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Gene: SLX1B |
Gene summary for SLX1B |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SLX1B | Gene ID | 79008 |
| Gene name | SLX1 homolog B, structure-specific endonuclease subunit | |
| Gene Alias | GIYD2 | |
| Cytomap | 16p11.2 | |
| Gene Type | protein-coding | GO ID | GO:0000723 | UniProtAcc | Q9BQ83 |
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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 |
| 79008 | SLX1B | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.83e-02 | 9.21e-02 | 0.0155 |
| 79008 | SLX1B | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.08e-14 | 3.64e-01 | -0.1808 |
| 79008 | SLX1B | HTA11_1938_2000001011 | Human | Colorectum | AD | 5.27e-05 | 2.21e-01 | -0.0811 |
| 79008 | SLX1B | HTA11_347_2000001011 | Human | Colorectum | AD | 1.10e-17 | 3.32e-01 | -0.1954 |
| 79008 | SLX1B | HTA11_411_2000001011 | Human | Colorectum | SER | 7.44e-09 | 5.69e-01 | -0.2602 |
| 79008 | SLX1B | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.29e-05 | 3.96e-01 | -0.2196 |
| 79008 | SLX1B | HTA11_3361_2000001011 | Human | Colorectum | AD | 6.03e-08 | 3.19e-01 | -0.1207 |
| 79008 | SLX1B | HTA11_83_2000001011 | Human | Colorectum | SER | 4.13e-10 | 3.22e-01 | -0.1526 |
| 79008 | SLX1B | HTA11_696_2000001011 | Human | Colorectum | AD | 6.91e-23 | 4.22e-01 | -0.1464 |
| 79008 | SLX1B | HTA11_866_2000001011 | Human | Colorectum | AD | 2.05e-06 | 1.64e-01 | -0.1001 |
| 79008 | SLX1B | HTA11_1391_2000001011 | Human | Colorectum | AD | 6.86e-22 | 5.04e-01 | -0.059 |
| 79008 | SLX1B | HTA11_2992_2000001011 | Human | Colorectum | SER | 2.44e-09 | 4.01e-01 | -0.1706 |
| 79008 | SLX1B | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.91e-11 | 4.21e-01 | -0.2061 |
| 79008 | SLX1B | HTA11_5216_2000001011 | Human | Colorectum | SER | 2.79e-07 | 5.85e-01 | -0.1462 |
| 79008 | SLX1B | HTA11_546_2000001011 | Human | Colorectum | AD | 2.76e-07 | 2.45e-01 | -0.0842 |
| 79008 | SLX1B | HTA11_866_3004761011 | Human | Colorectum | AD | 5.28e-08 | 1.89e-01 | 0.096 |
| 79008 | SLX1B | HTA11_8622_2000001021 | Human | Colorectum | SER | 4.45e-03 | 1.83e-01 | 0.0528 |
| 79008 | SLX1B | HTA11_7663_2000001011 | Human | Colorectum | SER | 6.29e-03 | 2.04e-01 | 0.0131 |
| 79008 | SLX1B | HTA11_10711_2000001011 | Human | Colorectum | AD | 9.64e-06 | 1.93e-01 | 0.0338 |
| 79008 | SLX1B | HTA11_7696_3000711011 | Human | Colorectum | AD | 3.61e-02 | 8.36e-02 | 0.0674 |
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| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer |
| ∗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:0010639 | Colorectum | AD | negative regulation of organelle organization | 114/3918 | 348/18723 | 1.41e-07 | 6.49e-06 | 114 |
| GO:0051052 | Colorectum | AD | regulation of DNA metabolic process | 116/3918 | 359/18723 | 2.47e-07 | 1.00e-05 | 116 |
| GO:0051054 | Colorectum | AD | positive regulation of DNA metabolic process | 73/3918 | 201/18723 | 3.27e-07 | 1.29e-05 | 73 |
| GO:2001252 | Colorectum | AD | positive regulation of chromosome organization | 35/3918 | 82/18723 | 6.90e-06 | 1.72e-04 | 35 |
| GO:0032206 | Colorectum | AD | positive regulation of telomere maintenance | 23/3918 | 52/18723 | 1.31e-04 | 1.88e-03 | 23 |
| GO:0032204 | Colorectum | AD | regulation of telomere maintenance | 31/3918 | 80/18723 | 2.01e-04 | 2.67e-03 | 31 |
| GO:0033044 | Colorectum | AD | regulation of chromosome organization | 60/3918 | 187/18723 | 2.25e-04 | 2.94e-03 | 60 |
