Tissue | Expression Dynamics | Abbreviation |
Colorectum (GSE201348) | ![The image shows the 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.](images/deg_images/Colorectum/Becker/LETM1_pca_on_diff_genes.png) | FAP: Familial adenomatous polyposis |
CRC: Colorectal cancer |
Colorectum (HTA11) | ![The image shows the 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.](images/deg_images/Colorectum/Chen/LETM1_pca_on_diff_genes.png) | AD: Adenomas |
SER: Sessile serrated lesions |
MSI-H: Microsatellite-high colorectal cancer |
MSS: Microsatellite stable colorectal cancer |
Esophagus | ![The image shows the 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.](images/deg_images/Esophagus/LETM1_pca_on_diff_genes.png) | ESCC: Esophageal squamous cell carcinoma |
HGIN: High-grade intraepithelial neoplasias |
LGIN: Low-grade intraepithelial neoplasias |
Liver | ![The image shows the 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.](images/deg_images/Liver/LETM1_pca_on_diff_genes.png) | HCC: Hepatocellular carcinoma |
NAFLD: Non-alcoholic fatty liver disease |
Oral Cavity | ![The image shows the 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.](images/deg_images/OralCavity/LETM1_pca_on_diff_genes.png) | EOLP: Erosive Oral lichen planus |
LP: leukoplakia |
NEOLP: Non-erosive oral lichen planus |
OSCC: Oral squamous cell carcinoma |
Skin | ![The image shows the 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.](images/deg_images/Skin/LETM1_pca_on_diff_genes.png) | AK: Actinic keratosis |
cSCC: Cutaneous squamous cell carcinoma |
SCCIS:squamous cell carcinoma in situ |
Thyroid | ![The image shows the 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.](images/deg_images/Thyroid/LETM1_pca_on_diff_genes.png) | ATC: Anaplastic thyroid cancer |
HT: Hashimoto's thyroiditis |
PTC: Papillary thyroid cancer |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:199054224 | Skin | cSCC | mitochondrial transmembrane transport | 43/4864 | 102/18723 | 2.68e-04 | 2.16e-03 | 43 |
GO:000697021 | Skin | cSCC | response to osmotic stress | 35/4864 | 84/18723 | 1.23e-03 | 7.97e-03 | 35 |
GO:005123527 | Skin | cSCC | maintenance of location | 106/4864 | 327/18723 | 5.17e-03 | 2.61e-02 | 106 |
GO:005165128 | Skin | cSCC | maintenance of location in cell | 72/4864 | 214/18723 | 7.37e-03 | 3.47e-02 | 72 |
GO:00424073 | Skin | cSCC | cristae formation | 9/4864 | 16/18723 | 9.73e-03 | 4.31e-02 | 9 |
GO:000683928 | Thyroid | PTC | mitochondrial transport | 150/5968 | 254/18723 | 2.76e-19 | 3.34e-17 | 150 |
GO:0062197113 | Thyroid | PTC | cellular response to chemical stress | 180/5968 | 337/18723 | 1.36e-16 | 1.16e-14 | 180 |
GO:0071214111 | Thyroid | PTC | cellular response to abiotic stimulus | 158/5968 | 331/18723 | 9.90e-10 | 2.89e-08 | 158 |
GO:0104004111 | Thyroid | PTC | cellular response to environmental stimulus | 158/5968 | 331/18723 | 9.90e-10 | 2.89e-08 | 158 |
GO:000700624 | Thyroid | PTC | mitochondrial membrane organization | 68/5968 | 116/18723 | 2.47e-09 | 6.88e-08 | 68 |
GO:0051235112 | Thyroid | PTC | maintenance of location | 148/5968 | 327/18723 | 2.30e-07 | 4.07e-06 | 148 |
GO:199054225 | Thyroid | PTC | mitochondrial transmembrane transport | 57/5968 | 102/18723 | 4.49e-07 | 7.38e-06 | 57 |
GO:0051651113 | Thyroid | PTC | maintenance of location in cell | 100/5968 | 214/18723 | 3.65e-06 | 4.67e-05 | 100 |
GO:00068515 | Thyroid | PTC | mitochondrial calcium ion transmembrane transport | 16/5968 | 20/18723 | 1.31e-05 | 1.42e-04 | 16 |
GO:00515608 | Thyroid | PTC | mitochondrial calcium ion homeostasis | 19/5968 | 26/18723 | 1.93e-05 | 1.98e-04 | 19 |
GO:00070078 | Thyroid | PTC | inner mitochondrial membrane organization | 24/5968 | 38/18723 | 7.14e-05 | 6.19e-04 | 24 |
GO:00069709 | Thyroid | PTC | response to osmotic stress | 42/5968 | 84/18723 | 4.07e-04 | 2.73e-03 | 42 |
GO:00714743 | Thyroid | PTC | cellular hyperosmotic response | 11/5968 | 15/18723 | 1.19e-03 | 6.84e-03 | 11 |
GO:00714709 | Thyroid | PTC | cellular response to osmotic stress | 22/5968 | 41/18723 | 3.11e-03 | 1.53e-02 | 22 |
GO:0006972 | Thyroid | PTC | hyperosmotic response | 16/5968 | 28/18723 | 4.99e-03 | 2.31e-02 | 16 |
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 |
LETM1 | SNV | Missense_Mutation | | c.1145N>A | p.Arg382Gln | p.R382Q | O95202 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-A2-A0CX-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD |
LETM1 | SNV | Missense_Mutation | | c.721G>A | p.Glu241Lys | p.E241K | O95202 | protein_coding | deleterious(0.01) | benign(0.327) | TCGA-A2-A0T0-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxotere | SD |
LETM1 | SNV | Missense_Mutation | | c.1845G>A | p.Met615Ile | p.M615I | O95202 | protein_coding | deleterious(0.03) | probably_damaging(0.914) | TCGA-AR-A24R-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | SD |
LETM1 | SNV | Missense_Mutation | | c.730T>A | p.Ser244Thr | p.S244T | O95202 | protein_coding | tolerated(0.29) | probably_damaging(0.996) | TCGA-BH-A0DH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophosphamide | SD |
LETM1 | SNV | Missense_Mutation | | c.870C>A | p.Phe290Leu | p.F290L | O95202 | protein_coding | tolerated(0.08) | possibly_damaging(0.761) | TCGA-BH-A0E2-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicin | SD |
LETM1 | SNV | Missense_Mutation | | c.1605G>C | p.Leu535Phe | p.L535F | O95202 | protein_coding | tolerated(0.05) | benign(0.143) | TCGA-GM-A2D9-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD |
LETM1 | insertion | Frame_Shift_Ins | rs745839823 | c.432_433insC | p.Ala145ArgfsTer61 | p.A145Rfs*61 | O95202 | protein_coding | | | TCGA-AR-A0TY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | PD |
LETM1 | deletion | Frame_Shift_Del | novel | c.1012delN | p.Ile338SerfsTer18 | p.I338Sfs*18 | O95202 | protein_coding | | | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD |
LETM1 | deletion | Frame_Shift_Del | novel | c.635delN | p.Phe212SerfsTer18 | p.F212Sfs*18 | O95202 | protein_coding | | | TCGA-EW-A2FV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | docetaxel | SD |
LETM1 | SNV | Missense_Mutation | rs577048812 | c.1033C>T | p.Arg345Cys | p.R345C | O95202 | protein_coding | deleterious(0) | benign(0.364) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |