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Gene: BABAM2 |
Gene summary for BABAM2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | BABAM2 | Gene ID | 9577 |
| Gene name | BRISC and BRCA1 A complex member 2 | |
| Gene Alias | BRCC4 | |
| Cytomap | 2p23.2 | |
| Gene Type | protein-coding | GO ID | GO:0000075 | UniProtAcc | Q9NXR7 |
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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 |
| 9577 | BABAM2 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.16e-06 | -4.00e-01 | 0.0155 |
| 9577 | BABAM2 | HTA11_8622_2000001021 | Human | Colorectum | SER | 1.36e-04 | -6.20e-01 | 0.0528 |
| 9577 | BABAM2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.47e-59 | -9.66e-01 | 0.294 |
| 9577 | BABAM2 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 3.59e-22 | -9.66e-01 | 0.281 |
| 9577 | BABAM2 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.36e-60 | -9.66e-01 | 0.3859 |
| 9577 | BABAM2 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 2.20e-17 | -9.66e-01 | 0.2585 |
| 9577 | BABAM2 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.40e-59 | -9.66e-01 | 0.3005 |
| 9577 | BABAM2 | A001-C-207 | Human | Colorectum | FAP | 9.15e-04 | -2.84e-01 | 0.1278 |
| 9577 | BABAM2 | A015-C-203 | Human | Colorectum | FAP | 2.01e-34 | -5.28e-01 | -0.1294 |
| 9577 | BABAM2 | A015-C-204 | Human | Colorectum | FAP | 5.35e-06 | -3.78e-01 | -0.0228 |
| 9577 | BABAM2 | A014-C-040 | Human | Colorectum | FAP | 3.45e-04 | -3.83e-01 | -0.1184 |
| 9577 | BABAM2 | A002-C-201 | Human | Colorectum | FAP | 1.83e-14 | -4.00e-01 | 0.0324 |
| 9577 | BABAM2 | A002-C-203 | Human | Colorectum | FAP | 6.51e-03 | -9.00e-02 | 0.2786 |
| 9577 | BABAM2 | A001-C-119 | Human | Colorectum | FAP | 1.32e-09 | -5.75e-01 | -0.1557 |
| 9577 | BABAM2 | A001-C-108 | Human | Colorectum | FAP | 1.92e-16 | -3.78e-01 | -0.0272 |
| 9577 | BABAM2 | A002-C-205 | Human | Colorectum | FAP | 2.49e-26 | -5.54e-01 | -0.1236 |
| 9577 | BABAM2 | A001-C-104 | Human | Colorectum | FAP | 1.89e-05 | -2.87e-01 | 0.0184 |
| 9577 | BABAM2 | A015-C-005 | Human | Colorectum | FAP | 7.23e-03 | -2.46e-01 | -0.0336 |
| 9577 | BABAM2 | A015-C-006 | Human | Colorectum | FAP | 3.60e-19 | -5.62e-01 | -0.0994 |
| 9577 | BABAM2 | A015-C-106 | Human | Colorectum | FAP | 4.69e-12 | -2.41e-01 | -0.0511 |
| 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 | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| 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:19019872 | Lung | IAC | regulation of cell cycle phase transition | 69/2061 | 390/18723 | 4.55e-05 | 1.06e-03 | 69 |
| GO:00073464 | Lung | IAC | regulation of mitotic cell cycle | 78/2061 | 457/18723 | 5.37e-05 | 1.21e-03 | 78 |
| GO:20010207 | Lung | IAC | regulation of response to DNA damage stimulus | 44/2061 | 219/18723 | 5.50e-05 | 1.22e-03 | 44 |
| GO:00093147 | Lung | IAC | response to radiation | 77/2061 | 456/18723 | 8.59e-05 | 1.74e-03 | 77 |
| GO:00457861 | Lung | IAC | negative regulation of cell cycle | 67/2061 | 385/18723 | 9.74e-05 | 1.93e-03 | 67 |
| GO:00000773 | Lung | IAC | DNA damage checkpoint | 27/2061 | 115/18723 | 1.03e-04 | 2.02e-03 | 27 |
| GO:00447733 | Lung | IAC | mitotic DNA damage checkpoint | 21/2061 | 81/18723 | 1.34e-04 | 2.50e-03 | 21 |
| GO:00459301 | Lung | IAC | negative regulation of mitotic cell cycle | 45/2061 | 235/18723 | 1.49e-04 | 2.73e-03 | 45 |
| GO:19019881 | Lung | IAC | negative regulation of cell cycle phase transition | 47/2061 | 249/18723 | 1.53e-04 | 2.80e-03 | 47 |
| GO:00063256 | Lung | IAC | chromatin organization | 69/2061 | 409/18723 | 2.01e-04 | 3.53e-03 | 69 |
| GO:00109481 | Lung | IAC | negative regulation of cell cycle process | 53/2061 | 294/18723 | 2.05e-04 | 3.58e-03 | 53 |
| GO:00447743 | Lung | IAC | mitotic DNA integrity checkpoint | 21/2061 | 85/18723 | 2.78e-04 | 4.56e-03 | 21 |
| GO:00102124 | Lung | IAC | response to ionizing radiation | 31/2061 | 148/18723 | 3.07e-04 | 4.89e-03 | 31 |
| GO:19019902 | Lung | IAC | regulation of mitotic cell cycle phase transition | 53/2061 | 299/18723 | 3.14e-04 | 4.98e-03 | 53 |
| GO:00315703 | Lung | IAC | DNA integrity checkpoint | 27/2061 | 123/18723 | 3.34e-04 | 5.24e-03 | 27 |
| GO:00000752 | Lung | IAC | cell cycle checkpoint | 33/2061 | 169/18723 | 7.51e-04 | 9.82e-03 | 33 |
| GO:00448391 | Lung | IAC | cell cycle G2/M phase transition | 29/2061 | 148/18723 | 1.44e-03 | 1.55e-02 | 29 |
| GO:00070932 | Lung | IAC | mitotic cell cycle checkpoint | 26/2061 | 129/18723 | 1.62e-03 | 1.71e-02 | 26 |
| GO:00000861 | Lung | IAC | G2/M transition of mitotic cell cycle | 27/2061 | 137/18723 | 1.88e-03 | 1.92e-02 | 27 |
| GO:19019911 | Lung | IAC | negative regulation of mitotic cell cycle phase transition | 33/2061 | 179/18723 | 2.05e-03 | 2.05e-02 | 33 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 |
| 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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