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Gene: SMC4 |
Gene summary for SMC4 |
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Gene information | Species | Human | Gene symbol | SMC4 | Gene ID | 10051 |
Gene name | structural maintenance of chromosomes 4 | |
Gene Alias | CAP-C | |
Cytomap | 3q25.33 | |
Gene Type | protein-coding | GO ID | GO:0000003 | UniProtAcc | Q58F29 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
10051 | SMC4 | GSM4909281 | Human | Breast | IDC | 7.12e-04 | 3.36e-01 | 0.21 |
10051 | SMC4 | GSM4909282 | Human | Breast | IDC | 4.45e-23 | 6.19e-01 | -0.0288 |
10051 | SMC4 | GSM4909285 | Human | Breast | IDC | 2.99e-10 | 3.58e-01 | 0.21 |
10051 | SMC4 | GSM4909287 | Human | Breast | IDC | 2.31e-02 | 2.55e-01 | 0.2057 |
10051 | SMC4 | GSM4909290 | Human | Breast | IDC | 3.91e-09 | 3.78e-01 | 0.2096 |
10051 | SMC4 | GSM4909308 | Human | Breast | IDC | 6.43e-06 | 2.94e-01 | 0.158 |
10051 | SMC4 | GSM4909311 | Human | Breast | IDC | 3.51e-04 | -1.15e-01 | 0.1534 |
10051 | SMC4 | GSM4909319 | Human | Breast | IDC | 9.51e-05 | 3.65e-02 | 0.1563 |
10051 | SMC4 | M1 | Human | Breast | IDC | 1.28e-03 | 2.87e-01 | 0.1577 |
10051 | SMC4 | M2 | Human | Breast | IDC | 5.51e-10 | 7.55e-01 | 0.21 |
10051 | SMC4 | P2 | Human | Breast | IDC | 2.18e-05 | 4.30e-01 | 0.21 |
10051 | SMC4 | DCIS2 | Human | Breast | DCIS | 1.51e-11 | 4.79e-03 | 0.0085 |
10051 | SMC4 | CA_HPV_2 | Human | Cervix | CC | 1.22e-02 | 2.93e-01 | 0.0391 |
10051 | SMC4 | HSIL_HPV_2 | Human | Cervix | HSIL_HPV | 1.06e-05 | 3.19e-01 | 0.0208 |
10051 | SMC4 | CCI_2 | Human | Cervix | CC | 2.06e-10 | 1.68e+00 | 0.5249 |
10051 | SMC4 | CCI_3 | Human | Cervix | CC | 1.87e-11 | 1.10e+00 | 0.516 |
10051 | SMC4 | sample3 | Human | Cervix | CC | 2.44e-11 | 3.91e-01 | 0.1387 |
10051 | SMC4 | H2 | Human | Cervix | HSIL_HPV | 1.28e-03 | 2.70e-01 | 0.0632 |
10051 | SMC4 | T1 | Human | Cervix | CC | 1.55e-02 | 3.98e-01 | 0.0918 |
10051 | SMC4 | T3 | Human | Cervix | CC | 1.21e-12 | 3.88e-01 | 0.1389 |
Page: 1 2 3 4 5 6 7 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:004217610 | Cervix | CC | regulation of protein catabolic process | 104/2311 | 391/18723 | 9.39e-15 | 9.36e-12 | 104 |
GO:004586210 | Cervix | CC | positive regulation of proteolysis | 95/2311 | 372/18723 | 1.84e-12 | 6.86e-10 | 95 |
GO:190336210 | Cervix | CC | regulation of cellular protein catabolic process | 72/2311 | 255/18723 | 5.98e-12 | 2.10e-09 | 72 |
GO:004573210 | Cervix | CC | positive regulation of protein catabolic process | 65/2311 | 231/18723 | 7.44e-11 | 1.39e-08 | 65 |
GO:001049810 | Cervix | CC | proteasomal protein catabolic process | 111/2311 | 490/18723 | 8.98e-11 | 1.58e-08 | 111 |
GO:000989610 | Cervix | CC | positive regulation of catabolic process | 109/2311 | 492/18723 | 5.26e-10 | 6.99e-08 | 109 |
GO:190305010 | Cervix | CC | regulation of proteolysis involved in cellular protein catabolic process | 60/2311 | 221/18723 | 1.82e-09 | 1.98e-07 | 60 |
GO:004316110 | Cervix | CC | proteasome-mediated ubiquitin-dependent protein catabolic process | 91/2311 | 412/18723 | 1.65e-08 | 1.25e-06 | 91 |
GO:003133110 | Cervix | CC | positive regulation of cellular catabolic process | 91/2311 | 427/18723 | 9.64e-08 | 5.25e-06 | 91 |
GO:190336410 | Cervix | CC | positive regulation of cellular protein catabolic process | 43/2311 | 155/18723 | 1.80e-07 | 8.28e-06 | 43 |
GO:006113610 | Cervix | CC | regulation of proteasomal protein catabolic process | 48/2311 | 187/18723 | 4.63e-07 | 1.77e-05 | 48 |
