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Gene: SEC24D |
Gene summary for SEC24D |
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Gene information | Species | Human | Gene symbol | SEC24D | Gene ID | 9871 |
Gene name | SEC24 homolog D, COPII coat complex component | |
Gene Alias | CLCRP2 | |
Cytomap | 4q26 | |
Gene Type | protein-coding | GO ID | GO:0001701 | UniProtAcc | O94855 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
9871 | SEC24D | LZE4T | Human | Esophagus | ESCC | 1.63e-07 | 1.36e-01 | 0.0811 |
9871 | SEC24D | LZE7T | Human | Esophagus | ESCC | 2.44e-07 | 2.65e-01 | 0.0667 |
9871 | SEC24D | LZE21D1 | Human | Esophagus | HGIN | 1.99e-02 | 2.11e-01 | 0.0632 |
9871 | SEC24D | LZE24T | Human | Esophagus | ESCC | 8.58e-07 | 1.26e-01 | 0.0596 |
9871 | SEC24D | P1T-E | Human | Esophagus | ESCC | 2.98e-02 | 5.93e-02 | 0.0875 |
9871 | SEC24D | P2T-E | Human | Esophagus | ESCC | 5.29e-12 | 2.64e-01 | 0.1177 |
9871 | SEC24D | P4T-E | Human | Esophagus | ESCC | 6.74e-16 | 3.57e-01 | 0.1323 |
9871 | SEC24D | P8T-E | Human | Esophagus | ESCC | 1.86e-15 | 2.27e-01 | 0.0889 |
9871 | SEC24D | P9T-E | Human | Esophagus | ESCC | 4.82e-08 | 2.22e-01 | 0.1131 |
9871 | SEC24D | P10T-E | Human | Esophagus | ESCC | 1.28e-06 | 9.62e-02 | 0.116 |
9871 | SEC24D | P11T-E | Human | Esophagus | ESCC | 4.51e-05 | 3.03e-01 | 0.1426 |
9871 | SEC24D | P12T-E | Human | Esophagus | ESCC | 1.06e-17 | 2.75e-01 | 0.1122 |
9871 | SEC24D | P16T-E | Human | Esophagus | ESCC | 2.42e-08 | 1.59e-01 | 0.1153 |
9871 | SEC24D | P17T-E | Human | Esophagus | ESCC | 9.39e-04 | 2.72e-01 | 0.1278 |
9871 | SEC24D | P21T-E | Human | Esophagus | ESCC | 1.47e-10 | 2.06e-01 | 0.1617 |
9871 | SEC24D | P22T-E | Human | Esophagus | ESCC | 7.63e-03 | 1.28e-01 | 0.1236 |
9871 | SEC24D | P23T-E | Human | Esophagus | ESCC | 2.68e-07 | 4.28e-01 | 0.108 |
9871 | SEC24D | P24T-E | Human | Esophagus | ESCC | 7.54e-09 | 2.31e-01 | 0.1287 |
9871 | SEC24D | P26T-E | Human | Esophagus | ESCC | 2.00e-36 | 6.91e-01 | 0.1276 |
9871 | SEC24D | P27T-E | Human | Esophagus | ESCC | 4.59e-16 | 1.95e-01 | 0.1055 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:004819317 | Esophagus | HGIN | Golgi vesicle transport | 83/2587 | 296/18723 | 8.59e-11 | 8.89e-09 | 83 |
GO:00068889 | Esophagus | HGIN | endoplasmic reticulum to Golgi vesicle-mediated transport | 40/2587 | 130/18723 | 4.67e-07 | 2.07e-05 | 40 |
GO:000690020 | Esophagus | HGIN | vesicle budding from membrane | 23/2587 | 61/18723 | 2.85e-06 | 9.93e-05 | 23 |
GO:000170118 | Esophagus | HGIN | in utero embryonic development | 77/2587 | 367/18723 | 9.56e-05 | 2.05e-03 | 77 |
GO:00160509 | Esophagus | HGIN | vesicle organization | 65/2587 | 300/18723 | 1.24e-04 | 2.54e-03 | 65 |
GO:00901146 | Esophagus | HGIN | COPII-coated vesicle budding | 11/2587 | 29/18723 | 1.08e-03 | 1.32e-02 | 11 |
GO:004819318 | Esophagus | ESCC | Golgi vesicle transport | 231/8552 | 296/18723 | 1.82e-30 | 9.63e-28 | 231 |
GO:001605014 | Esophagus | ESCC | vesicle organization | 211/8552 | 300/18723 | 2.85e-18 | 2.87e-16 | 211 |
GO:000170119 | Esophagus | ESCC | in utero embryonic development | 243/8552 | 367/18723 | 1.00e-15 | 6.86e-14 | 243 |
