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Gene: MBD5 |
Gene summary for MBD5 |
Gene summary. |
Gene information | Species | Human | Gene symbol | MBD5 | Gene ID | 55777 |
Gene name | methyl-CpG binding domain protein 5 | |
Gene Alias | MRD1 | |
Cytomap | 2q23.1 | |
Gene Type | protein-coding | GO ID | GO:0007154 | UniProtAcc | Q9P267 |
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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 |
55777 | MBD5 | CCI_1 | Human | Cervix | CC | 7.01e-08 | 1.05e+00 | 0.528 |
55777 | MBD5 | CCI_2 | Human | Cervix | CC | 1.24e-14 | 1.31e+00 | 0.5249 |
55777 | MBD5 | CCI_3 | Human | Cervix | CC | 2.94e-32 | 1.40e+00 | 0.516 |
55777 | MBD5 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.41e-16 | -5.85e-01 | 0.0155 |
55777 | MBD5 | HTA11_2487_2000001011 | Human | Colorectum | SER | 4.56e-04 | -4.71e-01 | -0.1808 |
55777 | MBD5 | HTA11_3361_2000001011 | Human | Colorectum | AD | 2.78e-09 | -6.86e-01 | -0.1207 |
55777 | MBD5 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.17e-02 | -3.22e-01 | -0.1001 |
55777 | MBD5 | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.66e-09 | -9.08e-01 | -0.2061 |
55777 | MBD5 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.30e-12 | -6.03e-01 | 0.096 |
55777 | MBD5 | HTA11_4255_2000001011 | Human | Colorectum | SER | 6.06e-03 | -6.03e-01 | 0.0446 |
55777 | MBD5 | HTA11_8622_2000001021 | Human | Colorectum | SER | 1.48e-04 | -5.79e-01 | 0.0528 |
55777 | MBD5 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.30e-04 | -4.49e-01 | 0.0338 |
55777 | MBD5 | HTA11_7696_3000711011 | Human | Colorectum | AD | 6.57e-14 | -5.57e-01 | 0.0674 |
55777 | MBD5 | HTA11_7469_2000001011 | Human | Colorectum | AD | 5.85e-04 | -1.04e+00 | -0.0124 |
55777 | MBD5 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 9.75e-09 | -4.54e-01 | 0.294 |
55777 | MBD5 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 6.55e-05 | -6.59e-01 | 0.2585 |
55777 | MBD5 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.30e-13 | -5.01e-01 | 0.3005 |
55777 | MBD5 | A015-C-203 | Human | Colorectum | FAP | 4.79e-25 | -3.56e-01 | -0.1294 |
55777 | MBD5 | A015-C-204 | Human | Colorectum | FAP | 5.21e-08 | -3.45e-01 | -0.0228 |
55777 | MBD5 | A014-C-040 | Human | Colorectum | FAP | 2.41e-05 | -1.24e-01 | -0.1184 |
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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:19016538 | Cervix | CC | cellular response to peptide | 72/2311 | 359/18723 | 1.89e-05 | 3.48e-04 | 72 |
GO:00434349 | Cervix | CC | response to peptide hormone | 77/2311 | 414/18723 | 1.40e-04 | 1.70e-03 | 77 |
GO:00713757 | Cervix | CC | cellular response to peptide hormone stimulus | 57/2311 | 290/18723 | 2.32e-04 | 2.59e-03 | 57 |
GO:00425939 | Cervix | CC | glucose homeostasis | 50/2311 | 258/18723 | 7.57e-04 | 6.76e-03 | 50 |
GO:00486386 | Cervix | CC | regulation of developmental growth | 61/2311 | 330/18723 | 7.69e-04 | 6.85e-03 | 61 |
GO:00335009 | Cervix | CC | carbohydrate homeostasis | 50/2311 | 259/18723 | 8.28e-04 | 7.22e-03 | 50 |
GO:1901653 | Colorectum | AD | cellular response to peptide | 114/3918 | 359/18723 | 8.32e-07 | 2.88e-05 | 114 |
GO:0071375 | Colorectum | AD | cellular response to peptide hormone stimulus | 95/3918 | 290/18723 | 1.50e-06 | 4.66e-05 | 95 |
GO:0043434 | Colorectum | AD | response to peptide hormone | 126/3918 | 414/18723 | 2.70e-06 | 7.86e-05 | 126 |
