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Gene: LIMA1 |
Gene summary for LIMA1 |
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Gene information | Species | Human | Gene symbol | LIMA1 | Gene ID | 51474 |
Gene name | LIM domain and actin binding 1 | |
Gene Alias | EPLIN | |
Cytomap | 12q13.12 | |
Gene Type | protein-coding | GO ID | GO:0003008 | UniProtAcc | Q9UHB6 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
51474 | LIMA1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 4.64e-07 | -4.28e-01 | 0.0155 |
51474 | LIMA1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 5.42e-03 | 4.86e-01 | -0.1808 |
51474 | LIMA1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.02e-14 | 9.08e-01 | -0.0811 |
51474 | LIMA1 | HTA11_78_2000001011 | Human | Colorectum | AD | 4.36e-10 | 8.84e-01 | -0.1088 |
51474 | LIMA1 | HTA11_347_2000001011 | Human | Colorectum | AD | 4.31e-47 | 1.47e+00 | -0.1954 |
51474 | LIMA1 | HTA11_411_2000001011 | Human | Colorectum | SER | 9.42e-23 | 1.43e+00 | -0.2602 |
51474 | LIMA1 | HTA11_83_2000001011 | Human | Colorectum | SER | 3.29e-17 | 1.11e+00 | -0.1526 |
51474 | LIMA1 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.04e-09 | 7.41e-01 | -0.1464 |
51474 | LIMA1 | HTA11_866_2000001011 | Human | Colorectum | AD | 4.67e-10 | 7.02e-01 | -0.1001 |
51474 | LIMA1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.08e-11 | 1.17e+00 | -0.059 |
51474 | LIMA1 | HTA11_2992_2000001011 | Human | Colorectum | SER | 6.10e-03 | 5.73e-01 | -0.1706 |
51474 | LIMA1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 5.54e-03 | 5.95e-01 | -0.2061 |
51474 | LIMA1 | HTA11_546_2000001011 | Human | Colorectum | AD | 2.13e-02 | 5.40e-01 | -0.0842 |
51474 | LIMA1 | HTA11_866_3004761011 | Human | Colorectum | AD | 2.86e-04 | -5.25e-01 | 0.096 |
51474 | LIMA1 | HTA11_6818_2000001021 | Human | Colorectum | AD | 9.71e-07 | -6.40e-01 | 0.0588 |
51474 | LIMA1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.31e-16 | -5.79e-01 | 0.294 |
51474 | LIMA1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 2.57e-21 | -6.03e-01 | 0.3859 |
51474 | LIMA1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 1.93e-11 | -8.36e-01 | 0.2585 |
51474 | LIMA1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 4.57e-38 | -8.52e-01 | 0.3005 |
51474 | LIMA1 | F007 | Human | Colorectum | FAP | 4.81e-06 | -5.95e-01 | 0.1176 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0007015 | Colorectum | AD | actin filament organization | 167/3918 | 442/18723 | 1.65e-16 | 7.94e-14 | 167 |
GO:0032535 | Colorectum | AD | regulation of cellular component size | 142/3918 | 383/18723 | 1.74e-13 | 3.41e-11 | 142 |
GO:1902903 | Colorectum | AD | regulation of supramolecular fiber organization | 139/3918 | 383/18723 | 2.01e-12 | 3.19e-10 | 139 |
GO:0032970 | Colorectum | AD | regulation of actin filament-based process | 142/3918 | 397/18723 | 4.05e-12 | 5.90e-10 | 142 |
GO:0110053 | Colorectum | AD | regulation of actin filament organization | 108/3918 | 278/18723 | 5.02e-12 | 6.98e-10 | 108 |
GO:0008154 | Colorectum | AD | actin polymerization or depolymerization | 90/3918 | 218/18723 | 6.14e-12 | 8.23e-10 | 90 |
GO:0008064 | Colorectum | AD | regulation of actin polymerization or depolymerization | 79/3918 | 188/18723 | 4.17e-11 | 4.74e-09 | 79 |
GO:0030832 | Colorectum | AD | regulation of actin filament length | 79/3918 | 189/18723 | 5.71e-11 | 6.27e-09 | 79 |
GO:0032956 | Colorectum | AD | regulation of actin cytoskeleton organization | 127/3918 | 358/18723 | 1.03e-10 | 1.04e-08 | 127 |
