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Gene: ME2 |
Gene summary for ME2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | ME2 | Gene ID | 4200 |
Gene name | malic enzyme 2 | |
Gene Alias | ODS1 | |
Cytomap | 18q21.2 | |
Gene Type | protein-coding | GO ID | GO:0006082 | UniProtAcc | P23368 |
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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 |
4200 | ME2 | HTA11_347_2000001011 | Human | Colorectum | AD | 7.06e-05 | 3.20e-01 | -0.1954 |
4200 | ME2 | HTA11_696_2000001011 | Human | Colorectum | AD | 4.68e-02 | -1.89e-01 | -0.1464 |
4200 | ME2 | A002-C-010 | Human | Colorectum | FAP | 2.99e-02 | -1.63e-01 | 0.242 |
4200 | ME2 | A001-C-207 | Human | Colorectum | FAP | 8.50e-04 | -3.23e-01 | 0.1278 |
4200 | ME2 | A015-C-203 | Human | Colorectum | FAP | 6.11e-16 | -2.57e-01 | -0.1294 |
4200 | ME2 | A002-C-201 | Human | Colorectum | FAP | 3.19e-09 | -3.41e-01 | 0.0324 |
4200 | ME2 | A002-C-203 | Human | Colorectum | FAP | 1.78e-04 | -2.28e-01 | 0.2786 |
4200 | ME2 | A001-C-119 | Human | Colorectum | FAP | 1.50e-02 | -2.75e-01 | -0.1557 |
4200 | ME2 | A001-C-108 | Human | Colorectum | FAP | 2.45e-14 | -2.82e-01 | -0.0272 |
4200 | ME2 | A002-C-205 | Human | Colorectum | FAP | 6.00e-11 | -3.55e-01 | -0.1236 |
4200 | ME2 | A015-C-005 | Human | Colorectum | FAP | 2.20e-03 | -2.89e-01 | -0.0336 |
4200 | ME2 | A015-C-006 | Human | Colorectum | FAP | 1.79e-06 | -3.20e-01 | -0.0994 |
4200 | ME2 | A015-C-106 | Human | Colorectum | FAP | 7.19e-04 | -1.77e-01 | -0.0511 |
4200 | ME2 | A002-C-114 | Human | Colorectum | FAP | 7.03e-09 | -3.07e-01 | -0.1561 |
4200 | ME2 | A015-C-104 | Human | Colorectum | FAP | 5.39e-18 | -3.47e-01 | -0.1899 |
4200 | ME2 | A001-C-014 | Human | Colorectum | FAP | 1.05e-06 | -3.08e-01 | 0.0135 |
4200 | ME2 | A002-C-016 | Human | Colorectum | FAP | 1.31e-13 | -2.37e-01 | 0.0521 |
4200 | ME2 | A015-C-002 | Human | Colorectum | FAP | 4.21e-07 | -4.38e-01 | -0.0763 |
4200 | ME2 | A001-C-203 | Human | Colorectum | FAP | 4.24e-05 | -2.15e-01 | -0.0481 |
4200 | ME2 | A002-C-116 | Human | Colorectum | FAP | 5.46e-12 | -2.56e-01 | -0.0452 |
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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:007132618 | Skin | AK | cellular response to monosaccharide stimulus | 30/1910 | 154/18723 | 3.81e-04 | 3.67e-03 | 30 |
GO:000974919 | Skin | AK | response to glucose | 37/1910 | 212/18723 | 8.05e-04 | 6.69e-03 | 37 |
GO:00027618 | Skin | AK | regulation of myeloid leukocyte differentiation | 24/1910 | 120/18723 | 9.53e-04 | 7.64e-03 | 24 |
GO:19037076 | Skin | AK | negative regulation of hemopoiesis | 21/1910 | 106/18723 | 2.17e-03 | 1.44e-02 | 21 |
GO:19021066 | Skin | AK | negative regulation of leukocyte differentiation | 20/1910 | 102/18723 | 3.10e-03 | 1.93e-02 | 20 |
GO:000913220 | Skin | AK | nucleoside diphosphate metabolic process | 23/1910 | 124/18723 | 3.35e-03 | 2.05e-02 | 23 |
