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Gene: NEO1 |
Gene summary for NEO1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | NEO1 | Gene ID | 4756 |
Gene name | neogenin 1 | |
Gene Alias | IGDCC2 | |
Cytomap | 15q24.1 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | Q59FP8 |
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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 |
4756 | NEO1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 5.52e-60 | -9.82e-01 | 0.0155 |
4756 | NEO1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.04e-13 | -6.72e-01 | -0.1808 |
4756 | NEO1 | HTA11_2951_2000001011 | Human | Colorectum | AD | 2.51e-16 | -1.04e+00 | 0.0216 |
4756 | NEO1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.05e-31 | -1.32e+00 | -0.0811 |
4756 | NEO1 | HTA11_347_2000001011 | Human | Colorectum | AD | 2.95e-08 | 5.47e-01 | -0.1954 |
4756 | NEO1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 4.22e-19 | -7.83e-01 | -0.1207 |
4756 | NEO1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 2.33e-48 | -1.09e+00 | -0.059 |
4756 | NEO1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 4.28e-03 | -3.52e-01 | -0.2061 |
4756 | NEO1 | HTA11_5216_2000001011 | Human | Colorectum | SER | 1.38e-07 | -6.85e-01 | -0.1462 |
4756 | NEO1 | HTA11_9341_2000001011 | Human | Colorectum | SER | 2.18e-02 | -6.49e-01 | -0.00410000000000005 |
4756 | NEO1 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.41e-13 | -6.17e-01 | 0.096 |
4756 | NEO1 | HTA11_4255_2000001011 | Human | Colorectum | SER | 2.83e-05 | -5.44e-01 | 0.0446 |
4756 | NEO1 | HTA11_9408_2000001011 | Human | Colorectum | AD | 1.37e-10 | -1.08e+00 | 0.0451 |
4756 | NEO1 | HTA11_8622_2000001021 | Human | Colorectum | SER | 2.24e-06 | -6.92e-01 | 0.0528 |
4756 | NEO1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 6.15e-23 | -9.75e-01 | 0.0338 |
4756 | NEO1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.06e-88 | -1.28e+00 | 0.0674 |
4756 | NEO1 | HTA11_6818_2000001011 | Human | Colorectum | AD | 4.14e-07 | -5.67e-01 | 0.0112 |
4756 | NEO1 | HTA11_11156_2000001011 | Human | Colorectum | AD | 4.72e-03 | -5.78e-01 | 0.0397 |
4756 | NEO1 | HTA11_6818_2000001021 | Human | Colorectum | AD | 3.36e-31 | -1.11e+00 | 0.0588 |
4756 | NEO1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.13e-35 | -7.66e-01 | 0.294 |
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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:0055076 | Colorectum | AD | transition metal ion homeostasis | 53/3918 | 138/18723 | 1.89e-06 | 5.65e-05 | 53 |
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:0055072 | Colorectum | AD | iron ion homeostasis | 32/3918 | 85/18723 | 2.97e-04 | 3.60e-03 | 32 |
GO:0007178 | Colorectum | AD | transmembrane receptor protein serine/threonine kinase signaling pathway | 99/3918 | 355/18723 | 9.92e-04 | 9.28e-03 | 99 |
GO:0007411 | Colorectum | AD | axon guidance | 64/3918 | 227/18723 | 5.41e-03 | 3.55e-02 | 64 |
GO:0097485 | Colorectum | AD | neuron projection guidance | 64/3918 | 228/18723 | 6.02e-03 | 3.78e-02 | 64 |
GO:00550761 | Colorectum | SER | transition metal ion homeostasis | 41/2897 | 138/18723 | 1.66e-05 | 5.05e-04 | 41 |
GO:00550721 | Colorectum | SER | iron ion homeostasis | 24/2897 | 85/18723 | 1.91e-03 | 1.93e-02 | 24 |
GO:00074111 | Colorectum | SER | axon guidance | 51/2897 | 227/18723 | 3.29e-03 | 2.82e-02 | 51 |
GO:00974851 | Colorectum | SER | neuron projection guidance | 51/2897 | 228/18723 | 3.61e-03 | 3.03e-02 | 51 |
GO:00615641 | Colorectum | SER | axon development | 94/2897 | 467/18723 | 3.78e-03 | 3.13e-02 | 94 |
GO:00074091 | Colorectum | SER | axonogenesis | 84/2897 | 418/18723 | 6.20e-03 | 4.49e-02 | 84 |
GO:00550762 | Colorectum | MSS | transition metal ion homeostasis | 45/3467 | 138/18723 | 4.99e-05 | 9.02e-04 | 45 |
GO:00074092 | Colorectum | MSS | axonogenesis | 105/3467 | 418/18723 | 4.32e-04 | 5.23e-03 | 105 |
GO:00550722 | Colorectum | MSS | iron ion homeostasis | 29/3467 | 85/18723 | 4.44e-04 | 5.32e-03 | 29 |
GO:00615642 | Colorectum | MSS | axon development | 115/3467 | 467/18723 | 5.33e-04 | 6.00e-03 | 115 |
GO:00071781 | Colorectum | MSS | transmembrane receptor protein serine/threonine kinase signaling pathway | 86/3467 | 355/18723 | 4.04e-03 | 2.95e-02 | 86 |
GO:00615643 | Colorectum | FAP | axon development | 106/2622 | 467/18723 | 1.98e-07 | 1.21e-05 | 106 |
