CHEBI ONTOLOGY - ANNOTATIONS
The Chemical Entities of Biological Interest (ChEBI) ontology is downloaded weekly from EMBL-EBI at http://www.ebi.ac.uk/chebi/ . The data is made available under the Creative Commons License (CC BY 3.0, http://creativecommons.org/licenses/by/3.0/ ). For more information see: Degtyarenko et al. (2008) ChEBI: a database and ontology for chemical entities of biological interest. Nucleic Acids Res. 36, D344–D350.
Term: beryllium atom
Accession: CHEBI:30501
browse the term
Definition: Alkaline earth metal atom with atomic number 4.
Synonyms: related_synonym: 4Be; Be; Formula=Be; InChI=1S/Be; InChIKey=ATBAMAFKBVZNFJ-UHFFFAOYSA-N; SMILES=[Be]; berilio; beryllium
xref: CAS:7440-41-7; Gmelin:16265
xref_mesh: MESH:D001608
xref: PMID:10858219; PMID:11897645; PMID:14643414; PMID:16951350; PMID:18250483; PMID:18768897; PMID:24912188; Reaxys:14617151; WebElements:Be
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Cdkn2a
cyclin-dependent kinase inhibitor 2A
multiple interactions
EXP
[Beryllium results in increased methylation of CDKN2A promoter] which results in decreased expression of CDKN2A mRNA
CTD
PMID:11872642
NCBI chr 5:107,823,323...107,832,405
Ensembl chr 5:107,823,330...107,841,175
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Esr1
estrogen receptor 1
increases methylation
EXP
Beryllium results in increased methylation of ESR1 gene
CTD
PMID:11872642
NCBI chr 1:41,192,029...41,594,799
Ensembl chr 1:41,192,824...41,594,796
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Hras
HRas proto-oncogene, GTPase
increases mutagenesis
EXP
Beryllium results in increased mutagenesis of HRAS gene
CTD
PMID:7545909
NCBI chr 1:214,178,404...214,181,841
Ensembl chr 1:214,178,407...214,181,686
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Il1b
interleukin 1 beta
increases expression affects expression
ISO
Beryllium results in increased expression of IL1B mRNA Beryllium affects the expression of IL1B mRNA
CTD
PMID:8473757 PMID:8629860
NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726
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Tnf
tumor necrosis factor
increases response to substance increases secretion increases expression
ISO
TNF promoter polymorphism results in increased susceptibility to Beryllium Beryllium results in increased secretion of TNF protein Beryllium results in increased expression of TNF mRNA
CTD
PMID:8629860 PMID:12449171 PMID:15127972
NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
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Apex1
apurinic/apyrimidinic endodeoxyribonuclease 1
affects expression
ISO
beryllium chloride affects the expression of APEX1 mRNA
CTD
PMID:23793613
NCBI chr15:27,849,943...27,852,083
Ensembl chr15:27,849,979...27,852,082
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Ogg1
8-oxoguanine DNA glycosylase
affects expression
ISO
beryllium chloride affects the expression of OGG1 mRNA
CTD
PMID:23793613
NCBI chr 4:145,282,828...145,289,367
Ensembl chr 4:145,282,797...145,289,326
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Tp53
tumor protein p53
increases expression
ISO
beryllium chloride results in increased expression of TRP53 mRNA
CTD
PMID:23793613
NCBI chr10:56,186,299...56,198,449
Ensembl chr10:56,187,020...56,198,449
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Abcb1a
ATP binding cassette subfamily B member 1A
multiple interactions
ISO
beryllium fluoride promotes the reaction [ABCB1 protein mutant form binds to 8-azidoadenosine 5'-triphosphate]
CTD
PMID:11027628
NCBI chr 4:22,339,829...22,517,642
Ensembl chr 4:22,133,521...22,425,515
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Abcc6
ATP binding cassette subfamily C member 6
multiple interactions
EXP
