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Gene: LAMTOR5 |
Gene summary for LAMTOR5 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | LAMTOR5 | Gene ID | 10542 |
| Gene name | late endosomal/lysosomal adaptor, MAPK and MTOR activator 5 | |
| Gene Alias | HBXIP | |
| Cytomap | 1p13.3 | |
| Gene Type | protein-coding | GO ID | GO:0001101 | UniProtAcc | A0A0C4DGV4 |
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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 |
| 10542 | LAMTOR5 | CA_HPV_1 | Human | Cervix | CC | 1.66e-07 | -1.41e-01 | 0.0264 |
| 10542 | LAMTOR5 | CA_HPV_3 | Human | Cervix | CC | 2.89e-02 | 6.27e-02 | 0.0414 |
| 10542 | LAMTOR5 | CCI_1 | Human | Cervix | CC | 3.12e-06 | -6.16e-01 | 0.528 |
| 10542 | LAMTOR5 | CCI_3 | Human | Cervix | CC | 1.16e-10 | -6.41e-01 | 0.516 |
| 10542 | LAMTOR5 | CCII_1 | Human | Cervix | CC | 2.33e-14 | -6.34e-01 | 0.3249 |
| 10542 | LAMTOR5 | L1 | Human | Cervix | CC | 3.07e-05 | -4.19e-03 | 0.0802 |
| 10542 | LAMTOR5 | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.50e-02 | 2.23e-01 | -0.1808 |
| 10542 | LAMTOR5 | HTA11_1938_2000001011 | Human | Colorectum | AD | 3.68e-05 | 3.85e-01 | -0.0811 |
| 10542 | LAMTOR5 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.34e-09 | 2.59e-01 | -0.1954 |
| 10542 | LAMTOR5 | HTA11_83_2000001011 | Human | Colorectum | SER | 1.93e-03 | 3.57e-01 | -0.1526 |
| 10542 | LAMTOR5 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.86e-02 | 2.09e-01 | -0.1464 |
| 10542 | LAMTOR5 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.81e-06 | 3.88e-01 | -0.059 |
| 10542 | LAMTOR5 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.70e-09 | 2.90e-01 | 0.096 |
| 10542 | LAMTOR5 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 9.83e-04 | 3.19e-01 | 0.294 |
| 10542 | LAMTOR5 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 7.29e-04 | 3.33e-01 | 0.281 |
| 10542 | LAMTOR5 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.12e-10 | 4.36e-01 | 0.3859 |
| 10542 | LAMTOR5 | AEH-subject1 | Human | Endometrium | AEH | 2.78e-14 | -3.77e-01 | -0.3059 |
| 10542 | LAMTOR5 | AEH-subject2 | Human | Endometrium | AEH | 7.21e-18 | -3.96e-01 | -0.2525 |
| 10542 | LAMTOR5 | AEH-subject3 | Human | Endometrium | AEH | 8.52e-16 | -4.14e-01 | -0.2576 |
| 10542 | LAMTOR5 | AEH-subject4 | Human | Endometrium | AEH | 6.48e-15 | -3.58e-01 | -0.2657 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Cervix |  | CC: Cervix cancer |
| HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions | ||
| N_HPV: HPV-infected normal cervix | ||
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| 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 | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| 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:0061462 | Colorectum | AD | protein localization to lysosome | 19/3918 | 46/18723 | 1.36e-03 | 1.19e-02 | 19 |
| GO:0051091 | Colorectum | AD | positive regulation of DNA-binding transcription factor activity | 73/3918 | 260/18723 | 3.52e-03 | 2.54e-02 | 73 |
| GO:00325351 | Colorectum | SER | regulation of cellular component size | 115/2897 | 383/18723 | 3.04e-13 | 1.10e-10 | 115 |
| GO:00160321 | Colorectum | SER | viral process | 118/2897 | 415/18723 | 8.36e-12 | 1.65e-09 | 118 |
| GO:19038291 | Colorectum | SER | positive regulation of cellular protein localization | 86/2897 | 276/18723 | 3.61e-11 | 6.11e-09 | 86 |
| GO:00510981 | Colorectum | SER | regulation of binding | 97/2897 | 363/18723 | 1.98e-08 | 1.43e-06 | 97 |
| GO:00190581 | Colorectum | SER | viral life cycle | 87/2897 | 317/18723 | 2.82e-08 | 1.94e-06 | 87 |
| GO:19001801 | Colorectum | SER | regulation of protein localization to nucleus | 46/2897 | 136/18723 | 8.50e-08 | 5.27e-06 | 46 |
| GO:00525471 | Colorectum | SER | regulation of peptidase activity | 114/2897 | 461/18723 | 1.18e-07 | 7.17e-06 | 114 |
| GO:19001821 | Colorectum | SER | positive regulation of protein localization to nucleus | 33/2897 | 87/18723 | 2.81e-07 | 1.52e-05 | 33 |
| GO:00458611 | Colorectum | SER | negative regulation of proteolysis | 88/2897 | 351/18723 | 1.74e-06 | 7.50e-05 | 88 |
| GO:00525481 | Colorectum | SER | regulation of endopeptidase activity | 103/2897 | 432/18723 | 2.86e-06 | 1.16e-04 | 103 |
| GO:00345041 | Colorectum | SER | protein localization to nucleus | 74/2897 | 290/18723 | 5.74e-06 | 2.05e-04 | 74 |
