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Gene: LIG1 |
Gene summary for LIG1 |
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Gene information | Species | Human | Gene symbol | LIG1 | Gene ID | 3978 |
Gene name | DNA ligase 1 | |
Gene Alias | LIG1 | |
Cytomap | 19q13.33 | |
Gene Type | protein-coding | GO ID | GO:0000278 | UniProtAcc | P18858 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
3978 | LIG1 | LZE3D | Human | Esophagus | HGIN | 3.91e-02 | 7.27e-01 | 0.0668 |
3978 | LIG1 | LZE7T | Human | Esophagus | ESCC | 1.92e-04 | 4.38e-01 | 0.0667 |
3978 | LIG1 | LZE21D1 | Human | Esophagus | HGIN | 1.22e-04 | 3.24e-01 | 0.0632 |
3978 | LIG1 | LZE24T | Human | Esophagus | ESCC | 1.19e-04 | 2.14e-01 | 0.0596 |
3978 | LIG1 | LZE6T | Human | Esophagus | ESCC | 7.87e-04 | 3.44e-01 | 0.0845 |
3978 | LIG1 | P1T-E | Human | Esophagus | ESCC | 2.97e-05 | 5.17e-01 | 0.0875 |
3978 | LIG1 | P2T-E | Human | Esophagus | ESCC | 8.38e-13 | 4.63e-01 | 0.1177 |
3978 | LIG1 | P4T-E | Human | Esophagus | ESCC | 4.34e-12 | 2.59e-01 | 0.1323 |
3978 | LIG1 | P5T-E | Human | Esophagus | ESCC | 8.62e-07 | 2.08e-01 | 0.1327 |
3978 | LIG1 | P8T-E | Human | Esophagus | ESCC | 1.59e-20 | 5.30e-01 | 0.0889 |
3978 | LIG1 | P9T-E | Human | Esophagus | ESCC | 6.19e-03 | 6.27e-02 | 0.1131 |
3978 | LIG1 | P10T-E | Human | Esophagus | ESCC | 8.66e-19 | 4.36e-01 | 0.116 |
3978 | LIG1 | P11T-E | Human | Esophagus | ESCC | 2.49e-06 | 1.99e-01 | 0.1426 |
3978 | LIG1 | P12T-E | Human | Esophagus | ESCC | 2.35e-10 | 1.97e-01 | 0.1122 |
3978 | LIG1 | P15T-E | Human | Esophagus | ESCC | 2.70e-12 | 2.82e-01 | 0.1149 |
3978 | LIG1 | P16T-E | Human | Esophagus | ESCC | 1.51e-12 | 2.65e-01 | 0.1153 |
3978 | LIG1 | P17T-E | Human | Esophagus | ESCC | 1.07e-03 | 2.46e-01 | 0.1278 |
3978 | LIG1 | P19T-E | Human | Esophagus | ESCC | 3.95e-02 | 1.78e-01 | 0.1662 |
3978 | LIG1 | P20T-E | Human | Esophagus | ESCC | 2.42e-08 | 8.25e-02 | 0.1124 |
3978 | LIG1 | P21T-E | Human | Esophagus | ESCC | 2.54e-07 | 1.69e-01 | 0.1617 |
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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:007189710 | Esophagus | HGIN | DNA biosynthetic process | 44/2587 | 180/18723 | 8.97e-05 | 1.96e-03 | 44 |
GO:00062604 | Esophagus | ESCC | DNA replication | 181/8552 | 260/18723 | 3.55e-15 | 2.05e-13 | 181 |
GO:007189716 | Esophagus | ESCC | DNA biosynthetic process | 127/8552 | 180/18723 | 1.04e-11 | 3.85e-10 | 127 |
GO:00062612 | Esophagus | ESCC | DNA-dependent DNA replication | 100/8552 | 151/18723 | 2.61e-07 | 3.94e-06 | 100 |
GO:00062843 | Esophagus | ESCC | base-excision repair | 33/8552 | 43/18723 | 3.25e-05 | 2.69e-04 | 33 |
GO:00062661 | Esophagus | ESCC | DNA ligation | 13/8552 | 16/18723 | 4.05e-03 | 1.62e-02 | 13 |
GO:0006287 | Esophagus | ESCC | base-excision repair, gap-filling | 11/8552 | 14/18723 | 1.30e-02 | 4.27e-02 | 11 |
GO:1902969 | Esophagus | ESCC | mitotic DNA replication | 11/8552 | 14/18723 | 1.30e-02 | 4.27e-02 | 11 |
GO:00062601 | Liver | HCC | DNA replication | 146/7958 | 260/18723 | 5.68e-06 | 7.02e-05 | 146 |
GO:00718975 | Liver | HCC | DNA biosynthetic process | 99/7958 | 180/18723 | 4.66e-04 | 3.08e-03 | 99 |
GO:0006284 | Liver | HCC | base-excision repair | 27/7958 | 43/18723 | 5.79e-03 | 2.40e-02 | 27 |
GO:0006261 | Liver | HCC | DNA-dependent DNA replication | 80/7958 | 151/18723 | 5.91e-03 | 2.44e-02 | 80 |
GO:00062603 | Oral cavity | OSCC | DNA replication | 159/7305 | 260/18723 | 3.25e-13 | 1.59e-11 | 159 |
GO:00718979 | Oral cavity | OSCC | DNA biosynthetic process | 106/7305 | 180/18723 | 4.86e-08 | 8.95e-07 | 106 |
GO:00062611 | Oral cavity | OSCC | DNA-dependent DNA replication | 84/7305 | 151/18723 | 2.46e-05 | 2.30e-04 | 84 |
GO:00062842 | Oral cavity | OSCC | base-excision repair | 28/7305 | 43/18723 | 4.71e-04 | 2.79e-03 | 28 |
GO:0006266 | Oral cavity | OSCC | DNA ligation | 12/7305 | 16/18723 | 3.83e-03 | 1.57e-02 | 12 |
GO:000626011 | Oral cavity | LP | DNA replication | 97/4623 | 260/18723 | 3.67e-06 | 7.75e-05 | 97 |
GO:007189715 | Oral cavity | LP | DNA biosynthetic process | 71/4623 | 180/18723 | 8.04e-06 | 1.52e-04 | 71 |
GO:00062841 | Oral cavity | LP | base-excision repair | 19/4623 | 43/18723 | 4.04e-03 | 2.61e-02 | 19 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa034205 | Esophagus | HGIN | Nucleotide excision repair | 29/1383 | 63/8465 | 2.96e-08 | 5.36e-07 | 4.26e-07 | 29 |
hsa0342012 | Esophagus | HGIN | Nucleotide excision repair | 29/1383 | 63/8465 | 2.96e-08 | 5.36e-07 | 4.26e-07 | 29 |
hsa0342022 | Esophagus | ESCC | Nucleotide excision repair | 54/4205 | 63/8465 | 2.01e-09 | 2.17e-08 | 1.11e-08 | 54 |
hsa034104 | Esophagus | ESCC | Base excision repair | 38/4205 | 44/8465 | 3.59e-07 | 2.62e-06 | 1.34e-06 | 38 |
hsa030304 | Esophagus | ESCC | DNA replication | 32/4205 | 36/8465 | 7.71e-07 | 5.06e-06 | 2.59e-06 | 32 |
hsa034304 | Esophagus | ESCC | Mismatch repair | 21/4205 | 23/8465 | 2.85e-05 | 1.35e-04 | 6.90e-05 | 21 |
hsa0342032 | Esophagus | ESCC | Nucleotide excision repair | 54/4205 | 63/8465 | 2.01e-09 | 2.17e-08 | 1.11e-08 | 54 |
hsa0341011 | Esophagus | ESCC | Base excision repair | 38/4205 | 44/8465 | 3.59e-07 | 2.62e-06 | 1.34e-06 | 38 |
hsa0303011 | Esophagus | ESCC | DNA replication | 32/4205 | 36/8465 | 7.71e-07 | 5.06e-06 | 2.59e-06 | 32 |
hsa0343011 | Esophagus | ESCC | Mismatch repair | 21/4205 | 23/8465 | 2.85e-05 | 1.35e-04 | 6.90e-05 | 21 |
hsa034202 | Liver | HCC | Nucleotide excision repair | 41/4020 | 63/8465 | 3.59e-03 | 1.12e-02 | 6.22e-03 | 41 |
hsa034203 | Liver | HCC | Nucleotide excision repair | 41/4020 | 63/8465 | 3.59e-03 | 1.12e-02 | 6.22e-03 | 41 |
hsa034204 | Oral cavity | OSCC | Nucleotide excision repair | 49/3704 | 63/8465 | 3.48e-08 | 2.91e-07 | 1.48e-07 | 49 |
hsa03030 | Oral cavity | OSCC | DNA replication | 31/3704 | 36/8465 | 1.70e-07 | 1.19e-06 | 6.03e-07 | 31 |
hsa03410 | Oral cavity | OSCC | Base excision repair | 32/3704 | 44/8465 | 9.11e-05 | 3.25e-04 | 1.65e-04 | 32 |
