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Gene: LRCH1 |
Gene summary for LRCH1 |
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Gene information | Species | Human | Gene symbol | LRCH1 | Gene ID | 23143 |
Gene name | leucine rich repeats and calponin homology domain containing 1 | |
Gene Alias | CHDC1 | |
Cytomap | 13q14.13-q14.2 | |
Gene Type | protein-coding | GO ID | GO:0002376 | UniProtAcc | Q9Y2L9 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
23143 | LRCH1 | CCI_1 | Human | Cervix | CC | 4.50e-03 | 6.55e-01 | 0.528 |
23143 | LRCH1 | CCI_2 | Human | Cervix | CC | 2.00e-05 | 7.02e-01 | 0.5249 |
23143 | LRCH1 | CCI_3 | Human | Cervix | CC | 3.37e-05 | 4.44e-01 | 0.516 |
23143 | LRCH1 | Tumor | Human | Cervix | CC | 4.41e-03 | -1.32e-01 | 0.1241 |
23143 | LRCH1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.29e-06 | -4.35e-01 | 0.0155 |
23143 | LRCH1 | HTA11_696_2000001011 | Human | Colorectum | AD | 4.15e-06 | -2.63e-01 | -0.1464 |
23143 | LRCH1 | HTA11_866_2000001011 | Human | Colorectum | AD | 2.58e-02 | -2.39e-01 | -0.1001 |
23143 | LRCH1 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.35e-05 | -4.42e-01 | 0.096 |
23143 | LRCH1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 5.59e-05 | -4.51e-01 | 0.0338 |
23143 | LRCH1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 5.91e-09 | -4.06e-01 | 0.0674 |
23143 | LRCH1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.91e-06 | -2.59e-01 | 0.294 |
23143 | LRCH1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 7.38e-07 | 6.93e-01 | 0.281 |
23143 | LRCH1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.06e-02 | -2.99e-01 | 0.3005 |
23143 | LRCH1 | F007 | Human | Colorectum | FAP | 1.76e-02 | 5.66e-02 | 0.1176 |
23143 | LRCH1 | A015-C-203 | Human | Colorectum | FAP | 3.10e-21 | -4.01e-01 | -0.1294 |
23143 | LRCH1 | A015-C-204 | Human | Colorectum | FAP | 8.32e-07 | -3.01e-01 | -0.0228 |
23143 | LRCH1 | A014-C-040 | Human | Colorectum | FAP | 2.49e-03 | -2.42e-01 | -0.1184 |
23143 | LRCH1 | A002-C-201 | Human | Colorectum | FAP | 2.40e-13 | -3.47e-01 | 0.0324 |
23143 | LRCH1 | A001-C-119 | Human | Colorectum | FAP | 1.00e-07 | -2.90e-01 | -0.1557 |
23143 | LRCH1 | A001-C-108 | Human | Colorectum | FAP | 6.79e-09 | -2.37e-01 | -0.0272 |
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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:00026837 | Cervix | CC | negative regulation of immune system process | 94/2311 | 434/18723 | 2.63e-08 | 1.87e-06 | 94 |
GO:00430877 | Cervix | CC | regulation of GTPase activity | 79/2311 | 348/18723 | 4.21e-08 | 2.60e-06 | 79 |
GO:00513469 | Cervix | CC | negative regulation of hydrolase activity | 81/2311 | 379/18723 | 4.27e-07 | 1.67e-05 | 81 |
GO:00509007 | Cervix | CC | leukocyte migration | 78/2311 | 369/18723 | 1.09e-06 | 3.80e-05 | 78 |
GO:00026857 | Cervix | CC | regulation of leukocyte migration | 50/2311 | 210/18723 | 2.95e-06 | 8.31e-05 | 50 |
GO:00716755 | Cervix | CC | regulation of mononuclear cell migration | 31/2311 | 115/18723 | 1.67e-05 | 3.22e-04 | 31 |
GO:00512713 | Cervix | CC | negative regulation of cellular component movement | 73/2311 | 367/18723 | 2.22e-05 | 3.95e-04 | 73 |
GO:00400133 | Cervix | CC | negative regulation of locomotion | 76/2311 | 391/18723 | 3.47e-05 | 5.60e-04 | 76 |
GO:20001463 | Cervix | CC | negative regulation of cell motility | 71/2311 | 359/18723 | 3.47e-05 | 5.60e-04 | 71 |
