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Gene: TBCD |
Gene summary for TBCD |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TBCD | Gene ID | 6904 |
| Gene name | tubulin folding cofactor D | |
| Gene Alias | PEBAT | |
| Cytomap | 17q25.3 | |
| Gene Type | protein-coding | GO ID | GO:0000226 | UniProtAcc | Q9BTW9 |
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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 |
| 6904 | TBCD | LZE7T | Human | Esophagus | ESCC | 4.03e-04 | 1.84e-01 | 0.0667 |
| 6904 | TBCD | LZE24T | Human | Esophagus | ESCC | 1.09e-05 | 2.58e-01 | 0.0596 |
| 6904 | TBCD | P1T-E | Human | Esophagus | ESCC | 1.12e-03 | 2.12e-01 | 0.0875 |
| 6904 | TBCD | P2T-E | Human | Esophagus | ESCC | 3.49e-11 | 2.32e-01 | 0.1177 |
| 6904 | TBCD | P4T-E | Human | Esophagus | ESCC | 1.74e-10 | 1.51e-01 | 0.1323 |
| 6904 | TBCD | P5T-E | Human | Esophagus | ESCC | 1.27e-08 | 1.00e-01 | 0.1327 |
| 6904 | TBCD | P8T-E | Human | Esophagus | ESCC | 4.25e-10 | 1.48e-01 | 0.0889 |
| 6904 | TBCD | P9T-E | Human | Esophagus | ESCC | 4.16e-08 | 1.04e-01 | 0.1131 |
| 6904 | TBCD | P10T-E | Human | Esophagus | ESCC | 1.53e-10 | 3.74e-01 | 0.116 |
| 6904 | TBCD | P11T-E | Human | Esophagus | ESCC | 2.62e-10 | 4.61e-01 | 0.1426 |
| 6904 | TBCD | P12T-E | Human | Esophagus | ESCC | 2.13e-17 | 4.02e-01 | 0.1122 |
| 6904 | TBCD | P15T-E | Human | Esophagus | ESCC | 4.07e-11 | 2.55e-01 | 0.1149 |
| 6904 | TBCD | P16T-E | Human | Esophagus | ESCC | 1.33e-09 | 2.06e-01 | 0.1153 |
| 6904 | TBCD | P21T-E | Human | Esophagus | ESCC | 3.96e-15 | 2.43e-01 | 0.1617 |
| 6904 | TBCD | P22T-E | Human | Esophagus | ESCC | 2.87e-16 | 1.92e-01 | 0.1236 |
| 6904 | TBCD | P23T-E | Human | Esophagus | ESCC | 6.68e-05 | 7.60e-02 | 0.108 |
| 6904 | TBCD | P24T-E | Human | Esophagus | ESCC | 2.05e-08 | 1.86e-01 | 0.1287 |
| 6904 | TBCD | P26T-E | Human | Esophagus | ESCC | 4.38e-07 | 1.09e-01 | 0.1276 |
| 6904 | TBCD | P27T-E | Human | Esophagus | ESCC | 4.44e-08 | 2.21e-01 | 0.1055 |
| 6904 | TBCD | P28T-E | Human | Esophagus | ESCC | 1.91e-28 | 3.97e-01 | 0.1149 |
| Page: 1 2 3 4 5 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| 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:0006457110 | Esophagus | ESCC | protein folding | 163/8552 | 212/18723 | 1.13e-20 | 1.74e-18 | 163 |
| GO:0043254111 | Esophagus | ESCC | regulation of protein-containing complex assembly | 278/8552 | 428/18723 | 3.81e-16 | 2.77e-14 | 278 |
| GO:1902903111 | Esophagus | ESCC | regulation of supramolecular fiber organization | 237/8552 | 383/18723 | 9.06e-11 | 2.75e-09 | 237 |
| GO:0010639110 | Esophagus | ESCC | negative regulation of organelle organization | 215/8552 | 348/18723 | 8.20e-10 | 2.01e-08 | 215 |
| GO:003158919 | Esophagus | ESCC | cell-substrate adhesion | 221/8552 | 363/18723 | 3.06e-09 | 6.62e-08 | 221 |
| GO:001081020 | Esophagus | ESCC | regulation of cell-substrate adhesion | 144/8552 | 221/18723 | 3.55e-09 | 7.45e-08 | 144 |
| GO:0051258111 | Esophagus | ESCC | protein polymerization | 183/8552 | 297/18723 | 1.94e-08 | 3.75e-07 | 183 |
| GO:00705078 | Esophagus | ESCC | regulation of microtubule cytoskeleton organization | 99/8552 | 148/18723 | 1.43e-07 | 2.29e-06 | 99 |
| GO:0032271111 | Esophagus | ESCC | regulation of protein polymerization | 143/8552 | 233/18723 | 9.21e-07 | 1.17e-05 | 143 |
| GO:00311094 | Esophagus | ESCC | microtubule polymerization or depolymerization | 77/8552 | 122/18723 | 7.60e-05 | 5.68e-04 | 77 |
