FAM60A family with sequence similarity 60, member A 0.506757
PCNA proliferating cell nuclear antigen 0.50107
SAP18 Sin3A-associated protein, 18kDa 0.496205
NCAM1 neural cell adhesion molecule 1 0.494585
HDAC4 histone deacetylase 4 0.487711
TOP1 topoisomerase (DNA) I 0.476831
EP400 E1A binding protein p400 0.474018
CHCHD7 coiled-coil-helix-coiled-coil-helix domain containing 7 0.462398
PSG8 pregnancy specific beta-1-glycoprotein 8 0.461998
ANXA5 annexin A5 0.461998
KAT5 K(lysine) acetyltransferase 5 0.459203
SERPINA6 serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 6 0.458404
COIL coilin 0.454019
RNASEH2A ribonuclease H2, subunit A 0.452029
BCL2 B-cell CLL/lymphoma 2 0.447259
AIFM1 apoptosis-inducing factor, mitochondrion-associated, 1 0.445672
AR androgen receptor 0.444482
CBX1 chromobox homolog 1 0.442896
CLEC3B C-type lectin domain family 3, member B 0.442896
RAD54B RAD54 homolog B (S. cerevisiae) 0.423567
TBL1XR1 transducin (beta)-like 1 X-linked receptor 1 0.422389
BLOC1S4 biogenesis of lysosomal organelles complex-1, subunit 4, cappuccino 0.421604
SIN3A SIN3 transcription regulator family member A 0.404026
NCL nucleolin 0.398975
SYP synaptophysin 0.397811
HIST1H2BH histone cluster 1, H2bh 0.396648
HIST2H2BF histone cluster 2, H2bf 0.396648
HIST1H2BD histone cluster 1, H2bd 0.396648
HIST3H2BB histone cluster 3, H2bb 0.396648
HIST1H2BF histone cluster 1, H2bf 0.395098
HIST1H2BC histone cluster 1, H2bc 0.395098
MDM1 Mdm1 nuclear protein homolog (mouse) 0.39471
HIST1H2BA histone cluster 1, H2ba 0.393936
HDAC2 histone deacetylase 2 0.392775
SPAG5 sperm associated antigen 5 0.392001
CD3EAP CD3e molecule, epsilon associated protein 0.391615
NFRKB nuclear factor related to kappaB binding protein 0.389296
SMARCA1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 0.388909
CD4 CD4 molecule 0.386593
MAP2K5 mitogen-activated protein kinase kinase 5 0.385822
MGAM maltase-glucoamylase 0.382354
TTF1 transcription termination factor, RNA polymerase I 0.378891
HIST1H1D histone cluster 1, H1d 0.373132
PHF12 PHD finger protein 12 0.372366
WNT10A wingless-type MMTV integration site family, member 10A 0.368536
CASP8 caspase 8, apoptosis-related cysteine peptidase 0.361659
RRS1 RRS1 ribosome biogenesis regulator homolog (S. cerevisiae) 0.359752
DNASE1L3 deoxyribonuclease I-like 3 0.358228
SUV39H1 suppressor of variegation 3-9 homolog 1 (Drosophila) 0.357847
NPM1 nucleophosmin (nucleolar phosphoprotein B23, numatrin) 0.348725
CBS cystathionine-beta-synthase 0.340773
CD19 CD19 molecule 0.334733
SMARCA5 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 0.333225
RAD51 RAD51 recombinase 0.332472
LGALS4 lectin, galactoside-binding, soluble, 4 0.331719
POU3F3 POU class 3 homeobox 3 0.32195
GDF6 growth differentiation factor 6 0.319702
RNASE1 ribonuclease, RNase A family, 1 (pancreatic) 0.315586
IL33 interleukin 33 0.313344
ACPP acid phosphatase, prostate 0.30924
ISCA2 iron-sulfur cluster assembly 2 0.304027
GPRC5A G protein-coupled receptor, class C, group 5, member A 0.303655
CLOCK clock circadian regulator 0.303283
TG thyroglobulin 0.301054
SLC19A3 solute carrier family 19 (thiamine transporter), member 3 0.286245
TNP1 transition protein 1 (during histone to protamine replacement) 0.283663
CRNKL1 crooked neck pre-mRNA splicing factor 1 0.283295
SHBG sex hormone-binding globulin 0.279245
WDR83 WD repeat domain 83 0.278877