GO:0033500 | Colorectum | AD | carbohydrate homeostasis | 84/3918 | 259/18723 | 9.10e-06 | 2.15e-04 | 84 |
GO:0042593 | Colorectum | AD | glucose homeostasis | 83/3918 | 258/18723 | 1.44e-05 | 3.11e-04 | 83 |
GO:0048638 | Colorectum | AD | regulation of developmental growth | 92/3918 | 330/18723 | 1.48e-03 | 1.25e-02 | 92 |
GO:19016531 | Colorectum | SER | cellular response to peptide | 83/2897 | 359/18723 | 8.03e-05 | 1.77e-03 | 83 |
GO:00434341 | Colorectum | SER | response to peptide hormone | 93/2897 | 414/18723 | 9.61e-05 | 2.04e-03 | 93 |
GO:00713751 | Colorectum | SER | cellular response to peptide hormone stimulus | 68/2897 | 290/18723 | 2.20e-04 | 3.89e-03 | 68 |
GO:00425931 | Colorectum | SER | glucose homeostasis | 57/2897 | 258/18723 | 2.92e-03 | 2.59e-02 | 57 |
GO:00335001 | Colorectum | SER | carbohydrate homeostasis | 57/2897 | 259/18723 | 3.20e-03 | 2.76e-02 | 57 |
GO:0060396 | Colorectum | SER | growth hormone receptor signaling pathway | 9/2897 | 23/18723 | 5.20e-03 | 3.95e-02 | 9 |
GO:0071378 | Colorectum | SER | cellular response to growth hormone stimulus | 9/2897 | 24/18723 | 7.19e-03 | 4.99e-02 | 9 |
GO:00335002 | Colorectum | MSS | carbohydrate homeostasis | 76/3467 | 259/18723 | 1.37e-05 | 3.14e-04 | 76 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
MBD5 | SNV | Missense_Mutation | c.1415N>C | p.Phe472Ser | p.F472S | Q9P267 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-G4-6628-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
MBD5 | SNV | Missense_Mutation | c.2623N>T | p.Ala875Ser | p.A875S | Q9P267 | protein_coding | tolerated(0.17) | benign(0.005) | TCGA-NH-A5IV-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
MBD5 | SNV | Missense_Mutation | c.3755N>T | p.Arg1252Ile | p.R1252I | Q9P267 | protein_coding | deleterious_low_confidence(0.01) | possibly_damaging(0.693) | TCGA-AG-3890-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
MBD5 | SNV | Missense_Mutation | rs558876535 | c.3493N>T | p.Arg1165Trp | p.R1165W | Q9P267 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.999) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
MBD5 | SNV | Missense_Mutation | c.1621T>A | p.Phe541Ile | p.F541I | Q9P267 | protein_coding | tolerated(0.09) | benign(0.005) | TCGA-AG-A036-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | 5-fluorouracil | CR | |
MBD5 | SNV | Missense_Mutation | novel | c.1250N>G | p.Met417Arg | p.M417R | Q9P267 | protein_coding | deleterious(0) | benign(0.044) | TCGA-EF-5831-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
MBD5 | SNV | Missense_Mutation | c.2762N>A | p.Ser921Tyr | p.S921Y | Q9P267 | protein_coding | deleterious(0) | possibly_damaging(0.827) | TCGA-EI-6512-01 | Colorectum | rectum adenocarcinoma | Female | <65 | III/IV | Chemotherapy | folfox | SD | |
MBD5 | deletion | Frame_Shift_Del | c.594delN | p.Arg200AspfsTer69 | p.R200Dfs*69 | Q9P267 | protein_coding | TCGA-AA-3715-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |||
MBD5 | insertion | Frame_Shift_Ins | novel | c.936dupA | p.Pro313ThrfsTer4 | p.P313Tfs*4 | Q9P267 | protein_coding | TCGA-AZ-6600-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | cpt-11 | PD | ||
MBD5 | insertion | Frame_Shift_Ins | novel | c.3579_3580insA | p.Gln1196ThrfsTer30 | p.Q1196Tfs*30 | Q9P267 | protein_coding | TCGA-CM-4746-01 | 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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