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Gene: PPP1R9A |
Gene summary for PPP1R9A |
Gene summary. |
Gene information | Species | Human | Gene symbol | PPP1R9A | Gene ID | 55607 |
Gene name | protein phosphatase 1 regulatory subunit 9A | |
Gene Alias | NRB1 | |
Cytomap | 7q21.3 | |
Gene Type | protein-coding | GO ID | GO:0000902 | UniProtAcc | Q9ULJ8 |
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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 |
55607 | PPP1R9A | HTA11_3410_2000001011 | Human | Colorectum | AD | 4.57e-43 | -1.04e+00 | 0.0155 |
55607 | PPP1R9A | HTA11_2487_2000001011 | Human | Colorectum | SER | 9.62e-21 | -9.41e-01 | -0.1808 |
55607 | PPP1R9A | HTA11_2951_2000001011 | Human | Colorectum | AD | 1.64e-08 | -1.10e+00 | 0.0216 |
55607 | PPP1R9A | HTA11_1938_2000001011 | Human | Colorectum | AD | 5.97e-17 | -8.11e-01 | -0.0811 |
55607 | PPP1R9A | HTA11_78_2000001011 | Human | Colorectum | AD | 1.87e-03 | -5.13e-01 | -0.1088 |
55607 | PPP1R9A | HTA11_411_2000001011 | Human | Colorectum | SER | 9.70e-04 | -6.95e-01 | -0.2602 |
55607 | PPP1R9A | HTA11_2112_2000001011 | Human | Colorectum | SER | 9.28e-06 | -9.89e-01 | -0.2196 |
55607 | PPP1R9A | HTA11_3361_2000001011 | Human | Colorectum | AD | 3.79e-20 | -1.02e+00 | -0.1207 |
55607 | PPP1R9A | HTA11_83_2000001011 | Human | Colorectum | SER | 7.63e-13 | -8.61e-01 | -0.1526 |
55607 | PPP1R9A | HTA11_696_2000001011 | Human | Colorectum | AD | 1.06e-44 | -8.85e-01 | -0.1464 |
55607 | PPP1R9A | HTA11_866_2000001011 | Human | Colorectum | AD | 5.68e-30 | -8.07e-01 | -0.1001 |
55607 | PPP1R9A | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.01e-21 | -7.86e-01 | -0.059 |
55607 | PPP1R9A | HTA11_2992_2000001011 | Human | Colorectum | SER | 9.24e-06 | -7.68e-01 | -0.1706 |
55607 | PPP1R9A | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.49e-10 | -1.04e+00 | -0.2061 |
55607 | PPP1R9A | HTA11_5216_2000001011 | Human | Colorectum | SER | 1.04e-06 | -9.53e-01 | -0.1462 |
55607 | PPP1R9A | HTA11_546_2000001011 | Human | Colorectum | AD | 4.57e-06 | -7.02e-01 | -0.0842 |
55607 | PPP1R9A | HTA11_9341_2000001011 | Human | Colorectum | SER | 8.61e-04 | -9.77e-01 | -0.00410000000000005 |
55607 | PPP1R9A | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.30e-07 | -7.81e-01 | -0.0179 |
55607 | PPP1R9A | HTA11_866_3004761011 | Human | Colorectum | AD | 3.35e-25 | -8.18e-01 | 0.096 |
55607 | PPP1R9A | HTA11_4255_2000001011 | Human | Colorectum | SER | 1.09e-06 | -9.25e-01 | 0.0446 |
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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: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:0032271 | Colorectum | AD | regulation of protein polymerization | 94/3918 | 233/18723 | 1.01e-11 | 1.29e-09 | 94 |
GO:0030041 | Colorectum | AD | actin filament polymerization | 81/3918 | 191/18723 | 1.35e-11 | 1.69e-09 | 81 |
GO:0051258 | Colorectum | AD | protein polymerization | 112/3918 | 297/18723 | 1.85e-11 | 2.27e-09 | 112 |
GO:0043254 | Colorectum | AD | regulation of protein-containing complex assembly | 148/3918 | 428/18723 | 2.64e-11 | 3.18e-09 | 148 |
GO:0008064 | Colorectum | AD | regulation of actin polymerization or depolymerization | 79/3918 | 188/18723 | 4.17e-11 | 4.74e-09 | 79 |
GO:0030833 | Colorectum | AD | regulation of actin filament polymerization | 74/3918 | 172/18723 | 4.50e-11 | 5.03e-09 | 74 |
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:0034329 | Colorectum | AD | cell junction assembly | 136/3918 | 420/18723 | 2.02e-08 | 1.15e-06 | 136 |
GO:0010639 | Colorectum | AD | negative regulation of organelle organization | 114/3918 | 348/18723 | 1.41e-07 | 6.49e-06 | 114 |
GO:0009636 | Colorectum | AD | response to toxic substance | 88/3918 | 262/18723 | 1.12e-06 | 3.72e-05 | 88 |
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 |
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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 |
PPP1R9A | SNV | Missense_Mutation | novel | c.719C>A | p.Ser240Tyr | p.S240Y | Q9ULJ8 | protein_coding | deleterious(0) | possibly_damaging(0.804) | TCGA-UF-A71D-01 | Oral cavity | head & neck squamous cell carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PPP1R9A | insertion | Frame_Shift_Ins | novel | c.3566_3567insAAGAGGAGGGATTTGGGTTTCTCTT | p.His1190ArgfsTer23 | p.H1190Rfs*23 | Q9ULJ8 | protein_coding | TCGA-CN-4742-01 | Oral cavity | head & neck squamous cell carcinoma | Female | <65 | I/II | Chemotherapy | cisplatin | PD | ||
PPP1R9A | deletion | Frame_Shift_Del | novel | c.971delC | p.Pro324LeufsTer21 | p.P324Lfs*21 | Q9ULJ8 | protein_coding | TCGA-CV-A45W-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
PPP1R9A | SNV | Missense_Mutation | novel | c.2893N>C | p.Ser965Pro | p.S965P | Q9ULJ8 | protein_coding | tolerated(0.08) | possibly_damaging(0.736) | TCGA-VP-A87E-01 | Prostate | prostate adenocarcinoma | Male | <65 | 6 | Unknown | Unknown | SD |
PPP1R9A | SNV | Missense_Mutation | novel | c.2000N>A | p.Pro667His | p.P667H | Q9ULJ8 | protein_coding | deleterious(0) | probably_damaging(0.982) | TCGA-XK-AAIW-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | PD |
PPP1R9A | SNV | Missense_Mutation | novel | c.1646N>T | p.Gly549Val | p.G549V | Q9ULJ8 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-BR-4191-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | docetaxel | SD |
PPP1R9A | SNV | Missense_Mutation | c.3760N>G | p.Ser1254Gly | p.S1254G | Q9ULJ8 | protein_coding | tolerated(0.08) | benign(0.085) | TCGA-BR-4370-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PPP1R9A | SNV | Missense_Mutation | c.940N>A | p.Asp314Asn | p.D314N | Q9ULJ8 | protein_coding | tolerated(0.32) | benign(0.001) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR | |
PPP1R9A | SNV | Missense_Mutation | rs773651384 | c.3376N>T | p.Pro1126Ser | p.P1126S | Q9ULJ8 | protein_coding | deleterious(0.01) | benign(0.069) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR |
PPP1R9A | SNV | Missense_Mutation | rs765903491 | c.29N>A | p.Arg10Gln | p.R10Q | Q9ULJ8 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-CD-A48A-01 | Stomach | stomach adenocarcinoma | Male | <65 | I/II | Chemotherapy | capecitabine | 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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