GO:00109765 | Skin | AK | positive regulation of neuron projection development | 27/1910 | 163/18723 | 7.82e-03 | 3.97e-02 | 27 |
GO:00456383 | Skin | AK | negative regulation of myeloid cell differentiation | 17/1910 | 90/18723 | 8.93e-03 | 4.39e-02 | 17 |
GO:000722917 | Skin | SCCIS | integrin-mediated signaling pathway | 24/919 | 107/18723 | 2.91e-10 | 2.21e-07 | 24 |
GO:004358817 | Skin | SCCIS | skin development | 36/919 | 263/18723 | 2.51e-08 | 6.66e-06 | 36 |
GO:000268318 | Skin | SCCIS | negative regulation of immune system process | 49/919 | 434/18723 | 4.92e-08 | 8.19e-06 | 49 |
GO:000854418 | Skin | SCCIS | epidermis development | 40/919 | 324/18723 | 7.81e-08 | 1.15e-05 | 40 |
GO:0050673110 | Skin | SCCIS | epithelial cell proliferation | 48/919 | 437/18723 | 1.56e-07 | 1.84e-05 | 48 |
GO:190210516 | Skin | SCCIS | regulation of leukocyte differentiation | 35/919 | 279/18723 | 3.43e-07 | 3.03e-05 | 35 |
GO:0009145110 | Skin | SCCIS | purine nucleoside triphosphate biosynthetic process | 15/919 | 69/18723 | 9.72e-07 | 6.61e-05 | 15 |
GO:000257319 | Skin | SCCIS | myeloid leukocyte differentiation | 28/919 | 208/18723 | 1.24e-06 | 8.07e-05 | 28 |
GO:1903706111 | Skin | SCCIS | regulation of hemopoiesis | 40/919 | 367/18723 | 2.04e-06 | 1.09e-04 | 40 |
GO:0030099112 | Skin | SCCIS | myeloid cell differentiation | 41/919 | 381/18723 | 2.11e-06 | 1.09e-04 | 41 |
GO:0009142110 | Skin | SCCIS | nucleoside triphosphate biosynthetic process | 16/919 | 85/18723 | 3.24e-06 | 1.53e-04 | 16 |
GO:0006979112 | Skin | SCCIS | response to oxidative stress | 45/919 | 446/18723 | 3.89e-06 | 1.76e-04 | 45 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa01200 | Colorectum | AD | Carbon metabolism | 55/2092 | 115/8465 | 5.53e-08 | 8.42e-07 | 5.37e-07 | 55 |
hsa00620 | Colorectum | AD | Pyruvate metabolism | 28/2092 | 47/8465 | 3.71e-07 | 5.41e-06 | 3.45e-06 | 28 |
hsa012001 | Colorectum | AD | Carbon metabolism | 55/2092 | 115/8465 | 5.53e-08 | 8.42e-07 | 5.37e-07 | 55 |
hsa006201 | Colorectum | AD | Pyruvate metabolism | 28/2092 | 47/8465 | 3.71e-07 | 5.41e-06 | 3.45e-06 | 28 |
hsa012006 | Colorectum | FAP | Carbon metabolism | 38/1404 | 115/8465 | 1.04e-05 | 1.44e-04 | 8.76e-05 | 38 |
hsa006206 | Colorectum | FAP | Pyruvate metabolism | 17/1404 | 47/8465 | 9.18e-04 | 5.20e-03 | 3.16e-03 | 17 |
hsa012007 | Colorectum | FAP | Carbon metabolism | 38/1404 | 115/8465 | 1.04e-05 | 1.44e-04 | 8.76e-05 | 38 |
hsa006207 | Colorectum | FAP | Pyruvate metabolism | 17/1404 | 47/8465 | 9.18e-04 | 5.20e-03 | 3.16e-03 | 17 |
hsa012008 | Colorectum | CRC | Carbon metabolism | 28/1091 | 115/8465 | 5.43e-04 | 5.48e-03 | 3.72e-03 | 28 |
hsa012009 | Colorectum | CRC | Carbon metabolism | 28/1091 | 115/8465 | 5.43e-04 | 5.48e-03 | 3.72e-03 | 28 |
hsa0120023 | Esophagus | ESCC | Carbon metabolism | 79/4205 | 115/8465 | 2.50e-05 | 1.21e-04 | 6.22e-05 | 79 |
hsa0062023 | Esophagus | ESCC | Pyruvate metabolism | 32/4205 | 47/8465 | 8.11e-03 | 1.94e-02 | 9.94e-03 | 32 |
hsa0120033 | Esophagus | ESCC | Carbon metabolism | 79/4205 | 115/8465 | 2.50e-05 | 1.21e-04 | 6.22e-05 | 79 |
