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Gene: SCNM1 |
Gene summary for SCNM1 |
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Gene information | Species | Human | Gene symbol | SCNM1 | Gene ID | 79005 |
Gene name | sodium channel modifier 1 | |
Gene Alias | SCNM1 | |
Cytomap | 1q21.3 | |
Gene Type | protein-coding | GO ID | GO:0000375 | UniProtAcc | Q9BWG6 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
79005 | SCNM1 | P1_cSCC | Human | Skin | cSCC | 1.23e-08 | 5.24e-01 | 0.0292 |
79005 | SCNM1 | P2_cSCC | Human | Skin | cSCC | 8.72e-07 | 3.50e-01 | -0.024 |
79005 | SCNM1 | P4_cSCC | Human | Skin | cSCC | 3.26e-14 | 4.16e-01 | -0.00290000000000005 |
79005 | SCNM1 | P10_cSCC | Human | Skin | cSCC | 1.76e-16 | 6.06e-01 | 0.1017 |
79005 | SCNM1 | male-WTA | Human | Thyroid | PTC | 1.48e-18 | 6.27e-02 | 0.1037 |
79005 | SCNM1 | PTC01 | Human | Thyroid | PTC | 1.27e-10 | 4.34e-02 | 0.1899 |
79005 | SCNM1 | PTC04 | Human | Thyroid | PTC | 7.67e-06 | -3.21e-02 | 0.1927 |
79005 | SCNM1 | PTC05 | Human | Thyroid | PTC | 2.35e-13 | 2.46e-01 | 0.2065 |
79005 | SCNM1 | PTC06 | Human | Thyroid | PTC | 7.24e-06 | 1.59e-01 | 0.2057 |
79005 | SCNM1 | PTC07 | Human | Thyroid | PTC | 5.75e-24 | 1.41e-01 | 0.2044 |
79005 | SCNM1 | ATC09 | Human | Thyroid | ATC | 2.28e-04 | 1.36e-01 | 0.2871 |
79005 | SCNM1 | ATC11 | Human | Thyroid | ATC | 8.52e-04 | 2.71e-01 | 0.3386 |
79005 | SCNM1 | ATC12 | Human | Thyroid | ATC | 5.45e-15 | 2.29e-01 | 0.34 |
79005 | SCNM1 | ATC13 | Human | Thyroid | ATC | 8.47e-20 | 2.38e-01 | 0.34 |
79005 | SCNM1 | ATC1 | Human | Thyroid | ATC | 4.79e-03 | 2.22e-01 | 0.2878 |
79005 | SCNM1 | ATC2 | Human | Thyroid | ATC | 1.79e-11 | 1.02e+00 | 0.34 |
79005 | SCNM1 | ATC3 | Human | Thyroid | ATC | 2.22e-04 | 2.16e-01 | 0.338 |
79005 | SCNM1 | ATC4 | Human | Thyroid | ATC | 2.94e-19 | 3.46e-01 | 0.34 |
79005 | SCNM1 | ATC5 | Human | Thyroid | ATC | 1.93e-16 | 2.77e-01 | 0.34 |
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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:000838026 | Esophagus | HGIN | RNA splicing | 160/2587 | 434/18723 | 3.74e-34 | 1.12e-30 | 160 |
GO:000037520 | Esophagus | HGIN | RNA splicing, via transesterification reactions | 115/2587 | 324/18723 | 3.16e-23 | 3.80e-20 | 115 |
GO:000037720 | Esophagus | HGIN | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 113/2587 | 320/18723 | 1.24e-22 | 9.26e-20 | 113 |
GO:000039820 | Esophagus | HGIN | mRNA splicing, via spliceosome | 113/2587 | 320/18723 | 1.24e-22 | 9.26e-20 | 113 |
GO:000038018 | Esophagus | HGIN | alternative mRNA splicing, via spliceosome | 32/2587 | 77/18723 | 2.06e-09 | 1.54e-07 | 32 |
GO:0008380111 | Esophagus | ESCC | RNA splicing | 336/8552 | 434/18723 | 1.74e-42 | 3.67e-39 | 336 |
GO:0000375111 | Esophagus | ESCC | RNA splicing, via transesterification reactions | 248/8552 | 324/18723 | 3.05e-30 | 1.49e-27 | 248 |
GO:0000377111 | Esophagus | ESCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 244/8552 | 320/18723 | 2.52e-29 | 1.07e-26 | 244 |
GO:0000398111 | Esophagus | ESCC | mRNA splicing, via spliceosome | 244/8552 | 320/18723 | 2.52e-29 | 1.07e-26 | 244 |
GO:000038019 | Esophagus | ESCC | alternative mRNA splicing, via spliceosome | 55/8552 | 77/18723 | 4.07e-06 | 4.38e-05 | 55 |
GO:000838012 | Liver | Cirrhotic | RNA splicing | 229/4634 | 434/18723 | 9.13e-37 | 2.86e-33 | 229 |
GO:000037512 | Liver | Cirrhotic | RNA splicing, via transesterification reactions | 175/4634 | 324/18723 | 5.95e-30 | 7.47e-27 | 175 |
