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Gene: NOLC1 |
Gene summary for NOLC1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | NOLC1 | Gene ID | 9221 |
| Gene name | nucleolar and coiled-body phosphoprotein 1 | |
| Gene Alias | NOPP130 | |
| Cytomap | 10q24.32 | |
| Gene Type | protein-coding | GO ID | GO:0000278 | UniProtAcc | B2RAU8 |
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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 |
| 9221 | NOLC1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.97e-03 | 2.45e-01 | 0.0155 |
| 9221 | NOLC1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 7.23e-06 | 5.40e-01 | -0.0811 |
| 9221 | NOLC1 | HTA11_347_2000001011 | Human | Colorectum | AD | 1.37e-05 | 2.91e-01 | -0.1954 |
| 9221 | NOLC1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 5.76e-09 | 5.92e-01 | -0.059 |
| 9221 | NOLC1 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.84e-09 | 5.06e-01 | 0.096 |
| 9221 | NOLC1 | HTA11_10623_2000001011 | Human | Colorectum | AD | 8.90e-03 | 2.52e-01 | -0.0177 |
| 9221 | NOLC1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 1.88e-03 | 3.47e-01 | 0.0674 |
| 9221 | NOLC1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.60e-21 | 7.21e-01 | 0.294 |
| 9221 | NOLC1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 2.80e-06 | 4.54e-01 | 0.281 |
| 9221 | NOLC1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 5.18e-23 | 8.30e-01 | 0.3859 |
| 9221 | NOLC1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 9.29e-03 | 4.84e-01 | 0.2585 |
| 9221 | NOLC1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.07e-03 | 3.29e-01 | 0.3005 |
| 9221 | NOLC1 | LZE2D | Human | Esophagus | HGIN | 1.63e-03 | -3.18e-01 | 0.0642 |
| 9221 | NOLC1 | LZE2T | Human | Esophagus | ESCC | 4.03e-02 | 2.90e-01 | 0.082 |
| 9221 | NOLC1 | LZE4T | Human | Esophagus | ESCC | 3.93e-07 | 6.95e-02 | 0.0811 |
| 9221 | NOLC1 | LZE20T | Human | Esophagus | ESCC | 2.02e-03 | -2.50e-01 | 0.0662 |
| 9221 | NOLC1 | LZE22D1 | Human | Esophagus | HGIN | 2.54e-03 | -5.36e-01 | 0.0595 |
| 9221 | NOLC1 | LZE22T | Human | Esophagus | ESCC | 6.52e-05 | 1.23e-02 | 0.068 |
| 9221 | NOLC1 | LZE24T | Human | Esophagus | ESCC | 5.92e-11 | 7.81e-01 | 0.0596 |
| 9221 | NOLC1 | LZE6T | Human | Esophagus | ESCC | 3.72e-11 | -2.71e-01 | 0.0845 |
| Page: 1 2 3 4 5 6 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:0072594 | Colorectum | AD | establishment of protein localization to organelle | 148/3918 | 422/18723 | 7.95e-12 | 1.04e-09 | 148 |
| GO:0022613 | Colorectum | AD | ribonucleoprotein complex biogenesis | 151/3918 | 463/18723 | 1.96e-09 | 1.39e-07 | 151 |
| GO:0006913 | Colorectum | AD | nucleocytoplasmic transport | 102/3918 | 301/18723 | 1.00e-07 | 4.85e-06 | 102 |
| GO:0051169 | Colorectum | AD | nuclear transport | 102/3918 | 301/18723 | 1.00e-07 | 4.85e-06 | 102 |
| GO:1900180 | Colorectum | AD | regulation of protein localization to nucleus | 55/3918 | 136/18723 | 1.70e-07 | 7.34e-06 | 55 |
| GO:0032386 | Colorectum | AD | regulation of intracellular transport | 109/3918 | 337/18723 | 5.33e-07 | 1.95e-05 | 109 |
| GO:0033157 | Colorectum | AD | regulation of intracellular protein transport | 80/3918 | 229/18723 | 5.81e-07 | 2.09e-05 | 80 |
| GO:0006417 | Colorectum | AD | regulation of translation | 141/3918 | 468/18723 | 1.32e-06 | 4.22e-05 | 141 |
| GO:0034504 | Colorectum | AD | protein localization to nucleus | 94/3918 | 290/18723 | 2.83e-06 | 8.09e-05 | 94 |
| GO:0046822 | Colorectum | AD | regulation of nucleocytoplasmic transport | 41/3918 | 106/18723 | 2.17e-05 | 4.33e-04 | 41 |