| GO:00467856 | Esophagus | ESCC | microtubule polymerization | 55/8552 | 83/18723 | 1.21e-04 | 8.31e-04 | 55 |
| GO:0031333110 | Esophagus | ESCC | negative regulation of protein-containing complex assembly | 86/8552 | 141/18723 | 1.74e-04 | 1.14e-03 | 86 |
| GO:00311104 | Esophagus | ESCC | regulation of microtubule polymerization or depolymerization | 57/8552 | 88/18723 | 2.32e-04 | 1.44e-03 | 57 |
| GO:003432918 | Esophagus | ESCC | cell junction assembly | 227/8552 | 420/18723 | 3.06e-04 | 1.83e-03 | 227 |
| GO:004521620 | Esophagus | ESCC | cell-cell junction organization | 114/8552 | 200/18723 | 8.04e-04 | 4.16e-03 | 114 |
| GO:00328864 | Esophagus | ESCC | regulation of microtubule-based process | 134/8552 | 240/18723 | 9.44e-04 | 4.80e-03 | 134 |
| GO:00311138 | Esophagus | ESCC | regulation of microtubule polymerization | 36/8552 | 55/18723 | 2.43e-03 | 1.06e-02 | 36 |
| GO:004329718 | Esophagus | ESCC | apical junction assembly | 48/8552 | 78/18723 | 3.45e-03 | 1.41e-02 | 48 |
| GO:000645712 | Liver | HCC | protein folding | 160/7958 | 212/18723 | 1.07e-22 | 1.88e-20 | 160 |
| GO:004325422 | Liver | HCC | regulation of protein-containing complex assembly | 264/7958 | 428/18723 | 5.47e-16 | 4.39e-14 | 264 |
| Page: 1 2 3 4 5 6 |
| 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 |
| TBCD | SNV | Missense_Mutation | c.1192N>A | p.Asp398Asn | p.D398N | Q9BTW9 | protein_coding | deleterious(0) | possibly_damaging(0.632) | TCGA-A2-A04W-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD | |
| TBCD | SNV | Missense_Mutation | c.1139C>T | p.Ala380Val | p.A380V | Q9BTW9 | protein_coding | deleterious(0) | probably_damaging(0.958) | TCGA-A2-A0D2-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
| TBCD | SNV | Missense_Mutation | novel | c.2086N>A | p.Gly696Ser | p.G696S | Q9BTW9 | protein_coding | tolerated(0.23) | benign(0.143) | TCGA-BH-A0DH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophosphamide | SD |
| TBCD | SNV | Missense_Mutation | c.3277N>A | p.Ala1093Thr | p.A1093T | Q9BTW9 | protein_coding | tolerated(0.58) | benign(0.124) | TCGA-BH-A0HA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| TBCD | SNV | Missense_Mutation | c.214N>G | p.His72Asp | p.H72D | Q9BTW9 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-C8-A26Y-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| TBCD | SNV | Missense_Mutation | c.619N>T | p.Ala207Ser | p.A207S | Q9BTW9 | protein_coding | deleterious(0.02) | benign(0.197) | TCGA-E9-A1RC-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | tamoxiphen | SD | |
| TBCD | SNV | Missense_Mutation | novel | c.2720N>A | p.Ala907Asp | p.A907D | Q9BTW9 | protein_coding | deleterious(0) | probably_damaging(0.947) | TCGA-OL-A6VR-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| TBCD | deletion | Frame_Shift_Del | novel | c.3379delA | p.Thr1127ProfsTer26 | p.T1127Pfs*26 | Q9BTW9 | protein_coding | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD | ||
| TBCD | SNV | Missense_Mutation | novel | c.277N>G | p.Thr93Ala | p.T93A | Q9BTW9 | protein_coding | tolerated(0.83) | benign(0) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| TBCD | SNV | Missense_Mutation | rs746252497 | c.3169N>A | p.Asp1057Asn | p.D1057N | Q9BTW9 | protein_coding | deleterious(0.04) | probably_damaging(0.921) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
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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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