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Gene: KALRN |
Gene summary for KALRN |
Gene summary. |
Gene information | Species | Human | Gene symbol | KALRN | Gene ID | 8997 |
Gene name | kalirin RhoGEF kinase | |
Gene Alias | ARHGEF24 | |
Cytomap | 3q21.1-q21.2 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | J3QSW6 |
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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 |
8997 | KALRN | HTA11_3410_2000001011 | Human | Colorectum | AD | 9.55e-20 | -6.90e-01 | 0.0155 |
8997 | KALRN | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.80e-06 | -6.47e-01 | -0.1207 |
8997 | KALRN | HTA11_696_2000001011 | Human | Colorectum | AD | 2.46e-05 | -4.04e-01 | -0.1464 |
8997 | KALRN | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.11e-03 | -3.49e-01 | -0.059 |
8997 | KALRN | HTA11_7862_2000001011 | Human | Colorectum | AD | 4.27e-04 | -4.79e-01 | -0.0179 |
8997 | KALRN | HTA11_866_3004761011 | Human | Colorectum | AD | 8.70e-07 | -5.36e-01 | 0.096 |
8997 | KALRN | HTA11_8622_2000001021 | Human | Colorectum | SER | 3.97e-05 | -7.20e-01 | 0.0528 |
8997 | KALRN | HTA11_10711_2000001011 | Human | Colorectum | AD | 3.98e-07 | -5.92e-01 | 0.0338 |
8997 | KALRN | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.70e-17 | -5.72e-01 | 0.0674 |
8997 | KALRN | HTA11_6818_2000001021 | Human | Colorectum | AD | 4.40e-02 | -4.97e-01 | 0.0588 |
8997 | KALRN | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.63e-07 | -5.04e-01 | 0.294 |
8997 | KALRN | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.04e-07 | 7.26e-01 | 0.281 |
8997 | KALRN | HTA11_99999973899_84307 | Human | Colorectum | MSS | 9.94e-04 | -5.60e-01 | 0.2585 |
8997 | KALRN | HTA11_99999974143_84620 | Human | Colorectum | MSS | 7.05e-27 | -7.64e-01 | 0.3005 |
8997 | KALRN | F007 | Human | Colorectum | FAP | 6.08e-12 | -6.43e-01 | 0.1176 |
8997 | KALRN | A002-C-010 | Human | Colorectum | FAP | 4.92e-12 | -5.10e-01 | 0.242 |
8997 | KALRN | A001-C-207 | Human | Colorectum | FAP | 2.05e-11 | -5.72e-01 | 0.1278 |
8997 | KALRN | A015-C-203 | Human | Colorectum | FAP | 4.52e-27 | -7.00e-01 | -0.1294 |
8997 | KALRN | A015-C-204 | Human | Colorectum | FAP | 1.47e-18 | -7.19e-01 | -0.0228 |
8997 | KALRN | A014-C-040 | Human | Colorectum | FAP | 2.22e-06 | -5.25e-01 | -0.1184 |
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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. |
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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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0051056 | Colorectum | AD | regulation of small GTPase mediated signal transduction | 94/3918 | 302/18723 | 1.81e-05 | 3.76e-04 | 94 |
GO:0007409 | Colorectum | AD | axonogenesis | 122/3918 | 418/18723 | 3.36e-05 | 6.15e-04 | 122 |
GO:0061564 | Colorectum | AD | axon development | 132/3918 | 467/18723 | 8.40e-05 | 1.31e-03 | 132 |
GO:0007411 | Colorectum | AD | axon guidance | 64/3918 | 227/18723 | 5.41e-03 | 3.55e-02 | 64 |
GO:0097485 | Colorectum | AD | neuron projection guidance | 64/3918 | 228/18723 | 6.02e-03 | 3.78e-02 | 64 |
GO:00074111 | Colorectum | SER | axon guidance | 51/2897 | 227/18723 | 3.29e-03 | 2.82e-02 | 51 |
GO:00974851 | Colorectum | SER | neuron projection guidance | 51/2897 | 228/18723 | 3.61e-03 | 3.03e-02 | 51 |
GO:00615641 | Colorectum | SER | axon development | 94/2897 | 467/18723 | 3.78e-03 | 3.13e-02 | 94 |
GO:00074091 | Colorectum | SER | axonogenesis | 84/2897 | 418/18723 | 6.20e-03 | 4.49e-02 | 84 |
GO:00510561 | Colorectum | MSS | regulation of small GTPase mediated signal transduction | 82/3467 | 302/18723 | 1.31e-04 | 1.99e-03 | 82 |
