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Gene: PPCS |
Gene summary for PPCS |
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Gene information | Species | Human | Gene symbol | PPCS | Gene ID | 79717 |
Gene name | phosphopantothenoylcysteine synthetase | |
Gene Alias | CMD2C | |
Cytomap | 1p34.2 | |
Gene Type | protein-coding | GO ID | GO:0003008 | UniProtAcc | Q9HAB8 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
79717 | PPCS | GSM4909281 | Human | Breast | IDC | 5.07e-09 | 3.64e-01 | 0.21 |
79717 | PPCS | GSM4909293 | Human | Breast | IDC | 3.09e-03 | 2.07e-01 | 0.1581 |
79717 | PPCS | GSM4909294 | Human | Breast | IDC | 6.55e-04 | 2.94e-01 | 0.2022 |
79717 | PPCS | GSM4909296 | Human | Breast | IDC | 7.50e-05 | -5.47e-02 | 0.1524 |
79717 | PPCS | GSM4909297 | Human | Breast | IDC | 1.24e-04 | 3.00e-02 | 0.1517 |
79717 | PPCS | GSM4909305 | Human | Breast | IDC | 2.16e-02 | 2.11e-01 | 0.0436 |
79717 | PPCS | GSM4909311 | Human | Breast | IDC | 3.45e-13 | -8.67e-02 | 0.1534 |
79717 | PPCS | GSM4909312 | Human | Breast | IDC | 2.00e-06 | 2.13e-01 | 0.1552 |
79717 | PPCS | GSM4909316 | Human | Breast | IDC | 1.62e-03 | 2.80e-01 | 0.21 |
79717 | PPCS | GSM4909317 | Human | Breast | IDC | 1.36e-10 | 3.41e-01 | 0.1355 |
79717 | PPCS | GSM4909318 | Human | Breast | IDC | 5.51e-03 | 3.45e-01 | 0.2031 |
79717 | PPCS | GSM4909319 | Human | Breast | IDC | 2.30e-21 | -4.72e-02 | 0.1563 |
79717 | PPCS | GSM4909321 | Human | Breast | IDC | 1.35e-05 | -1.15e-01 | 0.1559 |
79717 | PPCS | brca1 | Human | Breast | Precancer | 1.08e-02 | 2.07e-01 | -0.0338 |
79717 | PPCS | M5 | Human | Breast | IDC | 3.98e-02 | 4.17e-01 | 0.1598 |
79717 | PPCS | NCCBC14 | Human | Breast | DCIS | 3.32e-06 | 1.89e-01 | 0.2021 |
79717 | PPCS | NCCBC2 | Human | Breast | DCIS | 3.69e-02 | 2.04e-01 | 0.1554 |
79717 | PPCS | NCCBC5 | Human | Breast | DCIS | 9.19e-17 | 4.28e-01 | 0.2046 |
79717 | PPCS | P1 | Human | Breast | IDC | 5.21e-07 | -1.20e-01 | 0.1527 |
79717 | PPCS | DCIS2 | Human | Breast | DCIS | 1.12e-54 | 2.16e-01 | 0.0085 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00463905 | Liver | Cirrhotic | ribose phosphate biosynthetic process | 71/4634 | 190/18723 | 7.09e-05 | 7.98e-04 | 71 |
GO:00092605 | Liver | Cirrhotic | ribonucleotide biosynthetic process | 68/4634 | 182/18723 | 1.00e-04 | 1.05e-03 | 68 |
GO:00091654 | Liver | Cirrhotic | nucleotide biosynthetic process | 89/4634 | 254/18723 | 1.45e-04 | 1.40e-03 | 89 |
GO:0006084 | Liver | Cirrhotic | acetyl-CoA metabolic process | 19/4634 | 35/18723 | 1.70e-04 | 1.60e-03 | 19 |
GO:19012934 | Liver | Cirrhotic | nucleoside phosphate biosynthetic process | 89/4634 | 256/18723 | 1.97e-04 | 1.82e-03 | 89 |
GO:00338651 | Liver | Cirrhotic | nucleoside bisphosphate metabolic process | 50/4634 | 128/18723 | 2.32e-04 | 2.11e-03 | 50 |
