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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 |
| Page: 1 2 3 4 5 6 7 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| 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 |
| 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 27 28 29 30 31 32 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 | c.1574N>T | p.Ala525Val | p.A525V | Q9ULJ8 | protein_coding | deleterious(0) | probably_damaging(0.983) | TCGA-A2-A0YJ-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | PD | |
| PPP1R9A | SNV | Missense_Mutation | novel | c.4086G>T | p.Lys1362Asn | p.K1362N | Q9ULJ8 | protein_coding | deleterious_low_confidence(0) | benign(0.031) | TCGA-A2-A0YK-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
| PPP1R9A | SNV | Missense_Mutation | novel | c.1435N>G | p.Asn479Asp | p.N479D | Q9ULJ8 | protein_coding | deleterious(0) | probably_damaging(0.995) | TCGA-A7-A13H-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | anastrozole | PD |
| PPP1R9A | SNV | Missense_Mutation | c.3736N>A | p.Asp1246Asn | p.D1246N | Q9ULJ8 | protein_coding | deleterious(0.03) | probably_damaging(0.989) | TCGA-A8-A094-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| PPP1R9A | SNV | Missense_Mutation | c.3711N>C | p.Leu1237Phe | p.L1237F | Q9ULJ8 | protein_coding | deleterious(0) | possibly_damaging(0.847) | TCGA-AO-A0JM-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | |
| PPP1R9A | SNV | Missense_Mutation | novel | c.916N>C | p.Ser306Pro | p.S306P | Q9ULJ8 | protein_coding | tolerated(0.19) | benign(0.001) | TCGA-B6-A0RS-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
| PPP1R9A | SNV | Missense_Mutation | novel | c.1534N>T | p.Asp512Tyr | p.D512Y | Q9ULJ8 | protein_coding | deleterious(0) | probably_damaging(0.989) | TCGA-BH-A1F0-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
| PPP1R9A | SNV | Missense_Mutation | c.3338N>A | p.Cys1113Tyr | p.C1113Y | Q9ULJ8 | protein_coding | tolerated(0.16) | benign(0) | TCGA-E9-A1NC-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | CR | |
| PPP1R9A | SNV | Missense_Mutation | novel | c.844G>C | p.Val282Leu | p.V282L | Q9ULJ8 | protein_coding | tolerated(0.25) | benign(0.03) | TCGA-E9-A1RH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | SD |
| PPP1R9A | SNV | Missense_Mutation | c.643N>A | p.Pro215Thr | p.P215T | Q9ULJ8 | protein_coding | tolerated(0.43) | benign(0.049) | TCGA-EW-A1J6-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | femara | SD |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 |
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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 |
| Page: 1 |
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