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Gene: GABARAP |
Gene summary for GABARAP |
Gene summary. |
Gene information | Species | Human | Gene symbol | GABARAP | Gene ID | 11337 |
Gene name | GABA type A receptor-associated protein | |
Gene Alias | ATG8A | |
Cytomap | 17p13.1 | |
Gene Type | protein-coding | GO ID | GO:0000045 | UniProtAcc | O95166 |
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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 |
11337 | GABARAP | CA_HPV_1 | Human | Cervix | CC | 1.07e-06 | 3.58e-01 | 0.0264 |
11337 | GABARAP | N_HPV_2 | Human | Cervix | N_HPV | 2.33e-05 | 3.15e-01 | -0.0131 |
11337 | GABARAP | CCI_1 | Human | Cervix | CC | 7.94e-03 | -3.60e-01 | 0.528 |
11337 | GABARAP | CCI_3 | Human | Cervix | CC | 3.28e-02 | -3.44e-01 | 0.516 |
11337 | GABARAP | CCII_1 | Human | Cervix | CC | 1.26e-02 | -3.26e-01 | 0.3249 |
11337 | GABARAP | Tumor | Human | Cervix | CC | 1.01e-03 | -2.37e-01 | 0.1241 |
11337 | GABARAP | sample1 | Human | Cervix | CC | 6.35e-03 | 4.06e-01 | 0.0959 |
11337 | GABARAP | sample3 | Human | Cervix | CC | 3.97e-19 | 5.25e-01 | 0.1387 |
11337 | GABARAP | H2 | Human | Cervix | HSIL_HPV | 1.94e-26 | 6.76e-01 | 0.0632 |
11337 | GABARAP | L1 | Human | Cervix | CC | 1.94e-14 | 6.05e-01 | 0.0802 |
11337 | GABARAP | T1 | Human | Cervix | CC | 4.04e-03 | 3.09e-01 | 0.0918 |
11337 | GABARAP | T2 | Human | Cervix | CC | 5.79e-06 | 5.43e-01 | 0.0709 |
11337 | GABARAP | T3 | Human | Cervix | CC | 1.17e-18 | 5.50e-01 | 0.1389 |
11337 | GABARAP | AEH-subject1 | Human | Endometrium | AEH | 9.75e-22 | 6.29e-01 | -0.3059 |
11337 | GABARAP | AEH-subject2 | Human | Endometrium | AEH | 9.74e-21 | 6.07e-01 | -0.2525 |
11337 | GABARAP | AEH-subject3 | Human | Endometrium | AEH | 1.45e-24 | 6.82e-01 | -0.2576 |
11337 | GABARAP | AEH-subject4 | Human | Endometrium | AEH | 1.41e-10 | 4.52e-01 | -0.2657 |
11337 | GABARAP | AEH-subject5 | Human | Endometrium | AEH | 2.87e-18 | 5.19e-01 | -0.2953 |
11337 | GABARAP | EEC-subject1 | Human | Endometrium | EEC | 1.60e-17 | 5.12e-01 | -0.2682 |
11337 | GABARAP | EEC-subject2 | Human | Endometrium | EEC | 1.21e-10 | 4.36e-01 | -0.2607 |
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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:2000058112 | Skin | SCCIS | regulation of ubiquitin-dependent protein catabolic process | 26/919 | 164/18723 | 1.18e-07 | 1.52e-05 | 26 |
GO:0045862112 | Skin | SCCIS | positive regulation of proteolysis | 43/919 | 372/18723 | 1.69e-07 | 1.91e-05 | 43 |
GO:1903320112 | Skin | SCCIS | regulation of protein modification by small protein conjugation or removal | 32/919 | 242/18723 | 3.31e-07 | 3.03e-05 | 32 |
GO:0031396112 | Skin | SCCIS | regulation of protein ubiquitination | 28/919 | 210/18723 | 1.51e-06 | 8.89e-05 | 28 |
GO:0061136112 | Skin | SCCIS | regulation of proteasomal protein catabolic process | 26/919 | 187/18723 | 1.60e-06 | 9.11e-05 | 26 |
GO:0009896112 | Skin | SCCIS | positive regulation of catabolic process | 49/919 | 492/18723 | 2.10e-06 | 1.09e-04 | 49 |
