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Gene: MYO1D |
Gene summary for MYO1D |
Gene summary. |
Gene information | Species | Human | Gene symbol | MYO1D | Gene ID | 4642 |
Gene name | myosin ID | |
Gene Alias | PPP1R108 | |
Cytomap | 17q11.2 | |
Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | J3QRN6 |
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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 |
4642 | MYO1D | CA_HPV_1 | Human | Cervix | CC | 8.51e-03 | -1.38e-01 | 0.0264 |
4642 | MYO1D | CCI_1 | Human | Cervix | CC | 1.36e-09 | 1.22e+00 | 0.528 |
4642 | MYO1D | CCI_2 | Human | Cervix | CC | 9.63e-06 | 6.34e-01 | 0.5249 |
4642 | MYO1D | CCI_3 | Human | Cervix | CC | 6.12e-20 | 1.29e+00 | 0.516 |
4642 | MYO1D | HTA11_3410_2000001011 | Human | Colorectum | AD | 4.95e-05 | -3.46e-01 | 0.0155 |
4642 | MYO1D | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.99e-16 | 7.49e-01 | -0.1808 |
4642 | MYO1D | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.83e-31 | 9.75e-01 | -0.0811 |
4642 | MYO1D | HTA11_78_2000001011 | Human | Colorectum | AD | 4.24e-14 | 8.98e-01 | -0.1088 |
4642 | MYO1D | HTA11_347_2000001011 | Human | Colorectum | AD | 6.23e-62 | 1.67e+00 | -0.1954 |
4642 | MYO1D | HTA11_411_2000001011 | Human | Colorectum | SER | 7.84e-26 | 1.54e+00 | -0.2602 |
4642 | MYO1D | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.40e-23 | 1.19e+00 | -0.2196 |
4642 | MYO1D | HTA11_3361_2000001011 | Human | Colorectum | AD | 6.03e-08 | 5.06e-01 | -0.1207 |
4642 | MYO1D | HTA11_83_2000001011 | Human | Colorectum | SER | 6.48e-33 | 1.02e+00 | -0.1526 |
4642 | MYO1D | HTA11_696_2000001011 | Human | Colorectum | AD | 4.53e-21 | 8.93e-01 | -0.1464 |
4642 | MYO1D | HTA11_866_2000001011 | Human | Colorectum | AD | 8.57e-26 | 8.99e-01 | -0.1001 |
4642 | MYO1D | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.44e-10 | 7.46e-01 | -0.059 |
4642 | MYO1D | HTA11_2992_2000001011 | Human | Colorectum | SER | 7.82e-13 | 8.38e-01 | -0.1706 |
4642 | MYO1D | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.50e-07 | 5.60e-01 | -0.2061 |
4642 | MYO1D | HTA11_546_2000001011 | Human | Colorectum | AD | 4.08e-14 | 8.14e-01 | -0.0842 |
4642 | MYO1D | HTA11_7663_2000001011 | Human | Colorectum | SER | 3.31e-11 | 6.74e-01 | 0.0131 |
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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:00989278 | Esophagus | ESCC | vesicle-mediated transport between endosomal compartments | 36/8552 | 43/18723 | 2.90e-07 | 4.20e-06 | 36 |
GO:00995185 | Esophagus | ESCC | vesicle cytoskeletal trafficking | 50/8552 | 73/18723 | 6.75e-05 | 5.12e-04 | 50 |
GO:000701512 | Liver | Cirrhotic | actin filament organization | 171/4634 | 442/18723 | 3.93e-11 | 2.30e-09 | 171 |
GO:001648211 | Liver | Cirrhotic | cytosolic transport | 74/4634 | 168/18723 | 3.34e-08 | 1.12e-06 | 74 |
GO:00989274 | Liver | Cirrhotic | vesicle-mediated transport between endosomal compartments | 23/4634 | 43/18723 | 4.90e-05 | 5.65e-04 | 23 |
GO:005165611 | Liver | Cirrhotic | establishment of organelle localization | 128/4634 | 390/18723 | 1.78e-04 | 1.67e-03 | 128 |