GO:00338751 | Liver | Cirrhotic | ribonucleoside bisphosphate metabolic process | 50/4634 | 128/18723 | 2.32e-04 | 2.11e-03 | 50 |
GO:00340321 | Liver | Cirrhotic | purine nucleoside bisphosphate metabolic process | 50/4634 | 128/18723 | 2.32e-04 | 2.11e-03 | 50 |
GO:00091526 | Liver | Cirrhotic | purine ribonucleotide biosynthetic process | 62/4634 | 169/18723 | 3.52e-04 | 3.00e-03 | 62 |
GO:00066371 | Liver | Cirrhotic | acyl-CoA metabolic process | 38/4634 | 96/18723 | 9.23e-04 | 6.57e-03 | 38 |
GO:00353831 | Liver | Cirrhotic | thioester metabolic process | 38/4634 | 96/18723 | 9.23e-04 | 6.57e-03 | 38 |
GO:00725225 | Liver | Cirrhotic | purine-containing compound biosynthetic process | 69/4634 | 200/18723 | 1.22e-03 | 8.24e-03 | 69 |
GO:00061645 | Liver | Cirrhotic | purine nucleotide biosynthetic process | 65/4634 | 191/18723 | 2.42e-03 | 1.46e-02 | 65 |
GO:0033866 | Liver | Cirrhotic | nucleoside bisphosphate biosynthetic process | 25/4634 | 60/18723 | 2.92e-03 | 1.67e-02 | 25 |
GO:0034030 | Liver | Cirrhotic | ribonucleoside bisphosphate biosynthetic process | 25/4634 | 60/18723 | 2.92e-03 | 1.67e-02 | 25 |
GO:0034033 | Liver | Cirrhotic | purine nucleoside bisphosphate biosynthetic process | 25/4634 | 60/18723 | 2.92e-03 | 1.67e-02 | 25 |
GO:0006085 | Liver | Cirrhotic | acetyl-CoA biosynthetic process | 10/4634 | 18/18723 | 5.00e-03 | 2.59e-02 | 10 |
GO:0035384 | Liver | Cirrhotic | thioester biosynthetic process | 19/4634 | 45/18723 | 7.53e-03 | 3.57e-02 | 19 |
GO:0071616 | Liver | Cirrhotic | acyl-CoA biosynthetic process | 19/4634 | 45/18723 | 7.53e-03 | 3.57e-02 | 19 |
GO:000911722 | Liver | HCC | nucleotide metabolic process | 300/7958 | 489/18723 | 1.61e-17 | 1.71e-15 | 300 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa012405 | Esophagus | ESCC | Biosynthesis of cofactors | 97/4205 | 153/8465 | 3.88e-04 | 1.35e-03 | 6.94e-04 | 97 |
hsa0124012 | Esophagus | ESCC | Biosynthesis of cofactors | 97/4205 | 153/8465 | 3.88e-04 | 1.35e-03 | 6.94e-04 | 97 |
hsa01240 | Liver | Cirrhotic | Biosynthesis of cofactors | 66/2530 | 153/8465 | 3.11e-04 | 1.99e-03 | 1.23e-03 | 66 |
hsa00770 | Liver | Cirrhotic | Pantothenate and CoA biosynthesis | 13/2530 | 21/8465 | 2.32e-03 | 9.90e-03 | 6.10e-03 | 13 |
hsa012401 | Liver | Cirrhotic | Biosynthesis of cofactors | 66/2530 | 153/8465 | 3.11e-04 | 1.99e-03 | 1.23e-03 | 66 |
hsa007701 | Liver | Cirrhotic | Pantothenate and CoA biosynthesis | 13/2530 | 21/8465 | 2.32e-03 | 9.90e-03 | 6.10e-03 | 13 |
hsa012402 | Liver | HCC | Biosynthesis of cofactors | 103/4020 | 153/8465 | 4.67e-07 | 5.05e-06 | 2.81e-06 | 103 |
hsa007702 | Liver | HCC | Pantothenate and CoA biosynthesis | 16/4020 | 21/8465 | 7.16e-03 | 1.97e-02 | 1.09e-02 | 16 |