beryllium fluoride promotes the reaction [8-azidoadenosine 5'-triphosphate binds to ABCC6 protein]; Cobalt promotes the reaction [beryllium fluoride promotes the reaction [8-azidoadenosine 5'-triphosphate binds to ABCC6 protein]]; Magnesium Chloride promotes the reaction [beryllium fluoride promotes the reaction [8-azidoadenosine 5'-triphosphate binds to ABCC6 protein]]; Manganese promotes the reaction [beryllium fluoride promotes the reaction [8-azidoadenosine 5'-triphosphate binds to ABCC6 protein]]; Nickel promotes the reaction [beryllium fluoride promotes the reaction [8-azidoadenosine 5'-triphosphate binds to ABCC6 protein]]
CTD
PMID:12069597
NCBI chr 1:101,954,786...102,013,252
Ensembl chr 1:101,959,540...102,013,243
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Abcc8
ATP binding cassette subfamily C member 8
decreases activity
ISO EXP
beryllium fluoride results in decreased activity of ABCC8 protein
CTD
PMID:17561960 PMID:18025464
NCBI chr 1:102,110,708...102,191,287
Ensembl chr 1:102,110,708...102,191,287
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Creb1
cAMP responsive element binding protein 1
increases expression
ISO
beryllium fluoride results in increased expression of CREB1 protein
CTD
PMID:11867686
NCBI chr 9:71,229,753...71,298,994
Ensembl chr 9:71,230,108...71,293,435
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Fos
Fos proto-oncogene, AP-1 transcription factor subunit
increases expression
ISO
beryllium fluoride results in increased expression of FOS protein
CTD
PMID:11867686
NCBI chr 6:109,300,433...109,303,299
Ensembl chr 6:109,300,433...109,303,299
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Map2k1
mitogen activated protein kinase kinase 1
increases phosphorylation
ISO
beryllium fluoride results in increased phosphorylation of MAP2K1 protein
CTD
PMID:11867686
NCBI chr 8:69,134,218...69,722,573
Ensembl chr 8:69,134,223...69,164,758
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Mapk3
mitogen activated protein kinase 3
increases phosphorylation
ISO
beryllium fluoride results in increased phosphorylation of MAPK3 protein
CTD
PMID:11867686
NCBI chr 1:198,192,773...198,198,975
Ensembl chr 1:198,192,773...198,198,975
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Myc
MYC proto-oncogene, bHLH transcription factor
increases expression
ISO
beryllium fluoride results in increased expression of MYC protein
CTD
PMID:11867686
NCBI chr 7:102,586,313...102,591,240
Ensembl chr 7:102,586,313...102,591,240
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Cdkn2a
cyclin-dependent kinase inhibitor 2A
multiple interactions
EXP
[Beryllium results in increased methylation of CDKN2A promoter] which results in decreased expression of CDKN2A mRNA
CTD
PMID:11872642
NCBI chr 5:107,823,323...107,832,405
Ensembl chr 5:107,823,330...107,841,175
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Esr1
estrogen receptor 1
increases methylation
EXP
Beryllium results in increased methylation of ESR1 gene
CTD
PMID:11872642
NCBI chr 1:41,192,029...41,594,799
Ensembl chr 1:41,192,824...41,594,796
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Hras
HRas proto-oncogene, GTPase
increases mutagenesis
EXP
Beryllium results in increased mutagenesis of HRAS gene
CTD
PMID:7545909
NCBI chr 1:214,178,404...214,181,841
Ensembl chr 1:214,178,407...214,181,686
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Il1b
interleukin 1 beta
increases expression affects expression
ISO
Beryllium results in increased expression of IL1B mRNA Beryllium affects the expression of IL1B mRNA
CTD
PMID:8473757 PMID:8629860
NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726
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Tnf
tumor necrosis factor
increases expression increases response to substance increases secretion
ISO
Beryllium results in increased expression of TNF mRNA TNF promoter polymorphism results in increased susceptibility to Beryllium Beryllium results in increased secretion of TNF protein
CTD
PMID:8629860 PMID:12449171 PMID:15127972
NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
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Acta2
actin alpha 2, smooth muscle
increases expression
ISO
beryllium sulfate results in increased expression of ACTA2 mRNA
CTD
PMID:16314022
NCBI chr 1:252,537,614...252,550,394
Ensembl chr 1:252,537,615...252,550,394