hsa0062033 | Esophagus | ESCC | Pyruvate metabolism | 32/4205 | 47/8465 | 8.11e-03 | 1.94e-02 | 9.94e-03 | 32 |
hsa0120041 | Liver | HCC | Carbon metabolism | 89/4020 | 115/8465 | 3.92e-11 | 6.56e-10 | 3.65e-10 | 89 |
hsa0062021 | Liver | HCC | Pyruvate metabolism | 37/4020 | 47/8465 | 1.10e-05 | 8.03e-05 | 4.46e-05 | 37 |
hsa0120051 | Liver | HCC | Carbon metabolism | 89/4020 | 115/8465 | 3.92e-11 | 6.56e-10 | 3.65e-10 | 89 |
hsa0062031 | Liver | HCC | Pyruvate metabolism | 37/4020 | 47/8465 | 1.10e-05 | 8.03e-05 | 4.46e-05 | 37 |
hsa0120014 | Oral cavity | OSCC | Carbon metabolism | 74/3704 | 115/8465 | 6.10e-06 | 3.05e-05 | 1.55e-05 | 74 |
hsa006209 | Oral cavity | OSCC | Pyruvate metabolism | 31/3704 | 47/8465 | 1.74e-03 | 4.73e-03 | 2.41e-03 | 31 |
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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 |
ME2 | SNV | Missense_Mutation | c.985G>C | p.Glu329Gln | p.E329Q | P23368 | protein_coding | tolerated(0.24) | benign(0.045) | TCGA-AR-A0TT-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicin | SD | |
ME2 | SNV | Missense_Mutation | c.1312G>C | p.Glu438Gln | p.E438Q | P23368 | protein_coding | tolerated(0.34) | benign(0.009) | TCGA-BH-A18P-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
ME2 | SNV | Missense_Mutation | c.1722A>T | p.Glu574Asp | p.E574D | P23368 | protein_coding | tolerated(0.15) | benign(0.006) | TCGA-D8-A1J8-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | nolvadex | SD | |
ME2 | SNV | Missense_Mutation | rs777347174 | c.437N>C | p.Ile146Thr | p.I146T | P23368 | protein_coding | deleterious(0) | probably_damaging(0.969) | TCGA-DG-A2KL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD |
ME2 | SNV | Missense_Mutation | c.1099C>T | p.His367Tyr | p.H367Y | P23368 | protein_coding | deleterious(0.04) | probably_damaging(0.987) | TCGA-EK-A2PL-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD | |
ME2 | SNV | Missense_Mutation | rs766432811 | c.763G>A | p.Glu255Lys | p.E255K | P23368 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
ME2 | SNV | Missense_Mutation | c.1222N>A | p.Ala408Thr | p.A408T | P23368 | protein_coding | deleterious(0.05) | possibly_damaging(0.555) | TCGA-A6-3809-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
ME2 | SNV | Missense_Mutation | c.79N>T | p.Pro27Ser | p.P27S | P23368 | protein_coding | tolerated(0.56) | benign(0.003) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
ME2 | SNV | Missense_Mutation | novel | c.733N>G | p.Arg245Gly | p.R245G | P23368 | protein_coding | deleterious(0.01) | probably_damaging(0.963) | TCGA-AA-3950-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
ME2 | SNV | Missense_Mutation | c.1014N>C | p.Gln338His | p.Q338H | P23368 | protein_coding | tolerated(0.49) | benign(0) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
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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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