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Gene: HFM1 |
Gene summary for HFM1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | HFM1 | Gene ID | 164045 |
Gene name | helicase for meiosis 1 | |
Gene Alias | MER3 | |
Cytomap | 1p22.2 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | A2PYH4 |
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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 |
164045 | HFM1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 6.45e-05 | 2.00e-01 | 0.0155 |
164045 | HFM1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 7.26e-17 | 5.40e-01 | -0.1808 |
164045 | HFM1 | HTA11_2951_2000001011 | Human | Colorectum | AD | 3.01e-08 | 9.04e-01 | 0.0216 |
164045 | HFM1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 5.15e-13 | 7.32e-01 | -0.0811 |
164045 | HFM1 | HTA11_78_2000001011 | Human | Colorectum | AD | 8.43e-12 | 3.38e-01 | -0.1088 |
164045 | HFM1 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.48e-33 | 6.14e-01 | -0.1954 |
164045 | HFM1 | HTA11_411_2000001011 | Human | Colorectum | SER | 1.83e-04 | 3.96e-01 | -0.2602 |
164045 | HFM1 | HTA11_2112_2000001011 | Human | Colorectum | SER | 3.35e-10 | 8.74e-01 | -0.2196 |
164045 | HFM1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 6.53e-16 | 5.38e-01 | -0.1207 |
164045 | HFM1 | HTA11_83_2000001011 | Human | Colorectum | SER | 8.55e-13 | 5.24e-01 | -0.1526 |
164045 | HFM1 | HTA11_696_2000001011 | Human | Colorectum | AD | 9.32e-21 | 4.69e-01 | -0.1464 |
164045 | HFM1 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.14e-46 | 9.64e-01 | -0.1001 |
164045 | HFM1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.90e-33 | 8.84e-01 | -0.059 |
164045 | HFM1 | HTA11_2992_2000001011 | Human | Colorectum | SER | 1.07e-21 | 9.63e-01 | -0.1706 |
164045 | HFM1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.40e-05 | 3.55e-01 | -0.2061 |
164045 | HFM1 | HTA11_5216_2000001011 | Human | Colorectum | SER | 2.64e-18 | 8.85e-01 | -0.1462 |
164045 | HFM1 | HTA11_546_2000001011 | Human | Colorectum | AD | 2.76e-10 | 4.07e-01 | -0.0842 |
164045 | HFM1 | HTA11_9341_2000001011 | Human | Colorectum | SER | 1.89e-04 | 3.96e-01 | -0.00410000000000005 |
164045 | HFM1 | HTA11_7862_2000001011 | Human | Colorectum | AD | 2.61e-02 | 2.62e-01 | -0.0179 |
164045 | HFM1 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.40e-18 | 5.33e-01 | 0.096 |
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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:0032392 | Colorectum | AD | DNA geometric change | 31/3918 | 90/18723 | 2.02e-03 | 1.63e-02 | 31 |
GO:00323921 | Colorectum | MSS | DNA geometric change | 29/3467 | 90/18723 | 1.26e-03 | 1.20e-02 | 29 |
GO:0032508 | Colorectum | MSS | DNA duplex unwinding | 25/3467 | 84/18723 | 8.27e-03 | 4.99e-02 | 25 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
HFM1 | deletion | Frame_Shift_Del | c.2866delA | p.Ile956Ter | p.I956* | A2PYH4 | protein_coding | TCGA-D7-A4YV-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
HFM1 | insertion | Frame_Shift_Ins | rs766204131 | c.4200_4201insT | p.Ile1401TyrfsTer2 | p.I1401Yfs*2 | A2PYH4 | protein_coding | TCGA-HF-A5NB-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Chemotherapy | fluorouracil | SD | ||
HFM1 | deletion | Frame_Shift_Del | c.724delN | p.Ser242GlnfsTer12 | p.S242Qfs*12 | A2PYH4 | protein_coding | TCGA-R5-A7ZI-01 | Stomach | stomach adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |||
HFM1 | insertion | Frame_Shift_Ins | novel | c.928_929insA | p.Thr310AsnfsTer5 | p.T310Nfs*5 | A2PYH4 | protein_coding | TCGA-VQ-A8P2-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Unspecific | Complete Response | |||
HFM1 | SNV | Missense_Mutation | c.3856N>G | p.Thr1286Ala | p.T1286A | A2PYH4 | protein_coding | tolerated_low_confidence(1) | benign(0) | TCGA-BJ-A18Z-01 | Thyroid | thyroid carcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
HFM1 | insertion | Frame_Shift_Ins | novel | c.3307_3308insTCTACTATATACTATTAATG | p.Gln1103LeufsTer30 | p.Q1103Lfs*30 | A2PYH4 | protein_coding | TCGA-EL-A3ZM-01 | Thyroid | thyroid carcinoma | Male | <65 | I/II | Unknown | Unknown | SD | ||
HFM1 | insertion | Frame_Shift_Ins | novel | c.578_579insGTGGTTTAGTC | p.Ile193MetfsTer10 | p.I193Mfs*10 | A2PYH4 | protein_coding | TCGA-EL-A3ZM-01 | Thyroid | thyroid carcinoma | Male | <65 | I/II | Unknown | Unknown | SD | ||
HFM1 | insertion | Nonsense_Mutation | novel | c.3488_3489insCTAATTGACAG | p.Gln1164Ter | p.Q1164* | A2PYH4 | protein_coding | TCGA-ET-A40R-01 | Thyroid | thyroid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
HFM1 | insertion | Frame_Shift_Ins | novel | c.563_564insGCTAAGAAATG | p.Ile188MetfsTer8 | p.I188Mfs*8 | A2PYH4 | protein_coding | TCGA-FY-A4B0-01 | Thyroid | thyroid carcinoma | Male | >=65 | I/II | Hormone Therapy | synthroid | SD |
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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 |
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