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Anxa5
annexin A5
increases expression
ISO
beryllium sulfate results in increased expression of ANXA5 mRNA
CTD
PMID:16314022
NCBI chr 2:123,162,477...123,194,730
Ensembl chr 2:123,162,461...123,193,130
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Ccl3
C-C motif chemokine ligand 3
multiple interactions increases secretion
ISO
beryllium sulfate promotes the reaction [RUNX1 protein binds to CCL3 promoter] beryllium sulfate results in increased secretion of CCL3 mRNA
CTD
PMID:16314022
NCBI chr10:70,869,516...70,871,066
Ensembl chr10:70,869,513...70,871,066
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Ccl4
C-C motif chemokine ligand 4
increases secretion
ISO
beryllium sulfate results in increased secretion of CCL4 mRNA
CTD
PMID:16314022
NCBI chr10:70,870,926...70,886,357
Ensembl chr10:70,884,531...70,886,355
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Ccl5
C-C motif chemokine ligand 5
increases expression
ISO
beryllium sulfate results in increased expression of CCL5 mRNA
CTD
PMID:16314022
NCBI chr10:70,739,764...70,744,303
Ensembl chr10:70,739,800...70,744,315
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Cd44
CD44 molecule (Indian blood group)
increases expression
ISO
beryllium sulfate results in increased expression of CD44 mRNA
CTD
PMID:16314022
NCBI chr 3:92,695,083...92,783,820
Ensembl chr 3:92,696,313...92,783,658
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Cd86
CD86 molecule
increases expression
ISO
beryllium sulfate results in increased expression of CD86 protein
CTD
PMID:19665512
NCBI chr11:67,060,305...67,117,990
Ensembl chr11:67,082,193...67,118,795
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Cdkn1a
cyclin-dependent kinase inhibitor 1A
multiple interactions increases expression
ISO
beryllium sulfate promotes the reaction [TP53 protein binds to CDKN1A promoter] beryllium sulfate results in increased expression of CDKN1A mRNA; beryllium sulfate results in increased expression of CDKN1A protein
CTD
PMID:17395767
NCBI chr20:6,348,422...6,358,864
Ensembl chr20:6,351,458...6,358,864
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Cdkn2a
cyclin-dependent kinase inhibitor 2A
increases expression
ISO
beryllium sulfate results in increased expression of CDKN2A mRNA; beryllium sulfate results in increased expression of CDKN2A protein
CTD
PMID:17395767
NCBI chr 5:107,823,323...107,832,405
Ensembl chr 5:107,823,330...107,841,175
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Creb1
cAMP responsive element binding protein 1
multiple interactions
ISO
[beryllium sulfate co-treated with IFNG protein] results in increased expression of CREB1 protein
CTD
PMID:10755711
NCBI chr 9:71,229,753...71,298,994
Ensembl chr 9:71,230,108...71,293,435
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Ctsl
cathepsin L
increases expression
ISO
beryllium sulfate results in increased expression of CTSL mRNA
CTD
PMID:16314022
NCBI chr17:1,873,105...1,879,266
Ensembl chr17:1,872,848...1,879,279
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Cxcl1
C-X-C motif chemokine ligand 1
increases secretion
ISO
beryllium sulfate results in increased secretion of CXCL1 mRNA
CTD
PMID:16314022
NCBI chr14:18,743,678...18,745,457
Ensembl chr14:18,743,685...18,745,457
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Cxcl3
C-X-C motif chemokine ligand 3
increases secretion
ISO
beryllium sulfate results in increased secretion of CXCL1 mRNA
CTD
PMID:16314022
NCBI chr14:18,820,168...18,839,659
Ensembl chr14:18,820,168...18,839,595
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Egr2
early growth response 2
increases expression
ISO
beryllium sulfate results in increased expression of EGR2 mRNA
CTD
PMID:16314022
NCBI chr20:22,452,170...22,461,018
Ensembl chr20:22,454,463...22,459,025
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Fos
Fos proto-oncogene, AP-1 transcription factor subunit
increases expression multiple interactions
ISO