GO:0022411 | Colorectum | AD | cellular component disassembly | 147/3918 | 443/18723 | 8.53e-10 | 6.76e-08 | 147 |
GO:0032984 | Colorectum | AD | protein-containing complex disassembly | 81/3918 | 224/18723 | 9.41e-08 | 4.65e-06 | 81 |
GO:0010639 | Colorectum | AD | negative regulation of organelle organization | 114/3918 | 348/18723 | 1.41e-07 | 6.49e-06 | 114 |
GO:0061572 | Colorectum | AD | actin filament bundle organization | 60/3918 | 161/18723 | 1.33e-06 | 4.23e-05 | 60 |
GO:0051017 | Colorectum | AD | actin filament bundle assembly | 58/3918 | 157/18723 | 2.74e-06 | 7.89e-05 | 58 |
GO:1902904 | Colorectum | AD | negative regulation of supramolecular fiber organization | 60/3918 | 167/18723 | 5.23e-06 | 1.35e-04 | 60 |
GO:0051494 | Colorectum | AD | negative regulation of cytoskeleton organization | 58/3918 | 163/18723 | 1.04e-05 | 2.40e-04 | 58 |
GO:0030042 | Colorectum | AD | actin filament depolymerization | 27/3918 | 59/18723 | 1.65e-05 | 3.47e-04 | 27 |
GO:0006066 | Colorectum | AD | alcohol metabolic process | 106/3918 | 353/18723 | 3.02e-05 | 5.57e-04 | 106 |
GO:0030834 | Colorectum | AD | regulation of actin filament depolymerization | 24/3918 | 54/18723 | 8.58e-05 | 1.33e-03 | 24 |
GO:0030835 | Colorectum | AD | negative regulation of actin filament depolymerization | 20/3918 | 45/18723 | 3.28e-04 | 3.86e-03 | 20 |
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 |
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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 |
LIMA1 | SNV | Missense_Mutation | c.1610N>T | p.Thr537Ile | p.T537I | Q9UHB6 | protein_coding | deleterious(0.01) | benign(0.174) | TCGA-G4-6304-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Chemotherapy | fluorouracil | PD | |
LIMA1 | SNV | Missense_Mutation | rs766724186 | c.2251N>T | p.Arg751Trp | p.R751W | Q9UHB6 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
LIMA1 | SNV | Missense_Mutation | novel | c.539N>G | p.Asn180Ser | p.N180S | Q9UHB6 | protein_coding | tolerated(0.15) | benign(0.139) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
LIMA1 | SNV | Missense_Mutation | novel | c.231N>T | p.Glu77Asp | p.E77D | Q9UHB6 | protein_coding | deleterious(0) | probably_damaging(0.991) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
LIMA1 | SNV | Missense_Mutation | c.1882N>C | p.Gly628Arg | p.G628R | Q9UHB6 | protein_coding | tolerated(0.76) | benign(0.007) | TCGA-CI-6619-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Unknown | Unknown | SD | |
LIMA1 | SNV | Missense_Mutation | novel | c.501A>T | p.Glu167Asp | p.E167D | Q9UHB6 | protein_coding | tolerated(0.26) | benign(0.003) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
LIMA1 | SNV | Missense_Mutation | novel | c.1531G>A | p.Ala511Thr | p.A511T | Q9UHB6 | protein_coding | tolerated(0.19) | benign(0.336) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
LIMA1 | SNV | Missense_Mutation | novel | c.380N>A | p.Arg127Lys | p.R127K | Q9UHB6 | protein_coding | tolerated(0.58) | benign(0.005) | TCGA-AJ-A3EK-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | carboplatin | CR |
LIMA1 | SNV | Missense_Mutation | c.1489N>A | p.Ala497Thr | p.A497T | Q9UHB6 | protein_coding | deleterious(0.04) | benign(0.436) | TCGA-AP-A051-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
LIMA1 | SNV | Missense_Mutation | rs766724186 | c.2251N>T | p.Arg751Trp | p.R751W | Q9UHB6 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AP-A059-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | 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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