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Gene: BCO2 |
Gene summary for BCO2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | BCO2 | Gene ID | 83875 |
| Gene name | beta-carotene oxygenase 2 | |
| Gene Alias | B-DIOX-II | |
| Cytomap | 11q23.1 | |
| Gene Type | protein-coding | GO ID | GO:0001523 | UniProtAcc | Q9BYV7 |
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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 |
| 83875 | BCO2 | S43 | Human | Liver | Cirrhotic | 3.92e-18 | -5.37e-01 | -0.0187 |
| 83875 | BCO2 | HCC1_Meng | Human | Liver | HCC | 5.28e-23 | -5.99e-01 | 0.0246 |
| 83875 | BCO2 | HCC2_Meng | Human | Liver | HCC | 1.13e-18 | -5.54e-01 | 0.0107 |
| 83875 | BCO2 | cirrhotic1 | Human | Liver | Cirrhotic | 1.44e-05 | -6.67e-02 | 0.0202 |
| 83875 | BCO2 | cirrhotic2 | Human | Liver | Cirrhotic | 2.12e-08 | -4.34e-01 | 0.0201 |
| 83875 | BCO2 | cirrhotic3 | Human | Liver | Cirrhotic | 3.20e-06 | -2.08e-01 | 0.0215 |
| 83875 | BCO2 | p6 | Human | Liver | Cyst | 2.39e-03 | -6.05e-01 | -0.0218 |
| 83875 | BCO2 | HCC1 | Human | Liver | HCC | 5.62e-05 | -6.05e-01 | 0.5336 |
| 83875 | BCO2 | HCC2 | Human | Liver | HCC | 2.01e-07 | -6.05e-01 | 0.5341 |
| 83875 | BCO2 | HCC5 | Human | Liver | HCC | 3.00e-07 | -5.73e-01 | 0.4932 |
| 83875 | BCO2 | Pt13.a | Human | Liver | HCC | 3.02e-14 | -5.25e-01 | 0.021 |
| 83875 | BCO2 | Pt13.b | Human | Liver | HCC | 1.25e-10 | -5.39e-01 | 0.0251 |
| 83875 | BCO2 | Pt13.c | Human | Liver | HCC | 5.30e-09 | -5.66e-01 | 0.0076 |
| 83875 | BCO2 | Pt14.c | Human | Liver | HCC | 4.05e-02 | -5.70e-01 | 0.0054 |
| 83875 | BCO2 | Pt14.d | Human | Liver | HCC | 1.09e-16 | -5.75e-01 | 0.0143 |
| 83875 | BCO2 | S014 | Human | Liver | HCC | 5.42e-11 | -5.76e-01 | 0.2254 |
| 83875 | BCO2 | S015 | Human | Liver | HCC | 1.82e-08 | -5.84e-01 | 0.2375 |
| 83875 | BCO2 | S016 | Human | Liver | HCC | 2.37e-16 | -5.94e-01 | 0.2243 |
| Page: 1 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:200037712 | Liver | Cirrhotic | regulation of reactive oxygen species metabolic process | 67/4634 | 157/18723 | 6.07e-07 | 1.32e-05 | 67 |
| GO:00725937 | Liver | Cirrhotic | reactive oxygen species metabolic process | 92/4634 | 239/18723 | 1.57e-06 | 3.03e-05 | 92 |
| GO:004424212 | Liver | Cirrhotic | cellular lipid catabolic process | 82/4634 | 214/18723 | 6.91e-06 | 1.08e-04 | 82 |
| GO:001604212 | Liver | Cirrhotic | lipid catabolic process | 112/4634 | 320/18723 | 2.31e-05 | 3.03e-04 | 112 |
| GO:00060815 | Liver | Cirrhotic | cellular aldehyde metabolic process | 28/4634 | 60/18723 | 1.83e-04 | 1.71e-03 | 28 |
| GO:00067202 | Liver | Cirrhotic | isoprenoid metabolic process | 46/4634 | 116/18723 | 2.71e-04 | 2.41e-03 | 46 |
| GO:00067212 | Liver | Cirrhotic | terpenoid metabolic process | 38/4634 | 97/18723 | 1.16e-03 | 7.89e-03 | 38 |
| GO:00518815 | Liver | Cirrhotic | regulation of mitochondrial membrane potential | 30/4634 | 74/18723 | 1.97e-03 | 1.23e-02 | 30 |
| GO:004244511 | Liver | Cirrhotic | hormone metabolic process | 73/4634 | 218/18723 | 2.22e-03 | 1.36e-02 | 73 |
| GO:012025411 | Liver | Cirrhotic | olefinic compound metabolic process | 51/4634 | 153/18723 | 1.03e-02 | 4.61e-02 | 51 |
| GO:004424222 | Liver | HCC | cellular lipid catabolic process | 134/7958 | 214/18723 | 2.07e-09 | 5.79e-08 | 134 |
| GO:001604221 | Liver | HCC | lipid catabolic process | 175/7958 | 320/18723 | 6.50e-06 | 7.88e-05 | 175 |
| GO:200037722 | Liver | HCC | regulation of reactive oxygen species metabolic process | 92/7958 | 157/18723 | 3.34e-05 | 3.35e-04 | 92 |
| GO:000608112 | Liver | HCC | cellular aldehyde metabolic process | 39/7958 | 60/18723 | 3.61e-04 | 2.50e-03 | 39 |
| GO:005188112 | Liver | HCC | regulation of mitochondrial membrane potential | 45/7958 | 74/18723 | 1.13e-03 | 6.43e-03 | 45 |
| GO:007259312 | Liver | HCC | reactive oxygen species metabolic process | 124/7958 | 239/18723 | 2.05e-03 | 1.04e-02 | 124 |
| GO:000672011 | Liver | HCC | isoprenoid metabolic process | 65/7958 | 116/18723 | 2.23e-03 | 1.11e-02 | 65 |
| Page: 1 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| BCO2 | SNV | Missense_Mutation | rs542847943 | c.197G>A | p.Arg66Gln | p.R66Q | Q9BYV7 | protein_coding | tolerated(0.59) | benign(0.007) | TCGA-A8-A0A7-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| BCO2 | SNV | Missense_Mutation | novel | c.301N>A | p.His101Asn | p.H101N | Q9BYV7 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| BCO2 | SNV | Missense_Mutation | rs781512153 | c.1440N>A | p.Phe480Leu | p.F480L | Q9BYV7 | protein_coding | deleterious(0) | benign(0.378) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| BCO2 | SNV | Missense_Mutation | novel | c.1441T>C | p.Phe481Leu | p.F481L | Q9BYV7 | protein_coding | tolerated(0.08) | possibly_damaging(0.631) | TCGA-BH-AB28-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | taxotere | SD |
| BCO2 | insertion | Frame_Shift_Ins | novel | c.1704_1705insGAGGCATTTCTAACTTGGAAGAAAGAGTTTCTGT | p.Pro569GlufsTer64 | p.P569Efs*64 | Q9BYV7 | protein_coding | TCGA-A2-A0D1-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | taxotere | SD | ||
| BCO2 | insertion | Frame_Shift_Ins | novel | c.1317_1318insGAGGAAAATGGGCTTAAAGCACTTACTGT | p.Gln440GlufsTer28 | p.Q440Efs*28 | Q9BYV7 | protein_coding | TCGA-A8-A08H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| BCO2 | SNV | Missense_Mutation | c.935N>T | p.Ser312Phe | p.S312F | Q9BYV7 | protein_coding | tolerated(0.09) | possibly_damaging(0.837) | TCGA-C5-A1BQ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | CR | |
| BCO2 | SNV | Missense_Mutation | novel | c.733N>C | p.Tyr245His | p.Y245H | Q9BYV7 | protein_coding | tolerated(0.34) | benign(0) | TCGA-5M-AAT6-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | PD |
| BCO2 | SNV | Missense_Mutation | rs146534695 | c.1415N>A | p.Arg472Gln | p.R472Q | Q9BYV7 | protein_coding | tolerated(0.7) | benign(0.007) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| BCO2 | SNV | Missense_Mutation | c.1694N>A | p.Pro565His | p.P565H | Q9BYV7 | protein_coding | deleterious(0.01) | probably_damaging(0.997) | TCGA-AA-3821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 |
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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 |
| Page: 1 |
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