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Gene: LAMA3 |
Gene summary for LAMA3 |
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Gene information | Species | Human | Gene symbol | LAMA3 | Gene ID | 3909 |
Gene name | laminin subunit alpha 3 | |
Gene Alias | BM600 | |
Cytomap | 18q11.2 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | A0A0A6YYF2 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
3909 | LAMA3 | cSCC_p6 | Human | Skin | cSCC | 5.74e-03 | 8.76e-02 | -0.1989 |
3909 | LAMA3 | cSCC_p8 | Human | Skin | cSCC | 6.18e-06 | 2.16e-01 | -0.1971 |
3909 | LAMA3 | cSCC_p9 | Human | Skin | cSCC | 1.65e-04 | 1.38e-01 | -0.1991 |
3909 | LAMA3 | Pat01-B | Human | Stomach | GC | 8.82e-19 | 1.94e-01 | 0.5754 |
3909 | LAMA3 | Pat02-B | Human | Stomach | GC | 4.08e-32 | -1.34e-02 | 0.0368 |
3909 | LAMA3 | Pat03-B | Human | Stomach | GC | 7.18e-09 | 2.77e-03 | 0.3693 |
3909 | LAMA3 | Pat04-B | Human | Stomach | GC | 7.17e-17 | -2.84e-01 | -0.1483 |
3909 | LAMA3 | Pat05-B | Human | Stomach | GC | 5.94e-05 | -2.58e-01 | -0.0353 |
3909 | LAMA3 | Pat06-B | Human | Stomach | GC | 1.83e-35 | -2.53e-01 | -0.1961 |
3909 | LAMA3 | Pat07-B | Human | Stomach | GC | 4.39e-02 | -4.53e-01 | 0.0935 |
3909 | LAMA3 | Pat09-B | Human | Stomach | GC | 3.01e-12 | -6.38e-01 | -0.0359 |
3909 | LAMA3 | Pat11-B | Human | Stomach | GC | 5.50e-16 | -9.79e-02 | -0.182 |
3909 | LAMA3 | Pat12-B | Human | Stomach | GC | 3.69e-17 | -2.19e-01 | 0.0325 |
3909 | LAMA3 | Pat13-B | Human | Stomach | GC | 6.49e-05 | -3.33e-01 | 0.0555 |
3909 | LAMA3 | Pat15-B | Human | Stomach | GC | 6.62e-05 | -2.30e-01 | -0.0778 |
3909 | LAMA3 | Pat16-B | Human | Stomach | GC | 1.96e-02 | -1.56e-01 | 0.1918 |
3909 | LAMA3 | Pat18-B | Human | Stomach | GC | 1.25e-13 | -3.34e-01 | -0.0432 |
3909 | LAMA3 | Pat19-B | Human | Stomach | GC | 1.32e-05 | -1.09e-01 | 0.0826 |
3909 | LAMA3 | Pat22-B | Human | Stomach | GC | 8.23e-29 | -1.22e-01 | -0.1042 |
3909 | LAMA3 | Pat24-B | Human | Stomach | GC | 4.43e-09 | -2.42e-01 | -0.1184 |
Page: 1 2 3 4 5 6 7 |
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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:00085446 | Cervix | CC | epidermis development | 83/2311 | 324/18723 | 3.91e-11 | 8.54e-09 | 83 |
GO:00072295 | Cervix | CC | integrin-mediated signaling pathway | 34/2311 | 107/18723 | 1.01e-07 | 5.25e-06 | 34 |
GO:00615647 | Cervix | CC | axon development | 89/2311 | 467/18723 | 1.71e-05 | 3.27e-04 | 89 |
GO:00073695 | Cervix | CC | gastrulation | 42/2311 | 185/18723 | 5.83e-05 | 8.46e-04 | 42 |
GO:00074097 | Cervix | CC | axonogenesis | 78/2311 | 418/18723 | 1.14e-04 | 1.43e-03 | 78 |
GO:00459955 | Cervix | CC | regulation of embryonic development | 19/2311 | 64/18723 | 1.78e-04 | 2.09e-03 | 19 |
GO:00074923 | Cervix | CC | endoderm development | 20/2311 | 77/18723 | 8.40e-04 | 7.30e-03 | 20 |
GO:0001704 | Cervix | CC | formation of primary germ layer | 27/2311 | 121/18723 | 1.49e-03 | 1.16e-02 | 27 |
GO:00017384 | Cervix | CC | morphogenesis of a polarized epithelium | 22/2311 | 94/18723 | 2.09e-03 | 1.52e-02 | 22 |
GO:000854413 | Cervix | HSIL_HPV | epidermis development | 38/737 | 324/18723 | 1.92e-09 | 3.23e-07 | 38 |
GO:000722913 | Cervix | HSIL_HPV | integrin-mediated signaling pathway | 19/737 | 107/18723 | 3.37e-08 | 2.76e-06 | 19 |
GO:00017041 | Cervix | HSIL_HPV | formation of primary germ layer | 13/737 | 121/18723 | 9.63e-04 | 1.20e-02 | 13 |
