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Gene: SMOC2 |
Gene summary for SMOC2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SMOC2 | Gene ID | 64094 |
| Gene name | SPARC related modular calcium binding 2 | |
| Gene Alias | DTDP1 | |
| Cytomap | 6q27 | |
| Gene Type | protein-coding | GO ID | GO:0000278 | UniProtAcc | Q9H3U7 |
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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 |
| 64094 | SMOC2 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.22e-02 | -5.14e-01 | -0.1808 |
| 64094 | SMOC2 | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.73e-08 | -7.37e-01 | -0.0811 |
| 64094 | SMOC2 | HTA11_78_2000001011 | Human | Colorectum | AD | 7.30e-13 | -7.05e-01 | -0.1088 |
| 64094 | SMOC2 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.44e-10 | -5.77e-01 | -0.1954 |
| 64094 | SMOC2 | HTA11_2112_2000001011 | Human | Colorectum | SER | 2.01e-02 | -1.29e-01 | -0.2196 |
| 64094 | SMOC2 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.19e-06 | -7.33e-01 | -0.1526 |
| 64094 | SMOC2 | HTA11_866_2000001011 | Human | Colorectum | AD | 4.07e-04 | -4.85e-01 | -0.1001 |
| 64094 | SMOC2 | HTA11_1391_2000001011 | Human | Colorectum | AD | 2.18e-08 | -5.14e-01 | -0.059 |
| 64094 | SMOC2 | HTA11_5212_2000001011 | Human | Colorectum | AD | 6.62e-04 | -7.64e-01 | -0.2061 |
| 64094 | SMOC2 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.31e-08 | 8.99e-01 | 0.096 |
| 64094 | SMOC2 | HTA11_4255_2000001011 | Human | Colorectum | SER | 7.97e-04 | 1.34e+00 | 0.0446 |
| 64094 | SMOC2 | HTA11_8622_2000001021 | Human | Colorectum | SER | 1.81e-05 | 1.14e+00 | 0.0528 |
| 64094 | SMOC2 | HTA11_7663_2000001011 | Human | Colorectum | SER | 1.04e-06 | 1.95e+00 | 0.0131 |
| 64094 | SMOC2 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.39e-17 | -7.15e-01 | 0.0674 |
| 64094 | SMOC2 | HTA11_11156_2000001011 | Human | Colorectum | AD | 1.37e-03 | 1.25e+00 | 0.0397 |
| 64094 | SMOC2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 2.43e-54 | 1.88e+00 | 0.294 |
| 64094 | SMOC2 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 2.44e-12 | 2.53e+00 | 0.3487 |
| 64094 | SMOC2 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 4.67e-02 | 8.59e-01 | 0.281 |
| 64094 | SMOC2 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 2.35e-06 | 8.57e-01 | 0.3859 |
| 64094 | SMOC2 | F007 | Human | Colorectum | FAP | 1.04e-02 | -5.19e-01 | 0.1176 |
| Page: 1 2 3 4 |
| 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 | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid 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:00510541 | Colorectum | SER | positive regulation of DNA metabolic process | 53/2897 | 201/18723 | 4.51e-05 | 1.13e-03 | 53 |
| GO:00016671 | Colorectum | SER | ameboidal-type cell migration | 105/2897 | 475/18723 | 6.97e-05 | 1.59e-03 | 105 |
| GO:00510521 | Colorectum | SER | regulation of DNA metabolic process | 83/2897 | 359/18723 | 8.03e-05 | 1.77e-03 | 83 |
| GO:00901321 | Colorectum | SER | epithelium migration | 82/2897 | 360/18723 | 1.50e-04 | 2.93e-03 | 82 |
| GO:00106311 | Colorectum | SER | epithelial cell migration | 81/2897 | 357/18723 | 1.87e-04 | 3.44e-03 | 81 |
| GO:00901301 | Colorectum | SER | tissue migration | 82/2897 | 365/18723 | 2.40e-04 | 4.12e-03 | 82 |
| GO:20005731 | Colorectum | SER | positive regulation of DNA biosynthetic process | 22/2897 | 66/18723 | 2.44e-04 | 4.17e-03 | 22 |
| GO:00106321 | Colorectum | SER | regulation of epithelial cell migration | 68/2897 | 292/18723 | 2.72e-04 | 4.53e-03 | 68 |
| GO:00718971 | Colorectum | SER | DNA biosynthetic process | 43/2897 | 180/18723 | 1.99e-03 | 1.98e-02 | 43 |
