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Gene: BMP4 |
Gene summary for BMP4 |
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Gene information | Species | Human | Gene symbol | BMP4 | Gene ID | 652 |
Gene name | bone morphogenetic protein 4 | |
Gene Alias | BMP2B | |
Cytomap | 14q22.2 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | P12644 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
652 | BMP4 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.92e-09 | 2.49e-01 | 0.0155 |
652 | BMP4 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.14e-02 | 1.51e-01 | -0.1808 |
652 | BMP4 | HTA11_1938_2000001011 | Human | Colorectum | AD | 4.00e-12 | 3.59e-01 | -0.0811 |
652 | BMP4 | HTA11_78_2000001011 | Human | Colorectum | AD | 2.35e-06 | 2.68e-01 | -0.1088 |
652 | BMP4 | HTA11_3361_2000001011 | Human | Colorectum | AD | 5.46e-03 | 1.78e-01 | -0.1207 |
652 | BMP4 | HTA11_696_2000001011 | Human | Colorectum | AD | 9.56e-07 | 2.03e-01 | -0.1464 |
652 | BMP4 | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.00e-13 | 4.29e-01 | -0.059 |
652 | BMP4 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.47e-27 | 8.76e-01 | 0.096 |
652 | BMP4 | HTA11_4255_2000001011 | Human | Colorectum | SER | 2.17e-09 | 5.36e-01 | 0.0446 |
652 | BMP4 | HTA11_8622_2000001021 | Human | Colorectum | SER | 1.49e-06 | 4.55e-01 | 0.0528 |
652 | BMP4 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.91e-07 | 4.51e-01 | 0.0338 |
652 | BMP4 | HTA11_6818_2000001021 | Human | Colorectum | AD | 4.64e-16 | 5.83e-01 | 0.0588 |
652 | BMP4 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.78e-48 | 1.06e+00 | 0.294 |
652 | BMP4 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 1.40e-05 | 5.83e-01 | 0.3487 |
652 | BMP4 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 3.26e-04 | 2.22e-01 | 0.281 |
652 | BMP4 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 3.40e-53 | 1.37e+00 | 0.3859 |
652 | BMP4 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 1.05e-12 | 5.16e-01 | 0.2585 |
652 | BMP4 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.92e-35 | 7.10e-01 | 0.3005 |
652 | BMP4 | A001-C-104 | Human | Colorectum | FAP | 1.92e-04 | 1.90e-01 | 0.0184 |
652 | BMP4 | A001-C-007 | Human | Colorectum | CRC | 5.46e-03 | 2.28e-01 | 0.1899 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0072594 | Colorectum | AD | establishment of protein localization to organelle | 148/3918 | 422/18723 | 7.95e-12 | 1.04e-09 | 148 |
GO:0002064 | Colorectum | AD | epithelial cell development | 89/3918 | 220/18723 | 2.98e-11 | 3.52e-09 | 89 |
GO:0048732 | Colorectum | AD | gland development | 149/3918 | 436/18723 | 6.07e-11 | 6.33e-09 | 149 |
GO:0051098 | Colorectum | AD | regulation of binding | 126/3918 | 363/18723 | 6.01e-10 | 4.88e-08 | 126 |
GO:2001233 | Colorectum | AD | regulation of apoptotic signaling pathway | 119/3918 | 356/18723 | 2.14e-08 | 1.21e-06 | 119 |
GO:0006913 | Colorectum | AD | nucleocytoplasmic transport | 102/3918 | 301/18723 | 1.00e-07 | 4.85e-06 | 102 |
GO:0051169 | Colorectum | AD | nuclear transport | 102/3918 | 301/18723 | 1.00e-07 | 4.85e-06 | 102 |
GO:0010639 | Colorectum | AD | negative regulation of organelle organization | 114/3918 | 348/18723 | 1.41e-07 | 6.49e-06 | 114 |
GO:0051099 | Colorectum | AD | positive regulation of binding | 66/3918 | 173/18723 | 1.47e-07 | 6.64e-06 | 66 |
GO:1900180 | Colorectum | AD | regulation of protein localization to nucleus | 55/3918 | 136/18723 | 1.70e-07 | 7.34e-06 | 55 |
