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Gene: SHPK |
Gene summary for SHPK |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SHPK | Gene ID | 23729 |
| Gene name | sedoheptulokinase | |
| Gene Alias | CARKL | |
| Cytomap | 17p13.2 | |
| Gene Type | protein-coding | GO ID | GO:0001775 | UniProtAcc | A0A0B4J2A0 |
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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 |
| 23729 | SHPK | HCC1_Meng | Human | Liver | HCC | 2.55e-02 | -1.35e-02 | 0.0246 |
| 23729 | SHPK | HCC1 | Human | Liver | HCC | 9.06e-13 | 1.68e+00 | 0.5336 |
| 23729 | SHPK | HCC2 | Human | Liver | HCC | 9.60e-23 | 1.84e+00 | 0.5341 |
| 23729 | SHPK | HCC5 | Human | Liver | HCC | 6.51e-19 | 1.37e+00 | 0.4932 |
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| 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:000609122 | Liver | HCC | generation of precursor metabolites and energy | 340/7958 | 490/18723 | 4.04e-34 | 2.85e-31 | 340 |
| GO:00067401 | Liver | HCC | NADPH regeneration | 14/7958 | 16/18723 | 2.73e-04 | 1.98e-03 | 14 |
| GO:0006739 | Liver | HCC | NADP metabolic process | 25/7958 | 35/18723 | 5.05e-04 | 3.29e-03 | 25 |
| GO:00060981 | Liver | HCC | pentose-phosphate shunt | 13/7958 | 15/18723 | 5.67e-04 | 3.61e-03 | 13 |
| GO:003249611 | Liver | HCC | response to lipopolysaccharide | 174/7958 | 343/18723 | 1.19e-03 | 6.62e-03 | 174 |
| GO:00712166 | Liver | HCC | cellular response to biotic stimulus | 128/7958 | 246/18723 | 1.53e-03 | 8.10e-03 | 128 |
| GO:00712226 | Liver | HCC | cellular response to lipopolysaccharide | 110/7958 | 209/18723 | 1.92e-03 | 9.77e-03 | 110 |
| GO:000223711 | Liver | HCC | response to molecule of bacterial origin | 181/7958 | 363/18723 | 2.58e-03 | 1.24e-02 | 181 |
| GO:00712196 | Liver | HCC | cellular response to molecule of bacterial origin | 113/7958 | 221/18723 | 5.73e-03 | 2.38e-02 | 113 |
| GO:007135311 | Liver | HCC | cellular response to interleukin-4 | 21/7958 | 33/18723 | 1.16e-02 | 4.28e-02 | 21 |
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| 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 |
| SHPK | SNV | Missense_Mutation | c.892N>G | p.Pro298Ala | p.P298A | Q9UHJ6 | protein_coding | tolerated(0.07) | benign(0.005) | TCGA-A1-A0SK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
| SHPK | insertion | Frame_Shift_Ins | novel | c.1203_1204insTCAGAACATACTCTAATAATGCAGCCAGGAGCCGTCA | p.Leu402SerfsTer49 | p.L402Sfs*49 | Q9UHJ6 | protein_coding | TCGA-A8-A06O-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | letrozole | SD | ||
| SHPK | SNV | Missense_Mutation | rs140777774 | c.913N>A | p.Ala305Thr | p.A305T | Q9UHJ6 | protein_coding | tolerated(0.61) | benign(0.007) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| SHPK | SNV | Missense_Mutation | novel | c.133G>C | p.Glu45Gln | p.E45Q | Q9UHJ6 | protein_coding | tolerated(0.44) | benign(0.025) | TCGA-C5-A902-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD |
| SHPK | SNV | Missense_Mutation | novel | c.1006N>A | p.Gln336Lys | p.Q336K | Q9UHJ6 | protein_coding | tolerated(0.16) | benign(0.037) | TCGA-MA-AA3Z-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| SHPK | SNV | Missense_Mutation | rs755670371 | c.1270N>A | p.Val424Met | p.V424M | Q9UHJ6 | protein_coding | deleterious(0) | probably_damaging(0.961) | TCGA-AA-A02R-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
| SHPK | SNV | Missense_Mutation | novel | c.80N>G | p.Asp27Gly | p.D27G | Q9UHJ6 | protein_coding | tolerated(1) | benign(0) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| SHPK | SNV | Missense_Mutation | c.698N>T | p.Pro233Leu | p.P233L | Q9UHJ6 | protein_coding | deleterious(0) | benign(0.125) | TCGA-G4-6314-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Ancillary | leucovorin | SD | |
| SHPK | SNV | Missense_Mutation | c.905N>T | p.Ala302Val | p.A302V | Q9UHJ6 | protein_coding | deleterious(0.03) | benign(0.139) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| SHPK | SNV | Missense_Mutation | rs753639475 | c.245N>A | p.Arg82Gln | p.R82Q | Q9UHJ6 | protein_coding | tolerated(1) | benign(0.001) | 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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