|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: PID1 |
Gene summary for PID1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | PID1 | Gene ID | 55022 |
| Gene name | phosphotyrosine interaction domain containing 1 | |
| Gene Alias | HMFN2073 | |
| Cytomap | 2q36.3 | |
| Gene Type | protein-coding | GO ID | GO:0001932 | UniProtAcc | Q7Z2X4 |
Top |
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 |
| 55022 | PID1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.27e-18 | -6.95e-01 | 0.0155 |
| 55022 | PID1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 3.75e-03 | -4.58e-01 | -0.1808 |
| 55022 | PID1 | HTA11_347_2000001011 | Human | Colorectum | AD | 6.87e-12 | 7.05e-01 | -0.1954 |
| 55022 | PID1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 2.85e-08 | -7.99e-01 | -0.1207 |
| 55022 | PID1 | HTA11_866_3004761011 | Human | Colorectum | AD | 5.41e-05 | -5.51e-01 | 0.096 |
| 55022 | PID1 | HTA11_4255_2000001011 | Human | Colorectum | SER | 4.85e-02 | -7.30e-01 | 0.0446 |
| 55022 | PID1 | HTA11_8622_2000001021 | Human | Colorectum | SER | 5.52e-04 | -7.72e-01 | 0.0528 |
| 55022 | PID1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.13e-07 | -7.06e-01 | 0.0338 |
| 55022 | PID1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 4.55e-20 | -6.83e-01 | 0.0674 |
| 55022 | PID1 | HTA11_7469_2000001011 | Human | Colorectum | AD | 1.93e-03 | -3.82e-01 | -0.0124 |
| 55022 | PID1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.44e-44 | -9.88e-01 | 0.294 |
| 55022 | PID1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 8.41e-43 | -1.01e+00 | 0.3859 |
| 55022 | PID1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 8.46e-07 | -7.97e-01 | 0.2585 |
| 55022 | PID1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 9.35e-39 | -9.09e-01 | 0.3005 |
| 55022 | PID1 | A001-C-207 | Human | Colorectum | FAP | 3.23e-03 | -4.05e-01 | 0.1278 |
| 55022 | PID1 | A015-C-203 | Human | Colorectum | FAP | 1.39e-27 | -6.74e-01 | -0.1294 |
| 55022 | PID1 | A015-C-204 | Human | Colorectum | FAP | 7.98e-06 | -4.06e-01 | -0.0228 |
| 55022 | PID1 | A014-C-040 | Human | Colorectum | FAP | 8.80e-05 | -5.88e-01 | -0.1184 |
| 55022 | PID1 | A002-C-201 | Human | Colorectum | FAP | 2.51e-12 | -5.07e-01 | 0.0324 |
| 55022 | PID1 | A001-C-119 | Human | Colorectum | FAP | 9.03e-17 | -8.31e-01 | -0.1557 |
| Page: 1 2 3 |
| 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 | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma |
| ∗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. |
Top |
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:0046034 | Colorectum | AD | ATP metabolic process | 142/3918 | 277/18723 | 2.64e-29 | 8.26e-26 | 142 |
| GO:0006091 | Colorectum | AD | generation of precursor metabolites and energy | 209/3918 | 490/18723 | 3.17e-28 | 6.61e-25 | 209 |
| GO:0015980 | Colorectum | AD | energy derivation by oxidation of organic compounds | 143/3918 | 318/18723 | 2.78e-22 | 2.49e-19 | 143 |
| GO:0072659 | Colorectum | AD | protein localization to plasma membrane | 122/3918 | 284/18723 | 2.86e-17 | 1.49e-14 | 122 |
| GO:0009150 | Colorectum | AD | purine ribonucleotide metabolic process | 142/3918 | 368/18723 | 4.29e-15 | 1.17e-12 | 142 |
| GO:0006163 | Colorectum | AD | purine nucleotide metabolic process | 149/3918 | 396/18723 | 1.08e-14 | 2.80e-12 | 149 |
| GO:0072521 | Colorectum | AD | purine-containing compound metabolic process | 153/3918 | 416/18723 | 4.34e-14 | 1.01e-11 | 153 |
| GO:0009259 | Colorectum | AD | ribonucleotide metabolic process | 144/3918 | 385/18723 | 5.25e-14 | 1.13e-11 | 144 |
| GO:1990778 | Colorectum | AD | protein localization to cell periphery | 129/3918 | 333/18723 | 5.51e-14 | 1.15e-11 | 129 |
| GO:0019693 | Colorectum | AD | ribose phosphate metabolic process | 145/3918 | 396/18723 | 3.01e-13 | 5.71e-11 | 145 |
| GO:0009117 | Colorectum | AD | nucleotide metabolic process | 168/3918 | 489/18723 | 2.20e-12 | 3.36e-10 | 168 |
| GO:0006753 | Colorectum | AD | nucleoside phosphate metabolic process | 169/3918 | 497/18723 | 4.99e-12 | 6.98e-10 | 169 |
| GO:1905475 | Colorectum | AD | regulation of protein localization to membrane | 73/3918 | 175/18723 | 3.37e-10 | 2.93e-08 | 73 |
| GO:0009144 | Colorectum | AD | purine nucleoside triphosphate metabolic process | 43/3918 | 88/18723 | 5.05e-09 | 3.19e-07 | 43 |
| GO:1903076 | Colorectum | AD | regulation of protein localization to plasma membrane | 48/3918 | 104/18723 | 7.17e-09 | 4.36e-07 | 48 |
| GO:1904375 | Colorectum | AD | regulation of protein localization to cell periphery | 54/3918 | 125/18723 | 1.52e-08 | 9.00e-07 | 54 |
| GO:0009205 | Colorectum | AD | purine ribonucleoside triphosphate metabolic process | 39/3918 | 82/18723 | 6.58e-08 | 3.40e-06 | 39 |
| GO:0009141 | Colorectum | AD | nucleoside triphosphate metabolic process | 48/3918 | 112/18723 | 1.27e-07 | 6.02e-06 | 48 |
| GO:0006754 | Colorectum | AD | ATP biosynthetic process | 30/3918 | 57/18723 | 1.27e-07 | 6.02e-06 | 30 |
| GO:0009145 | Colorectum | AD | purine nucleoside triphosphate biosynthetic process | 34/3918 | 69/18723 | 1.54e-07 | 6.78e-06 | 34 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
Top |
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 |
Top |
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 |
Top |
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 |
| PID1 | SNV | Missense_Mutation | rs374635933 | c.640N>A | p.Ala214Thr | p.A214T | Q7Z2X4 | protein_coding | tolerated(0.22) | benign(0.141) | TCGA-BH-A0HW-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD |
| PID1 | SNV | Missense_Mutation | novel | c.64C>A | p.Leu22Ile | p.L22I | Q7Z2X4 | protein_coding | tolerated_low_confidence(0.1) | benign(0) | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD |
| PID1 | SNV | Missense_Mutation | novel | c.95G>A | p.Arg32His | p.R32H | Q7Z2X4 | protein_coding | deleterious_low_confidence(0.01) | benign(0) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| PID1 | SNV | Missense_Mutation | c.209N>C | p.Glu70Ala | p.E70A | Q7Z2X4 | protein_coding | deleterious_low_confidence(0.01) | probably_damaging(0.98) | TCGA-EA-A3HQ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| PID1 | SNV | Missense_Mutation | novel | c.619G>A | p.Glu207Lys | p.E207K | Q7Z2X4 | protein_coding | tolerated(0.63) | probably_damaging(0.951) | TCGA-EA-A97N-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| PID1 | SNV | Missense_Mutation | c.471N>A | p.His157Gln | p.H157Q | Q7Z2X4 | protein_coding | deleterious(0.01) | benign(0.313) | TCGA-EK-A2PL-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD | |
| PID1 | SNV | Missense_Mutation | rs267599242 | c.118G>A | p.Glu40Lys | p.E40K | Q7Z2X4 | protein_coding | deleterious_low_confidence(0.02) | benign(0) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| PID1 | SNV | Missense_Mutation | novel | c.22N>T | p.Arg8Cys | p.R8C | Q7Z2X4 | protein_coding | deleterious_low_confidence(0.01) | possibly_damaging(0.835) | TCGA-AY-6197-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| PID1 | SNV | Missense_Mutation | c.511N>A | p.Ala171Thr | p.A171T | Q7Z2X4 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AZ-6601-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| PID1 | SNV | Missense_Mutation | rs756817470 | c.415N>T | p.Arg139Trp | p.R139W | Q7Z2X4 | protein_coding | deleterious(0.01) | probably_damaging(0.998) | TCGA-D5-6930-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |