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Gene: HSPD1 |
Gene summary for HSPD1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | HSPD1 | Gene ID | 3329 |
Gene name | heat shock protein family D (Hsp60) member 1 | |
Gene Alias | CPN60 | |
Cytomap | 2q33.1 | |
Gene Type | protein-coding | GO ID | GO:0000302 | UniProtAcc | A0A024R3X4 |
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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 |
3329 | HSPD1 | GSM4909277 | Human | Breast | Precancer | 1.18e-10 | 7.81e-01 | 0.0177 |
3329 | HSPD1 | GSM4909282 | Human | Breast | IDC | 4.45e-03 | -3.90e-01 | -0.0288 |
3329 | HSPD1 | GSM4909285 | Human | Breast | IDC | 1.03e-08 | 2.95e-01 | 0.21 |
3329 | HSPD1 | GSM4909286 | Human | Breast | IDC | 7.69e-12 | -3.01e-01 | 0.1081 |
3329 | HSPD1 | GSM4909293 | Human | Breast | IDC | 5.99e-07 | -7.90e-02 | 0.1581 |
3329 | HSPD1 | GSM4909294 | Human | Breast | IDC | 1.78e-02 | 4.15e-02 | 0.2022 |
3329 | HSPD1 | GSM4909296 | Human | Breast | IDC | 3.49e-11 | -4.71e-01 | 0.1524 |
3329 | HSPD1 | GSM4909297 | Human | Breast | IDC | 5.78e-17 | -3.79e-01 | 0.1517 |
3329 | HSPD1 | GSM4909298 | Human | Breast | IDC | 4.14e-13 | -5.27e-01 | 0.1551 |
3329 | HSPD1 | GSM4909299 | Human | Breast | IDC | 6.74e-07 | -3.67e-01 | 0.035 |
3329 | HSPD1 | GSM4909300 | Human | Breast | IDC | 3.31e-02 | -4.32e-01 | 0.0334 |
3329 | HSPD1 | GSM4909301 | Human | Breast | IDC | 2.22e-08 | -4.67e-01 | 0.1577 |
3329 | HSPD1 | GSM4909302 | Human | Breast | IDC | 2.92e-10 | -5.04e-01 | 0.1545 |
3329 | HSPD1 | GSM4909306 | Human | Breast | IDC | 1.67e-05 | -3.93e-01 | 0.1564 |
3329 | HSPD1 | GSM4909307 | Human | Breast | IDC | 4.74e-13 | -5.50e-01 | 0.1569 |
3329 | HSPD1 | GSM4909308 | Human | Breast | IDC | 7.15e-04 | -2.24e-01 | 0.158 |
3329 | HSPD1 | GSM4909309 | Human | Breast | IDC | 2.12e-17 | -6.48e-01 | 0.0483 |
3329 | HSPD1 | GSM4909311 | Human | Breast | IDC | 1.07e-41 | -8.00e-01 | 0.1534 |
3329 | HSPD1 | GSM4909312 | Human | Breast | IDC | 1.11e-08 | -3.93e-01 | 0.1552 |
3329 | HSPD1 | GSM4909313 | Human | Breast | IDC | 2.09e-18 | -6.72e-01 | 0.0391 |
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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:00069799 | Breast | Precancer | response to oxidative stress | 70/1080 | 446/18723 | 1.59e-14 | 4.26e-12 | 70 |
GO:00525479 | Breast | Precancer | regulation of peptidase activity | 71/1080 | 461/18723 | 2.72e-14 | 6.94e-12 | 71 |
GO:00525489 | Breast | Precancer | regulation of endopeptidase activity | 67/1080 | 432/18723 | 1.06e-13 | 2.36e-11 | 67 |
GO:00064578 | Breast | Precancer | protein folding | 43/1080 | 212/18723 | 3.48e-13 | 7.45e-11 | 43 |
GO:00362939 | Breast | Precancer | response to decreased oxygen levels | 53/1080 | 322/18723 | 4.09e-12 | 6.84e-10 | 53 |
GO:00016669 | Breast | Precancer | response to hypoxia | 51/1080 | 307/18723 | 7.33e-12 | 1.11e-09 | 51 |
GO:00704829 | Breast | Precancer | response to oxygen levels | 55/1080 | 347/18723 | 7.47e-12 | 1.11e-09 | 55 |
GO:20001169 | Breast | Precancer | regulation of cysteine-type endopeptidase activity | 43/1080 | 235/18723 | 1.30e-11 | 1.83e-09 | 43 |