beryllium sulfate results in increased expression of FOS mRNA 2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one inhibits the reaction [beryllium sulfate results in increased expression of FOS mRNA]; Dactinomycin inhibits the reaction [beryllium sulfate results in increased expression of FOS mRNA]; Ro 31-8220 inhibits the reaction [beryllium sulfate results in increased expression of FOS mRNA]
CTD
PMID:11568973
NCBI chr 6:109,300,433...109,303,299
Ensembl chr 6:109,300,433...109,303,299
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Hnrnpa1
heterogeneous nuclear ribonucleoprotein A1
increases expression
ISO
beryllium sulfate results in increased expression of HNRNPA1 mRNA
CTD
PMID:16314022
NCBI chr 7:144,865,302...144,871,592
Ensembl chr 7:144,865,608...144,871,585
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Icam1
intercellular adhesion molecule 1
multiple interactions increases secretion increases expression
ISO
3,3',4,5'-tetrahydroxystilbene inhibits the reaction [beryllium sulfate results in increased expression of ICAM1 mRNA]; 3,3',4,5'-tetrahydroxystilbene inhibits the reaction [beryllium sulfate results in increased secretion of ICAM1 protein]; Dimethyl Sulfoxide inhibits the reaction [beryllium sulfate results in increased secretion of ICAM1 protein] beryllium sulfate results in increased expression of ICAM1 mRNA; beryllium sulfate results in increased expression of ICAM1 protein
CTD
PMID:18539414
NCBI chr 8:22,035,287...22,047,049
Ensembl chr 8:22,035,256...22,047,059
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Ifng
interferon gamma
increases expression multiple interactions
ISO
beryllium sulfate results in increased expression of IFNG protein [beryllium sulfate co-treated with IFNG protein] results in increased expression of CREB1 protein; [beryllium sulfate co-treated with IFNG protein] results in increased expression of JUN protein; [beryllium sulfate co-treated with IFNG protein] results in increased expression of JUNB protein; [beryllium sulfate co-treated with IFNG protein] results in increased expression of NFKB1 protein; beryllium sulfate promotes the reaction [IFNG protein results in increased expression of TNF protein]
CTD
PMID:10755710 PMID:10755711 PMID:20974702
NCBI chr 7:61,337,383...61,341,419
Ensembl chr 7:61,337,381...61,341,419
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Il18
interleukin 18
increases expression
ISO
beryllium sulfate results in increased expression of IL18 mRNA; beryllium sulfate results in increased expression of IL18 protein
CTD
PMID:16100009
NCBI chr 8:55,009,666...55,016,286
Ensembl chr 8:54,993,859...55,016,299
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Il2
interleukin 2
increases expression
ISO
beryllium sulfate results in increased expression of IL2 mRNA
CTD
PMID:9328138
NCBI chr 2:123,847,150...123,851,854
Ensembl chr 2:123,847,150...123,851,854
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Il5
interleukin 5
increases expression
ISO
beryllium sulfate results in increased expression of IL5 mRNA
CTD
PMID:9328138
NCBI chr10:39,066,716...39,069,587
Ensembl chr10:39,066,716...39,069,587
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Il6
interleukin 6
increases expression
ISO
beryllium sulfate results in increased expression of IL6 mRNA
CTD
PMID:9328138
NCBI chr 4:3,043,231...3,047,807
Ensembl chr 4:3,043,231...3,047,807
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Itgb3
integrin subunit beta 3
increases expression
ISO
beryllium sulfate results in increased expression of ITGB3 mRNA
CTD
PMID:16314022
NCBI chr10:92,667,869...92,783,413
Ensembl chr10:92,667,869...92,783,410
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Jun
Jun proto-oncogene, AP-1 transcription factor subunit
multiple interactions increases expression
ISO
2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one inhibits the reaction [beryllium sulfate results in increased expression of JUN mRNA]; [beryllium sulfate co-treated with IFNG protein] results in increased expression of JUN protein; Dactinomycin inhibits the reaction [beryllium sulfate results in increased expression of JUN mRNA]; Ro 31-8220 inhibits the reaction [beryllium sulfate results in increased expression of JUN mRNA]
