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Gene: MICA |
Gene summary for MICA |
Gene summary. |
Gene information | Species | Human | Gene symbol | MICA | Gene ID | 100507436 |
Gene name | MHC class I polypeptide-related sequence A | |
Gene Alias | MIC-A | |
Cytomap | 6p21.33 | |
Gene Type | protein-coding | GO ID | GO:0001775 | UniProtAcc | Q29983 |
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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 |
100507436 | MICA | LZE4T | Human | Esophagus | ESCC | 8.03e-12 | 3.00e-01 | 0.0811 |
100507436 | MICA | LZE7T | Human | Esophagus | ESCC | 3.10e-04 | 2.55e-01 | 0.0667 |
100507436 | MICA | LZE20T | Human | Esophagus | ESCC | 6.46e-04 | 1.02e-01 | 0.0662 |
100507436 | MICA | LZE24T | Human | Esophagus | ESCC | 1.06e-08 | 2.36e-01 | 0.0596 |
100507436 | MICA | LZE6T | Human | Esophagus | ESCC | 7.69e-06 | 4.79e-01 | 0.0845 |
100507436 | MICA | P1T-E | Human | Esophagus | ESCC | 1.82e-07 | 4.01e-01 | 0.0875 |
100507436 | MICA | P2T-E | Human | Esophagus | ESCC | 1.42e-19 | 2.92e-01 | 0.1177 |
100507436 | MICA | P4T-E | Human | Esophagus | ESCC | 2.68e-27 | 6.57e-01 | 0.1323 |
100507436 | MICA | P5T-E | Human | Esophagus | ESCC | 3.82e-18 | 4.93e-01 | 0.1327 |
100507436 | MICA | P8T-E | Human | Esophagus | ESCC | 2.40e-07 | 1.59e-01 | 0.0889 |
100507436 | MICA | P9T-E | Human | Esophagus | ESCC | 3.55e-02 | 1.20e-01 | 0.1131 |
100507436 | MICA | P10T-E | Human | Esophagus | ESCC | 6.24e-16 | 2.59e-01 | 0.116 |
100507436 | MICA | P11T-E | Human | Esophagus | ESCC | 3.38e-26 | 7.15e-01 | 0.1426 |
100507436 | MICA | P12T-E | Human | Esophagus | ESCC | 2.04e-11 | 2.48e-01 | 0.1122 |
100507436 | MICA | P15T-E | Human | Esophagus | ESCC | 3.00e-12 | 2.94e-01 | 0.1149 |
100507436 | MICA | P16T-E | Human | Esophagus | ESCC | 9.04e-14 | 2.33e-01 | 0.1153 |
100507436 | MICA | P17T-E | Human | Esophagus | ESCC | 1.07e-07 | 3.53e-01 | 0.1278 |
100507436 | MICA | P19T-E | Human | Esophagus | ESCC | 6.99e-04 | 3.13e-01 | 0.1662 |
100507436 | MICA | P20T-E | Human | Esophagus | ESCC | 3.46e-10 | 2.51e-01 | 0.1124 |
100507436 | MICA | P21T-E | Human | Esophagus | ESCC | 8.03e-20 | 5.56e-01 | 0.1617 |
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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:000704324 | Thyroid | ATC | cell-cell junction assembly | 70/6293 | 146/18723 | 2.24e-04 | 1.46e-03 | 70 |
GO:003004213 | Thyroid | ATC | actin filament depolymerization | 32/6293 | 59/18723 | 8.74e-04 | 4.72e-03 | 32 |
GO:004586134 | Thyroid | ATC | negative regulation of proteolysis | 146/6293 | 351/18723 | 9.84e-04 | 5.22e-03 | 146 |
GO:005134629 | Thyroid | ATC | negative regulation of hydrolase activity | 155/6293 | 379/18723 | 1.64e-03 | 8.23e-03 | 155 |
GO:00485688 | Thyroid | ATC | embryonic organ development | 172/6293 | 427/18723 | 2.08e-03 | 9.84e-03 | 172 |
GO:012019318 | Thyroid | ATC | tight junction organization | 39/6293 | 80/18723 | 3.55e-03 | 1.57e-02 | 39 |
GO:004329722 | Thyroid | ATC | apical junction assembly | 38/6293 | 78/18723 | 4.03e-03 | 1.73e-02 | 38 |