GO:005165011 | Liver | Cirrhotic | establishment of vesicle localization | 58/4634 | 161/18723 | 8.98e-04 | 6.44e-03 | 58 |
GO:003070511 | Liver | Cirrhotic | cytoskeleton-dependent intracellular transport | 68/4634 | 195/18723 | 9.54e-04 | 6.77e-03 | 68 |
GO:005164811 | Liver | Cirrhotic | vesicle localization | 62/4634 | 177/18723 | 1.37e-03 | 9.18e-03 | 62 |
GO:001648221 | Liver | HCC | cytosolic transport | 117/7958 | 168/18723 | 8.83e-13 | 4.48e-11 | 117 |
GO:000701522 | Liver | HCC | actin filament organization | 252/7958 | 442/18723 | 3.83e-10 | 1.25e-08 | 252 |
GO:005165621 | Liver | HCC | establishment of organelle localization | 226/7958 | 390/18723 | 4.15e-10 | 1.34e-08 | 226 |
GO:005165021 | Liver | HCC | establishment of vesicle localization | 103/7958 | 161/18723 | 2.94e-08 | 6.69e-07 | 103 |
GO:005164821 | Liver | HCC | vesicle localization | 107/7958 | 177/18723 | 1.05e-06 | 1.57e-05 | 107 |
GO:009892711 | Liver | HCC | vesicle-mediated transport between endosomal compartments | 32/7958 | 43/18723 | 2.16e-05 | 2.30e-04 | 32 |
GO:003070521 | Liver | HCC | cytoskeleton-dependent intracellular transport | 111/7958 | 195/18723 | 3.25e-05 | 3.28e-04 | 111 |
GO:00995182 | Liver | HCC | vesicle cytoskeletal trafficking | 46/7958 | 73/18723 | 3.23e-04 | 2.28e-03 | 46 |
GO:00070158 | Lung | IAC | actin filament organization | 92/2061 | 442/18723 | 1.01e-09 | 1.93e-07 | 92 |
GO:00164826 | Lung | IAC | cytosolic transport | 37/2061 | 168/18723 | 2.74e-05 | 7.26e-04 | 37 |
GO:00307056 | Lung | IAC | cytoskeleton-dependent intracellular transport | 40/2061 | 195/18723 | 7.30e-05 | 1.54e-03 | 40 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0513020 | Cervix | CC | Pathogenic Escherichia coli infection | 63/1267 | 197/8465 | 9.28e-10 | 2.00e-08 | 1.19e-08 | 63 |
hsa05130110 | Cervix | CC | Pathogenic Escherichia coli infection | 63/1267 | 197/8465 | 9.28e-10 | 2.00e-08 | 1.19e-08 | 63 |
hsa05130 | Colorectum | AD | Pathogenic Escherichia coli infection | 79/2092 | 197/8465 | 1.05e-06 | 1.36e-05 | 8.65e-06 | 79 |
hsa051301 | Colorectum | AD | Pathogenic Escherichia coli infection | 79/2092 | 197/8465 | 1.05e-06 | 1.36e-05 | 8.65e-06 | 79 |
hsa051302 | Colorectum | SER | Pathogenic Escherichia coli infection | 60/1580 | 197/8465 | 3.63e-05 | 4.31e-04 | 3.13e-04 | 60 |
hsa051303 | Colorectum | SER | Pathogenic Escherichia coli infection | 60/1580 | 197/8465 | 3.63e-05 | 4.31e-04 | 3.13e-04 | 60 |
hsa051304 | Colorectum | MSS | Pathogenic Escherichia coli infection | 73/1875 | 197/8465 | 1.10e-06 | 1.48e-05 | 9.06e-06 | 73 |
hsa051305 | Colorectum | MSS | Pathogenic Escherichia coli infection | 73/1875 | 197/8465 | 1.10e-06 | 1.48e-05 | 9.06e-06 | 73 |
hsa051308 | Colorectum | FAP | Pathogenic Escherichia coli infection | 62/1404 | 197/8465 | 1.37e-07 | 3.08e-06 | 1.87e-06 | 62 |
hsa051309 | Colorectum | FAP | Pathogenic Escherichia coli infection | 62/1404 | 197/8465 | 1.37e-07 | 3.08e-06 | 1.87e-06 | 62 |
hsa0513010 | Colorectum | CRC | Pathogenic Escherichia coli infection | 47/1091 | 197/8465 | 1.49e-05 | 3.84e-04 | 2.60e-04 | 47 |
hsa0513011 | Colorectum | CRC | Pathogenic Escherichia coli infection | 47/1091 | 197/8465 | 1.49e-05 | 3.84e-04 | 2.60e-04 | 47 |