| GO:00435421 | Colorectum | SER | endothelial cell migration | 61/2897 | 279/18723 | 2.76e-03 | 2.47e-02 | 61 |
| GO:0061041 | Colorectum | SER | regulation of wound healing | 33/2897 | 134/18723 | 3.78e-03 | 3.13e-02 | 33 |
| GO:00106341 | Colorectum | SER | positive regulation of epithelial cell migration | 41/2897 | 176/18723 | 4.03e-03 | 3.30e-02 | 41 |
| GO:1903034 | Colorectum | SER | regulation of response to wounding | 39/2897 | 167/18723 | 4.73e-03 | 3.72e-02 | 39 |
| GO:00510522 | Colorectum | MSS | regulation of DNA metabolic process | 108/3467 | 359/18723 | 5.86e-08 | 3.10e-06 | 108 |
| GO:00510542 | Colorectum | MSS | positive regulation of DNA metabolic process | 69/3467 | 201/18723 | 6.33e-08 | 3.26e-06 | 69 |
| GO:00420602 | Colorectum | MSS | wound healing | 119/3467 | 422/18723 | 5.93e-07 | 2.24e-05 | 119 |
| GO:20002782 | Colorectum | MSS | regulation of DNA biosynthetic process | 37/3467 | 106/18723 | 4.48e-05 | 8.28e-04 | 37 |
| GO:20005732 | Colorectum | MSS | positive regulation of DNA biosynthetic process | 26/3467 | 66/18723 | 5.97e-05 | 1.04e-03 | 26 |
| GO:00016672 | Colorectum | MSS | ameboidal-type cell migration | 120/3467 | 475/18723 | 1.37e-04 | 2.05e-03 | 120 |
| GO:00901322 | Colorectum | MSS | epithelium migration | 93/3467 | 360/18723 | 3.30e-04 | 4.24e-03 | 93 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 |
| 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 |
| SMOC2 | SNV | Missense_Mutation | novel | c.454N>T | p.Arg152Trp | p.R152W | Q9H3U7 | protein_coding | deleterious(0.02) | possibly_damaging(0.541) | TCGA-A7-A3IY-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | anastrozole | SD |
| SMOC2 | SNV | Missense_Mutation | c.199C>A | p.Gln67Lys | p.Q67K | Q9H3U7 | protein_coding | deleterious(0.01) | benign(0.155) | TCGA-AN-A0AT-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| SMOC2 | SNV | Missense_Mutation | c.1101N>A | p.Phe367Leu | p.F367L | Q9H3U7 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-B6-A0X5-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
| SMOC2 | SNV | Missense_Mutation | c.1072C>G | p.Leu358Val | p.L358V | Q9H3U7 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-D8-A1JL-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| SMOC2 | SNV | Missense_Mutation | novel | c.545N>T | p.Asp182Val | p.D182V | Q9H3U7 | protein_coding | deleterious(0) | probably_damaging(0.914) | TCGA-EA-A3HU-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| SMOC2 | SNV | Missense_Mutation | c.982N>G | p.Leu328Val | p.L328V | Q9H3U7 | protein_coding | tolerated(0.12) | probably_damaging(0.993) | TCGA-EK-A2RJ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| SMOC2 | SNV | Missense_Mutation | rs201624579 | c.1291N>A | p.Gly431Ser | p.G431S | Q9H3U7 | protein_coding | tolerated(0.2) | benign(0.251) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| SMOC2 | SNV | Missense_Mutation | rs776824810 | c.832C>T | p.Arg278Cys | p.R278C | Q9H3U7 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AA-A01R-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | PD |
| SMOC2 | SNV | Missense_Mutation | c.757N>T | p.His253Tyr | p.H253Y | Q9H3U7 | protein_coding | tolerated(0.37) | benign(0.116) | TCGA-G4-6588-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| SMOC2 | SNV | Missense_Mutation | rs561879643 | c.763N>A | p.Gly255Ser | p.G255S | Q9H3U7 | protein_coding | tolerated(0.06) | probably_damaging(1) | TCGA-AG-A020-01 | Colorectum | rectum adenocarcinoma | Female | <65 | III/IV | Chemotherapy | folinic | CR |
| 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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