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Gene: MAP1LC3A |
Gene summary for MAP1LC3A |
Gene summary. |
Gene information | Species | Human | Gene symbol | MAP1LC3A | Gene ID | 84557 |
Gene name | microtubule associated protein 1 light chain 3 alpha | |
Gene Alias | ATG8E | |
Cytomap | 20q11.22 | |
Gene Type | protein-coding | GO ID | GO:0000045 | UniProtAcc | Q9H492 |
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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 |
84557 | MAP1LC3A | AEH-subject1 | Human | Endometrium | AEH | 4.03e-09 | -3.54e-01 | -0.3059 |
84557 | MAP1LC3A | AEH-subject2 | Human | Endometrium | AEH | 2.16e-05 | -3.33e-01 | -0.2525 |
84557 | MAP1LC3A | AEH-subject3 | Human | Endometrium | AEH | 1.15e-12 | -3.35e-01 | -0.2576 |
84557 | MAP1LC3A | AEH-subject4 | Human | Endometrium | AEH | 2.11e-07 | -4.01e-01 | -0.2657 |
84557 | MAP1LC3A | AEH-subject5 | Human | Endometrium | AEH | 1.19e-07 | -3.47e-01 | -0.2953 |
84557 | MAP1LC3A | EEC-subject1 | Human | Endometrium | EEC | 4.73e-15 | -4.04e-01 | -0.2682 |
84557 | MAP1LC3A | EEC-subject2 | Human | Endometrium | EEC | 8.41e-15 | -3.50e-01 | -0.2607 |
84557 | MAP1LC3A | EEC-subject3 | Human | Endometrium | EEC | 9.29e-39 | -4.83e-01 | -0.2525 |
84557 | MAP1LC3A | EEC-subject4 | Human | Endometrium | EEC | 2.68e-11 | -3.95e-01 | -0.2571 |
84557 | MAP1LC3A | EEC-subject5 | Human | Endometrium | EEC | 4.89e-03 | -2.71e-01 | -0.249 |
84557 | MAP1LC3A | GSM5276934 | Human | Endometrium | EEC | 4.33e-02 | -1.48e-01 | -0.0913 |
84557 | MAP1LC3A | GSM6177620_NYU_UCEC1_lib1_lib1 | Human | Endometrium | EEC | 2.55e-28 | -5.49e-01 | -0.1869 |
84557 | MAP1LC3A | GSM6177620_NYU_UCEC1_lib2_lib2 | Human | Endometrium | EEC | 2.06e-27 | -5.08e-01 | -0.1875 |
84557 | MAP1LC3A | GSM6177620_NYU_UCEC1_lib3_lib3 | Human | Endometrium | EEC | 1.66e-28 | -5.27e-01 | -0.1883 |
84557 | MAP1LC3A | GSM6177621_NYU_UCEC2_lib1_lib1 | Human | Endometrium | EEC | 5.58e-36 | -5.27e-01 | -0.1934 |
84557 | MAP1LC3A | GSM6177622_NYU_UCEC3_lib1_lib1 | Human | Endometrium | EEC | 2.40e-39 | -5.09e-01 | -0.1917 |
84557 | MAP1LC3A | GSM6177622_NYU_UCEC3_lib2_lib2 | Human | Endometrium | EEC | 1.47e-39 | -5.31e-01 | -0.1916 |
84557 | MAP1LC3A | GSM6177623_NYU_UCEC3_Vis | Human | Endometrium | EEC | 2.27e-05 | -2.19e-01 | -0.1269 |
84557 | MAP1LC3A | LZE4T | Human | Esophagus | ESCC | 1.41e-12 | 3.93e-01 | 0.0811 |
84557 | MAP1LC3A | LZE20T | Human | Esophagus | ESCC | 4.86e-02 | 2.26e-02 | 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 |
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:000697916 | Endometrium | AEH | response to oxidative stress | 93/2100 | 446/18723 | 1.94e-09 | 1.64e-07 | 93 |
GO:000030216 | Endometrium | AEH | response to reactive oxygen species | 54/2100 | 222/18723 | 2.54e-08 | 1.49e-06 | 54 |
GO:006219716 | Endometrium | AEH | cellular response to chemical stress | 71/2100 | 337/18723 | 1.03e-07 | 5.05e-06 | 71 |
GO:004254215 | Endometrium | AEH | response to hydrogen peroxide | 38/2100 | 146/18723 | 4.70e-07 | 1.92e-05 | 38 |
GO:00004228 | Endometrium | AEH | autophagy of mitochondrion | 24/2100 | 81/18723 | 5.41e-06 | 1.36e-04 | 24 |
GO:00617268 | Endometrium | AEH | mitochondrion disassembly | 24/2100 | 81/18723 | 5.41e-06 | 1.36e-04 | 24 |