GO:0032434112 | Skin | SCCIS | regulation of proteasomal ubiquitin-dependent protein catabolic process | 21/919 | 134/18723 | 2.31e-06 | 1.17e-04 | 21 |
GO:0010498112 | Skin | SCCIS | proteasomal protein catabolic process | 48/919 | 490/18723 | 4.21e-06 | 1.82e-04 | 48 |
GO:2000060112 | Skin | SCCIS | positive regulation of ubiquitin-dependent protein catabolic process | 18/919 | 107/18723 | 4.32e-06 | 1.85e-04 | 18 |
GO:1903052111 | Skin | SCCIS | positive regulation of proteolysis involved in cellular protein catabolic process | 20/919 | 133/18723 | 7.61e-06 | 2.80e-04 | 20 |
GO:0043161112 | Skin | SCCIS | proteasome-mediated ubiquitin-dependent protein catabolic process | 41/919 | 412/18723 | 1.44e-05 | 4.73e-04 | 41 |
GO:005105616 | Skin | SCCIS | regulation of small GTPase mediated signal transduction | 33/919 | 302/18723 | 1.49e-05 | 4.86e-04 | 33 |
GO:0071496112 | Skin | SCCIS | cellular response to external stimulus | 34/919 | 320/18723 | 2.01e-05 | 5.97e-04 | 34 |
GO:000726517 | Skin | SCCIS | Ras protein signal transduction | 35/919 | 337/18723 | 2.48e-05 | 6.96e-04 | 35 |
GO:0097191112 | Skin | SCCIS | extrinsic apoptotic signaling pathway | 26/919 | 219/18723 | 2.87e-05 | 7.82e-04 | 26 |
GO:0032436112 | Skin | SCCIS | positive regulation of proteasomal ubiquitin-dependent protein catabolic process | 15/919 | 90/18723 | 3.00e-05 | 8.12e-04 | 15 |
GO:0031331112 | Skin | SCCIS | positive regulation of cellular catabolic process | 41/919 | 427/18723 | 3.33e-05 | 8.88e-04 | 41 |
GO:1901800111 | Skin | SCCIS | positive regulation of proteasomal protein catabolic process | 17/919 | 114/18723 | 4.02e-05 | 1.03e-03 | 17 |
GO:0008625110 | Skin | SCCIS | extrinsic apoptotic signaling pathway via death domain receptors | 13/919 | 82/18723 | 1.69e-04 | 3.32e-03 | 13 |
GO:0031668112 | Skin | SCCIS | cellular response to extracellular stimulus | 26/919 | 246/18723 | 2.00e-04 | 3.79e-03 | 26 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0413718 | Cervix | CC | Mitophagy - animal | 22/1267 | 72/8465 | 5.77e-04 | 2.75e-03 | 1.63e-03 | 22 |
hsa046213 | Cervix | CC | NOD-like receptor signaling pathway | 41/1267 | 186/8465 | 5.90e-03 | 1.95e-02 | 1.15e-02 | 41 |
hsa0413719 | Cervix | CC | Mitophagy - animal | 22/1267 | 72/8465 | 5.77e-04 | 2.75e-03 | 1.63e-03 | 22 |
hsa0462112 | Cervix | CC | NOD-like receptor signaling pathway | 41/1267 | 186/8465 | 5.90e-03 | 1.95e-02 | 1.15e-02 | 41 |
hsa0413724 | Cervix | N_HPV | Mitophagy - animal | 10/349 | 72/8465 | 6.84e-04 | 5.03e-03 | 3.93e-03 | 10 |
hsa0413734 | Cervix | N_HPV | Mitophagy - animal | 10/349 | 72/8465 | 6.84e-04 | 5.03e-03 | 3.93e-03 | 10 |
hsa0413720 | Endometrium | AEH | Mitophagy - animal | 21/1197 | 72/8465 | 7.03e-04 | 4.86e-03 | 3.56e-03 | 21 |
hsa04137110 | Endometrium | AEH | Mitophagy - animal | 21/1197 | 72/8465 | 7.03e-04 | 4.86e-03 | 3.56e-03 | 21 |
hsa0413725 | Endometrium | EEC | Mitophagy - animal | 22/1237 | 72/8465 | 4.12e-04 | 3.30e-03 | 2.46e-03 | 22 |
hsa0413735 | Endometrium | EEC | Mitophagy - animal | 22/1237 | 72/8465 | 4.12e-04 | 3.30e-03 | 2.46e-03 | 22 |
