|
|||||
|
 | |
| |
| |
| |
| |
| |
|
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 |
Top |
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. |
Top |
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:200102022 | Lung | MIAC | regulation of response to DNA damage stimulus | 23/967 | 219/18723 | 9.93e-04 | 2.05e-02 | 23 |
| GO:00315702 | Lung | MIAC | DNA integrity checkpoint | 15/967 | 123/18723 | 1.69e-03 | 2.84e-02 | 15 |
| GO:00070931 | Lung | MIAC | mitotic cell cycle checkpoint | 15/967 | 129/18723 | 2.71e-03 | 3.75e-02 | 15 |
| GO:190198711 | Lung | MIAC | regulation of cell cycle phase transition | 33/967 | 390/18723 | 3.79e-03 | 4.68e-02 | 33 |
| GO:001021222 | Lung | MIAC | response to ionizing radiation | 16/967 | 148/18723 | 4.15e-03 | 4.93e-02 | 16 |
| GO:000734619 | Thyroid | PTC | regulation of mitotic cell cycle | 212/5968 | 457/18723 | 4.03e-11 | 1.44e-09 | 212 |
| GO:005105218 | Thyroid | PTC | regulation of DNA metabolic process | 171/5968 | 359/18723 | 2.52e-10 | 8.33e-09 | 171 |
| GO:004477218 | Thyroid | PTC | mitotic cell cycle phase transition | 196/5968 | 424/18723 | 3.17e-10 | 1.02e-08 | 196 |
| GO:2001020112 | Thyroid | PTC | regulation of response to DNA damage stimulus | 113/5968 | 219/18723 | 9.37e-10 | 2.77e-08 | 113 |
| GO:000632520 | Thyroid | PTC | chromatin organization | 183/5968 | 409/18723 | 2.55e-08 | 5.70e-07 | 183 |
| GO:001021219 | Thyroid | PTC | response to ionizing radiation | 79/5968 | 148/18723 | 4.56e-08 | 9.74e-07 | 79 |
| GO:005105420 | Thyroid | PTC | positive regulation of DNA metabolic process | 100/5968 | 201/18723 | 9.18e-08 | 1.84e-06 | 100 |
| GO:19019908 | Thyroid | PTC | regulation of mitotic cell cycle phase transition | 138/5968 | 299/18723 | 1.44e-07 | 2.78e-06 | 138 |
| GO:0009314111 | Thyroid | PTC | response to radiation | 195/5968 | 456/18723 | 5.10e-07 | 8.27e-06 | 195 |
| GO:00457867 | Thyroid | PTC | negative regulation of cell cycle | 166/5968 | 385/18723 | 1.93e-06 | 2.64e-05 | 166 |
| GO:19019878 | Thyroid | PTC | regulation of cell cycle phase transition | 167/5968 | 390/18723 | 2.97e-06 | 3.87e-05 | 167 |
| GO:00062828 | Thyroid | PTC | regulation of DNA repair | 65/5968 | 130/18723 | 1.25e-05 | 1.36e-04 | 65 |
| GO:004277010 | Thyroid | PTC | signal transduction in response to DNA damage | 81/5968 | 172/18723 | 2.07e-05 | 2.08e-04 | 81 |
| GO:00459307 | Thyroid | PTC | negative regulation of mitotic cell cycle | 105/5968 | 235/18723 | 2.41e-05 | 2.39e-04 | 105 |
| GO:19019917 | Thyroid | PTC | negative regulation of mitotic cell cycle phase transition | 83/5968 | 179/18723 | 3.34e-05 | 3.17e-04 | 83 |
| 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 |
Top |
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 |
Top |
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 |
Top |
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 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |