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Gene: TSR2 |
Gene summary for TSR2 |
Gene summary. |
Gene information | Species | Human | Gene symbol | TSR2 | Gene ID | 90121 |
Gene name | TSR2 ribosome maturation factor | |
Gene Alias | DBA14 | |
Cytomap | Xp11.22 | |
Gene Type | protein-coding | GO ID | GO:0000462 | UniProtAcc | A0A024R9U9 |
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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 |
90121 | TSR2 | LZE2T | Human | Esophagus | ESCC | 4.94e-04 | 7.13e-01 | 0.082 |
90121 | TSR2 | LZE4T | Human | Esophagus | ESCC | 5.00e-10 | 3.20e-01 | 0.0811 |
90121 | TSR2 | LZE5T | Human | Esophagus | ESCC | 1.03e-02 | 3.36e-01 | 0.0514 |
90121 | TSR2 | LZE7T | Human | Esophagus | ESCC | 5.43e-10 | 6.33e-01 | 0.0667 |
90121 | TSR2 | LZE8T | Human | Esophagus | ESCC | 4.36e-03 | 2.23e-01 | 0.067 |
90121 | TSR2 | LZE20T | Human | Esophagus | ESCC | 2.66e-06 | 5.22e-01 | 0.0662 |
90121 | TSR2 | LZE22D1 | Human | Esophagus | HGIN | 5.80e-03 | 9.66e-02 | 0.0595 |
90121 | TSR2 | LZE22T | Human | Esophagus | ESCC | 3.11e-05 | 3.86e-01 | 0.068 |
90121 | TSR2 | LZE24T | Human | Esophagus | ESCC | 1.35e-31 | 9.23e-01 | 0.0596 |
90121 | TSR2 | LZE22D3 | Human | Esophagus | HGIN | 3.68e-04 | 5.48e-01 | 0.0653 |
90121 | TSR2 | LZE21T | Human | Esophagus | ESCC | 1.32e-03 | 3.65e-01 | 0.0655 |
90121 | TSR2 | LZE6T | Human | Esophagus | ESCC | 8.79e-06 | 2.79e-01 | 0.0845 |
90121 | TSR2 | P1T-E | Human | Esophagus | ESCC | 3.31e-07 | 2.94e-01 | 0.0875 |
90121 | TSR2 | P2T-E | Human | Esophagus | ESCC | 3.81e-48 | 9.80e-01 | 0.1177 |
90121 | TSR2 | P4T-E | Human | Esophagus | ESCC | 5.86e-38 | 9.87e-01 | 0.1323 |
90121 | TSR2 | P5T-E | Human | Esophagus | ESCC | 6.79e-25 | 4.82e-01 | 0.1327 |
90121 | TSR2 | P8T-E | Human | Esophagus | ESCC | 3.14e-40 | 6.56e-01 | 0.0889 |
90121 | TSR2 | P9T-E | Human | Esophagus | ESCC | 4.57e-14 | 4.01e-01 | 0.1131 |
90121 | TSR2 | P10T-E | Human | Esophagus | ESCC | 4.45e-30 | 4.90e-01 | 0.116 |
90121 | TSR2 | P11T-E | Human | Esophagus | ESCC | 5.75e-14 | 5.91e-01 | 0.1426 |
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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 |
Esophagus | ESCC | |
Skin | AK | |
Skin | SCCIS | |
Skin | cSCC | |
Thyroid | HT |
∗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:002261327 | Esophagus | HGIN | ribonucleoprotein complex biogenesis | 158/2587 | 463/18723 | 2.61e-29 | 5.23e-26 | 158 |
GO:004225426 | Esophagus | HGIN | ribosome biogenesis | 101/2587 | 299/18723 | 8.74e-19 | 4.03e-16 | 101 |
GO:001607219 | Esophagus | HGIN | rRNA metabolic process | 72/2587 | 236/18723 | 2.26e-11 | 2.56e-09 | 72 |
GO:000636419 | Esophagus | HGIN | rRNA processing | 69/2587 | 225/18723 | 4.53e-11 | 5.04e-09 | 69 |
GO:003447010 | Esophagus | HGIN | ncRNA processing | 97/2587 | 395/18723 | 5.92e-09 | 3.90e-07 | 97 |
GO:004227427 | Esophagus | HGIN | ribosomal small subunit biogenesis | 27/2587 | 73/18723 | 6.26e-07 | 2.72e-05 | 27 |
GO:00346606 | Esophagus | HGIN | ncRNA metabolic process | 104/2587 | 485/18723 | 2.26e-06 | 8.23e-05 | 104 |
GO:0022613111 | Esophagus | ESCC | ribonucleoprotein complex biogenesis | 365/8552 | 463/18723 | 1.74e-49 | 1.11e-45 | 365 |
GO:0042254111 | Esophagus | ESCC | ribosome biogenesis | 252/8552 | 299/18723 | 3.27e-44 | 1.04e-40 | 252 |
GO:003447015 | Esophagus | ESCC | ncRNA processing | 300/8552 | 395/18723 | 3.09e-35 | 3.26e-32 | 300 |
