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Gene: HDAC4 |
Gene summary for HDAC4 |
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Gene information | Species | Human | Gene symbol | HDAC4 | Gene ID | 9759 |
Gene name | histone deacetylase 4 | |
Gene Alias | AHO3 | |
Cytomap | 2q37.3 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | P56524 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
9759 | HDAC4 | CCI_2 | Human | Cervix | CC | 2.31e-03 | 5.00e-01 | 0.5249 |
9759 | HDAC4 | CCI_3 | Human | Cervix | CC | 1.47e-05 | 6.23e-01 | 0.516 |
9759 | HDAC4 | NAFLD1 | Human | Liver | NAFLD | 1.98e-02 | 5.04e-01 | -0.04 |
9759 | HDAC4 | HCC1_Meng | Human | Liver | HCC | 4.74e-05 | -1.14e-01 | 0.0246 |
9759 | HDAC4 | HCC2_Meng | Human | Liver | HCC | 2.06e-03 | -6.55e-02 | 0.0107 |
9759 | HDAC4 | S014 | Human | Liver | HCC | 8.47e-10 | 6.24e-01 | 0.2254 |
9759 | HDAC4 | S015 | Human | Liver | HCC | 7.41e-07 | 5.71e-01 | 0.2375 |
9759 | HDAC4 | S016 | Human | Liver | HCC | 2.29e-14 | 6.51e-01 | 0.2243 |
9759 | HDAC4 | HTA12-23-1 | Human | Pancreas | PDAC | 8.51e-05 | 6.60e-01 | 0.3405 |
9759 | HDAC4 | HTA12-25-1 | Human | Pancreas | PDAC | 3.87e-06 | 6.43e-01 | 0.313 |
9759 | HDAC4 | HTA12-26-1 | Human | Pancreas | PDAC | 2.77e-17 | 7.41e-01 | 0.3728 |
9759 | HDAC4 | HTA12-29-1 | Human | Pancreas | PDAC | 2.08e-21 | 5.38e-01 | 0.3722 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00510913 | Liver | HCC | positive regulation of DNA-binding transcription factor activity | 131/7958 | 260/18723 | 5.98e-03 | 2.45e-02 | 131 |
GO:190357911 | Liver | HCC | negative regulation of ATP metabolic process | 20/7958 | 30/18723 | 6.52e-03 | 2.65e-02 | 20 |
GO:00458201 | Liver | HCC | negative regulation of glycolytic process | 11/7958 | 14/18723 | 6.81e-03 | 2.73e-02 | 11 |
GO:001059111 | Liver | HCC | regulation of lamellipodium assembly | 26/7958 | 42/18723 | 8.76e-03 | 3.41e-02 | 26 |
GO:0010882 | Liver | HCC | regulation of cardiac muscle contraction by calcium ion signaling | 18/7958 | 27/18723 | 9.75e-03 | 3.66e-02 | 18 |
GO:00064761 | Liver | HCC | protein deacetylation | 55/7958 | 101/18723 | 1.01e-02 | 3.79e-02 | 55 |
GO:000164911 | Liver | HCC | osteoblast differentiation | 115/7958 | 229/18723 | 1.08e-02 | 3.99e-02 | 115 |
GO:007135611 | Liver | HCC | cellular response to tumor necrosis factor | 115/7958 | 229/18723 | 1.08e-02 | 3.99e-02 | 115 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa052032 | Liver | HCC | Viral carcinogenesis | 117/4020 | 204/8465 | 2.68e-03 | 8.98e-03 | 5.00e-03 | 117 |
hsa052033 | Liver | HCC | Viral carcinogenesis | 117/4020 | 204/8465 | 2.68e-03 | 8.98e-03 | 5.00e-03 | 117 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
HDAC4 | SNV | Missense_Mutation | novel | c.1009G>A | p.Glu337Lys | p.E337K | P56524 | protein_coding | deleterious(0.01) | benign(0.231) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD |
HDAC4 | SNV | Missense_Mutation | rs753482334 | c.2238N>A | p.Phe746Leu | p.F746L | P56524 | protein_coding | deleterious(0.01) | benign(0.207) | TCGA-A2-A25A-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Cytoxan | SD |
HDAC4 | SNV | Missense_Mutation | c.2610N>G | p.Phe870Leu | p.F870L | P56524 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A8-A09G-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
HDAC4 | SNV | Missense_Mutation | novel | c.1132N>G | p.Leu378Val | p.L378V | P56524 | protein_coding | tolerated(0.3) | benign(0.001) | TCGA-AC-A5XS-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD |
HDAC4 | SNV | Missense_Mutation | c.2306G>A | p.Gly769Glu | p.G769E | P56524 | protein_coding | deleterious(0.02) | benign(0.221) | TCGA-AN-A0FS-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
HDAC4 | deletion | Frame_Shift_Del | novel | c.887_909delNNNNNNNNNNNNNNNNNNNNNNN | p.Pro296GlnfsTer228 | p.P296Qfs*228 | P56524 | protein_coding | TCGA-A7-A4SA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | CR | ||
HDAC4 | deletion | Frame_Shift_Del | novel | c.2626delG | p.Ala876LeufsTer81 | p.A876Lfs*81 | P56524 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
HDAC4 | SNV | Missense_Mutation | novel | c.1090N>C | p.Ser364Pro | p.S364P | P56524 | protein_coding | deleterious(0.04) | benign(0.001) | TCGA-C5-A8XJ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | SD |
HDAC4 | SNV | Missense_Mutation | rs745953691 | c.412N>T | p.Arg138Cys | p.R138C | P56524 | protein_coding | deleterious(0.02) | possibly_damaging(0.751) | TCGA-DG-A2KH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
HDAC4 | SNV | Missense_Mutation | rs753482334 | c.2238N>A | p.Phe746Leu | p.F746L | P56524 | protein_coding | deleterious(0.01) | benign(0.207) | TCGA-EK-A2IP-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | inhibitor | CUDC-101 | CUDC-101 | |
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | APICIDIN | APICIDIN | 19705846,17956988 | |
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | inhibitor | 187051794 | ||
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | PMID29671355-Compound-62 | |||
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | inhibitor | 178103585 | ROMIDEPSIN | |
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | inhibitor | 187051792 | PANOBINOSTAT | |
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | BML-210 | CHEMBL324053 | 16921367 | |
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | PANOBINOSTAT | PANOBINOSTAT | ||
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | PMID29671355-Compound-47a | |||
9759 | HDAC4 | DRUGGABLE GENOME, CLINICALLY ACTIONABLE, TRANSCRIPTION FACTOR BINDING, TRANSCRIPTION FACTOR, ENZYME | BELINOSTAT | BELINOSTAT |
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