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Gene: NIPSNAP2 |
Gene summary for NIPSNAP2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | NIPSNAP2 | Gene ID | 2631 |
| Gene name | nipsnap homolog 2 | |
| Gene Alias | GBAS | |
| Cytomap | 7p11.2 | |
| Gene Type | protein-coding | GO ID | GO:0006091 | UniProtAcc | O75323 |
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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 |
| 2631 | NIPSNAP2 | HTA11_78_2000001011 | Human | Colorectum | AD | 8.26e-03 | 4.42e-01 | -0.1088 |
| 2631 | NIPSNAP2 | HTA11_347_2000001011 | Human | Colorectum | AD | 6.08e-08 | 4.82e-01 | -0.1954 |
| 2631 | NIPSNAP2 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.34e-02 | 2.79e-01 | -0.1464 |
| 2631 | NIPSNAP2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.78e-17 | -4.15e-01 | 0.294 |
| 2631 | NIPSNAP2 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 6.87e-07 | -4.15e-01 | 0.281 |
| 2631 | NIPSNAP2 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 5.56e-16 | -4.15e-01 | 0.3859 |
| 2631 | NIPSNAP2 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 6.67e-05 | -4.15e-01 | 0.2585 |
| 2631 | NIPSNAP2 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 7.63e-19 | -4.15e-01 | 0.3005 |
| 2631 | NIPSNAP2 | A015-C-203 | Human | Colorectum | FAP | 2.05e-10 | -2.88e-01 | -0.1294 |
| 2631 | NIPSNAP2 | A015-C-204 | Human | Colorectum | FAP | 4.00e-04 | -2.86e-01 | -0.0228 |
| 2631 | NIPSNAP2 | A002-C-201 | Human | Colorectum | FAP | 2.58e-05 | -1.82e-01 | 0.0324 |
| 2631 | NIPSNAP2 | A001-C-108 | Human | Colorectum | FAP | 6.06e-08 | -2.74e-01 | -0.0272 |
| 2631 | NIPSNAP2 | A002-C-205 | Human | Colorectum | FAP | 2.15e-09 | -2.61e-01 | -0.1236 |
| 2631 | NIPSNAP2 | A015-C-006 | Human | Colorectum | FAP | 3.94e-07 | -2.86e-01 | -0.0994 |
| 2631 | NIPSNAP2 | A015-C-106 | Human | Colorectum | FAP | 1.49e-03 | -2.01e-01 | -0.0511 |
| 2631 | NIPSNAP2 | A002-C-114 | Human | Colorectum | FAP | 4.11e-11 | -3.61e-01 | -0.1561 |
| 2631 | NIPSNAP2 | A015-C-104 | Human | Colorectum | FAP | 1.39e-10 | -2.81e-01 | -0.1899 |
| 2631 | NIPSNAP2 | A001-C-014 | Human | Colorectum | FAP | 2.27e-03 | -2.24e-01 | 0.0135 |
| 2631 | NIPSNAP2 | A002-C-016 | Human | Colorectum | FAP | 2.49e-07 | -2.54e-01 | 0.0521 |
| 2631 | NIPSNAP2 | A015-C-002 | Human | Colorectum | FAP | 7.51e-06 | -3.41e-01 | -0.0763 |
| Page: 1 2 3 4 5 |
| 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 | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid 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 | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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:0046034 | Colorectum | AD | ATP metabolic process | 142/3918 | 277/18723 | 2.64e-29 | 8.26e-26 | 142 |
| GO:0006091 | Colorectum | AD | generation of precursor metabolites and energy | 209/3918 | 490/18723 | 3.17e-28 | 6.61e-25 | 209 |
| GO:0009060 | Colorectum | AD | aerobic respiration | 108/3918 | 189/18723 | 9.14e-28 | 1.43e-24 | 108 |
| GO:0045333 | Colorectum | AD | cellular respiration | 119/3918 | 230/18723 | 3.21e-25 | 4.02e-22 | 119 |
| GO:0006119 | Colorectum | AD | oxidative phosphorylation | 83/3918 | 141/18723 | 7.95e-23 | 8.30e-20 | 83 |
| GO:0015980 | Colorectum | AD | energy derivation by oxidation of organic compounds | 143/3918 | 318/18723 | 2.78e-22 | 2.49e-19 | 143 |
| GO:0032411 | Colorectum | AD | positive regulation of transporter activity | 37/3918 | 120/18723 | 6.82e-03 | 4.22e-02 | 37 |
| GO:00090602 | Colorectum | MSS | aerobic respiration | 98/3467 | 189/18723 | 3.35e-25 | 1.05e-21 | 98 |
| GO:00060912 | Colorectum | MSS | generation of precursor metabolites and energy | 186/3467 | 490/18723 | 1.14e-24 | 2.15e-21 | 186 |
| GO:00460342 | Colorectum | MSS | ATP metabolic process | 125/3467 | 277/18723 | 1.38e-24 | 2.15e-21 | 125 |
| GO:00453332 | Colorectum | MSS | cellular respiration | 107/3467 | 230/18723 | 1.64e-22 | 2.05e-19 | 107 |
| GO:00159802 | Colorectum | MSS | energy derivation by oxidation of organic compounds | 131/3467 | 318/18723 | 2.60e-21 | 2.70e-18 | 131 |
| GO:00061192 | Colorectum | MSS | oxidative phosphorylation | 76/3467 | 141/18723 | 3.49e-21 | 3.11e-18 | 76 |
| GO:00324091 | Colorectum | MSS | regulation of transporter activity | 78/3467 | 310/18723 | 2.09e-03 | 1.78e-02 | 78 |
| GO:0034764 | Colorectum | MSS | positive regulation of transmembrane transport | 58/3467 | 219/18723 | 2.19e-03 | 1.83e-02 | 58 |
| GO:00324112 | Colorectum | MSS | positive regulation of transporter activity | 35/3467 | 120/18723 | 2.95e-03 | 2.28e-02 | 35 |
| GO:0022898 | Colorectum | MSS | regulation of transmembrane transporter activity | 70/3467 | 278/18723 | 3.36e-03 | 2.54e-02 | 70 |
| GO:0032412 | Colorectum | MSS | regulation of ion transmembrane transporter activity | 66/3467 | 267/18723 | 6.72e-03 | 4.38e-02 | 66 |
| GO:00460344 | Colorectum | FAP | ATP metabolic process | 87/2622 | 277/18723 | 6.50e-14 | 6.63e-11 | 87 |
| GO:00060914 | Colorectum | FAP | generation of precursor metabolites and energy | 128/2622 | 490/18723 | 5.58e-13 | 4.28e-10 | 128 |
| Page: 1 2 3 4 5 6 |
| 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. |
| Page: 1 |
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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 |
| Page: 1 |
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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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