GO:003459916 | Endometrium | AEH | cellular response to oxidative stress | 58/2100 | 288/18723 | 6.49e-06 | 1.58e-04 | 58 |
GO:002241115 | Endometrium | AEH | cellular component disassembly | 80/2100 | 443/18723 | 1.07e-05 | 2.45e-04 | 80 |
GO:19030086 | Endometrium | AEH | organelle disassembly | 29/2100 | 114/18723 | 1.66e-05 | 3.43e-04 | 29 |
GO:00329848 | Endometrium | AEH | protein-containing complex disassembly | 45/2100 | 224/18723 | 7.16e-05 | 1.10e-03 | 45 |
GO:003461415 | Endometrium | AEH | cellular response to reactive oxygen species | 34/2100 | 155/18723 | 9.00e-05 | 1.30e-03 | 34 |
GO:001003816 | Endometrium | AEH | response to metal ion | 65/2100 | 373/18723 | 2.02e-04 | 2.54e-03 | 65 |
GO:007149616 | Endometrium | AEH | cellular response to external stimulus | 57/2100 | 320/18723 | 2.72e-04 | 3.14e-03 | 57 |
GO:003166716 | Endometrium | AEH | response to nutrient levels | 78/2100 | 474/18723 | 3.26e-04 | 3.64e-03 | 78 |
GO:00162368 | Endometrium | AEH | macroautophagy | 52/2100 | 291/18723 | 4.56e-04 | 4.80e-03 | 52 |
GO:00092679 | Endometrium | AEH | cellular response to starvation | 31/2100 | 156/18723 | 1.08e-03 | 9.46e-03 | 31 |
GO:00316699 | Endometrium | AEH | cellular response to nutrient levels | 39/2100 | 215/18723 | 1.66e-03 | 1.36e-02 | 39 |
GO:003166810 | Endometrium | AEH | cellular response to extracellular stimulus | 43/2100 | 246/18723 | 2.10e-03 | 1.63e-02 | 43 |
GO:00425949 | Endometrium | AEH | response to starvation | 36/2100 | 197/18723 | 2.15e-03 | 1.65e-02 | 36 |
GO:00703015 | Endometrium | AEH | cellular response to hydrogen peroxide | 20/2100 | 98/18723 | 5.64e-03 | 3.46e-02 | 20 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0501414 | Liver | Cirrhotic | Amyotrophic lateral sclerosis | 187/2530 | 364/8465 | 1.56e-18 | 6.50e-17 | 4.01e-17 | 187 |
hsa0502214 | Liver | Cirrhotic | Pathways of neurodegeneration - multiple diseases | 217/2530 | 476/8465 | 7.30e-14 | 2.03e-12 | 1.25e-12 | 217 |
hsa0513122 | Liver | Cirrhotic | Shigellosis | 105/2530 | 247/8465 | 1.31e-05 | 1.21e-04 | 7.48e-05 | 105 |
hsa0413721 | Liver | Cirrhotic | Mitophagy - animal | 39/2530 | 72/8465 | 1.38e-05 | 1.24e-04 | 7.64e-05 | 39 |
hsa041406 | Liver | Cirrhotic | Autophagy - animal | 65/2530 | 141/8465 | 3.10e-05 | 2.47e-04 | 1.52e-04 | 65 |
hsa0421621 | Liver | Cirrhotic | Ferroptosis | 23/2530 | 41/8465 | 4.09e-04 | 2.57e-03 | 1.58e-03 | 23 |
hsa0516714 | Liver | Cirrhotic | Kaposi sarcoma-associated herpesvirus infection | 73/2530 | 194/8465 | 1.17e-02 | 3.81e-02 | 2.35e-02 | 73 |
hsa0501415 | Liver | Cirrhotic | Amyotrophic lateral sclerosis | 187/2530 | 364/8465 | 1.56e-18 | 6.50e-17 | 4.01e-17 | 187 |
hsa0502215 | Liver | Cirrhotic | Pathways of neurodegeneration - multiple diseases | 217/2530 | 476/8465 | 7.30e-14 | 2.03e-12 | 1.25e-12 | 217 |
hsa0513132 | Liver | Cirrhotic | Shigellosis | 105/2530 | 247/8465 | 1.31e-05 | 1.21e-04 | 7.48e-05 | 105 |
hsa0413731 | Liver | Cirrhotic | Mitophagy - animal | 39/2530 | 72/8465 | 1.38e-05 | 1.24e-04 | 7.64e-05 | 39 |
hsa0414011 | Liver | Cirrhotic | Autophagy - animal | 65/2530 | 141/8465 | 3.10e-05 | 2.47e-04 | 1.52e-04 | 65 |
hsa0421631 | Liver | Cirrhotic | Ferroptosis | 23/2530 | 41/8465 | 4.09e-04 | 2.57e-03 | 1.58e-03 | 23 |
