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Gene: LYST |
Gene summary for LYST |
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Gene information | Species | Human | Gene symbol | LYST | Gene ID | 1130 |
Gene name | lysosomal trafficking regulator | |
Gene Alias | CHS | |
Cytomap | 1q42.3 | |
Gene Type | protein-coding | GO ID | GO:0001562 | UniProtAcc | Q99698 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
1130 | LYST | LZE4T | Human | Esophagus | ESCC | 2.88e-12 | 4.21e-01 | 0.0811 |
1130 | LYST | LZE7T | Human | Esophagus | ESCC | 1.54e-02 | 1.52e-01 | 0.0667 |
1130 | LYST | LZE8T | Human | Esophagus | ESCC | 3.54e-04 | 1.39e-01 | 0.067 |
1130 | LYST | LZE20T | Human | Esophagus | ESCC | 1.94e-03 | 1.03e-01 | 0.0662 |
1130 | LYST | LZE24T | Human | Esophagus | ESCC | 4.74e-08 | 1.78e-01 | 0.0596 |
1130 | LYST | LZE21T | Human | Esophagus | ESCC | 2.09e-02 | 1.92e-01 | 0.0655 |
1130 | LYST | LZE6T | Human | Esophagus | ESCC | 1.10e-04 | 1.74e-01 | 0.0845 |
1130 | LYST | P1T-E | Human | Esophagus | ESCC | 4.77e-03 | 8.41e-02 | 0.0875 |
1130 | LYST | P2T-E | Human | Esophagus | ESCC | 1.57e-37 | 7.56e-01 | 0.1177 |
1130 | LYST | P4T-E | Human | Esophagus | ESCC | 4.33e-03 | 1.42e-01 | 0.1323 |
1130 | LYST | P5T-E | Human | Esophagus | ESCC | 5.50e-18 | 5.48e-01 | 0.1327 |
1130 | LYST | P8T-E | Human | Esophagus | ESCC | 3.98e-04 | 1.31e-01 | 0.0889 |
1130 | LYST | P9T-E | Human | Esophagus | ESCC | 1.40e-17 | 2.83e-01 | 0.1131 |
1130 | LYST | P10T-E | Human | Esophagus | ESCC | 1.15e-19 | 2.68e-01 | 0.116 |
1130 | LYST | P11T-E | Human | Esophagus | ESCC | 4.95e-14 | 6.02e-01 | 0.1426 |
1130 | LYST | P12T-E | Human | Esophagus | ESCC | 2.10e-03 | 1.68e-01 | 0.1122 |
1130 | LYST | P15T-E | Human | Esophagus | ESCC | 3.67e-08 | 2.18e-01 | 0.1149 |
1130 | LYST | P16T-E | Human | Esophagus | ESCC | 2.40e-63 | 1.35e+00 | 0.1153 |
1130 | LYST | P19T-E | Human | Esophagus | ESCC | 3.09e-03 | 1.56e-01 | 0.1662 |
1130 | LYST | P20T-E | Human | Esophagus | ESCC | 1.79e-10 | 1.29e-01 | 0.1124 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:001605014 | Esophagus | ESCC | vesicle organization | 211/8552 | 300/18723 | 2.85e-18 | 2.87e-16 | 211 |
GO:001619715 | Esophagus | ESCC | endosomal transport | 168/8552 | 230/18723 | 2.28e-17 | 1.93e-15 | 168 |
GO:000703417 | Esophagus | ESCC | vacuolar transport | 119/8552 | 157/18723 | 1.16e-14 | 6.30e-13 | 119 |
GO:000961518 | Esophagus | ESCC | response to virus | 238/8552 | 367/18723 | 6.65e-14 | 3.32e-12 | 238 |
GO:000703314 | Esophagus | ESCC | vacuole organization | 127/8552 | 180/18723 | 1.04e-11 | 3.85e-10 | 127 |
GO:00516075 | Esophagus | ESCC | defense response to virus | 171/8552 | 265/18723 | 3.91e-10 | 1.05e-08 | 171 |
GO:01405465 | Esophagus | ESCC | defense response to symbiont | 171/8552 | 265/18723 | 3.91e-10 | 1.05e-08 | 171 |
GO:007198514 | Esophagus | ESCC | multivesicular body sorting pathway | 34/8552 | 37/18723 | 3.49e-09 | 7.39e-08 | 34 |
GO:00070419 | Esophagus | ESCC | lysosomal transport | 83/8552 | 114/18723 | 3.52e-09 | 7.41e-08 | 83 |