GO:0016072110 | Esophagus | ESCC | rRNA metabolic process | 197/8552 | 236/18723 | 1.31e-33 | 1.18e-30 | 197 |
GO:0006364110 | Esophagus | ESCC | rRNA processing | 189/8552 | 225/18723 | 4.88e-33 | 3.87e-30 | 189 |
GO:003466012 | Esophagus | ESCC | ncRNA metabolic process | 346/8552 | 485/18723 | 4.35e-31 | 2.51e-28 | 346 |
GO:0042274111 | Esophagus | ESCC | ribosomal small subunit biogenesis | 67/8552 | 73/18723 | 6.62e-17 | 5.38e-15 | 67 |
GO:00304904 | Esophagus | ESCC | maturation of SSU-rRNA | 45/8552 | 50/18723 | 5.07e-11 | 1.63e-09 | 45 |
GO:00004623 | Esophagus | ESCC | maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | 32/8552 | 37/18723 | 2.96e-07 | 4.23e-06 | 32 |
GO:002261312 | Liver | Cirrhotic | ribonucleoprotein complex biogenesis | 231/4634 | 463/18723 | 3.28e-32 | 6.86e-29 | 231 |
GO:004225412 | Liver | Cirrhotic | ribosome biogenesis | 154/4634 | 299/18723 | 1.18e-23 | 6.72e-21 | 154 |
GO:000636412 | Liver | Cirrhotic | rRNA processing | 115/4634 | 225/18723 | 1.12e-17 | 1.64e-15 | 115 |
GO:00160724 | Liver | Cirrhotic | rRNA metabolic process | 119/4634 | 236/18723 | 1.19e-17 | 1.70e-15 | 119 |
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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 |
TSR2 | SNV | Missense_Mutation | c.349N>G | p.Gln117Glu | p.Q117E | Q969E8 | protein_coding | deleterious(0.03) | possibly_damaging(0.446) | TCGA-AR-A1AN-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |
TSR2 | SNV | Missense_Mutation | c.167G>A | p.Arg56His | p.R56H | Q969E8 | protein_coding | tolerated(0.19) | possibly_damaging(0.52) | TCGA-E9-A22E-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cyclophosphane | SD | |
TSR2 | SNV | Missense_Mutation | novel | c.370N>T | p.Ala124Ser | p.A124S | Q969E8 | protein_coding | deleterious(0.05) | possibly_damaging(0.723) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
TSR2 | SNV | Missense_Mutation | novel | c.345N>G | p.Ile115Met | p.I115M | Q969E8 | protein_coding | deleterious(0.05) | benign(0.145) | TCGA-MY-A5BF-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | CR |
TSR2 | SNV | Missense_Mutation | novel | c.112N>T | p.His38Tyr | p.H38Y | Q969E8 | protein_coding | tolerated(0.54) | benign(0.006) | TCGA-A6-5665-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
TSR2 | SNV | Missense_Mutation | rs374472583 | c.166N>T | p.Arg56Cys | p.R56C | Q969E8 | protein_coding | tolerated(0.1) | possibly_damaging(0.593) | TCGA-G4-6304-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Chemotherapy | fluorouracil | PD |
TSR2 | SNV | Missense_Mutation | novel | c.544N>T | p.Asp182Tyr | p.D182Y | Q969E8 | protein_coding | deleterious(0) | probably_damaging(0.987) | TCGA-AG-3892-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TSR2 | SNV | Missense_Mutation | novel | c.93N>T | p.Glu31Asp | p.E31D | Q969E8 | protein_coding | tolerated(0.36) | benign(0.085) | TCGA-A5-A2K5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
TSR2 | SNV | Missense_Mutation | novel | c.93N>T | p.Glu31Asp | p.E31D | Q969E8 | protein_coding | tolerated(0.36) | benign(0.085) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TSR2 | SNV | Missense_Mutation | novel | c.566N>T | p.Arg189Ile | p.R189I | Q969E8 | protein_coding | deleterious(0) | probably_damaging(0.942) | TCGA-AJ-A3EL-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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