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Gene: ARID4B |
Gene summary for ARID4B |
Gene summary. |
Gene information | Species | Human | Gene symbol | ARID4B | Gene ID | 51742 |
Gene name | AT-rich interaction domain 4B | |
Gene Alias | BCAA | |
Cytomap | 1q42.3 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | A0A024R3R1 |
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Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
51742 | ARID4B | CA_HPV_1 | Human | Cervix | CC | 3.99e-03 | -5.06e-04 | 0.0264 |
51742 | ARID4B | CCI_1 | Human | Cervix | CC | 2.51e-13 | 1.36e+00 | 0.528 |
51742 | ARID4B | CCI_2 | Human | Cervix | CC | 6.83e-07 | 1.31e+00 | 0.5249 |
51742 | ARID4B | CCI_3 | Human | Cervix | CC | 8.98e-18 | 1.39e+00 | 0.516 |
51742 | ARID4B | L1 | Human | Cervix | CC | 1.13e-03 | -8.23e-02 | 0.0802 |
51742 | ARID4B | AEH-subject1 | Human | Endometrium | AEH | 8.03e-19 | 4.68e-01 | -0.3059 |
51742 | ARID4B | AEH-subject2 | Human | Endometrium | AEH | 6.12e-15 | 2.21e-01 | -0.2525 |
51742 | ARID4B | AEH-subject3 | Human | Endometrium | AEH | 5.52e-13 | 2.42e-01 | -0.2576 |
51742 | ARID4B | AEH-subject4 | Human | Endometrium | AEH | 1.48e-25 | 5.37e-01 | -0.2657 |
51742 | ARID4B | AEH-subject5 | Human | Endometrium | AEH | 1.36e-21 | 5.60e-01 | -0.2953 |
51742 | ARID4B | EEC-subject1 | Human | Endometrium | EEC | 2.96e-29 | 5.08e-01 | -0.2682 |
51742 | ARID4B | EEC-subject2 | Human | Endometrium | EEC | 1.29e-07 | 2.26e-01 | -0.2607 |
51742 | ARID4B | EEC-subject3 | Human | Endometrium | EEC | 2.03e-50 | 3.62e-01 | -0.2525 |
51742 | ARID4B | EEC-subject4 | Human | Endometrium | EEC | 2.69e-12 | 3.24e-01 | -0.2571 |
51742 | ARID4B | EEC-subject5 | Human | Endometrium | EEC | 1.88e-10 | 2.50e-01 | -0.249 |
51742 | ARID4B | GSM5276934 | Human | Endometrium | EEC | 6.49e-03 | 2.86e-02 | -0.0913 |
51742 | ARID4B | GSM5276935 | Human | Endometrium | EEC | 7.65e-04 | 3.51e-01 | -0.123 |
51742 | ARID4B | GSM6177620_NYU_UCEC1_lib1_lib1 | Human | Endometrium | EEC | 1.56e-29 | -1.45e-01 | -0.1869 |
51742 | ARID4B | GSM6177620_NYU_UCEC1_lib2_lib2 | Human | Endometrium | EEC | 1.55e-30 | -2.23e-01 | -0.1875 |
51742 | ARID4B | GSM6177620_NYU_UCEC1_lib3_lib3 | Human | Endometrium | EEC | 1.87e-32 | -1.45e-01 | -0.1883 |
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Transcriptomic changes along malignancy continuum. |
∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | |
Colorectum | SER | |
Colorectum | MSS | |
Colorectum | MSI-H | |
Colorectum | FAP |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00063257 | Cervix | CC | chromatin organization | 78/2311 | 409/18723 | 5.40e-05 | 8.02e-04 | 78 |
GO:00063258 | Endometrium | AEH | chromatin organization | 64/2100 | 409/18723 | 3.69e-03 | 2.52e-02 | 64 |
GO:000632513 | Endometrium | EEC | chromatin organization | 65/2168 | 409/18723 | 4.98e-03 | 3.14e-02 | 65 |
GO:000632516 | Esophagus | HGIN | chromatin organization | 92/2587 | 409/18723 | 1.05e-06 | 4.16e-05 | 92 |
GO:000632517 | Esophagus | ESCC | chromatin organization | 240/8552 | 409/18723 | 6.52e-08 | 1.14e-06 | 240 |
GO:00063255 | Liver | NAFLD | chromatin organization | 64/1882 | 409/18723 | 2.31e-04 | 3.89e-03 | 64 |
GO:000632511 | Liver | HCC | chromatin organization | 206/7958 | 409/18723 | 7.23e-04 | 4.41e-03 | 206 |
GO:00063256 | Lung | IAC | chromatin organization | 69/2061 | 409/18723 | 2.01e-04 | 3.53e-03 | 69 |