CTD
PMID:10755711 PMID:11568973
NCBI chr 5:114,011,184...114,014,277
Ensembl chr 5:114,011,189...114,014,277
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Junb
JunB proto-oncogene, AP-1 transcription factor subunit
multiple interactions
ISO
[beryllium sulfate co-treated with IFNG protein] results in increased expression of JUNB protein
CTD
PMID:10755711
NCBI chr19:26,092,972...26,094,756
Ensembl chr19:26,092,974...26,094,756
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LOC100364500
RT1 class I, locus CE11-like
increases expression
ISO
beryllium sulfate results in increased expression of HLA-A mRNA
CTD
PMID:16314022
NCBI chr20:2,704,153...2,707,111
Ensembl chr20:2,704,148...2,707,120
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Myc
MYC proto-oncogene, bHLH transcription factor
increases expression
EXP
beryllium sulfate results in increased expression of MYC protein
CTD
PMID:2009323
NCBI chr 7:102,586,313...102,591,240
Ensembl chr 7:102,586,313...102,591,240
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Nedd8
NEDD8 ubiquitin like modifier
increases expression
ISO
beryllium sulfate results in increased expression of NEDD8 mRNA
CTD
PMID:16314022
NCBI chr15:34,340,607...34,352,673
Ensembl chr15:34,340,607...34,352,673
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Nfkb1
nuclear factor kappa B subunit 1
multiple interactions
ISO
[beryllium sulfate co-treated with IFNG protein] results in increased expression of NFKB1 protein
CTD
PMID:10755711
NCBI chr 2:240,773,520...240,890,053
Ensembl chr 2:240,773,456...240,866,689
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Nova1
NOVA alternative splicing regulator 1
increases expression
ISO
beryllium sulfate results in increased expression of NOVA1 mRNA
CTD
PMID:16314022
NCBI chr 6:66,960,126...67,085,836
Ensembl chr 6:66,963,510...67,085,390
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Rhoa
ras homolog family member A
increases expression
ISO
beryllium sulfate results in increased expression of RHOA mRNA
CTD
PMID:16314022
NCBI chr 8:117,082,440...117,116,244
Ensembl chr 8:117,106,576...117,116,167
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Rpl22
ribosomal protein L22
increases expression
ISO
beryllium sulfate results in increased expression of RPL22 mRNA
CTD
PMID:16314022
NCBI chr 5:169,506,150...169,512,875
Ensembl chr 5:169,506,138...169,512,871
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Rpl30
ribosomal protein L30
increases expression
ISO
beryllium sulfate results in increased expression of RPL30 mRNA
CTD
PMID:16314022
NCBI chr 7:73,213,538...73,216,431
Ensembl chr 7:73,213,581...73,216,251
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Rpl37a
ribosomal protein L37a
increases expression
ISO
beryllium sulfate results in increased expression of RPL37A mRNA
CTD
PMID:16314022
NCBI chr 9:80,002,892...80,004,995
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Rps7
ribosomal protein S7
increases expression
ISO
beryllium sulfate results in increased expression of RPS7 mRNA
CTD
PMID:16314022
NCBI chr 6:47,899,525...47,904,389
Ensembl chr 6:47,899,525...47,904,437
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RT1-Db1
RT1 class II, locus Db1
increases response to substance increases expression
ISO
HLA-DRB1 protein mutant form results in increased susceptibility to beryllium sulfate beryllium sulfate results in increased expression of HLA-DRB1 mRNA
CTD
PMID:16272364 PMID:16314022
NCBI chr20:4,087,621...4,097,190
Ensembl chr20:4,087,618...4,097,190
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Runx1
RUNX family transcription factor 1
multiple interactions
ISO
beryllium sulfate promotes the reaction [RUNX1 protein binds to CCL3 promoter]
CTD
PMID:16314022
NCBI chr11:32,765,147...33,003,061
Ensembl chr11:32,769,165...33,003,021
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Serpinb2
serpin family B member 2
increases expression