GO:00303363 | Cervix | CC | negative regulation of cell migration | 68/2311 | 344/18723 | 5.11e-05 | 7.70e-04 | 68 |
GO:00716745 | Cervix | CC | mononuclear cell migration | 40/2311 | 196/18723 | 8.79e-04 | 7.62e-03 | 40 |
GO:20004043 | Cervix | CC | regulation of T cell migration | 13/2311 | 42/18723 | 1.18e-03 | 9.56e-03 | 13 |
GO:00726782 | Cervix | CC | T cell migration | 17/2311 | 66/18723 | 2.20e-03 | 1.58e-02 | 17 |
GO:20004012 | Cervix | CC | regulation of lymphocyte migration | 16/2311 | 61/18723 | 2.40e-03 | 1.70e-02 | 16 |
GO:0043087 | Colorectum | AD | regulation of GTPase activity | 110/3918 | 348/18723 | 1.64e-06 | 5.03e-05 | 110 |
GO:00430872 | Colorectum | MSS | regulation of GTPase activity | 101/3467 | 348/18723 | 1.00e-06 | 3.46e-05 | 101 |
GO:00513461 | Colorectum | MSS | negative regulation of hydrolase activity | 92/3467 | 379/18723 | 2.85e-03 | 2.22e-02 | 92 |
GO:00430873 | Colorectum | FAP | regulation of GTPase activity | 85/2622 | 348/18723 | 1.20e-07 | 7.68e-06 | 85 |
GO:00430874 | Colorectum | CRC | regulation of GTPase activity | 69/2078 | 348/18723 | 1.11e-06 | 6.69e-05 | 69 |
GO:00430878 | Endometrium | AEH | regulation of GTPase activity | 66/2100 | 348/18723 | 1.26e-05 | 2.77e-04 | 66 |
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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 |
LRCH1 | SNV | Missense_Mutation | novel | c.2033N>A | p.Arg678Lys | p.R678K | Q9Y2L9 | protein_coding | deleterious(0.01) | probably_damaging(0.994) | TCGA-EA-A44S-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | carboplatin | SD |
LRCH1 | SNV | Missense_Mutation | c.643N>A | p.Glu215Lys | p.E215K | Q9Y2L9 | protein_coding | deleterious(0) | benign(0.414) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
LRCH1 | SNV | Missense_Mutation | c.47C>T | p.Ser16Leu | p.S16L | Q9Y2L9 | protein_coding | deleterious_low_confidence(0.01) | benign(0.054) | TCGA-UC-A7PI-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD | |
LRCH1 | SNV | Missense_Mutation | novel | c.1962C>G | p.Ile654Met | p.I654M | Q9Y2L9 | protein_coding | deleterious(0) | probably_damaging(0.923) | TCGA-AA-3939-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
LRCH1 | SNV | Missense_Mutation | c.1252G>A | p.Ala418Thr | p.A418T | Q9Y2L9 | protein_coding | tolerated(0.33) | benign(0.003) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
LRCH1 | SNV | Missense_Mutation | c.1092N>A | p.Asp364Glu | p.D364E | Q9Y2L9 | protein_coding | tolerated(0.1) | probably_damaging(0.911) | TCGA-D5-6534-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
LRCH1 | SNV | Missense_Mutation | c.1444N>T | p.Pro482Ser | p.P482S | Q9Y2L9 | protein_coding | tolerated(0.11) | probably_damaging(0.999) | TCGA-D5-6535-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
LRCH1 | SNV | Missense_Mutation | rs141234801 | c.1094C>T | p.Ser365Leu | p.S365L | Q9Y2L9 | protein_coding | tolerated(0.18) | benign(0.044) | TCGA-G4-6302-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
LRCH1 | SNV | Missense_Mutation | c.1964G>A | p.Arg655His | p.R655H | Q9Y2L9 | protein_coding | tolerated(0.07) | probably_damaging(0.999) | TCGA-NH-A5IV-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
LRCH1 | SNV | Missense_Mutation | c.2278N>T | p.Ala760Ser | p.A760S | Q9Y2L9 | protein_coding | deleterious_low_confidence(0.03) | benign(0.127) | TCGA-AG-3726-01 | Colorectum | rectum adenocarcinoma | 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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