| GO:0000723 | Colorectum | AD | telomere maintenance | 43/3918 | 131/18723 | 9.77e-04 | 9.20e-03 | 43 |
| GO:0010833 | Colorectum | AD | telomere maintenance via telomere lengthening | 29/3918 | 81/18723 | 1.42e-03 | 1.22e-02 | 29 |
| GO:1904356 | Colorectum | AD | regulation of telomere maintenance via telomere lengthening | 23/3918 | 61/18723 | 1.96e-03 | 1.58e-02 | 23 |
| GO:00106391 | Colorectum | SER | negative regulation of organelle organization | 90/2897 | 348/18723 | 3.14e-07 | 1.69e-05 | 90 |
| GO:00510541 | Colorectum | SER | positive regulation of DNA metabolic process | 53/2897 | 201/18723 | 4.51e-05 | 1.13e-03 | 53 |
| GO:00322061 | Colorectum | SER | positive regulation of telomere maintenance | 20/2897 | 52/18723 | 4.80e-05 | 1.18e-03 | 20 |
| GO:20012521 | Colorectum | SER | positive regulation of chromosome organization | 27/2897 | 82/18723 | 6.44e-05 | 1.49e-03 | 27 |
| GO:00510521 | Colorectum | SER | regulation of DNA metabolic process | 83/2897 | 359/18723 | 8.03e-05 | 1.77e-03 | 83 |
| GO:00322041 | Colorectum | SER | regulation of telomere maintenance | 24/2897 | 80/18723 | 7.57e-04 | 9.73e-03 | 24 |
| GO:19043561 | Colorectum | SER | regulation of telomere maintenance via telomere lengthening | 18/2897 | 61/18723 | 4.02e-03 | 3.30e-02 | 18 |
| GO:00108331 | Colorectum | SER | telomere maintenance via telomere lengthening | 22/2897 | 81/18723 | 4.85e-03 | 3.79e-02 | 22 |
| GO:00007231 | Colorectum | SER | telomere maintenance | 32/2897 | 131/18723 | 4.90e-03 | 3.82e-02 | 32 |
| GO:00510522 | Colorectum | MSS | regulation of DNA metabolic process | 108/3467 | 359/18723 | 5.86e-08 | 3.10e-06 | 108 |
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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. |
| 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 |
| SLX1B | SNV | Missense_Mutation | novel | c.768G>T | p.Glu256Asp | p.E256D | Q9BQ83 | protein_coding | tolerated(0.14) | benign(0.01) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| SLX1B | SNV | Missense_Mutation | novel | c.793N>A | p.Glu265Lys | p.E265K | Q9BQ83 | protein_coding | tolerated(0.06) | benign(0.275) | TCGA-HM-A4S6-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | CR |
| SLX1B | SNV | Missense_Mutation | novel | c.706N>A | p.Pro236Thr | p.P236T | Q9BQ83 | protein_coding | deleterious(0) | probably_damaging(0.977) | TCGA-F4-6570-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| SLX1B | SNV | Missense_Mutation | novel | c.734G>T | p.Gly245Val | p.G245V | Q9BQ83 | protein_coding | deleterious(0) | probably_damaging(0.989) | TCGA-AG-3878-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| SLX1B | SNV | Missense_Mutation | novel | c.781G>A | p.Asp261Asn | p.D261N | Q9BQ83 | protein_coding | tolerated(0.24) | benign(0.001) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| SLX1B | SNV | Missense_Mutation | novel | c.586G>C | p.Glu196Gln | p.E196Q | Q9BQ83 | protein_coding | tolerated(0.06) | benign(0.218) | TCGA-AX-A2IO-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | SD |
| SLX1B | SNV | Missense_Mutation | novel | c.694G>C | p.Glu232Gln | p.E232Q | Q9BQ83 | protein_coding | deleterious(0.01) | benign(0.23) | TCGA-AX-A2IO-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | SD |
| SLX1B | insertion | Frame_Shift_Ins | novel | c.707_708insT | p.Cys237LeufsTer3 | p.C237Lfs*3 | Q9BQ83 | protein_coding | TCGA-EO-A22U-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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