GO:000688815 | Esophagus | ESCC | endoplasmic reticulum to Golgi vesicle-mediated transport | 102/8552 | 130/18723 | 1.73e-14 | 9.22e-13 | 102 |
GO:0006900111 | Esophagus | ESCC | vesicle budding from membrane | 54/8552 | 61/18723 | 2.66e-12 | 1.07e-10 | 54 |
GO:009011414 | Esophagus | ESCC | COPII-coated vesicle budding | 27/8552 | 29/18723 | 8.09e-08 | 1.39e-06 | 27 |
GO:00901104 | Esophagus | ESCC | COPII-coated vesicle cargo loading | 14/8552 | 15/18723 | 1.47e-04 | 9.85e-04 | 14 |
GO:00354595 | Esophagus | ESCC | vesicle cargo loading | 19/8552 | 27/18723 | 8.35e-03 | 2.95e-02 | 19 |
GO:00481936 | Liver | NAFLD | Golgi vesicle transport | 66/1882 | 296/18723 | 3.66e-10 | 9.30e-08 | 66 |
GO:00069007 | Liver | NAFLD | vesicle budding from membrane | 17/1882 | 61/18723 | 7.31e-05 | 1.52e-03 | 17 |
GO:00354593 | Liver | NAFLD | vesicle cargo loading | 10/1882 | 27/18723 | 1.74e-04 | 3.08e-03 | 10 |
GO:00160505 | Liver | NAFLD | vesicle organization | 50/1882 | 300/18723 | 2.42e-04 | 4.06e-03 | 50 |
GO:0090110 | Liver | NAFLD | COPII-coated vesicle cargo loading | 7/1882 | 15/18723 | 3.18e-04 | 4.95e-03 | 7 |
GO:00901143 | Liver | NAFLD | COPII-coated vesicle budding | 10/1882 | 29/18723 | 3.42e-04 | 5.22e-03 | 10 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0414139 | Esophagus | HGIN | Protein processing in endoplasmic reticulum | 67/1383 | 174/8465 | 1.06e-12 | 2.16e-11 | 1.72e-11 | 67 |
hsa0513039 | Esophagus | HGIN | Pathogenic Escherichia coli infection | 54/1383 | 197/8465 | 4.91e-05 | 6.15e-04 | 4.89e-04 | 54 |
hsa04141114 | Esophagus | HGIN | Protein processing in endoplasmic reticulum | 67/1383 | 174/8465 | 1.06e-12 | 2.16e-11 | 1.72e-11 | 67 |
hsa05130115 | Esophagus | HGIN | Pathogenic Escherichia coli infection | 54/1383 | 197/8465 | 4.91e-05 | 6.15e-04 | 4.89e-04 | 54 |
hsa04141211 | Esophagus | ESCC | Protein processing in endoplasmic reticulum | 147/4205 | 174/8465 | 3.29e-22 | 1.10e-19 | 5.64e-20 | 147 |
hsa05130211 | Esophagus | ESCC | Pathogenic Escherichia coli infection | 142/4205 | 197/8465 | 8.21e-11 | 1.06e-09 | 5.42e-10 | 142 |
hsa04141310 | Esophagus | ESCC | Protein processing in endoplasmic reticulum | 147/4205 | 174/8465 | 3.29e-22 | 1.10e-19 | 5.64e-20 | 147 |
hsa05130310 | Esophagus | ESCC | Pathogenic Escherichia coli infection | 142/4205 | 197/8465 | 8.21e-11 | 1.06e-09 | 5.42e-10 | 142 |
hsa0513014 | Liver | NAFLD | Pathogenic Escherichia coli infection | 45/1043 | 197/8465 | 2.31e-05 | 6.88e-04 | 5.54e-04 | 45 |
hsa0513015 | Liver | NAFLD | Pathogenic Escherichia coli infection | 45/1043 | 197/8465 | 2.31e-05 | 6.88e-04 | 5.54e-04 | 45 |
hsa0414122 | Liver | HCC | Protein processing in endoplasmic reticulum | 146/4020 | 174/8465 | 7.34e-24 | 2.46e-21 | 1.37e-21 | 146 |
hsa0513042 | Liver | HCC | Pathogenic Escherichia coli infection | 129/4020 | 197/8465 | 2.02e-07 | 2.50e-06 | 1.39e-06 | 129 |
hsa0414132 | Liver | HCC | Protein processing in endoplasmic reticulum | 146/4020 | 174/8465 | 7.34e-24 | 2.46e-21 | 1.37e-21 | 146 |
hsa0513052 | Liver | HCC | Pathogenic Escherichia coli infection | 129/4020 | 197/8465 | 2.02e-07 | 2.50e-06 | 1.39e-06 | 129 |