GO:00074092 | Colorectum | MSS | axonogenesis | 105/3467 | 418/18723 | 4.32e-04 | 5.23e-03 | 105 |
GO:00615642 | Colorectum | MSS | axon development | 115/3467 | 467/18723 | 5.33e-04 | 6.00e-03 | 115 |
GO:0048013 | Colorectum | MSS | ephrin receptor signaling pathway | 17/3467 | 51/18723 | 8.28e-03 | 4.99e-02 | 17 |
GO:00510562 | Colorectum | FAP | regulation of small GTPase mediated signal transduction | 78/2622 | 302/18723 | 3.25e-08 | 2.85e-06 | 78 |
GO:00615643 | Colorectum | FAP | axon development | 106/2622 | 467/18723 | 1.98e-07 | 1.21e-05 | 106 |
GO:00074093 | Colorectum | FAP | axonogenesis | 97/2622 | 418/18723 | 2.20e-07 | 1.30e-05 | 97 |
GO:00510563 | Colorectum | CRC | regulation of small GTPase mediated signal transduction | 69/2078 | 302/18723 | 3.34e-09 | 9.08e-07 | 69 |
GO:00074094 | Colorectum | CRC | axonogenesis | 81/2078 | 418/18723 | 3.60e-07 | 2.99e-05 | 81 |
GO:00615644 | Colorectum | CRC | axon development | 86/2078 | 467/18723 | 1.48e-06 | 8.12e-05 | 86 |
GO:00074098 | Endometrium | AEH | axonogenesis | 81/2100 | 418/18723 | 5.54e-07 | 2.12e-05 | 81 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
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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. |
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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 |
KALRN | SNV | Missense_Mutation | c.1118C>T | p.Ser373Phe | p.S373F | O60229 | protein_coding | deleterious(0) | probably_damaging(0.956) | TCGA-90-A4ED-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
KALRN | SNV | Missense_Mutation | novel | c.2296G>A | p.Asp766Asn | p.D766N | O60229 | protein_coding | tolerated(0.08) | probably_damaging(0.944) | TCGA-94-7943-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
KALRN | SNV | Missense_Mutation | c.1004A>C | p.Gln335Pro | p.Q335P | O60229 | protein_coding | tolerated(0.27) | possibly_damaging(0.513) | TCGA-94-A4VJ-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
KALRN | SNV | Missense_Mutation | novel | c.1905G>T | p.Gln635His | p.Q635H | O60229 | protein_coding | tolerated(0.07) | benign(0.02) | TCGA-98-A538-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
KALRN | SNV | Missense_Mutation | novel | c.3280N>A | p.Leu1094Met | p.L1094M | O60229 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-98-A53J-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
KALRN | SNV | Missense_Mutation | novel | c.294N>A | p.Asp98Glu | p.D98E | O60229 | protein_coding | tolerated(0.53) | benign(0) | TCGA-NC-A5HD-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
KALRN | SNV | Missense_Mutation | novel | c.1309C>A | p.Leu437Met | p.L437M | O60229 | protein_coding | tolerated(0.11) | benign(0.241) | TCGA-NK-A5CX-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
KALRN | deletion | Frame_Shift_Del | c.2437delC | p.Arg813AlafsTer7 | p.R813Afs*7 | O60229 | protein_coding | TCGA-34-5927-01 | Lung | lung squamous cell carcinoma | Female | >=65 | I/II | Chemotherapy | carboplatin | SD | |||
KALRN | deletion | Frame_Shift_Del | novel | c.495delC | p.Ser166ProfsTer3 | p.S166Pfs*3 | O60229 | protein_coding | TCGA-63-A5MS-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
KALRN | SNV | Missense_Mutation | novel | c.4002N>T | p.Gln1334His | p.Q1334H | O60229 | protein_coding | tolerated(0.07) | probably_damaging(0.997) | TCGA-BA-A6DA-01 | Oral cavity | head & neck squamous cell carcinoma | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
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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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