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Gene: ZMYND8 |
Gene summary for ZMYND8 |
Gene summary. |
Gene information | Species | Human | Gene symbol | ZMYND8 | Gene ID | 23613 |
Gene name | zinc finger MYND-type containing 8 | |
Gene Alias | PRKCBP1 | |
Cytomap | 20q13.12 | |
Gene Type | protein-coding | GO ID | GO:0001941 | UniProtAcc | Q569J9 |
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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 |
23613 | ZMYND8 | GSM4909286 | Human | Breast | IDC | 3.12e-07 | 1.52e-01 | 0.1081 |
23613 | ZMYND8 | GSM4909292 | Human | Breast | IDC | 7.71e-05 | 7.31e-01 | 0.1236 |
23613 | ZMYND8 | GSM4909293 | Human | Breast | IDC | 4.29e-04 | 1.67e-01 | 0.1581 |
23613 | ZMYND8 | GSM4909298 | Human | Breast | IDC | 3.34e-02 | 1.67e-01 | 0.1551 |
23613 | ZMYND8 | GSM4909301 | Human | Breast | IDC | 1.57e-51 | 9.69e-01 | 0.1577 |
23613 | ZMYND8 | GSM4909304 | Human | Breast | IDC | 3.03e-04 | 3.09e-01 | 0.1636 |
23613 | ZMYND8 | GSM4909311 | Human | Breast | IDC | 8.46e-04 | -5.37e-02 | 0.1534 |
23613 | ZMYND8 | GSM4909319 | Human | Breast | IDC | 2.29e-08 | -1.02e-01 | 0.1563 |
23613 | ZMYND8 | GSM4909321 | Human | Breast | IDC | 2.44e-02 | 3.29e-02 | 0.1559 |
23613 | ZMYND8 | M1 | Human | Breast | IDC | 6.40e-25 | 8.07e-01 | 0.1577 |
23613 | ZMYND8 | NCCBC5 | Human | Breast | DCIS | 8.01e-04 | 5.37e-02 | 0.2046 |
23613 | ZMYND8 | P1 | Human | Breast | IDC | 4.41e-12 | 3.36e-01 | 0.1527 |
23613 | ZMYND8 | DCIS2 | Human | Breast | DCIS | 1.42e-28 | 1.15e-01 | 0.0085 |
23613 | ZMYND8 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.01e-03 | 5.14e-01 | -0.1808 |
23613 | ZMYND8 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.61e-10 | 8.12e-01 | -0.0811 |
23613 | ZMYND8 | HTA11_78_2000001011 | Human | Colorectum | AD | 4.91e-02 | 4.94e-01 | -0.1088 |
23613 | ZMYND8 | HTA11_347_2000001011 | Human | Colorectum | AD | 8.03e-16 | 7.16e-01 | -0.1954 |
23613 | ZMYND8 | HTA11_411_2000001011 | Human | Colorectum | SER | 9.88e-08 | 1.12e+00 | -0.2602 |
23613 | ZMYND8 | HTA11_2112_2000001011 | Human | Colorectum | SER | 2.00e-02 | 6.93e-01 | -0.2196 |
23613 | ZMYND8 | HTA11_696_2000001011 | Human | Colorectum | AD | 8.02e-10 | 6.82e-01 | -0.1464 |
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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:190547513 | Breast | IDC | regulation of protein localization to membrane | 28/1434 | 175/18723 | 1.56e-04 | 2.71e-03 | 28 |
GO:00512712 | Breast | IDC | negative regulation of cellular component movement | 48/1434 | 367/18723 | 1.88e-04 | 3.12e-03 | 48 |
GO:20001462 | Breast | IDC | negative regulation of cell motility | 46/1434 | 359/18723 | 4.01e-04 | 5.60e-03 | 46 |
GO:00303362 | Breast | IDC | negative regulation of cell migration | 43/1434 | 344/18723 | 1.01e-03 | 1.13e-02 | 43 |
GO:00400132 | Breast | IDC | negative regulation of locomotion | 47/1434 | 391/18723 | 1.39e-03 | 1.43e-02 | 47 |
GO:00423912 | Breast | IDC | regulation of membrane potential | 49/1434 | 434/18723 | 4.04e-03 | 3.25e-02 | 49 |
GO:005127111 | Breast | DCIS | negative regulation of cellular component movement | 48/1390 | 367/18723 | 8.97e-05 | 1.69e-03 | 48 |
GO:200014611 | Breast | DCIS | negative regulation of cell motility | 46/1390 | 359/18723 | 2.01e-04 | 3.23e-03 | 46 |
