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Gene: NEBL |
Gene summary for NEBL |
Gene summary. |
Gene information | Species | Human | Gene symbol | NEBL | Gene ID | 10529 |
Gene name | nebulette | |
Gene Alias | C10orf113 | |
Cytomap | 10p12.31 | |
Gene Type | protein-coding | GO ID | GO:0006996 | UniProtAcc | O76041 |
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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 |
10529 | NEBL | N_HPV_1 | Human | Cervix | N_HPV | 1.61e-02 | -9.93e-02 | 0.0079 |
10529 | NEBL | CCI_1 | Human | Cervix | CC | 2.59e-20 | 1.64e+00 | 0.528 |
10529 | NEBL | CCI_2 | Human | Cervix | CC | 3.96e-06 | 1.64e+00 | 0.5249 |
10529 | NEBL | CCI_3 | Human | Cervix | CC | 1.32e-14 | 1.29e+00 | 0.516 |
10529 | NEBL | sample3 | Human | Cervix | CC | 8.53e-03 | 1.67e-01 | 0.1387 |
10529 | NEBL | T1 | Human | Cervix | CC | 8.81e-07 | 3.38e-01 | 0.0918 |
10529 | NEBL | HTA11_3410_2000001011 | Human | Colorectum | AD | 8.15e-03 | -2.04e-01 | 0.0155 |
10529 | NEBL | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.65e-02 | -4.08e-01 | -0.1808 |
10529 | NEBL | HTA11_1391_2000001011 | Human | Colorectum | AD | 4.48e-02 | 6.83e-01 | -0.059 |
10529 | NEBL | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 1.27e-12 | 1.38e+00 | 0.3487 |
10529 | NEBL | HTA11_99999965104_69814 | Human | Colorectum | MSS | 4.75e-06 | 7.36e-01 | 0.281 |
10529 | NEBL | HTA11_99999971662_82457 | Human | Colorectum | MSS | 9.35e-07 | 8.31e-01 | 0.3859 |
10529 | NEBL | F007 | Human | Colorectum | FAP | 3.42e-03 | 4.27e-01 | 0.1176 |
10529 | NEBL | A002-C-010 | Human | Colorectum | FAP | 5.66e-13 | 4.97e-01 | 0.242 |
10529 | NEBL | A001-C-207 | Human | Colorectum | FAP | 8.70e-08 | 5.16e-01 | 0.1278 |
10529 | NEBL | A015-C-203 | Human | Colorectum | FAP | 5.58e-21 | 5.66e-02 | -0.1294 |
10529 | NEBL | A002-C-201 | Human | Colorectum | FAP | 3.26e-06 | 8.85e-02 | 0.0324 |
10529 | NEBL | A002-C-203 | Human | Colorectum | FAP | 6.05e-11 | 5.07e-01 | 0.2786 |
10529 | NEBL | A001-C-108 | Human | Colorectum | FAP | 4.80e-14 | 4.41e-01 | -0.0272 |
10529 | NEBL | A002-C-021 | Human | Colorectum | FAP | 4.96e-20 | 6.03e-01 | 0.1171 |
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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:000701510 | Cervix | CC | actin filament organization | 109/2311 | 442/18723 | 4.92e-13 | 2.45e-10 | 109 |
GO:00605375 | Cervix | CC | muscle tissue development | 76/2311 | 403/18723 | 9.76e-05 | 1.27e-03 | 76 |
GO:00310329 | Cervix | CC | actomyosin structure organization | 43/2311 | 196/18723 | 1.11e-04 | 1.40e-03 | 43 |
GO:00147064 | Cervix | CC | striated muscle tissue development | 72/2311 | 384/18723 | 1.76e-04 | 2.07e-03 | 72 |
GO:00426924 | Cervix | CC | muscle cell differentiation | 69/2311 | 384/18723 | 8.12e-04 | 7.09e-03 | 69 |
GO:00511464 | Cervix | CC | striated muscle cell differentiation | 50/2311 | 283/18723 | 5.53e-03 | 3.19e-02 | 50 |
GO:000701525 | Cervix | N_HPV | actin filament organization | 29/534 | 442/18723 | 3.00e-05 | 8.02e-04 | 29 |
GO:006053722 | Cervix | N_HPV | muscle tissue development | 21/534 | 403/18723 | 6.10e-03 | 4.21e-02 | 21 |
GO:0007015 | Colorectum | AD | actin filament organization | 167/3918 | 442/18723 | 1.65e-16 | 7.94e-14 | 167 |
GO:0031032 | Colorectum | AD | actomyosin structure organization | 65/3918 | 196/18723 | 4.17e-05 | 7.37e-04 | 65 |
