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Gene: WASHC2A |
Gene summary for WASHC2A |
Gene summary. |
Gene information | Species | Human | Gene symbol | WASHC2A | Gene ID | 387680 |
Gene name | WASH complex subunit 2A | |
Gene Alias | FAM21A | |
Cytomap | 10q11.23 | |
Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | Q641Q2 |
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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 |
387680 | WASHC2A | HTA11_1938_2000001011 | Human | Colorectum | AD | 4.51e-02 | 4.36e-01 | -0.0811 |
387680 | WASHC2A | HTA11_78_2000001011 | Human | Colorectum | AD | 6.08e-07 | 5.30e-01 | -0.1088 |
387680 | WASHC2A | HTA11_347_2000001011 | Human | Colorectum | AD | 2.26e-11 | 5.65e-01 | -0.1954 |
387680 | WASHC2A | HTA11_83_2000001011 | Human | Colorectum | SER | 1.09e-05 | 5.57e-01 | -0.1526 |
387680 | WASHC2A | HTA11_696_2000001011 | Human | Colorectum | AD | 2.75e-10 | 3.36e-01 | -0.1464 |
387680 | WASHC2A | HTA11_866_2000001011 | Human | Colorectum | AD | 4.56e-06 | 2.60e-01 | -0.1001 |
387680 | WASHC2A | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.89e-07 | 5.62e-01 | -0.059 |
387680 | WASHC2A | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.92e-04 | -2.05e-01 | 0.294 |
387680 | WASHC2A | HTA11_99999971662_82457 | Human | Colorectum | MSS | 8.62e-04 | -2.05e-01 | 0.3859 |
387680 | WASHC2A | HTA11_99999974143_84620 | Human | Colorectum | MSS | 4.07e-04 | -2.05e-01 | 0.3005 |
387680 | WASHC2A | HCC1 | Human | Liver | HCC | 3.52e-20 | 3.89e+00 | 0.5336 |
387680 | WASHC2A | HCC2 | Human | Liver | HCC | 3.33e-33 | 4.71e+00 | 0.5341 |
387680 | WASHC2A | HCC5 | Human | Liver | HCC | 3.36e-10 | 2.05e+00 | 0.4932 |
387680 | WASHC2A | S014 | Human | Liver | HCC | 2.64e-11 | 4.42e-01 | 0.2254 |
387680 | WASHC2A | S015 | Human | Liver | HCC | 1.03e-10 | 3.89e-01 | 0.2375 |
387680 | WASHC2A | S016 | Human | Liver | HCC | 1.10e-14 | 4.48e-01 | 0.2243 |
387680 | WASHC2A | S027 | Human | Liver | HCC | 5.78e-13 | 5.75e-01 | 0.2446 |
387680 | WASHC2A | S028 | Human | Liver | HCC | 1.88e-22 | 6.41e-01 | 0.2503 |
387680 | WASHC2A | S029 | Human | Liver | HCC | 1.77e-23 | 8.08e-01 | 0.2581 |
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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:0016197 | Colorectum | AD | endosomal transport | 90/3918 | 230/18723 | 1.88e-10 | 1.73e-08 | 90 |
GO:0016482 | Colorectum | AD | cytosolic transport | 68/3918 | 168/18723 | 6.00e-09 | 3.72e-07 | 68 |
GO:0042147 | Colorectum | AD | retrograde transport, endosome to Golgi | 37/3918 | 91/18723 | 1.46e-05 | 3.14e-04 | 37 |
GO:0036010 | Colorectum | AD | protein localization to endosome | 12/3918 | 24/18723 | 1.48e-03 | 1.25e-02 | 12 |
GO:00161971 | Colorectum | SER | endosomal transport | 61/2897 | 230/18723 | 1.03e-05 | 3.35e-04 | 61 |
GO:00164821 | Colorectum | SER | cytosolic transport | 46/2897 | 168/18723 | 5.20e-05 | 1.25e-03 | 46 |
GO:00360101 | Colorectum | SER | protein localization to endosome | 9/2897 | 24/18723 | 7.19e-03 | 4.99e-02 | 9 |
GO:00161972 | Colorectum | MSS | endosomal transport | 79/3467 | 230/18723 | 7.04e-09 | 4.39e-07 | 79 |
GO:00164822 | Colorectum | MSS | cytosolic transport | 59/3467 | 168/18723 | 2.29e-07 | 9.79e-06 | 59 |
GO:00421471 | Colorectum | MSS | retrograde transport, endosome to Golgi | 33/3467 | 91/18723 | 4.78e-05 | 8.71e-04 | 33 |
GO:00360102 | Colorectum | MSS | protein localization to endosome | 12/3467 | 24/18723 | 4.68e-04 | 5.50e-03 | 12 |
GO:001619721 | Liver | HCC | endosomal transport | 154/7958 | 230/18723 | 4.74e-14 | 2.95e-12 | 154 |
GO:001648221 | Liver | HCC | cytosolic transport | 117/7958 | 168/18723 | 8.83e-13 | 4.48e-11 | 117 |