GO:000037712 | Liver | Cirrhotic | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 172/4634 | 320/18723 | 4.02e-29 | 3.60e-26 | 172 |
GO:000039812 | Liver | Cirrhotic | mRNA splicing, via spliceosome | 172/4634 | 320/18723 | 4.02e-29 | 3.60e-26 | 172 |
GO:000038011 | Liver | Cirrhotic | alternative mRNA splicing, via spliceosome | 43/4634 | 77/18723 | 5.31e-09 | 2.10e-07 | 43 |
GO:000838022 | Liver | HCC | RNA splicing | 313/7958 | 434/18723 | 1.36e-36 | 1.73e-33 | 313 |
GO:000037522 | Liver | HCC | RNA splicing, via transesterification reactions | 228/7958 | 324/18723 | 1.47e-24 | 4.06e-22 | 228 |
GO:000037722 | Liver | HCC | RNA splicing, via transesterification reactions with bulged adenosine as nucleophile | 224/7958 | 320/18723 | 1.16e-23 | 2.62e-21 | 224 |
GO:000039822 | Liver | HCC | mRNA splicing, via spliceosome | 224/7958 | 320/18723 | 1.16e-23 | 2.62e-21 | 224 |
GO:000038021 | Liver | HCC | alternative mRNA splicing, via spliceosome | 52/7958 | 77/18723 | 7.87e-06 | 9.27e-05 | 52 |
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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 |
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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 |
SCNM1 | SNV | Missense_Mutation | c.16G>A | p.Glu6Lys | p.E6K | Q9BWG6 | protein_coding | deleterious(0.01) | probably_damaging(0.997) | TCGA-A8-A09X-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
SCNM1 | SNV | Missense_Mutation | rs780575915 | c.112N>T | p.Arg38Trp | p.R38W | Q9BWG6 | protein_coding | deleterious(0) | probably_damaging(0.987) | TCGA-EW-A3E8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | anastrozole | SD |
SCNM1 | insertion | Frame_Shift_Ins | novel | c.362_363insCTTGCTACGGTGGCCTGGAGGAGTGGCGAAACCGGAACAGAGAATT | p.Pro122LeufsTer19 | p.P122Lfs*19 | Q9BWG6 | protein_coding | TCGA-A8-A09Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
SCNM1 | SNV | Missense_Mutation | novel | c.649N>C | p.Phe217Leu | p.F217L | Q9BWG6 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-AA-3877-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SCNM1 | SNV | Missense_Mutation | novel | c.263A>C | p.Asn88Thr | p.N88T | Q9BWG6 | protein_coding | tolerated(0.1) | benign(0.112) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
SCNM1 | SNV | Missense_Mutation | c.551N>A | p.Pro184His | p.P184H | Q9BWG6 | protein_coding | deleterious(0) | probably_damaging(0.967) | TCGA-D5-6930-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
SCNM1 | SNV | Missense_Mutation | novel | c.212G>A | p.Ser71Asn | p.S71N | Q9BWG6 | protein_coding | deleterious(0.04) | possibly_damaging(0.836) | TCGA-AP-A1E0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | SD |
SCNM1 | SNV | Missense_Mutation | rs778971346 | c.494C>T | p.Ala165Val | p.A165V | Q9BWG6 | protein_coding | tolerated(0.34) | benign(0) | TCGA-AX-A1CE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unspecific | Paclitaxel | SD |
SCNM1 | SNV | Missense_Mutation | c.214T>G | p.Leu72Val | p.L72V | Q9BWG6 | protein_coding | deleterious(0.01) | benign(0.147) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
SCNM1 | SNV | Missense_Mutation | novel | c.593N>T | p.Ser198Ile | p.S198I | Q9BWG6 | protein_coding | deleterious(0) | benign(0.01) | TCGA-BG-A220-01 | 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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