| GO:00432811 | Colorectum | SER | regulation of cysteine-type endopeptidase activity involved in apoptotic process | 57/2897 | 209/18723 | 8.08e-06 | 2.74e-04 | 57 |
| GO:20001161 | Colorectum | SER | regulation of cysteine-type endopeptidase activity | 62/2897 | 235/18723 | 1.05e-05 | 3.39e-04 | 62 |
| GO:00510991 | Colorectum | SER | positive regulation of binding | 46/2897 | 173/18723 | 1.12e-04 | 2.34e-03 | 46 |
| GO:00190791 | Colorectum | SER | viral genome replication | 37/2897 | 131/18723 | 1.36e-04 | 2.72e-03 | 37 |
| GO:00511011 | Colorectum | SER | regulation of DNA binding | 33/2897 | 118/18723 | 3.70e-04 | 5.71e-03 | 33 |
| GO:00433881 | Colorectum | SER | positive regulation of DNA binding | 19/2897 | 56/18723 | 4.92e-04 | 7.02e-03 | 19 |
| GO:00431541 | Colorectum | SER | negative regulation of cysteine-type endopeptidase activity involved in apoptotic process | 24/2897 | 78/18723 | 5.04e-04 | 7.16e-03 | 24 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa04150 | Colorectum | MSS | mTOR signaling pathway | 47/1875 | 156/8465 | 1.19e-02 | 3.99e-02 | 2.44e-02 | 47 |
| hsa041501 | Colorectum | MSS | mTOR signaling pathway | 47/1875 | 156/8465 | 1.19e-02 | 3.99e-02 | 2.44e-02 | 47 |
| hsa041505 | Esophagus | ESCC | mTOR signaling pathway | 98/4205 | 156/8465 | 5.81e-04 | 1.95e-03 | 9.97e-04 | 98 |
| hsa0415013 | Esophagus | ESCC | mTOR signaling pathway | 98/4205 | 156/8465 | 5.81e-04 | 1.95e-03 | 9.97e-04 | 98 |
| hsa041502 | Liver | HCC | mTOR signaling pathway | 95/4020 | 156/8465 | 4.70e-04 | 1.99e-03 | 1.11e-03 | 95 |
| hsa0415011 | Liver | HCC | mTOR signaling pathway | 95/4020 | 156/8465 | 4.70e-04 | 1.99e-03 | 1.11e-03 | 95 |
| hsa041504 | Oral cavity | OSCC | mTOR signaling pathway | 90/3704 | 156/8465 | 2.87e-04 | 9.15e-04 | 4.66e-04 | 90 |
| hsa0415012 | Oral cavity | OSCC | mTOR signaling pathway | 90/3704 | 156/8465 | 2.87e-04 | 9.15e-04 | 4.66e-04 | 90 |
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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 |
| LAMTOR5 | insertion | Frame_Shift_Ins | novel | c.183_184insACGGAATTTCGCTCGTCTTCCAGGCT | p.Ala62ThrfsTer43 | p.A62Tfs*43 | protein_coding | TCGA-BH-A0HU-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | docetaxel | SD | |||
| LAMTOR5 | SNV | Missense_Mutation | novel | c.229N>C | p.Glu77Gln | p.E77Q | protein_coding | tolerated_low_confidence(0.61) | benign(0.014) | TCGA-C5-A2LZ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Unknown | Unknown | PD | |
| LAMTOR5 | SNV | Missense_Mutation | rs766029896 | c.347G>A | p.Arg116His | p.R116H | protein_coding | deleterious(0.04) | benign(0.304) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| LAMTOR5 | SNV | Missense_Mutation | rs768953245 | c.292C>T | p.Pro98Ser | p.P98S | protein_coding | deleterious(0.03) | possibly_damaging(0.525) | TCGA-AX-A1CE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | SD | |
| LAMTOR5 | SNV | Missense_Mutation | c.461G>A | p.Gly154Glu | p.G154E | protein_coding | tolerated(0.25) | benign(0.29) | TCGA-B5-A11Y-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
| LAMTOR5 | SNV | Missense_Mutation | novel | c.380N>C | p.Ile127Thr | p.I127T | protein_coding | deleterious(0) | possibly_damaging(0.838) | TCGA-B5-A3FA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| LAMTOR5 | SNV | Missense_Mutation | novel | c.151N>T | p.Arg51Trp | p.R51W | protein_coding | deleterious_low_confidence(0.01) | possibly_damaging(0.528) | TCGA-BG-A222-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| LAMTOR5 | SNV | Missense_Mutation | rs767736737 | c.127N>G | p.Phe43Val | p.F43V | protein_coding | deleterious_low_confidence(0.05) | benign(0.022) | TCGA-EO-A3AV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatin | CR | |
| LAMTOR5 | SNV | Missense_Mutation | novel | c.190N>A | p.Gly64Ser | p.G64S | protein_coding | tolerated_low_confidence(0.13) | benign(0.001) | TCGA-G3-A25Y-01 | Liver | liver hepatocellular carcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
| LAMTOR5 | SNV | Missense_Mutation | rs375886789 | c.196N>A | p.Glu66Lys | p.E66K | protein_coding | tolerated_low_confidence(0.11) | benign(0.015) | TCGA-55-8507-01 | Lung | lung adenocarcinoma | Male | <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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