hsa0513016 | Lung | IAC | Pathogenic Escherichia coli infection | 45/1053 | 197/8465 | 2.93e-05 | 6.14e-04 | 4.08e-04 | 45 |
hsa0414116 | Lung | IAC | Protein processing in endoplasmic reticulum | 37/1053 | 174/8465 | 6.53e-04 | 5.73e-03 | 3.81e-03 | 37 |
hsa0513017 | Lung | IAC | Pathogenic Escherichia coli infection | 45/1053 | 197/8465 | 2.93e-05 | 6.14e-04 | 4.08e-04 | 45 |
hsa0414117 | Lung | IAC | Protein processing in endoplasmic reticulum | 37/1053 | 174/8465 | 6.53e-04 | 5.73e-03 | 3.81e-03 | 37 |
hsa0513023 | Lung | AIS | Pathogenic Escherichia coli infection | 42/961 | 197/8465 | 3.43e-05 | 5.62e-04 | 3.59e-04 | 42 |
hsa0414123 | Lung | AIS | Protein processing in endoplasmic reticulum | 35/961 | 174/8465 | 4.88e-04 | 4.39e-03 | 2.81e-03 | 35 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
SEC24D | SNV | Missense_Mutation | rs758910502 | c.1193N>G | p.Tyr398Cys | p.Y398C | O94855 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-05-4390-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
SEC24D | SNV | Missense_Mutation | c.794N>G | p.Pro265Arg | p.P265R | O94855 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-05-5420-01 | Lung | lung adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | PD | |
SEC24D | SNV | Missense_Mutation | c.208N>T | p.Gly70Cys | p.G70C | O94855 | protein_coding | deleterious_low_confidence(0.01) | benign(0.436) | TCGA-44-3398-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
SEC24D | SNV | Missense_Mutation | novel | c.1022C>T | p.Ala341Val | p.A341V | O94855 | protein_coding | deleterious(0) | probably_damaging(0.977) | TCGA-55-7914-01 | Lung | lung adenocarcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | PD |
SEC24D | SNV | Missense_Mutation | c.747N>A | p.Met249Ile | p.M249I | O94855 | protein_coding | tolerated(0.36) | benign(0.007) | TCGA-86-A4JF-01 | Lung | lung adenocarcinoma | Male | <65 | I/II | Chemotherapy | unknown | PD | |
SEC24D | SNV | Missense_Mutation | rs764418396 | c.814G>A | p.Glu272Lys | p.E272K | O94855 | protein_coding | deleterious(0.03) | benign(0.039) | TCGA-97-8179-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
SEC24D | SNV | Missense_Mutation | novel | c.1906N>G | p.Leu636Val | p.L636V | O94855 | protein_coding | tolerated(0.09) | probably_damaging(0.998) | TCGA-MP-A4T7-01 | Lung | lung adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
SEC24D | SNV | Missense_Mutation | novel | c.3081C>G | p.Ile1027Met | p.I1027M | O94855 | protein_coding | deleterious(0) | probably_damaging(0.991) | TCGA-MP-A4TI-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
SEC24D | SNV | Missense_Mutation | c.601N>T | p.Pro201Ser | p.P201S | O94855 | protein_coding | tolerated(0.12) | benign(0.351) | TCGA-21-1079-01 | Lung | lung squamous cell carcinoma | Male | >=65 | III/IV | Unknown | Unknown | PD | |
SEC24D | SNV | Missense_Mutation | c.2642N>G | p.Ser881Cys | p.S881C | O94855 | protein_coding | deleterious(0) | probably_damaging(0.995) | TCGA-22-5473-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Chemotherapy | carboplatin | PD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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