KIR2DS4 killer cell immunoglobulin-like receptor, two domains, short cytoplasmic tail, 4 0.278509
CCRN4L CCR4 carbon catabolite repression 4-like (S. cerevisiae) 0.278509
GCM1 glial cells missing homolog 1 (Drosophila) 0.275936
TNF tumor necrosis factor 0.275202
ITIH3 inter-alpha-trypsin inhibitor heavy chain 3 0.271533
CASP2 caspase 2, apoptosis-related cysteine peptidase 0.270434
PSMD13 proteasome (prosome, macropain) 26S subunit, non-ATPase, 13 0.266408
DNASE1 deoxyribonuclease I 0.265677
ASAP2 ArfGAP with SH3 domain, ankyrin repeat and PH domain 2 0.26385
FSIP1 fibrous sheath interacting protein 1 0.259109
FBXO44 F-box protein 44 0.258381
FGF2 fibroblast growth factor 2 (basic) 0.258381
G6PD glucose-6-phosphate dehydrogenase 0.257289
CD38 CD38 molecule 0.255834
OPTC opticin 0.253291
ALKBH1 alkB, alkylation repair homolog 1 (E. coli) 0.252202
H1FNT H1 histone family, member N, testis-specific 0.245685
ST8SIA6 ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6 0.244962
FOXI1 forkhead box I1 0.244601
PRM2 protamine 2 0.235607
TNFAIP3 tumor necrosis factor, alpha-induced protein 3 0.229888
CEACAM3 carcinoembryonic antigen-related cell adhesion molecule 3 0.229532
KAT8 K(lysine) acetyltransferase 8 0.226686
BAP1 BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase) 0.225267
WDR5 WD repeat domain 5 0.222436
PGK2 phosphoglycerate kinase 2 0.220321
VRK2 vaccinia related kinase 2 0.21646
ZNF143 zinc finger protein 143 0.216111
ISYNA1 inositol-3-phosphate synthase 1 0.214366
NAP1L1 nucleosome assembly protein 1-like 1 0.207794
MXD1 MAX dimerization protein 1 0.206766
H1FX H1 histone family, member X 0.202346
ENO2 enolase 2 (gamma, neuronal) 0.200328
USH1G Usher syndrome 1G (autosomal recessive) 0.19733
NGF nerve growth factor (beta polypeptide) 0.19601
RAD51D RAD51 paralog D 0.195353
CHRM3 cholinergic receptor, muscarinic 3 0.194045
CHGA chromogranin A 0.190814
GDF15 growth differentiation factor 15 0.189222
ATF2 activating transcription factor 2 0.18796
CHORDC1 cysteine and histidine-rich domain (CHORD) containing 1 0.187646
HDAC10 histone deacetylase 10 0.187333
SIRT1 sirtuin 1 0.183631
RBM5 RNA binding motif protein 5 0.182422
ETS1 v-ets avian erythroblastosis virus E26 oncogene homolog 1 0.181524
ESR1 estrogen receptor 1 0.181227
SIRT2 sirtuin 2 0.179752
WIBG within bgcn homolog (Drosophila) 0.178011
ALB albumin 0.174911
ALPPL2 alkaline phosphatase, placental-like 2 0.171673
TLE4 transducin-like enhancer of split 4 0.17141
ALPL alkaline phosphatase, liver/bone/kidney 0.171149
ALPP alkaline phosphatase, placental 0.170888
SLC19A2 solute carrier family 19 (thiamine transporter), member 2 0.169099
GPS2 G protein pathway suppressor 2 0.166167
HES4 hes family bHLH transcription factor 4 0.165932
HNRNPDL heterogeneous nuclear ribonucleoprotein D-like 0.165932
LMNB1 lamin B1 0.16477
CD33 CD33 molecule 0.163865
SMC4 structural maintenance of chromosomes 4 0.1632
DNAH8 dynein, axonemal, heavy chain 8 0.161905
MRPL49 mitochondrial ribosomal protein L49 0.161275
MBD2 methyl-CpG binding domain protein 2 0.161068
BATF basic leucine zipper transcription factor, ATF-like 0.161068
BHLHE22 basic helix-loop-helix family, member e22 0.160658
ATG10 autophagy related 10 0.160053
EME1 essential meiotic structure-specific endonuclease 1 0.159856
PGR progesterone receptor 0.159658
CD7 CD7 molecule 0.159268
BCR breakpoint cluster region 0.159268