hsa0516715 | Liver | Cirrhotic | Kaposi sarcoma-associated herpesvirus infection | 73/2530 | 194/8465 | 1.17e-02 | 3.81e-02 | 2.35e-02 | 73 |
hsa0501422 | Liver | HCC | Amyotrophic lateral sclerosis | 252/4020 | 364/8465 | 8.85e-18 | 7.41e-16 | 4.12e-16 | 252 |
hsa0502222 | Liver | HCC | Pathways of neurodegeneration - multiple diseases | 298/4020 | 476/8465 | 6.59e-12 | 1.30e-10 | 7.22e-11 | 298 |
hsa0414021 | Liver | HCC | Autophagy - animal | 99/4020 | 141/8465 | 3.08e-08 | 4.70e-07 | 2.61e-07 | 99 |
hsa0413741 | Liver | HCC | Mitophagy - animal | 53/4020 | 72/8465 | 5.49e-06 | 4.59e-05 | 2.56e-05 | 53 |
hsa0421641 | Liver | HCC | Ferroptosis | 33/4020 | 41/8465 | 1.42e-05 | 9.88e-05 | 5.50e-05 | 33 |
hsa0513142 | Liver | HCC | Shigellosis | 150/4020 | 247/8465 | 1.53e-05 | 1.04e-04 | 5.81e-05 | 150 |
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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 |
MAP1LC3A | SNV | Missense_Mutation | c.218N>A | p.Arg73His | p.R73H | Q9H492 | protein_coding | deleterious(0.01) | probably_damaging(0.927) | TCGA-DR-A0ZM-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unspecific | Cisplatin | SD | |
MAP1LC3A | SNV | Missense_Mutation | novel | c.9N>A | p.Met3Ile | p.M3I | Q9H492 | protein_coding | tolerated_low_confidence(0.34) | benign(0) | TCGA-FU-A40J-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | carboplatin | CR |
MAP1LC3A | SNV | Missense_Mutation | c.218N>A | p.Arg73His | p.R73H | Q9H492 | protein_coding | deleterious(0.01) | probably_damaging(0.927) | TCGA-MA-AA41-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
MAP1LC3A | SNV | Missense_Mutation | c.118N>A | p.Glu40Lys | p.E40K | Q9H492 | protein_coding | deleterious(0.02) | probably_damaging(0.999) | TCGA-CA-6718-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | PD | |
MAP1LC3A | SNV | Missense_Mutation | c.239N>T | p.Thr80Met | p.T80M | Q9H492 | protein_coding | deleterious(0) | possibly_damaging(0.689) | TCGA-CK-4947-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Other, specify in notes | folinic | SD | |
MAP1LC3A | SNV | Missense_Mutation | rs753652508 | c.299N>T | p.Ala100Val | p.A100V | Q9H492 | protein_coding | deleterious(0.02) | benign(0.044) | TCGA-CK-5914-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
MAP1LC3A | SNV | Missense_Mutation | c.196N>A | p.Glu66Lys | p.E66K | Q9H492 | protein_coding | tolerated(0.07) | probably_damaging(0.973) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
MAP1LC3A | SNV | Missense_Mutation | novel | c.23N>A | p.Ser8Tyr | p.S8Y | Q9H492 | protein_coding | tolerated_low_confidence(0.06) | benign(0.001) | TCGA-AP-A0LM-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | SD |
MAP1LC3A | SNV | Missense_Mutation | novel | c.367T>C | p.Phe123Leu | p.F123L | Q9H492 | protein_coding | tolerated(0.05) | possibly_damaging(0.631) | TCGA-AX-A1C4-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
MAP1LC3A | SNV | Missense_Mutation | novel | c.371G>A | p.Gly124Asp | p.G124D | Q9H492 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AX-A1CE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | 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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