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Gene: RTF2 |
Gene summary for RTF2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | RTF2 | Gene ID | 51507 |
Gene name | replication termination factor 2 | |
Gene Alias | C20orf43 | |
Cytomap | 20q13.31 | |
Gene Type | protein-coding | GO ID | GO:0000278 | UniProtAcc | A0A0A0MQR2 |
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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 |
51507 | RTF2 | male-WTA | Human | Thyroid | PTC | 1.84e-32 | 3.94e-01 | 0.1037 |
51507 | RTF2 | nodule-WTA | Human | Thyroid | goiters | 2.52e-02 | 1.83e-01 | 0.0534 |
51507 | RTF2 | PTC01 | Human | Thyroid | PTC | 3.62e-26 | 4.95e-01 | 0.1899 |
51507 | RTF2 | PTC03 | Human | Thyroid | PTC | 3.32e-08 | 3.90e-01 | 0.1784 |
51507 | RTF2 | PTC04 | Human | Thyroid | PTC | 3.57e-20 | 4.43e-01 | 0.1927 |
51507 | RTF2 | PTC05 | Human | Thyroid | PTC | 1.10e-35 | 1.09e+00 | 0.2065 |
51507 | RTF2 | PTC06 | Human | Thyroid | PTC | 4.12e-52 | 1.06e+00 | 0.2057 |
51507 | RTF2 | PTC07 | Human | Thyroid | PTC | 9.63e-67 | 9.68e-01 | 0.2044 |
51507 | RTF2 | ATC09 | Human | Thyroid | ATC | 1.54e-13 | 4.61e-01 | 0.2871 |
51507 | RTF2 | ATC11 | Human | Thyroid | ATC | 1.80e-12 | 6.31e-01 | 0.3386 |
51507 | RTF2 | ATC12 | Human | Thyroid | ATC | 9.31e-45 | 8.75e-01 | 0.34 |
51507 | RTF2 | ATC13 | Human | Thyroid | ATC | 1.81e-60 | 1.29e+00 | 0.34 |
51507 | RTF2 | ATC1 | Human | Thyroid | ATC | 4.64e-16 | 5.29e-01 | 0.2878 |
51507 | RTF2 | ATC2 | Human | Thyroid | ATC | 1.28e-23 | 1.44e+00 | 0.34 |
51507 | RTF2 | ATC3 | Human | Thyroid | ATC | 6.48e-06 | 3.48e-01 | 0.338 |
51507 | RTF2 | ATC4 | Human | Thyroid | ATC | 1.22e-54 | 1.10e+00 | 0.34 |
51507 | RTF2 | ATC5 | Human | Thyroid | ATC | 3.31e-66 | 1.37e+00 | 0.34 |
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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:00712418 | Breast | Precancer | cellular response to inorganic substance | 26/1080 | 226/18723 | 6.23e-04 | 7.78e-03 | 26 |
GO:007124113 | Breast | IDC | cellular response to inorganic substance | 29/1434 | 226/18723 | 4.28e-03 | 3.34e-02 | 29 |
GO:007124123 | Breast | DCIS | cellular response to inorganic substance | 29/1390 | 226/18723 | 2.75e-03 | 2.41e-02 | 29 |
GO:00062604 | Esophagus | ESCC | DNA replication | 181/8552 | 260/18723 | 3.55e-15 | 2.05e-13 | 181 |
GO:00062612 | Esophagus | ESCC | DNA-dependent DNA replication | 100/8552 | 151/18723 | 2.61e-07 | 3.94e-06 | 100 |
GO:007124117 | Esophagus | ESCC | cellular response to inorganic substance | 125/8552 | 226/18723 | 2.17e-03 | 9.67e-03 | 125 |
GO:1902969 | Esophagus | ESCC | mitotic DNA replication | 11/8552 | 14/18723 | 1.30e-02 | 4.27e-02 | 11 |
GO:00062601 | Liver | HCC | DNA replication | 146/7958 | 260/18723 | 5.68e-06 | 7.02e-05 | 146 |
GO:007124112 | Liver | HCC | cellular response to inorganic substance | 119/7958 | 226/18723 | 1.26e-03 | 6.92e-03 | 119 |
GO:0006261 | Liver | HCC | DNA-dependent DNA replication | 80/7958 | 151/18723 | 5.91e-03 | 2.44e-02 | 80 |
GO:00062606 | Thyroid | PTC | DNA replication | 114/5968 | 260/18723 | 3.09e-05 | 2.95e-04 | 114 |
GO:0071241110 | Thyroid | PTC | cellular response to inorganic substance | 92/5968 | 226/18723 | 3.01e-03 | 1.49e-02 | 92 |
GO:000626013 | Thyroid | ATC | DNA replication | 124/6293 | 260/18723 | 1.58e-06 | 1.93e-05 | 124 |
GO:007124124 | Thyroid | ATC | cellular response to inorganic substance | 98/6293 | 226/18723 | 1.35e-03 | 7.02e-03 | 98 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
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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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