GO:0032386 | Colorectum | AD | regulation of intracellular transport | 109/3918 | 337/18723 | 5.33e-07 | 1.95e-05 | 109 |
GO:0033157 | Colorectum | AD | regulation of intracellular protein transport | 80/3918 | 229/18723 | 5.81e-07 | 2.09e-05 | 80 |
GO:0071383 | Colorectum | AD | cellular response to steroid hormone stimulus | 73/3918 | 204/18723 | 6.31e-07 | 2.24e-05 | 73 |
GO:0034101 | Colorectum | AD | erythrocyte homeostasis | 51/3918 | 129/18723 | 1.07e-06 | 3.59e-05 | 51 |
GO:0030099 | Colorectum | AD | myeloid cell differentiation | 119/3918 | 381/18723 | 1.24e-06 | 4.01e-05 | 119 |
GO:0030879 | Colorectum | AD | mammary gland development | 53/3918 | 137/18723 | 1.46e-06 | 4.58e-05 | 53 |
GO:0034504 | Colorectum | AD | protein localization to nucleus | 94/3918 | 290/18723 | 2.83e-06 | 8.09e-05 | 94 |
GO:0043393 | Colorectum | AD | regulation of protein binding | 68/3918 | 196/18723 | 5.17e-06 | 1.34e-04 | 68 |
GO:0002262 | Colorectum | AD | myeloid cell homeostasis | 57/3918 | 157/18723 | 6.17e-06 | 1.56e-04 | 57 |
GO:0043401 | Colorectum | AD | steroid hormone mediated signaling pathway | 51/3918 | 136/18723 | 6.52e-06 | 1.63e-04 | 51 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04919 | Colorectum | AD | Thyroid hormone signaling pathway | 51/2092 | 121/8465 | 1.71e-05 | 1.73e-04 | 1.10e-04 | 51 |
hsa05418 | Colorectum | AD | Fluid shear stress and atherosclerosis | 54/2092 | 139/8465 | 1.41e-04 | 1.16e-03 | 7.37e-04 | 54 |
hsa049191 | Colorectum | AD | Thyroid hormone signaling pathway | 51/2092 | 121/8465 | 1.71e-05 | 1.73e-04 | 1.10e-04 | 51 |
hsa054181 | Colorectum | AD | Fluid shear stress and atherosclerosis | 54/2092 | 139/8465 | 1.41e-04 | 1.16e-03 | 7.37e-04 | 54 |
hsa049192 | Colorectum | SER | Thyroid hormone signaling pathway | 40/1580 | 121/8465 | 1.02e-04 | 1.06e-03 | 7.67e-04 | 40 |
hsa054182 | Colorectum | SER | Fluid shear stress and atherosclerosis | 40/1580 | 139/8465 | 2.28e-03 | 1.75e-02 | 1.27e-02 | 40 |
hsa049193 | Colorectum | SER | Thyroid hormone signaling pathway | 40/1580 | 121/8465 | 1.02e-04 | 1.06e-03 | 7.67e-04 | 40 |
hsa054183 | Colorectum | SER | Fluid shear stress and atherosclerosis | 40/1580 | 139/8465 | 2.28e-03 | 1.75e-02 | 1.27e-02 | 40 |
hsa049194 | Colorectum | MSS | Thyroid hormone signaling pathway | 46/1875 | 121/8465 | 5.04e-05 | 4.97e-04 | 3.05e-04 | 46 |
hsa054184 | Colorectum | MSS | Fluid shear stress and atherosclerosis | 51/1875 | 139/8465 | 6.06e-05 | 5.80e-04 | 3.55e-04 | 51 |
hsa04390 | Colorectum | MSS | Hippo signaling pathway | 48/1875 | 157/8465 | 8.32e-03 | 3.10e-02 | 1.90e-02 | 48 |
hsa049195 | Colorectum | MSS | Thyroid hormone signaling pathway | 46/1875 | 121/8465 | 5.04e-05 | 4.97e-04 | 3.05e-04 | 46 |
hsa054185 | Colorectum | MSS | Fluid shear stress and atherosclerosis | 51/1875 | 139/8465 | 6.06e-05 | 5.80e-04 | 3.55e-04 | 51 |
hsa043901 | Colorectum | MSS | Hippo signaling pathway | 48/1875 | 157/8465 | 8.32e-03 | 3.10e-02 | 1.90e-02 | 48 |
hsa054186 | Colorectum | MSI-H | Fluid shear stress and atherosclerosis | 25/797 | 139/8465 | 1.11e-03 | 1.20e-02 | 1.01e-02 | 25 |
hsa049196 | Colorectum | MSI-H | Thyroid hormone signaling pathway | 21/797 | 121/8465 | 4.18e-03 | 4.10e-02 | 3.44e-02 | 21 |
hsa054187 | Colorectum | MSI-H | Fluid shear stress and atherosclerosis | 25/797 | 139/8465 | 1.11e-03 | 1.20e-02 | 1.01e-02 | 25 |
hsa049197 | Colorectum | MSI-H | Thyroid hormone signaling pathway | 21/797 | 121/8465 | 4.18e-03 | 4.10e-02 | 3.44e-02 | 21 |