GO:000632512 | Lung | AIS | chromatin organization | 62/1849 | 409/18723 | 4.24e-04 | 7.29e-03 | 62 |
GO:000632510 | Oral cavity | OSCC | chromatin organization | 190/7305 | 409/18723 | 1.17e-03 | 5.97e-03 | 190 |
GO:000632515 | Oral cavity | EOLP | chromatin organization | 84/2218 | 409/18723 | 2.68e-07 | 8.16e-06 | 84 |
GO:000632521 | Oral cavity | NEOLP | chromatin organization | 70/2005 | 409/18723 | 4.97e-05 | 6.83e-04 | 70 |
GO:00063259 | Prostate | BPH | chromatin organization | 101/3107 | 409/18723 | 1.52e-05 | 1.94e-04 | 101 |
GO:000632514 | Prostate | Tumor | chromatin organization | 104/3246 | 409/18723 | 2.02e-05 | 2.62e-04 | 104 |
GO:000632518 | Skin | AK | chromatin organization | 73/1910 | 409/18723 | 1.40e-06 | 4.26e-05 | 73 |
GO:000632519 | Skin | cSCC | chromatin organization | 147/4864 | 409/18723 | 4.41e-06 | 6.52e-05 | 147 |
GO:000632520 | Thyroid | PTC | chromatin organization | 183/5968 | 409/18723 | 2.55e-08 | 5.70e-07 | 183 |
GO:0006325110 | Thyroid | ATC | chromatin organization | 189/6293 | 409/18723 | 6.40e-08 | 1.13e-06 | 189 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
Annotation of somatic variants for genes involved in malignant transformation |
Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
ARID4B | insertion | Frame_Shift_Ins | novel | c.359_360insGAGAATTAAGGCATGGACA | p.Asp121ArgfsTer15 | p.D121Rfs*15 | Q4LE39 | protein_coding | TCGA-AP-A056-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
ARID4B | insertion | Frame_Shift_Ins | novel | c.2656_2657insA | p.Arg886LysfsTer22 | p.R886Kfs*22 | Q4LE39 | protein_coding | TCGA-AX-A06H-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | SD | ||
ARID4B | insertion | Frame_Shift_Ins | novel | c.1461dupA | p.Glu488ArgfsTer3 | p.E488Rfs*3 | Q4LE39 | protein_coding | TCGA-B5-A0JY-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicin | SD | ||
ARID4B | insertion | Frame_Shift_Ins | novel | c.2775_2776insA | p.Asp926ArgfsTer12 | p.D926Rfs*12 | Q4LE39 | protein_coding | TCGA-BS-A0UJ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
ARID4B | insertion | Frame_Shift_Ins | novel | c.2408_2409insA | p.Arg804GlufsTer11 | p.R804Efs*11 | Q4LE39 | protein_coding | TCGA-BS-A0UJ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
ARID4B | deletion | Frame_Shift_Del | novel | c.3333delA | p.Ala1112ProfsTer8 | p.A1112Pfs*8 | Q4LE39 | protein_coding | TCGA-BS-A0V4-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
ARID4B | insertion | Nonsense_Mutation | novel | c.1633_1634insCTGGGCATTAAGAGTGAAACTCCGTGGAAGGA | p.Glu545AlafsTer4 | p.E545Afs*4 | Q4LE39 | protein_coding | TCGA-D1-A0ZZ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Chemotherapy | paclitaxel | SD | ||
ARID4B | deletion | Frame_Shift_Del | novel | c.1892delN | p.Asn631MetfsTer5 | p.N631Mfs*5 | Q4LE39 | protein_coding | TCGA-D1-A1NS-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
ARID4B | deletion | Frame_Shift_Del | c.1872_1881delNNNNNNNNNN | p.Ile624MetfsTer9 | p.I624Mfs*9 | Q4LE39 | protein_coding | TCGA-EY-A212-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |||
ARID4B | SNV | Missense_Mutation | novel | c.2429N>G | p.Asp810Gly | p.D810G | Q4LE39 | protein_coding | tolerated_low_confidence(0.34) | benign(0.001) | TCGA-2Y-A9H3-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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