GO:000736911 | Cervix | HSIL_HPV | gastrulation | 16/737 | 185/18723 | 2.71e-03 | 2.58e-02 | 16 |
GO:0001706 | Cervix | HSIL_HPV | endoderm formation | 7/737 | 54/18723 | 5.04e-03 | 4.12e-02 | 7 |
GO:0007409 | Colorectum | AD | axonogenesis | 122/3918 | 418/18723 | 3.36e-05 | 6.15e-04 | 122 |
GO:0061564 | Colorectum | AD | axon development | 132/3918 | 467/18723 | 8.40e-05 | 1.31e-03 | 132 |
GO:0045995 | Colorectum | AD | regulation of embryonic development | 24/3918 | 64/18723 | 1.72e-03 | 1.43e-02 | 24 |
GO:0001738 | Colorectum | AD | morphogenesis of a polarized epithelium | 31/3918 | 94/18723 | 4.30e-03 | 2.95e-02 | 31 |
GO:0007411 | Colorectum | AD | axon guidance | 64/3918 | 227/18723 | 5.41e-03 | 3.55e-02 | 64 |
GO:0008544 | Colorectum | AD | epidermis development | 87/3918 | 324/18723 | 5.99e-03 | 3.76e-02 | 87 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0451010 | Cervix | CC | Focal adhesion | 59/1267 | 203/8465 | 1.53e-07 | 1.84e-06 | 1.09e-06 | 59 |
hsa0514514 | Cervix | CC | Toxoplasmosis | 34/1267 | 112/8465 | 2.42e-05 | 1.82e-04 | 1.08e-04 | 34 |
hsa052226 | Cervix | CC | Small cell lung cancer | 29/1267 | 92/8465 | 4.38e-05 | 3.09e-04 | 1.83e-04 | 29 |
hsa051657 | Cervix | CC | Human papillomavirus infection | 74/1267 | 331/8465 | 1.70e-04 | 1.02e-03 | 6.03e-04 | 74 |
hsa051465 | Cervix | CC | Amoebiasis | 29/1267 | 102/8465 | 3.31e-04 | 1.70e-03 | 1.01e-03 | 29 |
hsa0451014 | Cervix | CC | Focal adhesion | 59/1267 | 203/8465 | 1.53e-07 | 1.84e-06 | 1.09e-06 | 59 |
hsa0514515 | Cervix | CC | Toxoplasmosis | 34/1267 | 112/8465 | 2.42e-05 | 1.82e-04 | 1.08e-04 | 34 |
hsa0522213 | Cervix | CC | Small cell lung cancer | 29/1267 | 92/8465 | 4.38e-05 | 3.09e-04 | 1.83e-04 | 29 |
hsa0516512 | Cervix | CC | Human papillomavirus infection | 74/1267 | 331/8465 | 1.70e-04 | 1.02e-03 | 6.03e-04 | 74 |
hsa0514612 | Cervix | CC | Amoebiasis | 29/1267 | 102/8465 | 3.31e-04 | 1.70e-03 | 1.01e-03 | 29 |
hsa0514522 | Cervix | HSIL_HPV | Toxoplasmosis | 22/459 | 112/8465 | 1.07e-07 | 3.14e-06 | 2.54e-06 | 22 |
hsa0522222 | Cervix | HSIL_HPV | Small cell lung cancer | 13/459 | 92/8465 | 1.30e-03 | 9.51e-03 | 7.68e-03 | 13 |
hsa045124 | Cervix | HSIL_HPV | ECM-receptor interaction | 12/459 | 89/8465 | 2.95e-03 | 1.88e-02 | 1.52e-02 | 12 |
hsa0451023 | Cervix | HSIL_HPV | Focal adhesion | 21/459 | 203/8465 | 3.24e-03 | 2.02e-02 | 1.63e-02 | 21 |
hsa0514532 | Cervix | HSIL_HPV | Toxoplasmosis | 22/459 | 112/8465 | 1.07e-07 | 3.14e-06 | 2.54e-06 | 22 |
hsa0522232 | Cervix | HSIL_HPV | Small cell lung cancer | 13/459 | 92/8465 | 1.30e-03 | 9.51e-03 | 7.68e-03 | 13 |
hsa0451211 | Cervix | HSIL_HPV | ECM-receptor interaction | 12/459 | 89/8465 | 2.95e-03 | 1.88e-02 | 1.52e-02 | 12 |
hsa0451033 | Cervix | HSIL_HPV | Focal adhesion | 21/459 | 203/8465 | 3.24e-03 | 2.02e-02 | 1.63e-02 | 21 |
hsa04510 | Colorectum | AD | Focal adhesion | 67/2092 | 203/8465 | 4.40e-03 | 2.17e-02 | 1.38e-02 | 67 |
hsa045101 | Colorectum | AD | Focal adhesion | 67/2092 | 203/8465 | 4.40e-03 | 2.17e-02 | 1.38e-02 | 67 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
LAMA3 | ITGA1_ITGB1 | LAMA3_ITGA1_ITGB1 | LAMININ | Breast | DCIS |
LAMA3 | ITGA2_ITGB1 | LAMA3_ITGA2_ITGB1 | LAMININ | Breast | DCIS |
LAMA3 | ITGA6_ITGB1 | LAMA3_ITGA6_ITGB1 | LAMININ | Breast | DCIS |