GO:00068398 | Breast | Precancer | mitochondrial transport | 45/1080 | 254/18723 | 1.37e-11 | 1.88e-09 | 45 |
GO:00432819 | Breast | Precancer | regulation of cysteine-type endopeptidase activity involved in apoptotic process | 40/1080 | 209/18723 | 1.59e-11 | 2.07e-09 | 40 |
GO:00485459 | Breast | Precancer | response to steroid hormone | 53/1080 | 339/18723 | 3.07e-11 | 3.66e-09 | 53 |
GO:00064588 | Breast | Precancer | 'de novo' protein folding | 16/1080 | 43/18723 | 8.14e-10 | 6.92e-08 | 16 |
GO:00003029 | Breast | Precancer | response to reactive oxygen species | 38/1080 | 222/18723 | 1.47e-09 | 1.23e-07 | 38 |
GO:00069869 | Breast | Precancer | response to unfolded protein | 28/1080 | 137/18723 | 3.81e-09 | 3.00e-07 | 28 |
GO:00709979 | Breast | Precancer | neuron death | 50/1080 | 361/18723 | 7.75e-09 | 5.70e-07 | 50 |
GO:00458629 | Breast | Precancer | positive regulation of proteolysis | 51/1080 | 372/18723 | 7.77e-09 | 5.70e-07 | 51 |
GO:00319608 | Breast | Precancer | response to corticosteroid | 30/1080 | 167/18723 | 2.50e-08 | 1.65e-06 | 30 |
GO:00514029 | Breast | Precancer | neuron apoptotic process | 38/1080 | 246/18723 | 2.68e-08 | 1.75e-06 | 38 |
GO:00359669 | Breast | Precancer | response to topologically incorrect protein | 29/1080 | 159/18723 | 3.00e-08 | 1.89e-06 | 29 |
GO:00109529 | Breast | Precancer | positive regulation of peptidase activity | 33/1080 | 197/18723 | 3.01e-08 | 1.89e-06 | 33 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0513414 | Breast | Precancer | Legionellosis | 19/684 | 57/8465 | 4.62e-08 | 9.12e-07 | 6.98e-07 | 19 |
hsa0541718 | Breast | Precancer | Lipid and atherosclerosis | 37/684 | 215/8465 | 7.64e-06 | 9.29e-05 | 7.12e-05 | 37 |
hsa0513415 | Breast | Precancer | Legionellosis | 19/684 | 57/8465 | 4.62e-08 | 9.12e-07 | 6.98e-07 | 19 |
hsa0541719 | Breast | Precancer | Lipid and atherosclerosis | 37/684 | 215/8465 | 7.64e-06 | 9.29e-05 | 7.12e-05 | 37 |
hsa0513422 | Breast | IDC | Legionellosis | 19/867 | 57/8465 | 1.89e-06 | 3.07e-05 | 2.29e-05 | 19 |
hsa0494014 | Breast | IDC | Type I diabetes mellitus | 12/867 | 43/8465 | 9.40e-04 | 7.28e-03 | 5.44e-03 | 12 |
hsa0541724 | Breast | IDC | Lipid and atherosclerosis | 35/867 | 215/8465 | 3.67e-03 | 2.29e-02 | 1.71e-02 | 35 |
hsa0301821 | Breast | IDC | RNA degradation | 16/867 | 79/8465 | 5.65e-03 | 3.13e-02 | 2.34e-02 | 16 |
hsa0513432 | Breast | IDC | Legionellosis | 19/867 | 57/8465 | 1.89e-06 | 3.07e-05 | 2.29e-05 | 19 |
hsa0494015 | Breast | IDC | Type I diabetes mellitus | 12/867 | 43/8465 | 9.40e-04 | 7.28e-03 | 5.44e-03 | 12 |
hsa0541734 | Breast | IDC | Lipid and atherosclerosis | 35/867 | 215/8465 | 3.67e-03 | 2.29e-02 | 1.71e-02 | 35 |
hsa0301831 | Breast | IDC | RNA degradation | 16/867 | 79/8465 | 5.65e-03 | 3.13e-02 | 2.34e-02 | 16 |
hsa0513441 | Breast | DCIS | Legionellosis | 19/846 | 57/8465 | 1.30e-06 | 2.10e-05 | 1.55e-05 | 19 |
hsa030184 | Breast | DCIS | RNA degradation | 16/846 | 79/8465 | 4.45e-03 | 2.46e-02 | 1.82e-02 | 16 |
hsa0541744 | Breast | DCIS | Lipid and atherosclerosis | 34/846 | 215/8465 | 4.50e-03 | 2.46e-02 | 1.82e-02 | 34 |
hsa0513451 | Breast | DCIS | Legionellosis | 19/846 | 57/8465 | 1.30e-06 | 2.10e-05 | 1.55e-05 | 19 |