hsa012403 | Liver | HCC | Biosynthesis of cofactors | 103/4020 | 153/8465 | 4.67e-07 | 5.05e-06 | 2.81e-06 | 103 |
hsa007703 | Liver | HCC | Pantothenate and CoA biosynthesis | 16/4020 | 21/8465 | 7.16e-03 | 1.97e-02 | 1.09e-02 | 16 |
hsa012404 | Oral cavity | OSCC | Biosynthesis of cofactors | 88/3704 | 153/8465 | 3.84e-04 | 1.20e-03 | 6.12e-04 | 88 |
hsa0124011 | Oral cavity | OSCC | Biosynthesis of cofactors | 88/3704 | 153/8465 | 3.84e-04 | 1.20e-03 | 6.12e-04 | 88 |
hsa0124021 | Oral cavity | LP | Biosynthesis of cofactors | 57/2418 | 153/8465 | 1.17e-02 | 3.91e-02 | 2.52e-02 | 57 |
hsa0124031 | Oral cavity | LP | Biosynthesis of cofactors | 57/2418 | 153/8465 | 1.17e-02 | 3.91e-02 | 2.52e-02 | 57 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
PPCS | SNV | Missense_Mutation | c.211N>C | p.Glu71Gln | p.E71Q | Q9HAB8 | protein_coding | deleterious(0) | possibly_damaging(0.905) | TCGA-A8-A09E-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | anastrozole | SD | |
PPCS | insertion | Frame_Shift_Ins | novel | c.491_492insCAGTACGGCGCGGCGCGTACACCAGGTAGGCGAGAAGG | p.Gln164HisfsTer19 | p.Q164Hfs*19 | Q9HAB8 | protein_coding | TCGA-AN-A03X-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
PPCS | SNV | Missense_Mutation | c.709N>A | p.Ala237Thr | p.A237T | Q9HAB8 | protein_coding | tolerated(0.2) | benign(0) | TCGA-AA-3821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PPCS | SNV | Missense_Mutation | c.709N>A | p.Ala237Thr | p.A237T | Q9HAB8 | protein_coding | tolerated(0.2) | benign(0) | TCGA-AA-3947-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PPCS | SNV | Missense_Mutation | novel | c.536C>T | p.Ala179Val | p.A179V | Q9HAB8 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3949-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
PPCS | SNV | Missense_Mutation | novel | c.929N>T | p.Arg310Ile | p.R310I | Q9HAB8 | protein_coding | deleterious(0.01) | benign(0.043) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
PPCS | SNV | Missense_Mutation | c.430N>A | p.Phe144Ile | p.F144I | Q9HAB8 | protein_coding | tolerated(0.14) | benign(0.007) | TCGA-F4-6570-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PPCS | SNV | Missense_Mutation | rs748847721 | c.730C>T | p.Arg244Trp | p.R244W | Q9HAB8 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
PPCS | insertion | Frame_Shift_Ins | novel | c.336_337dupTT | p.Ser113PhefsTer5 | p.S113Ffs*5 | Q9HAB8 | protein_coding | TCGA-DC-6681-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | I/II | Chemotherapy | 5-fluorouracil | SD | ||
PPCS | SNV | Missense_Mutation | c.772N>G | p.Asn258Asp | p.N258D | Q9HAB8 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A5-A0VP-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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