PHF1 PHD finger protein 1 0.158882
HMGB3 high mobility group box 3 0.15776
DMC1 DNA meiotic recombinase 1 0.157039
CHRNE cholinergic receptor, nicotinic, epsilon (muscle) 0.140231
AGO1 argonaute RISC catalytic component 1 0.138197
DNAH12 dynein, axonemal, heavy chain 12 0.138011
DNAH14 dynein, axonemal, heavy chain 14 0.138011
PPAT phosphoribosyl pyrophosphate amidotransferase 0.137972
MSL2 male-specific lethal 2 homolog (Drosophila) 0.137781
DNAH5 dynein, axonemal, heavy chain 5 0.137558
DYNC1H1 dynein, cytoplasmic 1, heavy chain 1 0.137449
GAPDHS glyceraldehyde-3-phosphate dehydrogenase, spermatogenic 0.137047
ACYP2 acylphosphatase 2, muscle type 0.137
ACYP1 acylphosphatase 1, erythrocyte (common) type 0.136979
PHGDH phosphoglycerate dehydrogenase 0.136782
NR3C2 nuclear receptor subfamily 3, group C, member 2 0.136675
DNAH9 dynein, axonemal, heavy chain 9 0.136475
TOX thymocyte selection-associated high mobility group box 0.136036
HSF2 heat shock transcription factor 2 0.135587
NBPF10 neuroblastoma breakpoint family, member 10 0.135483
PARVA parvin, alpha 0.135432
RING1 ring finger protein 1 0.135157
PGK1 phosphoglycerate kinase 1 0.135087
AGO2 argonaute RISC catalytic component 2 0.134146
ESCO2 establishment of sister chromatid cohesion N-acetyltransferase 2 0.13401
FBXO17 F-box protein 17 0.133351
CBX3 chromobox homolog 3 0.133199
SARS seryl-tRNA synthetase 0.133046
SUMO1 small ubiquitin-like modifier 1 0.132043
PORCN porcupine homolog (Drosophila) 0.131966
COPZ1 coatomer protein complex, subunit zeta 1 0.131847
PIK3CG phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma 0.131787
GNRH1 gonadotropin-releasing hormone 1 (luteinizing-releasing hormone) 0.131519
SPO11 SPO11 meiotic protein covalently bound to DSB 0.13137
GFER growth factor, augmenter of liver regeneration 0.131013
EOMES eomesodermin 0.130217
NPPA natriuretic peptide A 0.128417
TGFBR2 transforming growth factor, beta receptor II (70/80kDa) 0.128088
POMC proopiomelanocortin 0.127266
RLBP1 retinaldehyde binding protein 1 0.126884
FGD1 FYVE, RhoGEF and PH domain containing 1 0.125522
DCLK3 doublecortin-like kinase 3 0.119134
FGFR1 fibroblast growth factor receptor 1 0.11845
HSD17B10 hydroxysteroid (17-beta) dehydrogenase 10 0.118309
SDF4 stromal cell derived factor 4 0.118256
HSD3B1 hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 1 0.11652
CD52 CD52 molecule 0.114392
MTDH metadherin 0.114392
MSLN mesothelin 0.113348
ACO2 aconitase 2, mitochondrial 0.111827
M6PR mannose-6-phosphate receptor (cation dependent) 0.111752
TBXA2R thromboxane A2 receptor 0.109952
STC1 stanniocalcin 1 0.108211
IGHV3-30 immunoglobulin heavy variable 3-30 0.108182
PLOD1 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 0.10795
HSF1 heat shock transcription factor 1 0.107115
CD2 CD2 molecule 0.107055
TMPRSS15 transmembrane protease, serine 15 0.106287
DCTN1 dynactin 1 0.106194
LMNB2 lamin B2 0.103251
AMD1 adenosylmethionine decarboxylase 1 0.103183
HSD17B6 hydroxysteroid (17-beta) dehydrogenase 6 0.10235
ATR ATR serine/threonine kinase 0.101569
RHO rhodopsin 0.09935
PIWIL1 piwi-like RNA-mediated gene silencing 1 0.098582
PAX7 paired box 7 0.097604
SRY sex determining region Y 0.097565
BRCA1 breast cancer 1, early onset 0.096115
TUBA1A tubulin, alpha 1a 0.095665
OXTR oxytocin receptor 0.095541
TXN thioredoxin 0.09334
NPS neuropeptide S 0.093168