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Gene: CHST9 |
Gene summary for CHST9 |
Gene summary. |
Gene information | Species | Human | Gene symbol | CHST9 | Gene ID | 83539 |
Gene name | carbohydrate sulfotransferase 9 | |
Gene Alias | GALNAC4ST-2 | |
Cytomap | 18q11.2 | |
Gene Type | protein-coding | GO ID | GO:0005975 | UniProtAcc | Q7L1S5 |
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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 |
83539 | CHST9 | LZE5T | Human | Esophagus | ESCC | 1.40e-10 | 9.82e-01 | 0.0514 |
83539 | CHST9 | LZE8T | Human | Esophagus | ESCC | 3.64e-02 | 8.85e-02 | 0.067 |
83539 | CHST9 | LZE24T | Human | Esophagus | ESCC | 2.95e-03 | 7.60e-01 | 0.0596 |
83539 | CHST9 | P1T-E | Human | Esophagus | ESCC | 1.04e-04 | 4.94e-01 | 0.0875 |
83539 | CHST9 | P8T-E | Human | Esophagus | ESCC | 2.78e-59 | 1.58e+00 | 0.0889 |
83539 | CHST9 | P10T-E | Human | Esophagus | ESCC | 9.59e-03 | -1.13e-01 | 0.116 |
83539 | CHST9 | P12T-E | Human | Esophagus | ESCC | 7.24e-04 | 3.30e-01 | 0.1122 |
83539 | CHST9 | P23T-E | Human | Esophagus | ESCC | 3.42e-20 | 8.95e-01 | 0.108 |
83539 | CHST9 | P26T-E | Human | Esophagus | ESCC | 4.91e-09 | 3.22e-01 | 0.1276 |
83539 | CHST9 | P27T-E | Human | Esophagus | ESCC | 4.02e-24 | 6.93e-01 | 0.1055 |
83539 | CHST9 | P39T-E | Human | Esophagus | ESCC | 3.62e-09 | 3.68e-01 | 0.0894 |
83539 | CHST9 | P47T-E | Human | Esophagus | ESCC | 3.50e-02 | -1.34e-01 | 0.1067 |
83539 | CHST9 | P48T-E | Human | Esophagus | ESCC | 9.01e-14 | 3.78e-01 | 0.0959 |
83539 | CHST9 | P54T-E | Human | Esophagus | ESCC | 1.62e-14 | 4.64e-01 | 0.0975 |
83539 | CHST9 | P57T-E | Human | Esophagus | ESCC | 3.80e-15 | 6.16e-01 | 0.0926 |
83539 | CHST9 | P61T-E | Human | Esophagus | ESCC | 1.50e-40 | 1.86e+00 | 0.099 |
83539 | CHST9 | P75T-E | Human | Esophagus | ESCC | 3.07e-12 | 3.50e-01 | 0.1125 |
83539 | CHST9 | P76T-E | Human | Esophagus | ESCC | 5.20e-03 | 2.63e-02 | 0.1207 |
83539 | CHST9 | P127T-E | Human | Esophagus | ESCC | 7.93e-12 | 3.88e-01 | 0.0826 |
83539 | CHST9 | P128T-E | Human | Esophagus | ESCC | 1.61e-46 | 1.95e+00 | 0.1241 |
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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:00091002 | Esophagus | ESCC | glycoprotein metabolic process | 226/8552 | 387/18723 | 2.64e-07 | 3.94e-06 | 226 |
GO:00067906 | Esophagus | ESCC | sulfur compound metabolic process | 201/8552 | 339/18723 | 2.64e-07 | 3.94e-06 | 201 |
GO:00442725 | Esophagus | ESCC | sulfur compound biosynthetic process | 96/8552 | 148/18723 | 1.86e-06 | 2.16e-05 | 96 |
GO:00091012 | Esophagus | ESCC | glycoprotein biosynthetic process | 181/8552 | 317/18723 | 2.54e-05 | 2.15e-04 | 181 |
GO:00160514 | Esophagus | ESCC | carbohydrate biosynthetic process | 117/8552 | 202/18723 | 2.96e-04 | 1.79e-03 | 117 |
GO:0006029 | Esophagus | ESCC | proteoglycan metabolic process | 48/8552 | 79/18723 | 4.93e-03 | 1.89e-02 | 48 |
GO:0030166 | Esophagus | ESCC | proteoglycan biosynthetic process | 35/8552 | 56/18723 | 8.30e-03 | 2.94e-02 | 35 |
GO:0006024 | Esophagus | ESCC | glycosaminoglycan biosynthetic process | 45/8552 | 75/18723 | 8.75e-03 | 3.08e-02 | 45 |
