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Gene: LMX1B |
Gene summary for LMX1B |
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Gene information | Species | Human | Gene symbol | LMX1B | Gene ID | 4010 |
Gene name | LIM homeobox transcription factor 1 beta | |
Gene Alias | FSGS10 | |
Cytomap | 9q33.3 | |
Gene Type | protein-coding | GO ID | GO:0001701 | UniProtAcc | B7ZLH2 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
4010 | LMX1B | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.87e-02 | 1.42e-01 | -0.1808 |
4010 | LMX1B | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.73e-09 | 2.74e-01 | -0.0811 |
4010 | LMX1B | HTA11_78_2000001011 | Human | Colorectum | AD | 4.96e-02 | 1.04e-01 | -0.1088 |
4010 | LMX1B | HTA11_347_2000001011 | Human | Colorectum | AD | 6.35e-08 | 1.94e-01 | -0.1954 |
4010 | LMX1B | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.90e-02 | 3.35e-01 | -0.2196 |
4010 | LMX1B | HTA11_3361_2000001011 | Human | Colorectum | AD | 4.57e-06 | 2.00e-01 | -0.1207 |
4010 | LMX1B | HTA11_696_2000001011 | Human | Colorectum | AD | 9.02e-22 | 3.83e-01 | -0.1464 |
4010 | LMX1B | HTA11_866_2000001011 | Human | Colorectum | AD | 3.61e-02 | 8.69e-02 | -0.1001 |
4010 | LMX1B | HTA11_1391_2000001011 | Human | Colorectum | AD | 6.96e-05 | 1.86e-01 | -0.059 |
4010 | LMX1B | HTA11_2992_2000001011 | Human | Colorectum | SER | 2.52e-10 | 4.42e-01 | -0.1706 |
4010 | LMX1B | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.67e-10 | 4.00e-01 | -0.2061 |
4010 | LMX1B | HTA11_5216_2000001011 | Human | Colorectum | SER | 1.39e-19 | 8.54e-01 | -0.1462 |
4010 | LMX1B | HTA11_546_2000001011 | Human | Colorectum | AD | 2.42e-10 | 4.13e-01 | -0.0842 |
4010 | LMX1B | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 3.42e-04 | 3.77e-01 | 0.3487 |
4010 | LMX1B | HTA11_99999974143_84620 | Human | Colorectum | MSS | 9.04e-05 | 1.23e-01 | 0.3005 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0001701 | Colorectum | AD | in utero embryonic development | 110/3918 | 367/18723 | 2.36e-05 | 4.62e-04 | 110 |
GO:00017011 | Colorectum | SER | in utero embryonic development | 77/2897 | 367/18723 | 2.77e-03 | 2.48e-02 | 77 |
GO:00017012 | Colorectum | MSS | in utero embryonic development | 99/3467 | 367/18723 | 3.71e-05 | 7.10e-04 | 99 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
LMX1B | SNV | Missense_Mutation | rs750526845 | c.1165N>A | p.Val389Met | p.V389M | O60663 | protein_coding | deleterious(0.01) | possibly_damaging(0.9) | TCGA-AA-A01X-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD |
LMX1B | SNV | Missense_Mutation | rs776839118 | c.463N>A | p.Glu155Lys | p.E155K | O60663 | protein_coding | deleterious(0.03) | possibly_damaging(0.814) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
LMX1B | SNV | Missense_Mutation | rs776839118 | c.463G>A | p.Glu155Lys | p.E155K | O60663 | protein_coding | deleterious(0.03) | possibly_damaging(0.814) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
LMX1B | SNV | Missense_Mutation | rs121909491 | c.668G>A | p.Arg223Gln | p.R223Q | O60663 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-G4-6309-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Chemotherapy | xeloda | PD |
LMX1B | SNV | Missense_Mutation | c.460N>A | p.Asp154Asn | p.D154N | O60663 | protein_coding | deleterious(0) | possibly_damaging(0.736) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
LMX1B | SNV | Missense_Mutation | novel | c.710N>T | p.Ser237Phe | p.S237F | O60663 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LMX1B | SNV | Missense_Mutation | c.278N>A | p.Ser93Asn | p.S93N | O60663 | protein_coding | deleterious(0) | possibly_damaging(0.848) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
LMX1B | SNV | Missense_Mutation | rs776839118 | c.463N>A | p.Glu155Lys | p.E155K | O60663 | protein_coding | deleterious(0.03) | possibly_damaging(0.814) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LMX1B | SNV | Missense_Mutation | novel | c.704N>G | p.Lys235Arg | p.K235R | O60663 | protein_coding | deleterious(0.02) | possibly_damaging(0.86) | TCGA-AP-A1DK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LMX1B | SNV | Missense_Mutation | novel | c.1112N>A | p.Ser371Asn | p.S371N | O60663 | protein_coding | tolerated(0.54) | benign(0.009) | TCGA-AX-A2HD-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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