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Gene: GPAA1 |
Gene summary for GPAA1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | GPAA1 | Gene ID | 8733 |
Gene name | glycosylphosphatidylinositol anchor attachment 1 | |
Gene Alias | GAA1 | |
Cytomap | 8q24.3 | |
Gene Type | protein-coding | GO ID | GO:0006464 | UniProtAcc | O43292 |
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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 |
8733 | GPAA1 | GSM4909281 | Human | Breast | IDC | 8.16e-23 | 5.45e-01 | 0.21 |
8733 | GPAA1 | GSM4909285 | Human | Breast | IDC | 6.71e-19 | 4.61e-01 | 0.21 |
8733 | GPAA1 | GSM4909304 | Human | Breast | IDC | 9.87e-07 | 2.72e-01 | 0.1636 |
8733 | GPAA1 | GSM4909306 | Human | Breast | IDC | 3.76e-18 | 5.24e-01 | 0.1564 |
8733 | GPAA1 | GSM4909311 | Human | Breast | IDC | 7.53e-12 | 5.44e-02 | 0.1534 |
8733 | GPAA1 | GSM4909312 | Human | Breast | IDC | 3.72e-16 | 4.75e-01 | 0.1552 |
8733 | GPAA1 | GSM4909317 | Human | Breast | IDC | 7.08e-07 | 3.95e-01 | 0.1355 |
8733 | GPAA1 | GSM4909319 | Human | Breast | IDC | 5.67e-14 | 2.73e-02 | 0.1563 |
8733 | GPAA1 | GSM4909320 | Human | Breast | IDC | 2.41e-03 | -2.10e-01 | 0.1575 |
8733 | GPAA1 | GSM4909321 | Human | Breast | IDC | 6.36e-04 | 3.63e-02 | 0.1559 |
8733 | GPAA1 | brca2 | Human | Breast | Precancer | 2.61e-06 | 2.50e-01 | -0.024 |
8733 | GPAA1 | brca3 | Human | Breast | Precancer | 2.69e-07 | 1.92e-01 | -0.0263 |
8733 | GPAA1 | NCCBC14 | Human | Breast | DCIS | 7.59e-06 | -1.68e-01 | 0.2021 |
8733 | GPAA1 | NCCBC5 | Human | Breast | DCIS | 2.89e-04 | -3.25e-02 | 0.2046 |
8733 | GPAA1 | P1 | Human | Breast | IDC | 1.80e-07 | -1.33e-01 | 0.1527 |
8733 | GPAA1 | DCIS2 | Human | Breast | DCIS | 3.87e-42 | 8.82e-02 | 0.0085 |
8733 | GPAA1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.01e-08 | 3.32e-01 | 0.0155 |
8733 | GPAA1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.54e-10 | 4.82e-01 | -0.1808 |
8733 | GPAA1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 6.23e-08 | 4.04e-01 | -0.0811 |
8733 | GPAA1 | HTA11_78_2000001011 | Human | Colorectum | AD | 4.25e-02 | 2.66e-01 | -0.1088 |
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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 |
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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00516517 | Liver | Cirrhotic | maintenance of location in cell | 76/4634 | 214/18723 | 2.66e-04 | 2.37e-03 | 76 |
GO:00725953 | Liver | Cirrhotic | maintenance of protein localization in organelle | 21/4634 | 42/18723 | 3.57e-04 | 3.03e-03 | 21 |
GO:0006643 | Liver | Cirrhotic | membrane lipid metabolic process | 69/4634 | 203/18723 | 1.89e-03 | 1.19e-02 | 69 |
GO:0035437 | Liver | Cirrhotic | maintenance of protein localization in endoplasmic reticulum | 9/4634 | 14/18723 | 1.99e-03 | 1.23e-02 | 9 |
GO:0042158 | Liver | Cirrhotic | lipoprotein biosynthetic process | 36/4634 | 96/18723 | 3.69e-03 | 2.03e-02 | 36 |
GO:0006497 | Liver | Cirrhotic | protein lipidation | 33/4634 | 92/18723 | 1.12e-02 | 4.92e-02 | 33 |
GO:00086542 | Liver | HCC | phospholipid biosynthetic process | 150/7958 | 253/18723 | 4.77e-08 | 1.03e-06 | 150 |
GO:00066444 | Liver | HCC | phospholipid metabolic process | 214/7958 | 383/18723 | 7.25e-08 | 1.48e-06 | 214 |
GO:007097212 | Liver | HCC | protein localization to endoplasmic reticulum | 54/7958 | 74/18723 | 1.01e-07 | 1.98e-06 | 54 |
GO:005123521 | Liver | HCC | maintenance of location | 185/7958 | 327/18723 | 1.70e-07 | 3.12e-06 | 185 |
GO:004648611 | Liver | HCC | glycerolipid metabolic process | 215/7958 | 392/18723 | 4.54e-07 | 7.49e-06 | 215 |
GO:00421571 | Liver | HCC | lipoprotein metabolic process | 86/7958 | 135/18723 | 5.21e-07 | 8.38e-06 | 86 |
