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Gene: ABCF2 |
Gene summary for ABCF2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | ABCF2 | Gene ID | 10061 |
Gene name | ATP binding cassette subfamily F member 2 | |
Gene Alias | ABC28 | |
Cytomap | 7q36.1 | |
Gene Type | protein-coding | GO ID | GO:0005575 | UniProtAcc | A0A090N7X1 |
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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 |
10061 | ABCF2 | LZE4T | Human | Esophagus | ESCC | 2.07e-06 | 1.51e-01 | 0.0811 |
10061 | ABCF2 | LZE7T | Human | Esophagus | ESCC | 5.78e-08 | 2.60e-01 | 0.0667 |
10061 | ABCF2 | LZE8T | Human | Esophagus | ESCC | 3.46e-12 | 2.47e-01 | 0.067 |
10061 | ABCF2 | LZE20T | Human | Esophagus | ESCC | 3.36e-05 | 1.28e-01 | 0.0662 |
10061 | ABCF2 | LZE22T | Human | Esophagus | ESCC | 6.59e-03 | 3.75e-01 | 0.068 |
10061 | ABCF2 | LZE24T | Human | Esophagus | ESCC | 2.58e-12 | 2.95e-01 | 0.0596 |
10061 | ABCF2 | LZE21T | Human | Esophagus | ESCC | 6.95e-03 | 2.31e-01 | 0.0655 |
10061 | ABCF2 | LZE6T | Human | Esophagus | ESCC | 8.28e-07 | 2.92e-01 | 0.0845 |
10061 | ABCF2 | P1T-E | Human | Esophagus | ESCC | 4.32e-06 | 1.69e-01 | 0.0875 |
10061 | ABCF2 | P2T-E | Human | Esophagus | ESCC | 7.49e-24 | 2.03e-01 | 0.1177 |
10061 | ABCF2 | P4T-E | Human | Esophagus | ESCC | 4.32e-15 | 3.69e-01 | 0.1323 |
10061 | ABCF2 | P5T-E | Human | Esophagus | ESCC | 2.09e-22 | 5.03e-01 | 0.1327 |
10061 | ABCF2 | P8T-E | Human | Esophagus | ESCC | 1.55e-07 | 1.66e-01 | 0.0889 |
10061 | ABCF2 | P9T-E | Human | Esophagus | ESCC | 6.50e-12 | 2.71e-01 | 0.1131 |
10061 | ABCF2 | P10T-E | Human | Esophagus | ESCC | 7.62e-23 | 3.61e-01 | 0.116 |
10061 | ABCF2 | P11T-E | Human | Esophagus | ESCC | 7.27e-10 | 3.25e-01 | 0.1426 |
10061 | ABCF2 | P12T-E | Human | Esophagus | ESCC | 2.85e-31 | 6.35e-01 | 0.1122 |
10061 | ABCF2 | P15T-E | Human | Esophagus | ESCC | 2.21e-39 | 7.58e-01 | 0.1149 |
10061 | ABCF2 | P16T-E | Human | Esophagus | ESCC | 3.41e-16 | 3.93e-01 | 0.1153 |
10061 | ABCF2 | P17T-E | Human | Esophagus | ESCC | 3.51e-08 | 3.92e-01 | 0.1278 |
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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 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa05130211 | Esophagus | ESCC | Pathogenic Escherichia coli infection | 142/4205 | 197/8465 | 8.21e-11 | 1.06e-09 | 5.42e-10 | 142 |
hsa05130310 | Esophagus | ESCC | Pathogenic Escherichia coli infection | 142/4205 | 197/8465 | 8.21e-11 | 1.06e-09 | 5.42e-10 | 142 |
hsa0513042 | Liver | HCC | Pathogenic Escherichia coli infection | 129/4020 | 197/8465 | 2.02e-07 | 2.50e-06 | 1.39e-06 | 129 |
hsa0513052 | Liver | HCC | Pathogenic Escherichia coli infection | 129/4020 | 197/8465 | 2.02e-07 | 2.50e-06 | 1.39e-06 | 129 |
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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 |
ABCF2 | SNV | Missense_Mutation | novel | c.971N>C | p.Gln324Pro | p.Q324P | Q9UG63 | protein_coding | deleterious(0) | probably_damaging(0.915) | TCGA-AZ-6598-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
ABCF2 | SNV | Missense_Mutation | rs145078285 | c.667N>T | p.Arg223Cys | p.R223C | Q9UG63 | protein_coding | tolerated(0.16) | benign(0.007) | TCGA-D5-6530-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
ABCF2 | SNV | Missense_Mutation | rs759491541 | c.949C>T | p.Arg317Trp | p.R317W | Q9UG63 | protein_coding | deleterious(0) | probably_damaging(0.988) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
ABCF2 | SNV | Missense_Mutation | novel | c.1198A>G | p.Asn400Asp | p.N400D | Q9UG63 | protein_coding | tolerated(0.79) | benign(0.003) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
ABCF2 | SNV | Missense_Mutation | c.583C>T | p.Arg195Cys | p.R195C | Q9UG63 | protein_coding | deleterious(0.01) | probably_damaging(0.996) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
ABCF2 | SNV | Missense_Mutation | novel | c.947C>T | p.Thr316Met | p.T316M | Q9UG63 | protein_coding | deleterious(0.02) | probably_damaging(0.955) | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
ABCF2 | SNV | Missense_Mutation | novel | c.1736N>C | p.Val579Ala | p.V579A | Q9UG63 | protein_coding | deleterious(0) | possibly_damaging(0.847) | TCGA-AJ-A3NE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
ABCF2 | SNV | Missense_Mutation | novel | c.947N>T | p.Thr316Met | p.T316M | Q9UG63 | protein_coding | deleterious(0.02) | probably_damaging(0.955) | TCGA-AJ-A3OK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | CR |
ABCF2 | SNV | Missense_Mutation | rs775101547 | c.851C>G | p.Ser284Cys | p.S284C | Q9UG63 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-AJ-A3QS-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | CR |
ABCF2 | SNV | Missense_Mutation | c.344G>A | p.Gly115Asp | p.G115D | Q9UG63 | protein_coding | deleterious(0.02) | probably_damaging(1) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | 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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