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Gene: SAA1 |
Gene summary for SAA1 |
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Gene information | Species | Human | Gene symbol | SAA1 | Gene ID | 6288 |
Gene name | serum amyloid A1 | |
Gene Alias | PIG4 | |
Cytomap | 11p15.1 | |
Gene Type | protein-coding | GO ID | GO:0001775 | UniProtAcc | P0DJI8 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
6288 | SAA1 | CCI_2 | Human | Cervix | CC | 4.98e-09 | -1.08e+00 | 0.5249 |
6288 | SAA1 | CCI_3 | Human | Cervix | CC | 9.91e-13 | -1.07e+00 | 0.516 |
6288 | SAA1 | CCII_1 | Human | Cervix | CC | 8.09e-20 | -1.09e+00 | 0.3249 |
6288 | SAA1 | Tumor | Human | Cervix | CC | 1.01e-20 | -8.42e-01 | 0.1241 |
6288 | SAA1 | sample1 | Human | Cervix | CC | 1.49e-07 | -8.84e-01 | 0.0959 |
6288 | SAA1 | sample3 | Human | Cervix | CC | 3.08e-19 | -8.74e-01 | 0.1387 |
6288 | SAA1 | H2 | Human | Cervix | HSIL_HPV | 7.99e-20 | 6.50e-01 | 0.0632 |
6288 | SAA1 | L1 | Human | Cervix | CC | 2.78e-20 | -1.07e+00 | 0.0802 |
6288 | SAA1 | T1 | Human | Cervix | CC | 2.55e-23 | -9.78e-01 | 0.0918 |
6288 | SAA1 | T3 | Human | Cervix | CC | 2.46e-20 | -8.20e-01 | 0.1389 |
6288 | SAA1 | AEH-subject2 | Human | Endometrium | AEH | 1.23e-17 | 6.26e-01 | -0.2525 |
6288 | SAA1 | AEH-subject3 | Human | Endometrium | AEH | 1.89e-34 | 7.71e-01 | -0.2576 |
6288 | SAA1 | AEH-subject4 | Human | Endometrium | AEH | 1.80e-36 | 1.20e+00 | -0.2657 |
6288 | SAA1 | EEC-subject2 | Human | Endometrium | EEC | 5.88e-15 | 4.69e-01 | -0.2607 |
6288 | SAA1 | EEC-subject4 | Human | Endometrium | EEC | 1.30e-06 | 3.59e-01 | -0.2571 |
6288 | SAA1 | GSM6177620_NYU_UCEC1_lib2_lib2 | Human | Endometrium | EEC | 1.04e-03 | 3.24e-01 | -0.1875 |
6288 | SAA1 | GSM6177622_NYU_UCEC3_lib1_lib1 | Human | Endometrium | EEC | 3.84e-02 | 2.50e-01 | -0.1917 |
6288 | SAA1 | GSM6177622_NYU_UCEC3_lib2_lib2 | Human | Endometrium | EEC | 1.02e-05 | 3.66e-01 | -0.1916 |
6288 | SAA1 | GSM6177623_NYU_UCEC3_Vis | Human | Endometrium | EEC | 1.84e-08 | 3.26e-01 | -0.1269 |
6288 | SAA1 | LZE3D | Human | Esophagus | HGIN | 3.07e-02 | 2.39e+00 | 0.0668 |
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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:00975297 | Breast | Precancer | myeloid leukocyte migration | 34/1080 | 220/18723 | 1.42e-07 | 7.82e-06 | 34 |
GO:00509006 | Breast | Precancer | leukocyte migration | 47/1080 | 369/18723 | 2.82e-07 | 1.39e-05 | 47 |
GO:00305956 | Breast | Precancer | leukocyte chemotaxis | 34/1080 | 230/18723 | 4.16e-07 | 1.89e-05 | 34 |
GO:00457859 | Breast | Precancer | positive regulation of cell adhesion | 52/1080 | 437/18723 | 5.74e-07 | 2.49e-05 | 52 |
GO:00603266 | Breast | Precancer | cell chemotaxis | 41/1080 | 310/18723 | 5.99e-07 | 2.55e-05 | 41 |
GO:00716217 | Breast | Precancer | granulocyte chemotaxis | 23/1080 | 125/18723 | 6.73e-07 | 2.77e-05 | 23 |
GO:00975307 | Breast | Precancer | granulocyte migration | 24/1080 | 148/18723 | 4.04e-06 | 1.26e-04 | 24 |
GO:00018196 | Breast | Precancer | positive regulation of cytokine production | 52/1080 | 467/18723 | 4.18e-06 | 1.29e-04 | 52 |
GO:00420609 | Breast | Precancer | wound healing | 48/1080 | 422/18723 | 5.48e-06 | 1.63e-04 | 48 |
GO:00305937 | Breast | Precancer | neutrophil chemotaxis | 19/1080 | 103/18723 | 5.94e-06 | 1.71e-04 | 19 |
GO:0050727 | Breast | Precancer | regulation of inflammatory response | 44/1080 | 386/18723 | 1.26e-05 | 3.22e-04 | 44 |