GO:0006023 | Esophagus | ESCC | aminoglycan biosynthetic process | 47/8552 | 79/18723 | 9.29e-03 | 3.23e-02 | 47 |
GO:00442724 | Oral cavity | OSCC | sulfur compound biosynthetic process | 82/7305 | 148/18723 | 3.71e-05 | 3.31e-04 | 82 |
GO:00067905 | Oral cavity | OSCC | sulfur compound metabolic process | 168/7305 | 339/18723 | 4.50e-05 | 3.84e-04 | 168 |
GO:0030206 | Oral cavity | OSCC | chondroitin sulfate biosynthetic process | 15/7305 | 18/18723 | 1.53e-04 | 1.07e-03 | 15 |
GO:00091001 | Oral cavity | OSCC | glycoprotein metabolic process | 185/7305 | 387/18723 | 2.37e-04 | 1.54e-03 | 185 |
GO:00091011 | Oral cavity | OSCC | glycoprotein biosynthetic process | 151/7305 | 317/18723 | 1.01e-03 | 5.26e-03 | 151 |
GO:0050650 | Oral cavity | OSCC | chondroitin sulfate proteoglycan biosynthetic process | 16/7305 | 23/18723 | 2.93e-03 | 1.27e-02 | 16 |
GO:00160513 | Oral cavity | OSCC | carbohydrate biosynthetic process | 97/7305 | 202/18723 | 5.50e-03 | 2.13e-02 | 97 |
GO:0030204 | Oral cavity | OSCC | chondroitin sulfate metabolic process | 19/7305 | 30/18723 | 6.03e-03 | 2.28e-02 | 19 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa005136 | Esophagus | ESCC | Various types of N-glycan biosynthesis | 31/4205 | 42/8465 | 1.23e-03 | 3.78e-03 | 1.93e-03 | 31 |
hsa0051313 | Esophagus | ESCC | Various types of N-glycan biosynthesis | 31/4205 | 42/8465 | 1.23e-03 | 3.78e-03 | 1.93e-03 | 31 |
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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 |
CHST9 | SNV | Missense_Mutation | novel | c.980N>T | p.Gly327Val | p.G327V | Q7L1S5 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-D6-A6EM-01 | Oral cavity | head & neck squamous cell carcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
CHST9 | SNV | Missense_Mutation | c.1126G>T | p.Asp376Tyr | p.D376Y | Q7L1S5 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-BR-7958-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Unknown | Unknown | SD | |
CHST9 | SNV | Missense_Mutation | novel | c.1091N>G | p.Tyr364Cys | p.Y364C | Q7L1S5 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-BR-8060-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
CHST9 | SNV | Missense_Mutation | c.109N>A | p.Glu37Lys | p.E37K | Q7L1S5 | protein_coding | tolerated(0.06) | benign(0.013) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR | |
CHST9 | SNV | Missense_Mutation | novel | c.79N>T | p.Leu27Phe | p.L27F | Q7L1S5 | protein_coding | deleterious(0.03) | benign(0.012) | TCGA-BR-A4J2-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | oxaliplatin | CR |
CHST9 | SNV | Missense_Mutation | c.108N>C | p.Glu36Asp | p.E36D | Q7L1S5 | protein_coding | tolerated(0.11) | probably_damaging(0.967) | TCGA-D7-A4YV-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
CHST9 | insertion | Frame_Shift_Ins | novel | c.217_218insA | p.Ile73AsnfsTer16 | p.I73Nfs*16 | Q7L1S5 | protein_coding | TCGA-BR-4292-01 | Stomach | stomach adenocarcinoma | Female | >=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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