hsa049198 | Colorectum | FAP | Thyroid hormone signaling pathway | 41/1404 | 121/8465 | 2.28e-06 | 4.28e-05 | 2.60e-05 | 41 |
hsa054188 | Colorectum | FAP | Fluid shear stress and atherosclerosis | 45/1404 | 139/8465 | 3.05e-06 | 4.63e-05 | 2.81e-05 | 45 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | CRC | AD |
BMP4 | BMPR1A_ACVR2A | BMP4_BMPR1A_ACVR2A | BMP | CRC | ADJ |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | CRC | ADJ |
BMP4 | BMPR1A_ACVR2A | BMP4_BMPR1A_ACVR2A | BMP | CRC | MSI-H |
BMP4 | BMPR1A_ACVR2B | BMP4_BMPR1A_ACVR2B | BMP | CRC | MSI-H |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | CRC | MSI-H |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | CRC | SER |
BMP4 | BMPR1A_ACVR2B | BMP4_BMPR1A_ACVR2B | BMP | Esophagus | ESCC |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | HNSCC | Precancer |
BMP4 | BMPR1A_ACVR2A | BMP4_BMPR1A_ACVR2A | BMP | Liver | Precancer |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | Liver | Precancer |
BMP4 | BMPR1B_ACVR2A | BMP4_BMPR1B_ACVR2A | BMP | Liver | Precancer |
BMP4 | BMPR1B_BMPR2 | BMP4_BMPR1B_BMPR2 | BMP | Liver | Precancer |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | Lung | AAH |
BMP4 | BMPR1B_BMPR2 | BMP4_BMPR1B_BMPR2 | BMP | Lung | AAH |
BMP4 | BMPR1A_ACVR2A | BMP4_BMPR1A_ACVR2A | BMP | THCA | ADJ |
BMP4 | BMPR1A_BMPR2 | BMP4_BMPR1A_BMPR2 | BMP | THCA | ADJ |
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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 |
BMP4 | SNV | Missense_Mutation | c.1064N>T | p.Ala355Val | p.A355V | P12644 | protein_coding | deleterious(0) | benign(0.2) | TCGA-AD-5900-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
BMP4 | SNV | Missense_Mutation | rs746984770 | c.767N>A | p.Arg256Gln | p.R256Q | P12644 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
BMP4 | SNV | Missense_Mutation | rs753312749 | c.415N>T | p.Arg139Cys | p.R139C | P12644 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
BMP4 | SNV | Missense_Mutation | rs778657318 | c.926N>A | p.Arg309Gln | p.R309Q | P12644 | protein_coding | tolerated(0.15) | benign(0.284) | TCGA-CM-4743-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | capecitabine | SD |
BMP4 | SNV | Missense_Mutation | c.205N>T | p.Arg69Cys | p.R69C | P12644 | protein_coding | deleterious(0) | probably_damaging(0.956) | TCGA-D5-6530-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
BMP4 | SNV | Missense_Mutation | rs748940819 | c.631N>T | p.Arg211Trp | p.R211W | P12644 | protein_coding | deleterious(0) | possibly_damaging(0.893) | TCGA-AG-4008-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Chemotherapy | 5-fluorouracil | CR |
BMP4 | SNV | Missense_Mutation | rs750868626 | c.1223G>A | p.Arg408His | p.R408H | P12644 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A5-A0VQ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | SD |
BMP4 | SNV | Missense_Mutation | novel | c.956N>G | p.Asp319Gly | p.D319G | P12644 | protein_coding | deleterious(0) | possibly_damaging(0.883) | TCGA-AJ-A3NE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
BMP4 | SNV | Missense_Mutation | c.1188T>G | p.Asn396Lys | p.N396K | P12644 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
BMP4 | SNV | Missense_Mutation | c.750G>T | p.Gln250His | p.Q250H | P12644 | protein_coding | tolerated(0.11) | possibly_damaging(0.637) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | 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 |
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