hsa030185 | Breast | DCIS | RNA degradation | 16/846 | 79/8465 | 4.45e-03 | 2.46e-02 | 1.82e-02 | 16 |
hsa0541754 | Breast | DCIS | Lipid and atherosclerosis | 34/846 | 215/8465 | 4.50e-03 | 2.46e-02 | 1.82e-02 | 34 |
hsa0541720 | Cervix | CC | Lipid and atherosclerosis | 65/1267 | 215/8465 | 6.47e-09 | 1.10e-07 | 6.52e-08 | 65 |
hsa0494016 | Cervix | CC | Type I diabetes mellitus | 17/1267 | 43/8465 | 7.47e-05 | 5.04e-04 | 2.98e-04 | 17 |
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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 |
HSPD1 | SNV | Missense_Mutation | novel | c.1292C>A | p.Ala431Asp | p.A431D | P10809 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AX-A2HD-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
HSPD1 | SNV | Missense_Mutation | c.1646N>G | p.Ile549Ser | p.I549S | P10809 | protein_coding | tolerated(0.13) | benign(0.241) | TCGA-BS-A0UF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
HSPD1 | SNV | Missense_Mutation | rs768557320 | c.1108C>T | p.Arg370Cys | p.R370C | P10809 | protein_coding | tolerated(0.07) | benign(0.009) | TCGA-BS-A0UV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
HSPD1 | SNV | Missense_Mutation | novel | c.791N>A | p.Ala264Asp | p.A264D | P10809 | protein_coding | deleterious(0) | probably_damaging(0.982) | TCGA-D1-A0ZN-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
HSPD1 | SNV | Missense_Mutation | rs139436185 | c.385G>A | p.Glu129Lys | p.E129K | P10809 | protein_coding | tolerated(1) | benign(0.265) | TCGA-EO-A22X-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unspecific | Carboplatin | Complete Response |
HSPD1 | SNV | Missense_Mutation | novel | c.1024N>G | p.Leu342Val | p.L342V | P10809 | protein_coding | deleterious(0) | benign(0.007) | TCGA-DD-AAD6-01 | Liver | liver hepatocellular carcinoma | Male | >=65 | III/IV | Unknown | Unknown | PD |
HSPD1 | SNV | Missense_Mutation | novel | c.844N>C | p.Ala282Pro | p.A282P | P10809 | protein_coding | deleterious(0.02) | probably_damaging(0.922) | TCGA-DD-AADV-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
HSPD1 | SNV | Missense_Mutation | novel | c.1222N>T | p.Gly408Trp | p.G408W | P10809 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-05-4396-01 | Lung | lung adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD |
HSPD1 | SNV | Missense_Mutation | c.1453N>A | p.Val485Ile | p.V485I | P10809 | protein_coding | tolerated(0.11) | benign(0.015) | TCGA-44-7660-01 | Lung | lung adenocarcinoma | Male | >=65 | I/II | Vaccine | recprame+as15 | PD | |
HSPD1 | SNV | Missense_Mutation | novel | c.766T>A | p.Ser256Thr | p.S256T | P10809 | protein_coding | tolerated(0.07) | benign(0.011) | TCGA-55-7913-01 | Lung | lung adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
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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 |
3329 | HSPD1 | DRUGGABLE GENOME, ENZYME, CELL SURFACE | CETRORELIX | CETRORELIX | 9805247 | |
3329 | HSPD1 | DRUGGABLE GENOME, ENZYME, CELL SURFACE | ATORVASTATIN | ATORVASTATIN | 15678257 | |
3329 | HSPD1 | DRUGGABLE GENOME, ENZYME, CELL SURFACE | DiaPep-277 | DIAPEP-277 |
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