GO:012019217 | Thyroid | ATC | tight junction assembly | 35/6293 | 74/18723 | 9.97e-03 | 3.63e-02 | 35 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05167211 | Esophagus | ESCC | Kaposi sarcoma-associated herpesvirus infection | 136/4205 | 194/8465 | 4.28e-09 | 4.22e-08 | 2.16e-08 | 136 |
hsa0516738 | Esophagus | ESCC | Kaposi sarcoma-associated herpesvirus infection | 136/4205 | 194/8465 | 4.28e-09 | 4.22e-08 | 2.16e-08 | 136 |
hsa0516721 | Liver | HCC | Kaposi sarcoma-associated herpesvirus infection | 111/4020 | 194/8465 | 3.78e-03 | 1.16e-02 | 6.45e-03 | 111 |
hsa0516731 | Liver | HCC | Kaposi sarcoma-associated herpesvirus infection | 111/4020 | 194/8465 | 3.78e-03 | 1.16e-02 | 6.45e-03 | 111 |
hsa0516729 | Oral cavity | OSCC | Kaposi sarcoma-associated herpesvirus infection | 125/3704 | 194/8465 | 3.67e-09 | 3.84e-08 | 1.96e-08 | 125 |
hsa05167113 | Oral cavity | OSCC | Kaposi sarcoma-associated herpesvirus infection | 125/3704 | 194/8465 | 3.67e-09 | 3.84e-08 | 1.96e-08 | 125 |
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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 |
MICA | SNV | Missense_Mutation | rs746669979 | c.173G>A | p.Arg58His | p.R58H | protein_coding | tolerated(1) | benign(0.009) | TCGA-A2-A1FW-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | SD | |
MICA | SNV | Missense_Mutation | c.507G>C | p.Leu169Phe | p.L169F | protein_coding | tolerated(0.06) | possibly_damaging(0.624) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | ||
MICA | insertion | Frame_Shift_Ins | novel | c.517_518insGAGAAGT | p.Ala173GlyfsTer89 | p.A173Gfs*89 | protein_coding | TCGA-AQ-A04J-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |||
MICA | insertion | Frame_Shift_Ins | novel | c.518_519insACTGCTGGGTGGGGGCAGGCTTG | p.Met174LeufsTer9 | p.M174Lfs*9 | protein_coding | TCGA-AQ-A04J-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |||
MICA | SNV | Missense_Mutation | c.360N>C | p.Glu120Asp | p.E120D | protein_coding | tolerated(0.05) | possibly_damaging(0.835) | TCGA-DG-A2KM-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD | ||
MICA | SNV | Missense_Mutation | novel | c.73N>T | p.Pro25Ser | p.P25S | protein_coding | tolerated(0.55) | possibly_damaging(0.887) | TCGA-AG-3892-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
MICA | SNV | Missense_Mutation | novel | c.982C>A | p.Leu328Ile | p.L328I | protein_coding | tolerated_low_confidence(0.13) | benign(0.052) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
MICA | SNV | Missense_Mutation | novel | c.98N>T | p.Thr33Met | p.T33M | protein_coding | deleterious(0.04) | benign(0.11) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
MICA | SNV | Missense_Mutation | novel | c.545N>A | p.Ala182Asp | p.A182D | protein_coding | tolerated(0.25) | possibly_damaging(0.887) | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD | |
MICA | SNV | Missense_Mutation | novel | c.82C>T | p.Leu28Phe | p.L28F | protein_coding | deleterious(0.05) | probably_damaging(0.999) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
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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 |
100507436 | MICA | EXTERNAL SIDE OF PLASMA MEMBRANE, CELL SURFACE | HSP70 | 17911639 |
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