hsa0413730 | Esophagus | HGIN | Mitophagy - animal | 23/1383 | 72/8465 | 7.69e-04 | 7.59e-03 | 6.03e-03 | 23 |
hsa046219 | Esophagus | HGIN | NOD-like receptor signaling pathway | 45/1383 | 186/8465 | 3.40e-03 | 2.54e-02 | 2.02e-02 | 45 |
hsa04137113 | Esophagus | HGIN | Mitophagy - animal | 23/1383 | 72/8465 | 7.69e-04 | 7.59e-03 | 6.03e-03 | 23 |
hsa0462114 | Esophagus | HGIN | NOD-like receptor signaling pathway | 45/1383 | 186/8465 | 3.40e-03 | 2.54e-02 | 2.02e-02 | 45 |
hsa0414010 | Esophagus | ESCC | Autophagy - animal | 101/4205 | 141/8465 | 7.60e-08 | 6.21e-07 | 3.18e-07 | 101 |
hsa04137210 | Esophagus | ESCC | Mitophagy - animal | 54/4205 | 72/8465 | 9.33e-06 | 4.96e-05 | 2.54e-05 | 54 |
hsa040689 | Esophagus | ESCC | FoxO signaling pathway | 89/4205 | 131/8465 | 1.56e-05 | 7.98e-05 | 4.09e-05 | 89 |
hsa0462122 | Esophagus | ESCC | NOD-like receptor signaling pathway | 116/4205 | 186/8465 | 2.90e-04 | 1.03e-03 | 5.30e-04 | 116 |
hsa041362 | Esophagus | ESCC | Autophagy - other | 23/4205 | 32/8465 | 8.99e-03 | 2.14e-02 | 1.09e-02 | 23 |
hsa0414015 | Esophagus | ESCC | Autophagy - animal | 101/4205 | 141/8465 | 7.60e-08 | 6.21e-07 | 3.18e-07 | 101 |
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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 |
GABARAP | SNV | Missense_Mutation | c.80N>G | p.Asp27Gly | p.D27G | O95166 | protein_coding | deleterious(0.02) | benign(0.043) | TCGA-E2-A15G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
GABARAP | SNV | Missense_Mutation | c.217N>A | p.Glu73Lys | p.E73K | O95166 | protein_coding | deleterious(0.01) | benign(0.369) | TCGA-IR-A3LA-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
GABARAP | SNV | Missense_Mutation | novel | c.269N>T | p.Thr90Ile | p.T90I | O95166 | protein_coding | tolerated(0.35) | benign(0.158) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
GABARAP | SNV | Missense_Mutation | novel | c.60N>T | p.Lys20Asn | p.K20N | O95166 | protein_coding | tolerated(0.08) | benign(0.214) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GABARAP | SNV | Missense_Mutation | novel | c.69N>T | p.Lys23Asn | p.K23N | O95166 | protein_coding | tolerated(0.17) | benign(0.017) | TCGA-AX-A0J0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GABARAP | SNV | Missense_Mutation | c.300N>C | p.Glu100Asp | p.E100D | O95166 | protein_coding | tolerated(1) | benign(0.003) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
GABARAP | SNV | Missense_Mutation | rs781270795 | c.303A>C | p.Glu101Asp | p.E101D | O95166 | protein_coding | tolerated(0.14) | benign(0.003) | TCGA-B5-A3FC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
GABARAP | SNV | Missense_Mutation | novel | c.271A>C | p.Met91Leu | p.M91L | O95166 | protein_coding | tolerated(0.07) | benign(0.05) | TCGA-EO-A22U-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
GABARAP | SNV | Missense_Mutation | novel | c.122T>C | p.Ile41Thr | p.I41T | O95166 | protein_coding | deleterious(0.01) | benign(0.267) | TCGA-EO-A22U-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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