hsa0342011 | Oral cavity | OSCC | Nucleotide excision repair | 49/3704 | 63/8465 | 3.48e-08 | 2.91e-07 | 1.48e-07 | 49 |
hsa030301 | Oral cavity | OSCC | DNA replication | 31/3704 | 36/8465 | 1.70e-07 | 1.19e-06 | 6.03e-07 | 31 |
hsa034101 | Oral cavity | OSCC | Base excision repair | 32/3704 | 44/8465 | 9.11e-05 | 3.25e-04 | 1.65e-04 | 32 |
hsa0342021 | Oral cavity | LP | Nucleotide excision repair | 37/2418 | 63/8465 | 5.14e-07 | 6.33e-06 | 4.08e-06 | 37 |
hsa034102 | Oral cavity | LP | Base excision repair | 23/2418 | 44/8465 | 7.66e-04 | 3.75e-03 | 2.42e-03 | 23 |
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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 |
LIG1 | SNV | Missense_Mutation | novel | c.1531C>T | p.Pro511Ser | p.P511S | P18858 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-EA-A43B-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
LIG1 | SNV | Missense_Mutation | c.2620N>T | p.Arg874Trp | p.R874W | P18858 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-EK-A2PG-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD | |
LIG1 | SNV | Missense_Mutation | novel | c.2738N>G | p.Ser913Cys | p.S913C | P18858 | protein_coding | deleterious(0.02) | possibly_damaging(0.598) | TCGA-VS-A953-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | PD |
LIG1 | SNV | Missense_Mutation | novel | c.2312G>A | p.Arg771Gln | p.R771Q | P18858 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-VS-A958-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
LIG1 | SNV | Missense_Mutation | novel | c.973N>T | p.Pro325Ser | p.P325S | P18858 | protein_coding | tolerated(0.75) | benign(0.005) | TCGA-VS-A9V5-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | carboplatin | PD |
LIG1 | SNV | Missense_Mutation | rs747656528 | c.2497G>A | p.Asp833Asn | p.D833N | P18858 | protein_coding | tolerated(0.06) | benign(0.188) | TCGA-A6-2683-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Chemotherapy | irinotecan | PD |
LIG1 | SNV | Missense_Mutation | c.422N>A | p.Ser141Asn | p.S141N | P18858 | protein_coding | tolerated(0.63) | benign(0) | TCGA-A6-6780-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
LIG1 | SNV | Missense_Mutation | rs368406296 | c.2290G>A | p.Ala764Thr | p.A764T | P18858 | protein_coding | deleterious(0) | probably_damaging(0.97) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
LIG1 | SNV | Missense_Mutation | novel | c.246G>T | p.Lys82Asn | p.K82N | P18858 | protein_coding | tolerated_low_confidence(0.1) | benign(0) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
LIG1 | SNV | Missense_Mutation | c.1502T>C | p.Met501Thr | p.M501T | P18858 | protein_coding | tolerated(0.09) | benign(0.001) | TCGA-AA-A022-01 | Colorectum | colon adenocarcinoma | 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 |
3978 | LIG1 | DNA REPAIR, DRUGGABLE GENOME | BLEOMYCIN | BLEOMYCIN | ||
3978 | LIG1 | DNA REPAIR, DRUGGABLE GENOME | BLEOMYCIN | BLEOMYCIN |
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