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Gene: PBDC1 |
Gene summary for PBDC1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | PBDC1 | Gene ID | 51260 |
Gene name | polysaccharide biosynthesis domain containing 1 | |
Gene Alias | CXorf26 | |
Cytomap | Xq13.3 | |
Gene Type | protein-coding | GO ID | GO:0008150 | UniProtAcc | A6NDF3 |
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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 |
51260 | PBDC1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.85e-02 | 9.71e-02 | 0.0155 |
51260 | PBDC1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.61e-05 | 1.98e-01 | -0.1808 |
51260 | PBDC1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 3.81e-04 | 2.06e-01 | -0.0811 |
51260 | PBDC1 | HTA11_78_2000001011 | Human | Colorectum | AD | 8.80e-03 | 1.87e-01 | -0.1088 |
51260 | PBDC1 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.11e-15 | 3.18e-01 | -0.1954 |
51260 | PBDC1 | HTA11_83_2000001011 | Human | Colorectum | SER | 8.69e-04 | 1.78e-01 | -0.1526 |
51260 | PBDC1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.92e-07 | 2.42e-01 | -0.059 |
51260 | PBDC1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 5.67e-03 | 2.75e-01 | -0.2061 |
51260 | PBDC1 | HTA11_866_3004761011 | Human | Colorectum | AD | 4.22e-06 | 2.35e-01 | 0.096 |
51260 | PBDC1 | HTA11_7663_2000001011 | Human | Colorectum | SER | 1.88e-03 | 2.58e-01 | 0.0131 |
51260 | PBDC1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.66e-06 | 2.73e-01 | 0.0674 |
51260 | PBDC1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.21e-04 | 2.19e-01 | 0.294 |
51260 | PBDC1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.05e-04 | 2.31e-01 | 0.281 |
51260 | PBDC1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 3.65e-08 | 2.43e-01 | 0.3859 |
51260 | PBDC1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 1.52e-03 | 2.01e-01 | 0.2585 |
51260 | PBDC1 | LZE4T | Human | Esophagus | ESCC | 2.61e-14 | 4.82e-01 | 0.0811 |
51260 | PBDC1 | LZE5T | Human | Esophagus | ESCC | 1.12e-02 | 2.38e-01 | 0.0514 |
51260 | PBDC1 | LZE7T | Human | Esophagus | ESCC | 3.28e-03 | 5.71e-01 | 0.0667 |
51260 | PBDC1 | LZE8T | Human | Esophagus | ESCC | 2.50e-03 | -4.90e-02 | 0.067 |
51260 | PBDC1 | LZE20T | Human | Esophagus | ESCC | 9.83e-04 | 2.81e-01 | 0.0662 |
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Transcriptomic changes along malignancy continuum. |
∗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 |
Liver | Cyst | |
Lung | IAC | |
Lung | AIS | |
Lung | AAH | |
Lung | MIAC |
∗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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
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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. |
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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 |
PBDC1 | SNV | Missense_Mutation | c.94N>A | p.Asp32Asn | p.D32N | Q9BVG4 | protein_coding | deleterious(0.05) | benign(0.195) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD | |
PBDC1 | SNV | Missense_Mutation | c.25N>A | p.Glu9Lys | p.E9K | Q9BVG4 | protein_coding | tolerated_low_confidence(0.1) | benign(0.006) | TCGA-A2-A0T4-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | femara | SD | |
PBDC1 | SNV | Missense_Mutation | rs782784075 | c.100N>C | p.Asp34His | p.D34H | Q9BVG4 | protein_coding | deleterious(0) | possibly_damaging(0.762) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
PBDC1 | SNV | Missense_Mutation | c.524N>A | p.Gly175Glu | p.G175E | Q9BVG4 | protein_coding | tolerated_low_confidence(0.7) | benign(0) | TCGA-BH-A0EE-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | docetaxel | SD | |
PBDC1 | SNV | Missense_Mutation | novel | c.113N>G | p.Ala38Gly | p.A38G | Q9BVG4 | protein_coding | deleterious(0.01) | possibly_damaging(0.785) | TCGA-C5-A1MP-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
PBDC1 | SNV | Missense_Mutation | c.268N>A | p.Glu90Lys | p.E90K | Q9BVG4 | protein_coding | deleterious(0.01) | possibly_damaging(0.905) | TCGA-C5-A3HE-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD | |
PBDC1 | SNV | Missense_Mutation | novel | c.677A>G | p.Asn226Ser | p.N226S | Q9BVG4 | protein_coding | tolerated_low_confidence(0.13) | benign(0) | TCGA-DS-A3LQ-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | SD |
PBDC1 | SNV | Missense_Mutation | novel | c.473T>C | p.Val158Ala | p.V158A | Q9BVG4 | protein_coding | deleterious(0.05) | possibly_damaging(0.63) | TCGA-ZJ-AAXB-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
PBDC1 | SNV | Missense_Mutation | c.697N>G | p.Met233Val | p.M233V | Q9BVG4 | protein_coding | tolerated_low_confidence(0.2) | benign(0) | TCGA-A6-6142-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | fluorouracil | PD | |
PBDC1 | SNV | Missense_Mutation | novel | c.544N>A | p.Gly182Arg | p.G182R | Q9BVG4 | protein_coding | tolerated_low_confidence(0.09) | benign(0) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | 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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