GO:003250915 | Esophagus | ESCC | endosome transport via multivesicular body sorting pathway | 29/8552 | 31/18723 | 1.92e-08 | 3.72e-07 | 29 |
GO:00070403 | Esophagus | ESCC | lysosome organization | 53/8552 | 74/18723 | 5.34e-06 | 5.57e-05 | 53 |
GO:00801713 | Esophagus | ESCC | lytic vacuole organization | 53/8552 | 74/18723 | 5.34e-06 | 5.57e-05 | 53 |
GO:00330593 | Esophagus | ESCC | cellular pigmentation | 40/8552 | 53/18723 | 9.67e-06 | 9.21e-05 | 40 |
GO:00083333 | Esophagus | ESCC | endosome to lysosome transport | 40/8552 | 55/18723 | 4.27e-05 | 3.42e-04 | 40 |
GO:00487531 | Esophagus | ESCC | pigment granule organization | 23/8552 | 29/18723 | 2.25e-04 | 1.40e-03 | 23 |
GO:00324381 | Esophagus | ESCC | melanosome organization | 22/8552 | 28/18723 | 3.95e-04 | 2.26e-03 | 22 |
GO:00434731 | Esophagus | ESCC | pigmentation | 59/8552 | 98/18723 | 2.64e-03 | 1.12e-02 | 59 |
GO:00161975 | Liver | NAFLD | endosomal transport | 41/1882 | 230/18723 | 2.02e-04 | 3.53e-03 | 41 |
GO:00160505 | Liver | NAFLD | vesicle organization | 50/1882 | 300/18723 | 2.42e-04 | 4.06e-03 | 50 |
GO:00070345 | Liver | NAFLD | vacuolar transport | 28/1882 | 157/18723 | 1.91e-03 | 1.93e-02 | 28 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
LYST | SNV | Missense_Mutation | c.4081C>A | p.Leu1361Ile | p.L1361I | Q99698 | protein_coding | tolerated(0.09) | possibly_damaging(0.556) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
LYST | SNV | Missense_Mutation | novel | c.3749C>T | p.Ala1250Val | p.A1250V | Q99698 | protein_coding | tolerated(0.43) | benign(0.021) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | novel | c.2855C>A | p.Pro952His | p.P952H | Q99698 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.999) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | rs377581916 | c.620G>A | p.Arg207His | p.R207H | Q99698 | protein_coding | tolerated_low_confidence(0.61) | benign(0) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | novel | c.9857N>A | p.Ser3286Tyr | p.S3286Y | Q99698 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-B5-A1MR-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | rs143706691 | c.5419N>A | p.Glu1807Lys | p.E1807K | Q99698 | protein_coding | tolerated(0.24) | benign(0.069) | TCGA-B5-A1MR-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | novel | c.4494N>T | p.Lys1498Asn | p.K1498N | Q99698 | protein_coding | deleterious(0.02) | benign(0.231) | TCGA-B5-A1MR-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | c.9755C>T | p.Pro3252Leu | p.P3252L | Q99698 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-B5-A1MX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Hormone Therapy | megace | SD | |
LYST | SNV | Missense_Mutation | novel | c.10243N>C | p.Phe3415Leu | p.F3415L | Q99698 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LYST | SNV | Missense_Mutation | novel | c.7597N>T | p.Leu2533Phe | p.L2533F | Q99698 | protein_coding | deleterious(0) | possibly_damaging(0.787) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
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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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