GO:00074093 | Colorectum | FAP | axonogenesis | 97/2622 | 418/18723 | 2.20e-07 | 1.30e-05 | 97 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04360 | Colorectum | AD | Axon guidance | 61/2092 | 182/8465 | 4.36e-03 | 2.17e-02 | 1.38e-02 | 61 |
hsa043601 | Colorectum | AD | Axon guidance | 61/2092 | 182/8465 | 4.36e-03 | 2.17e-02 | 1.38e-02 | 61 |
hsa04350 | Colorectum | SER | TGF-beta signaling pathway | 31/1580 | 108/8465 | 7.00e-03 | 3.77e-02 | 2.74e-02 | 31 |
hsa043501 | Colorectum | SER | TGF-beta signaling pathway | 31/1580 | 108/8465 | 7.00e-03 | 3.77e-02 | 2.74e-02 | 31 |
hsa043602 | Colorectum | MSS | Axon guidance | 54/1875 | 182/8465 | 1.03e-02 | 3.69e-02 | 2.26e-02 | 54 |
hsa043603 | Colorectum | MSS | Axon guidance | 54/1875 | 182/8465 | 1.03e-02 | 3.69e-02 | 2.26e-02 | 54 |
hsa043604 | Colorectum | FAP | Axon guidance | 47/1404 | 182/8465 | 9.09e-04 | 5.20e-03 | 3.16e-03 | 47 |
hsa043605 | Colorectum | FAP | Axon guidance | 47/1404 | 182/8465 | 9.09e-04 | 5.20e-03 | 3.16e-03 | 47 |
hsa043606 | Colorectum | CRC | Axon guidance | 43/1091 | 182/8465 | 4.38e-05 | 8.70e-04 | 5.90e-04 | 43 |
hsa043607 | Colorectum | CRC | Axon guidance | 43/1091 | 182/8465 | 4.38e-05 | 8.70e-04 | 5.90e-04 | 43 |
hsa043504 | Endometrium | AEH | TGF-beta signaling pathway | 26/1197 | 108/8465 | 3.82e-03 | 2.18e-02 | 1.59e-02 | 26 |
hsa0436010 | Endometrium | AEH | Axon guidance | 39/1197 | 182/8465 | 4.47e-03 | 2.46e-02 | 1.80e-02 | 39 |
hsa0435011 | Endometrium | AEH | TGF-beta signaling pathway | 26/1197 | 108/8465 | 3.82e-03 | 2.18e-02 | 1.59e-02 | 26 |
hsa0436013 | Endometrium | AEH | Axon guidance | 39/1197 | 182/8465 | 4.47e-03 | 2.46e-02 | 1.80e-02 | 39 |
hsa043502 | Endometrium | EEC | TGF-beta signaling pathway | 26/1237 | 108/8465 | 5.95e-03 | 3.12e-02 | 2.33e-02 | 26 |
hsa0436022 | Endometrium | EEC | Axon guidance | 39/1237 | 182/8465 | 7.78e-03 | 3.66e-02 | 2.73e-02 | 39 |
hsa043503 | Endometrium | EEC | TGF-beta signaling pathway | 26/1237 | 108/8465 | 5.95e-03 | 3.12e-02 | 2.33e-02 | 26 |
hsa0436032 | Endometrium | EEC | Axon guidance | 39/1237 | 182/8465 | 7.78e-03 | 3.66e-02 | 2.73e-02 | 39 |
hsa043507 | Esophagus | ESCC | TGF-beta signaling pathway | 69/4205 | 108/8465 | 1.92e-03 | 5.54e-03 | 2.84e-03 | 69 |
hsa0436016 | Esophagus | ESCC | Axon guidance | 108/4205 | 182/8465 | 5.13e-03 | 1.30e-02 | 6.67e-03 | 108 |
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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 |
NEO1 | SNV | Missense_Mutation | c.4202N>T | p.Ser1401Phe | p.S1401F | Q92859 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AX-A2HD-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
NEO1 | SNV | Missense_Mutation | novel | c.1289N>G | p.His430Arg | p.H430R | Q92859 | protein_coding | tolerated(0.55) | benign(0) | TCGA-AX-A2HJ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | novel | c.1512N>A | p.Met504Ile | p.M504I | Q92859 | protein_coding | tolerated(0.23) | benign(0.003) | TCGA-AX-A3G8-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | c.249N>C | p.Lys83Asn | p.K83N | Q92859 | protein_coding | tolerated(0.41) | benign(0.003) | TCGA-B5-A11N-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
NEO1 | SNV | Missense_Mutation | rs779807847 | c.3911N>A | p.Arg1304Gln | p.R1304Q | Q92859 | protein_coding | tolerated(0.16) | benign(0.103) | TCGA-B5-A11N-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | novel | c.3185N>G | p.Asn1062Ser | p.N1062S | Q92859 | protein_coding | tolerated(0.11) | benign(0.299) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | rs374229611 | c.2618N>T | p.Thr873Met | p.T873M | Q92859 | protein_coding | deleterious(0.01) | probably_damaging(0.965) | TCGA-B5-A3FC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | rs374229611 | c.2618C>T | p.Thr873Met | p.T873M | Q92859 | protein_coding | deleterious(0.01) | probably_damaging(0.965) | TCGA-BG-A0MQ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | rs774025786 | c.1327N>T | p.Arg443Trp | p.R443W | Q92859 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-BG-A222-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NEO1 | SNV | Missense_Mutation | novel | c.3107N>G | p.Asn1036Ser | p.N1036S | Q92859 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-BG-A222-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <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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