GO:00070151 | Colorectum | SER | actin filament organization | 134/2897 | 442/18723 | 1.39e-15 | 5.70e-13 | 134 |
GO:00310321 | Colorectum | SER | actomyosin structure organization | 45/2897 | 196/18723 | 3.60e-03 | 3.03e-02 | 45 |
GO:00070152 | Colorectum | MSS | actin filament organization | 146/3467 | 442/18723 | 1.16e-13 | 2.67e-11 | 146 |
GO:00310322 | Colorectum | MSS | actomyosin structure organization | 53/3467 | 196/18723 | 2.04e-03 | 1.75e-02 | 53 |
GO:00070153 | Colorectum | MSI-H | actin filament organization | 50/1319 | 442/18723 | 6.19e-04 | 1.21e-02 | 50 |
GO:00070154 | Colorectum | FAP | actin filament organization | 125/2622 | 442/18723 | 1.97e-15 | 3.03e-12 | 125 |
GO:00310323 | Colorectum | FAP | actomyosin structure organization | 51/2622 | 196/18723 | 5.89e-06 | 1.88e-04 | 51 |
GO:0055006 | Colorectum | FAP | cardiac cell development | 22/2622 | 91/18723 | 6.44e-03 | 4.01e-02 | 22 |
GO:00070155 | Colorectum | CRC | actin filament organization | 104/2078 | 442/18723 | 4.75e-14 | 7.12e-11 | 104 |
GO:00310324 | Colorectum | CRC | actomyosin structure organization | 45/2078 | 196/18723 | 1.49e-06 | 8.14e-05 | 45 |
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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 |
NEBL | SNV | Missense_Mutation | rs114875104 | c.2080N>T | p.Arg694Trp | p.R694W | O76041 | protein_coding | deleterious(0) | benign(0.347) | TCGA-AZ-4313-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NEBL | SNV | Missense_Mutation | c.2980N>A | p.Gly994Ser | p.G994S | O76041 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-CA-5254-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | oxaliplatin | CR | |
NEBL | SNV | Missense_Mutation | novel | c.163N>G | p.Lys55Glu | p.K55E | O76041 | protein_coding | deleterious(0) | benign(0.093) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
NEBL | SNV | Missense_Mutation | c.31N>T | p.Asp11Tyr | p.D11Y | O76041 | protein_coding | tolerated_low_confidence(0.07) | benign(0) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR | |
NEBL | SNV | Missense_Mutation | rs868003827 | c.2965N>A | p.Asp989Asn | p.D989N | O76041 | protein_coding | deleterious(0) | possibly_damaging(0.838) | TCGA-D5-6927-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
NEBL | SNV | Missense_Mutation | rs769413446 | c.2557N>A | p.Asp853Asn | p.D853N | O76041 | protein_coding | deleterious(0) | benign(0.177) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
NEBL | SNV | Missense_Mutation | novel | c.1014N>C | p.Lys338Asn | p.K338N | O76041 | protein_coding | deleterious(0.01) | probably_damaging(0.978) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
NEBL | SNV | Missense_Mutation | c.2905G>A | p.Asp969Asn | p.D969N | O76041 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AG-A026-01 | Colorectum | rectum adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
NEBL | SNV | Missense_Mutation | novel | c.1019N>C | p.Lys340Thr | p.K340T | O76041 | protein_coding | deleterious(0) | possibly_damaging(0.533) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD |
NEBL | SNV | Missense_Mutation | novel | c.1201A>C | p.Lys401Gln | p.K401Q | O76041 | protein_coding | tolerated(0.09) | possibly_damaging(0.835) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | 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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