hsa0513026 | Endometrium | AEH | Pathogenic Escherichia coli infection | 50/1197 | 197/8465 | 1.72e-05 | 1.86e-04 | 1.36e-04 | 50 |
hsa048144 | Endometrium | AEH | Motor proteins | 42/1197 | 193/8465 | 2.41e-03 | 1.42e-02 | 1.04e-02 | 42 |
hsa05130112 | Endometrium | AEH | Pathogenic Escherichia coli infection | 50/1197 | 197/8465 | 1.72e-05 | 1.86e-04 | 1.36e-04 | 50 |
hsa0481411 | Endometrium | AEH | Motor proteins | 42/1197 | 193/8465 | 2.41e-03 | 1.42e-02 | 1.04e-02 | 42 |
hsa0513027 | Endometrium | EEC | Pathogenic Escherichia coli infection | 51/1237 | 197/8465 | 1.98e-05 | 2.28e-04 | 1.70e-04 | 51 |
hsa048142 | Endometrium | EEC | Motor proteins | 42/1237 | 193/8465 | 4.43e-03 | 2.39e-02 | 1.78e-02 | 42 |
hsa0513036 | Endometrium | EEC | Pathogenic Escherichia coli infection | 51/1237 | 197/8465 | 1.98e-05 | 2.28e-04 | 1.70e-04 | 51 |
hsa048143 | Endometrium | EEC | Motor proteins | 42/1237 | 193/8465 | 4.43e-03 | 2.39e-02 | 1.78e-02 | 42 |
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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 |
MYO1D | SNV | Missense_Mutation | c.1199N>A | p.Ile400Asn | p.I400N | O94832 | protein_coding | deleterious(0) | probably_damaging(0.954) | TCGA-A2-A0CW-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | anastrozole | SD | |
MYO1D | SNV | Missense_Mutation | rs757720988 | c.2951G>A | p.Arg984Gln | p.R984Q | O94832 | protein_coding | tolerated(0.4) | benign(0.013) | TCGA-A8-A0AB-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | CR |
MYO1D | SNV | Missense_Mutation | c.1864N>T | p.Arg622Cys | p.R622C | O94832 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
MYO1D | insertion | Nonsense_Mutation | novel | c.1103_1104insAAATAAAATT | p.Tyr368Ter | p.Y368* | O94832 | protein_coding | TCGA-AR-A0TU-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Doxorubicin | SD | ||
MYO1D | SNV | Missense_Mutation | c.1864N>T | p.Arg622Cys | p.R622C | O94832 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-EA-A3HU-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
MYO1D | SNV | Missense_Mutation | rs773457917 | c.650N>A | p.Arg217His | p.R217H | O94832 | protein_coding | tolerated(0.23) | benign(0.039) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
MYO1D | SNV | Missense_Mutation | rs773457917 | c.650N>A | p.Arg217His | p.R217H | O94832 | protein_coding | tolerated(0.23) | benign(0.039) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
MYO1D | SNV | Missense_Mutation | c.1864N>T | p.Arg622Cys | p.R622C | O94832 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
MYO1D | SNV | Missense_Mutation | rs375202047 | c.1813N>T | p.Arg605Cys | p.R605C | O94832 | protein_coding | deleterious(0) | probably_damaging(0.993) | TCGA-AD-6889-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | xeloda | PD |
MYO1D | SNV | Missense_Mutation | rs140286436 | c.1511N>A | p.Arg504Gln | p.R504Q | O94832 | protein_coding | tolerated(0.05) | possibly_damaging(0.462) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | 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 |
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