GO:19902665 | Breast | Precancer | neutrophil migration | 20/1080 | 122/18723 | 2.13e-05 | 4.99e-04 | 20 |
GO:00508789 | Breast | Precancer | regulation of body fluid levels | 40/1080 | 379/18723 | 1.68e-04 | 2.77e-03 | 40 |
GO:00482463 | Breast | Precancer | macrophage chemotaxis | 9/1080 | 38/18723 | 2.44e-04 | 3.66e-03 | 9 |
GO:19055173 | Breast | Precancer | macrophage migration | 11/1080 | 55/18723 | 2.57e-04 | 3.83e-03 | 11 |
GO:00716744 | Breast | Precancer | mononuclear cell migration | 24/1080 | 196/18723 | 4.03e-04 | 5.44e-03 | 24 |
GO:00025263 | Breast | Precancer | acute inflammatory response | 16/1080 | 112/18723 | 6.87e-04 | 8.36e-03 | 16 |
GO:00507086 | Breast | Precancer | regulation of protein secretion | 28/1080 | 268/18723 | 1.76e-03 | 1.74e-02 | 28 |
GO:00075995 | Breast | Precancer | hemostasis | 24/1080 | 222/18723 | 2.31e-03 | 2.15e-02 | 24 |
GO:0032732 | Breast | Precancer | positive regulation of interleukin-1 production | 11/1080 | 73/18723 | 2.96e-03 | 2.55e-02 | 11 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
SAA1 | FPR2 | SAA1_FPR2 | SAA | Cervix | ADJ |
SAA1 | FPR2 | SAA1_FPR2 | SAA | Cervix | CC |
SAA1 | FPR2 | SAA1_FPR2 | SAA | Cervix | Healthy |
SAA1 | FPR2 | SAA1_FPR2 | SAA | Cervix | Precancer |
SAA1 | FPR2 | SAA1_FPR2 | SAA | HNSCC | ADJ |
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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 |
SAA1 | SNV | Missense_Mutation | rs139332456 | c.79N>A | p.Glu27Lys | p.E27K | P0DJI8 | protein_coding | deleterious(0) | possibly_damaging(0.746) | TCGA-C8-A12X-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
SAA1 | SNV | Missense_Mutation | c.239G>C | p.Arg80Thr | p.R80T | P0DJI8 | protein_coding | deleterious(0.01) | probably_damaging(0.976) | TCGA-IR-A3LA-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
SAA1 | SNV | Missense_Mutation | c.169N>T | p.Arg57Trp | p.R57W | P0DJI8 | protein_coding | tolerated(0.06) | possibly_damaging(0.458) | TCGA-JX-A3Q8-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SAA1 | SNV | Missense_Mutation | c.258N>A | p.Phe86Leu | p.F86L | P0DJI8 | protein_coding | tolerated(0.85) | benign(0) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR | |
SAA1 | SNV | Missense_Mutation | c.258N>A | p.Phe86Leu | p.F86L | P0DJI8 | protein_coding | tolerated(0.85) | benign(0) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR | |
SAA1 | SNV | Missense_Mutation | c.38N>C | p.Val13Ala | p.V13A | P0DJI8 | protein_coding | tolerated(0.06) | benign(0.043) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
SAA1 | SNV | Missense_Mutation | novel | c.160N>G | p.Phe54Val | p.F54V | P0DJI8 | protein_coding | deleterious(0) | probably_damaging(0.985) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
SAA1 | SNV | Missense_Mutation | rs559587106 | c.272N>T | p.Ala91Val | p.A91V | P0DJI8 | protein_coding | tolerated(0.51) | benign(0.006) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
SAA1 | SNV | Missense_Mutation | c.63N>A | p.Phe21Leu | p.F21L | P0DJI8 | protein_coding | tolerated(0.09) | benign(0) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
SAA1 | SNV | Missense_Mutation | c.360G>T | p.Glu120Asp | p.E120D | P0DJI8 | protein_coding | tolerated(1) | benign(0) | TCGA-AX-A0J0-01 | 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 |
6288 | SAA1 | DRUGGABLE GENOME | IL-1RA | ANAKINRA | 1717568 | |
6288 | SAA1 | DRUGGABLE GENOME | NAPROXEN | NAPROXEN | 1729367 |
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