GO:19030528 | Cervix | CC | positive regulation of proteolysis involved in cellular protein catabolic process | 34/2311 | 133/18723 | 2.28e-05 | 4.01e-04 | 34 |
GO:00017018 | Cervix | CC | in utero embryonic development | 71/2311 | 367/18723 | 7.21e-05 | 1.00e-03 | 71 |
GO:19018008 | Cervix | CC | positive regulation of proteasomal protein catabolic process | 29/2311 | 114/18723 | 9.71e-05 | 1.27e-03 | 29 |
GO:01400143 | Cervix | CC | mitotic nuclear division | 50/2311 | 287/18723 | 7.27e-03 | 3.91e-02 | 50 |
GO:00482851 | Cervix | CC | organelle fission | 78/2311 | 488/18723 | 9.70e-03 | 4.79e-02 | 78 |
GO:0042176 | Colorectum | AD | regulation of protein catabolic process | 160/3918 | 391/18723 | 1.06e-19 | 7.34e-17 | 160 |
GO:0009896 | Colorectum | AD | positive regulation of catabolic process | 180/3918 | 492/18723 | 4.33e-16 | 1.94e-13 | 180 |
GO:1903362 | Colorectum | AD | regulation of cellular protein catabolic process | 109/3918 | 255/18723 | 2.14e-15 | 6.08e-13 | 109 |
GO:0010498 | Colorectum | AD | proteasomal protein catabolic process | 174/3918 | 490/18723 | 3.18e-14 | 7.66e-12 | 174 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 |
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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 |
SMC4 | SNV | Missense_Mutation | c.2401N>A | p.Glu801Lys | p.E801K | Q9NTJ3 | protein_coding | deleterious(0) | probably_damaging(0.984) | TCGA-EX-A69L-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SMC4 | SNV | Missense_Mutation | novel | c.3510N>G | p.Phe1170Leu | p.F1170L | Q9NTJ3 | protein_coding | deleterious(0.03) | probably_damaging(1) | TCGA-HM-A4S6-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | CR |
SMC4 | SNV | Missense_Mutation | c.2710N>A | p.Asp904Asn | p.D904N | Q9NTJ3 | protein_coding | deleterious(0.04) | benign(0.015) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SMC4 | SNV | Missense_Mutation | c.1095N>C | p.Lys365Asn | p.K365N | Q9NTJ3 | protein_coding | deleterious(0.03) | probably_damaging(0.966) | TCGA-MU-A51Y-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
SMC4 | SNV | Missense_Mutation | novel | c.286G>T | p.Ala96Ser | p.A96S | Q9NTJ3 | protein_coding | deleterious(0.03) | probably_damaging(0.957) | TCGA-VS-A8EK-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | PD |
SMC4 | SNV | Missense_Mutation | c.1348N>C | p.Glu450Gln | p.E450Q | Q9NTJ3 | protein_coding | tolerated(0.06) | probably_damaging(0.988) | TCGA-VS-A958-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
SMC4 | SNV | Missense_Mutation | novel | c.2267N>C | p.Ser756Thr | p.S756T | Q9NTJ3 | protein_coding | tolerated(0.47) | benign(0.005) | TCGA-VS-AA62-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
SMC4 | deletion | Frame_Shift_Del | c.1817delN | p.Lys608AsnfsTer15 | p.K608Nfs*15 | Q9NTJ3 | protein_coding | TCGA-ZJ-A8QO-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD | |||
SMC4 | SNV | Missense_Mutation | rs779745638 | c.1534C>T | p.Arg512Cys | p.R512C | Q9NTJ3 | protein_coding | tolerated(0.06) | benign(0.001) | TCGA-A6-6781-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | SD |
SMC4 | SNV | Missense_Mutation | c.2326N>A | p.Val776Ile | p.V776I | Q9NTJ3 | protein_coding | tolerated(0.71) | benign(0.009) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 |
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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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