| GO:0017038 | Colorectum | AD | protein import | 67/3918 | 206/18723 | 6.34e-05 | 1.05e-03 | 67 |
| GO:0051170 | Colorectum | AD | import into nucleus | 53/3918 | 159/18723 | 1.76e-04 | 2.38e-03 | 53 |
| GO:0006606 | Colorectum | AD | protein import into nucleus | 51/3918 | 155/18723 | 3.29e-04 | 3.86e-03 | 51 |
| GO:1904589 | Colorectum | AD | regulation of protein import | 25/3918 | 63/18723 | 5.30e-04 | 5.71e-03 | 25 |
| GO:0042254 | Colorectum | AD | ribosome biogenesis | 84/3918 | 299/18723 | 1.82e-03 | 1.50e-02 | 84 |
| GO:0042306 | Colorectum | AD | regulation of protein import into nucleus | 22/3918 | 60/18723 | 3.64e-03 | 2.60e-02 | 22 |
| GO:00725942 | Colorectum | MSS | establishment of protein localization to organelle | 139/3467 | 422/18723 | 5.75e-13 | 1.12e-10 | 139 |
| GO:00226132 | Colorectum | MSS | ribonucleoprotein complex biogenesis | 144/3467 | 463/18723 | 2.76e-11 | 3.67e-09 | 144 |
| GO:00069132 | Colorectum | MSS | nucleocytoplasmic transport | 99/3467 | 301/18723 | 1.35e-09 | 1.03e-07 | 99 |
| GO:00511692 | Colorectum | MSS | nuclear transport | 99/3467 | 301/18723 | 1.35e-09 | 1.03e-07 | 99 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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 |
| NOLC1 | SNV | Missense_Mutation | rs747818823 | c.1108N>C | p.Glu370Gln | p.E370Q | Q14978 | protein_coding | deleterious_low_confidence(0.02) | probably_damaging(0.943) | TCGA-A2-A0YD-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | SD |
| NOLC1 | SNV | Missense_Mutation | c.1604N>T | p.Ser535Phe | p.S535F | Q14978 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.999) | TCGA-C8-A1HL-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
| NOLC1 | insertion | In_Frame_Ins | novel | c.648_649insAGCAGC | p.Ser226_Ser227dup | p.S226_S227dup | Q14978 | protein_coding | TCGA-A2-A0D2-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | ||
| NOLC1 | insertion | Nonsense_Mutation | novel | c.1669_1670insGTTAGAACTGAGTCATTGATTCTGGCCCATACTC | p.Asn557SerfsTer2 | p.N557Sfs*2 | Q14978 | protein_coding | TCGA-A2-A0EY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | ||
| NOLC1 | insertion | Frame_Shift_Ins | novel | c.1729_1730insTGCATGAGCGTCCTCATGAC | p.Glu577ValfsTer17 | p.E577Vfs*17 | Q14978 | protein_coding | TCGA-A8-A06T-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | anastrozole | SD | ||
| NOLC1 | SNV | Missense_Mutation | c.154G>C | p.Asp52His | p.D52H | Q14978 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.987) | TCGA-DR-A0ZM-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unspecific | Cisplatin | SD | |
| NOLC1 | SNV | Missense_Mutation | rs766745577 | c.1185N>T | p.Lys395Asn | p.K395N | Q14978 | protein_coding | tolerated_low_confidence(0.1) | probably_damaging(0.923) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| NOLC1 | SNV | Missense_Mutation | c.116G>T | p.Gly39Val | p.G39V | Q14978 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.986) | TCGA-A6-6781-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | SD | |
| NOLC1 | SNV | Missense_Mutation | c.1283C>T | p.Thr428Met | p.T428M | Q14978 | protein_coding | tolerated_low_confidence(0.12) | benign(0.014) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
| NOLC1 | SNV | Missense_Mutation | c.491N>A | p.Ala164Asp | p.A164D | Q14978 | protein_coding | deleterious_low_confidence(0) | possibly_damaging(0.714) | TCGA-AA-3715-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| Page: 1 2 3 4 5 6 7 8 9 |
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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 |
| Page: 1 |
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