ISO
beryllium sulfate results in increased expression of SERPINB2 mRNA
CTD
PMID:16314022
NCBI chr13:27,449,907...27,463,015
Ensembl chr13:27,449,934...27,463,010
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Sftpd
surfactant protein D
increases expression
ISO
beryllium sulfate results in increased expression of SFTPD mRNA
CTD
PMID:16314022
NCBI chr16:18,753,535...18,766,100
Ensembl chr16:18,745,458...18,766,174
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Tat
tyrosine aminotransferase
multiple interactions
EXP
beryllium sulfate inhibits the reaction [Hydrocortisone results in increased expression of TAT protein]
CTD
PMID:6120038
NCBI chr19:41,675,639...41,686,195
Ensembl chr19:41,675,355...41,686,229
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Tmsb4x
thymosin beta 4, X-linked
increases expression
ISO
beryllium sulfate results in increased expression of TMSB4X mRNA
CTD
PMID:16314022
NCBI chr X:28,593,405...28,617,267
Ensembl chr X:28,593,405...28,595,395
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Tnf
tumor necrosis factor
increases expression multiple interactions
ISO
beryllium sulfate results in increased expression of TNF mRNA; beryllium sulfate results in increased expression of TNF protein beryllium sulfate promotes the reaction [IFNG protein results in increased expression of TNF protein]
CTD
PMID:10755710 PMID:10755711
NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
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Tp53
tumor protein p53
multiple interactions increases expression
ISO
beryllium sulfate promotes the reaction [TP53 protein binds to CDKN1A promoter] beryllium sulfate results in increased expression of TP53 protein
CTD
PMID:17395767 PMID:20974702
NCBI chr10:56,186,299...56,198,449
Ensembl chr10:56,187,020...56,198,449
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Wnt4
Wnt family member 4
increases expression
ISO
beryllium sulfate results in increased expression of WNT4 mRNA
CTD
PMID:16314022
NCBI chr 5:155,649,238...155,668,065
Ensembl chr 5:155,649,217...155,672,579
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Cdkn2a
cyclin-dependent kinase inhibitor 2A
multiple interactions
EXP
[Beryllium results in increased methylation of CDKN2A promoter] which results in decreased expression of CDKN2A mRNA
CTD
PMID:11872642
NCBI chr 5:107,823,323...107,832,405
Ensembl chr 5:107,823,330...107,841,175
G
Esr1
estrogen receptor 1
increases methylation
EXP
Beryllium results in increased methylation of ESR1 gene
CTD
PMID:11872642
NCBI chr 1:41,192,029...41,594,799
Ensembl chr 1:41,192,824...41,594,796
G
Hras
HRas proto-oncogene, GTPase
increases mutagenesis
EXP
Beryllium results in increased mutagenesis of HRAS gene
CTD
PMID:7545909
NCBI chr 1:214,178,404...214,181,841
Ensembl chr 1:214,178,407...214,181,686
G
Il1b
interleukin 1 beta
increases expression affects expression
ISO
Beryllium results in increased expression of IL1B mRNA Beryllium affects the expression of IL1B mRNA
CTD
PMID:8473757 PMID:8629860
NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726
G
Tnf
tumor necrosis factor
increases response to substance increases expression increases secretion
ISO
TNF promoter polymorphism results in increased susceptibility to Beryllium Beryllium results in increased expression of TNF mRNA Beryllium results in increased secretion of TNF protein
CTD
PMID:8629860 PMID:12449171 PMID:15127972
NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
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Pdxp
pyridoxal phosphatase
decreases activity
ISO
beryllium trifluoride results in decreased activity of PDXP protein
CTD
PMID:24338473
NCBI chr 7:120,140,460...120,145,908
Ensembl chr 7:120,140,460...120,145,908
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Pgp
phosphoglycolate phosphatase
decreases activity
ISO
beryllium trifluoride results in decreased activity of PGP protein
CTD
PMID:24338473
NCBI chr10:13,836,105...13,838,731
Ensembl chr10:13,836,128...13,838,765
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