GO:190547522 | Breast | DCIS | regulation of protein localization to membrane | 26/1390 | 175/18723 | 5.31e-04 | 6.88e-03 | 26 |
GO:003033611 | Breast | DCIS | negative regulation of cell migration | 43/1390 | 344/18723 | 5.41e-04 | 6.96e-03 | 43 |
GO:004001311 | Breast | DCIS | negative regulation of locomotion | 47/1390 | 391/18723 | 7.30e-04 | 8.69e-03 | 47 |
GO:00423911 | Breast | DCIS | regulation of membrane potential | 47/1390 | 434/18723 | 5.87e-03 | 4.20e-02 | 47 |
GO:1905475 | Colorectum | AD | regulation of protein localization to membrane | 73/3918 | 175/18723 | 3.37e-10 | 2.93e-08 | 73 |
GO:0106027 | Colorectum | AD | neuron projection organization | 36/3918 | 93/18723 | 6.58e-05 | 1.07e-03 | 36 |
GO:0031346 | Colorectum | AD | positive regulation of cell projection organization | 104/3918 | 353/18723 | 8.26e-05 | 1.30e-03 | 104 |
GO:0043954 | Colorectum | AD | cellular component maintenance | 26/3918 | 61/18723 | 1.04e-04 | 1.56e-03 | 26 |
GO:0097061 | Colorectum | AD | dendritic spine organization | 31/3918 | 84/18723 | 5.48e-04 | 5.83e-03 | 31 |
GO:0099173 | Colorectum | AD | postsynapse organization | 51/3918 | 168/18723 | 2.47e-03 | 1.90e-02 | 51 |
GO:0016358 | Colorectum | AD | dendrite development | 69/3918 | 243/18723 | 3.32e-03 | 2.42e-02 | 69 |
GO:0050808 | Colorectum | AD | synapse organization | 112/3918 | 426/18723 | 4.25e-03 | 2.92e-02 | 112 |
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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 |
ZMYND8 | deletion | Frame_Shift_Del | c.1964delN | p.Lys655SerfsTer14 | p.K655Sfs*14 | Q9ULU4 | protein_coding | TCGA-BR-6452-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
ZMYND8 | deletion | Frame_Shift_Del | c.1964delN | p.Lys655SerfsTer14 | p.K655Sfs*14 | Q9ULU4 | protein_coding | TCGA-BR-8361-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |||
ZMYND8 | insertion | Frame_Shift_Ins | rs776813452 | c.1964dupA | p.Pro656AlafsTer10 | p.P656Afs*10 | Q9ULU4 | protein_coding | TCGA-BR-8487-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
ZMYND8 | deletion | Frame_Shift_Del | c.1964delN | p.Lys655SerfsTer14 | p.K655Sfs*14 | Q9ULU4 | protein_coding | TCGA-CG-5721-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Unknown | Unknown | SD | |||
ZMYND8 | deletion | Frame_Shift_Del | c.1964delN | p.Lys655SerfsTer14 | p.K655Sfs*14 | Q9ULU4 | protein_coding | TCGA-HU-A4GQ-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |||
ZMYND8 | deletion | Frame_Shift_Del | c.1964delA | p.Lys655SerfsTer14 | p.K655Sfs*14 | Q9ULU4 | protein_coding | TCGA-VQ-A8PP-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | fluorouracil | PD | |||
ZMYND8 | deletion | Frame_Shift_Del | c.1964delN | p.Lys655SerfsTer14 | p.K655Sfs*14 | Q9ULU4 | protein_coding | TCGA-VQ-A91D-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | fluorouracil | PD | |||
ZMYND8 | insertion | In_Frame_Ins | novel | c.1071_1072insTCCTGCTTGTCT | p.Ser357_Ile358insSerCysLeuSer | p.S357_I358insSCLS | Q9ULU4 | protein_coding | TCGA-FY-A4B0-01 | Thyroid | thyroid carcinoma | Male | >=65 | I/II | Hormone Therapy | synthroid | 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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