GO:004214721 | Liver | HCC | retrograde transport, endosome to Golgi | 61/7958 | 91/18723 | 1.94e-06 | 2.68e-05 | 61 |
GO:00360103 | Liver | HCC | protein localization to endosome | 19/7958 | 24/18723 | 2.80e-04 | 2.02e-03 | 19 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04144 | Colorectum | AD | Endocytosis | 111/2092 | 251/8465 | 5.95e-12 | 1.42e-10 | 9.08e-11 | 111 |
hsa041441 | Colorectum | AD | Endocytosis | 111/2092 | 251/8465 | 5.95e-12 | 1.42e-10 | 9.08e-11 | 111 |
hsa041442 | Colorectum | SER | Endocytosis | 81/1580 | 251/8465 | 1.14e-07 | 2.36e-06 | 1.71e-06 | 81 |
hsa041443 | Colorectum | SER | Endocytosis | 81/1580 | 251/8465 | 1.14e-07 | 2.36e-06 | 1.71e-06 | 81 |
hsa041444 | Colorectum | MSS | Endocytosis | 102/1875 | 251/8465 | 1.85e-11 | 4.43e-10 | 2.71e-10 | 102 |
hsa041445 | Colorectum | MSS | Endocytosis | 102/1875 | 251/8465 | 1.85e-11 | 4.43e-10 | 2.71e-10 | 102 |
hsa0414422 | Liver | HCC | Endocytosis | 178/4020 | 251/8465 | 2.03e-14 | 5.22e-13 | 2.91e-13 | 178 |
hsa0414432 | Liver | HCC | Endocytosis | 178/4020 | 251/8465 | 2.03e-14 | 5.22e-13 | 2.91e-13 | 178 |
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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 |
WASHC2A | SNV | Missense_Mutation | novel | c.1919N>T | p.Arg640Met | p.R640M | Q641Q2 | protein_coding | deleterious(0.01) | possibly_damaging(0.735) | TCGA-CG-4305-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | cisplatin | CR |
WASHC2A | SNV | Missense_Mutation | rs782595391 | c.26N>G | p.Gln9Arg | p.Q9R | Q641Q2 | protein_coding | tolerated_low_confidence(0.11) | benign(0.018) | TCGA-FP-7735-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
WASHC2A | SNV | Missense_Mutation | c.227N>T | p.Asp76Val | p.D76V | Q641Q2 | protein_coding | deleterious(0) | probably_damaging(0.917) | TCGA-HJ-7597-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Chemotherapy | fluorouracil | CR | |
WASHC2A | SNV | Missense_Mutation | novel | c.3834N>C | p.Lys1278Asn | p.K1278N | Q641Q2 | protein_coding | deleterious(0.01) | probably_damaging(0.999) | TCGA-HU-A4G9-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
WASHC2A | SNV | Missense_Mutation | novel | c.3298N>A | p.Ala1100Thr | p.A1100T | Q641Q2 | protein_coding | tolerated(0.87) | benign(0.003) | TCGA-VQ-A8E3-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
WASHC2A | insertion | Frame_Shift_Ins | novel | c.1147dupC | p.Gln383ProfsTer10 | p.Q383Pfs*10 | Q641Q2 | protein_coding | TCGA-D7-A6EY-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | ||
WASHC2A | insertion | Frame_Shift_Ins | novel | c.2444dupA | p.Asn815LysfsTer17 | p.N815Kfs*17 | Q641Q2 | protein_coding | TCGA-VQ-A8P2-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Unspecific | Complete Response | |||
WASHC2A | insertion | Frame_Shift_Ins | novel | c.3830_3831insA | p.Glu1279ArgfsTer14 | p.E1279Rfs*14 | Q641Q2 | protein_coding | TCGA-VQ-A8PX-01 | Stomach | stomach adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | ||
WASHC2A | SNV | Missense_Mutation | novel | c.1886N>T | p.Pro629Leu | p.P629L | Q641Q2 | protein_coding | deleterious(0.01) | benign(0.117) | TCGA-EL-A3CU-01 | Thyroid | thyroid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
WASHC2A | insertion | Frame_Shift_Ins | novel | c.3001_3002insATCGCCC | p.Ser1001AsnfsTer18 | p.S1001Nfs*18 | Q641Q2 | protein_coding | TCGA-EL-A3ZM-01 | Thyroid | thyroid carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
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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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