LAMA3 | ITGA7_ITGB1 | LAMA3_ITGA7_ITGB1 | LAMININ | Breast | DCIS |
LAMA3 | ITGA6_ITGB4 | LAMA3_ITGA6_ITGB4 | LAMININ | Breast | DCIS |
LAMA3 | CD44 | LAMA3_CD44 | LAMININ | Breast | DCIS |
LAMA3 | DAG1 | LAMA3_DAG1 | LAMININ | Breast | DCIS |
LAMA3 | ITGA1_ITGB1 | LAMA3_ITGA1_ITGB1 | LAMININ | Breast | Healthy |
LAMA3 | ITGA2_ITGB1 | LAMA3_ITGA2_ITGB1 | LAMININ | Breast | Healthy |
LAMA3 | ITGA6_ITGB1 | LAMA3_ITGA6_ITGB1 | LAMININ | Breast | Healthy |
LAMA3 | ITGA7_ITGB1 | LAMA3_ITGA7_ITGB1 | LAMININ | Breast | Healthy |
LAMA3 | ITGAV_ITGB8 | LAMA3_ITGAV_ITGB8 | LAMININ | Breast | Healthy |
LAMA3 | CD44 | LAMA3_CD44 | LAMININ | Breast | Healthy |
LAMA3 | ITGA1_ITGB1 | LAMA3_ITGA1_ITGB1 | LAMININ | Cervix | ADJ |
LAMA3 | ITGA2_ITGB1 | LAMA3_ITGA2_ITGB1 | LAMININ | Cervix | ADJ |
LAMA3 | ITGA3_ITGB1 | LAMA3_ITGA3_ITGB1 | LAMININ | Cervix | ADJ |
LAMA3 | ITGA6_ITGB1 | LAMA3_ITGA6_ITGB1 | LAMININ | Cervix | ADJ |
LAMA3 | ITGA7_ITGB1 | LAMA3_ITGA7_ITGB1 | LAMININ | Cervix | ADJ |
LAMA3 | ITGAV_ITGB8 | LAMA3_ITGAV_ITGB8 | LAMININ | Cervix | ADJ |
LAMA3 | ITGA6_ITGB4 | LAMA3_ITGA6_ITGB4 | LAMININ | Cervix | 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 |
LAMA3 | SNV | Missense_Mutation | c.9901N>A | p.Gly3301Ser | p.G3301S | Q16787 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A1-A0SK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
LAMA3 | SNV | Missense_Mutation | rs756402937 | c.9533N>T | p.Pro3178Leu | p.P3178L | Q16787 | protein_coding | tolerated(1) | probably_damaging(0.925) | TCGA-A2-A04U-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD |
LAMA3 | SNV | Missense_Mutation | rs763626668 | c.4558N>T | p.Ala1520Ser | p.A1520S | Q16787 | protein_coding | deleterious(0.03) | possibly_damaging(0.458) | TCGA-A2-A0CU-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | SD |
LAMA3 | SNV | Missense_Mutation | c.1510N>A | p.Asp504Asn | p.D504N | Q16787 | protein_coding | deleterious(0.05) | benign(0.059) | TCGA-A8-A08F-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | 5-fluorouracil | CR | |
LAMA3 | SNV | Missense_Mutation | c.8153G>A | p.Gly2718Glu | p.G2718E | Q16787 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
LAMA3 | SNV | Missense_Mutation | novel | c.727N>G | p.Phe243Val | p.F243V | Q16787 | protein_coding | deleterious(0.02) | benign(0.111) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LAMA3 | SNV | Missense_Mutation | rs759912753 | c.5580G>A | p.Met1860Ile | p.M1860I | Q16787 | protein_coding | tolerated(0.27) | benign(0.007) | TCGA-AR-A0TX-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LAMA3 | SNV | Missense_Mutation | c.4793G>A | p.Arg1598His | p.R1598H | Q16787 | protein_coding | tolerated(0.13) | benign(0.009) | TCGA-AR-A1AY-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unspecific | Doxorubicin | SD | |
LAMA3 | SNV | Missense_Mutation | novel | c.4450G>C | p.Glu1484Gln | p.E1484Q | Q16787 | protein_coding | tolerated(0.06) | benign(0.312) | TCGA-C8-A8HQ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LAMA3 | SNV | Missense_Mutation | rs774924039 | c.6700C>A | p.Gln2234Lys | p.Q2234K | Q16787 | protein_coding | tolerated(0.16) | benign(0.024) | TCGA-D8-A145-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | 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 |
3909 | LAMA3 | DRUGGABLE GENOME | CHEMBL2095222 | OCRIPLASMIN |
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