GO:004501711 | Liver | HCC | glycerolipid biosynthetic process | 143/7958 | 252/18723 | 3.27e-06 | 4.31e-05 | 143 |
GO:00066504 | Liver | HCC | glycerophospholipid metabolic process | 168/7958 | 306/18723 | 7.27e-06 | 8.62e-05 | 168 |
GO:004647411 | Liver | HCC | glycerophospholipid biosynthetic process | 121/7958 | 211/18723 | 9.12e-06 | 1.06e-04 | 121 |
GO:004518512 | Liver | HCC | maintenance of protein location | 61/7958 | 94/18723 | 9.61e-06 | 1.12e-04 | 61 |
GO:00066431 | Liver | HCC | membrane lipid metabolic process | 115/7958 | 203/18723 | 3.17e-05 | 3.22e-04 | 115 |
GO:005165112 | Liver | HCC | maintenance of location in cell | 119/7958 | 214/18723 | 7.11e-05 | 6.39e-04 | 119 |
GO:003250712 | Liver | HCC | maintenance of protein location in cell | 43/7958 | 65/18723 | 9.99e-05 | 8.60e-04 | 43 |
GO:00421581 | Liver | HCC | lipoprotein biosynthetic process | 58/7958 | 96/18723 | 2.99e-04 | 2.13e-03 | 58 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa005632 | Esophagus | ESCC | Glycosylphosphatidylinositol (GPI)-anchor biosynthesis | 21/4205 | 26/8465 | 1.10e-03 | 3.42e-03 | 1.75e-03 | 21 |
hsa0056311 | Esophagus | ESCC | Glycosylphosphatidylinositol (GPI)-anchor biosynthesis | 21/4205 | 26/8465 | 1.10e-03 | 3.42e-03 | 1.75e-03 | 21 |
hsa00563 | Liver | HCC | Glycosylphosphatidylinositol (GPI)-anchor biosynthesis | 18/4020 | 26/8465 | 2.08e-02 | 4.81e-02 | 2.68e-02 | 18 |
hsa005631 | Liver | HCC | Glycosylphosphatidylinositol (GPI)-anchor biosynthesis | 18/4020 | 26/8465 | 2.08e-02 | 4.81e-02 | 2.68e-02 | 18 |
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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 |
GPAA1 | SNV | Missense_Mutation | novel | c.1550A>C | p.Asn517Thr | p.N517T | O43292 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-A8-A09I-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | anastrozole | SD |
GPAA1 | SNV | Missense_Mutation | rs781828534 | c.442N>A | p.Val148Met | p.V148M | O43292 | protein_coding | deleterious(0.01) | possibly_damaging(0.903) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
GPAA1 | SNV | Missense_Mutation | c.246N>T | p.Lys82Asn | p.K82N | O43292 | protein_coding | tolerated(0.14) | benign(0.046) | TCGA-C5-A7UH-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | SD | |
GPAA1 | SNV | Missense_Mutation | c.577N>A | p.Glu193Lys | p.E193K | O43292 | protein_coding | deleterious(0.02) | possibly_damaging(0.626) | TCGA-C5-A7UH-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | SD | |
GPAA1 | SNV | Missense_Mutation | rs369617537 | c.958C>T | p.Arg320Cys | p.R320C | O43292 | protein_coding | deleterious(0) | probably_damaging(0.926) | TCGA-AA-3966-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
GPAA1 | SNV | Missense_Mutation | c.535G>T | p.Asp179Tyr | p.D179Y | O43292 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
GPAA1 | SNV | Missense_Mutation | c.857G>T | p.Gly286Val | p.G286V | O43292 | protein_coding | deleterious(0.03) | benign(0.081) | TCGA-CM-5864-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
GPAA1 | SNV | Missense_Mutation | c.156N>C | p.Glu52Asp | p.E52D | O43292 | protein_coding | deleterious(0.01) | probably_damaging(0.978) | TCGA-G4-6295-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
GPAA1 | SNV | Missense_Mutation | rs782263637 | c.898N>A | p.Gly300Ser | p.G300S | O43292 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-EI-6507-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
GPAA1 | SNV | Missense_Mutation | novel | c.1522N>A | p.Leu508Met | p.L508M | O43292 | protein_coding | tolerated(0.17) | benign(0.081) | TCGA-A5-A0G1-01 | 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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