|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: SHLD2 |
Gene summary for SHLD2 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | SHLD2 | Gene ID | 54537 |
| Gene name | shieldin complex subunit 2 | |
| Gene Alias | FAM35A | |
| Cytomap | 10q23.2 | |
| Gene Type | protein-coding | GO ID | GO:0000018 | UniProtAcc | Q86V20 |
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 |
| 54537 | SHLD2 | HTA11_866_3004761011 | Human | Colorectum | AD | 1.25e-02 | -3.61e-01 | 0.096 |
| 54537 | SHLD2 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 8.87e-46 | -8.34e-01 | 0.294 |
| 54537 | SHLD2 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 3.35e-19 | -8.34e-01 | 0.281 |
| 54537 | SHLD2 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 5.40e-44 | -8.34e-01 | 0.3859 |
| 54537 | SHLD2 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 6.01e-15 | -8.34e-01 | 0.2585 |
| 54537 | SHLD2 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.49e-45 | -8.34e-01 | 0.3005 |
| 54537 | SHLD2 | F007 | Human | Colorectum | FAP | 1.04e-02 | -2.66e-01 | 0.1176 |
| 54537 | SHLD2 | A015-C-203 | Human | Colorectum | FAP | 1.08e-22 | -3.56e-01 | -0.1294 |
| 54537 | SHLD2 | A015-C-204 | Human | Colorectum | FAP | 1.50e-04 | -2.32e-01 | -0.0228 |
| 54537 | SHLD2 | A014-C-040 | Human | Colorectum | FAP | 1.49e-04 | -3.06e-01 | -0.1184 |
| 54537 | SHLD2 | A002-C-201 | Human | Colorectum | FAP | 4.48e-14 | -3.14e-01 | 0.0324 |
| 54537 | SHLD2 | A001-C-119 | Human | Colorectum | FAP | 1.76e-10 | -4.36e-01 | -0.1557 |
| 54537 | SHLD2 | A001-C-108 | Human | Colorectum | FAP | 3.09e-12 | -2.17e-01 | -0.0272 |
| 54537 | SHLD2 | A002-C-205 | Human | Colorectum | FAP | 5.19e-22 | -3.63e-01 | -0.1236 |
| 54537 | SHLD2 | A015-C-005 | Human | Colorectum | FAP | 8.08e-05 | -2.62e-01 | -0.0336 |
| 54537 | SHLD2 | A015-C-006 | Human | Colorectum | FAP | 4.59e-15 | -4.11e-01 | -0.0994 |
| 54537 | SHLD2 | A015-C-106 | Human | Colorectum | FAP | 1.25e-08 | -1.90e-01 | -0.0511 |
| 54537 | SHLD2 | A002-C-114 | Human | Colorectum | FAP | 2.88e-20 | -2.95e-01 | -0.1561 |
| 54537 | SHLD2 | A015-C-104 | Human | Colorectum | FAP | 2.44e-23 | -3.41e-01 | -0.1899 |
| 54537 | SHLD2 | A001-C-014 | Human | Colorectum | FAP | 2.18e-13 | -2.92e-01 | 0.0135 |
| Page: 1 2 3 4 |
| 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 | ||
| 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:0051052 | Colorectum | AD | regulation of DNA metabolic process | 116/3918 | 359/18723 | 2.47e-07 | 1.00e-05 | 116 |
| GO:0051054 | Colorectum | AD | positive regulation of DNA metabolic process | 73/3918 | 201/18723 | 3.27e-07 | 1.29e-05 | 73 |
| GO:2001020 | Colorectum | AD | regulation of response to DNA damage stimulus | 71/3918 | 219/18723 | 4.38e-05 | 7.65e-04 | 71 |
| GO:2001022 | Colorectum | AD | positive regulation of response to DNA damage stimulus | 36/3918 | 105/18723 | 1.02e-03 | 9.47e-03 | 36 |
| GO:0006282 | Colorectum | AD | regulation of DNA repair | 42/3918 | 130/18723 | 1.57e-03 | 1.32e-02 | 42 |
| GO:00510522 | Colorectum | MSS | regulation of DNA metabolic process | 108/3467 | 359/18723 | 5.86e-08 | 3.10e-06 | 108 |
| GO:00510542 | Colorectum | MSS | positive regulation of DNA metabolic process | 69/3467 | 201/18723 | 6.33e-08 | 3.26e-06 | 69 |
| GO:20010202 | Colorectum | MSS | regulation of response to DNA damage stimulus | 64/3467 | 219/18723 | 7.20e-05 | 1.21e-03 | 64 |
| GO:20010221 | Colorectum | MSS | positive regulation of response to DNA damage stimulus | 33/3467 | 105/18723 | 9.83e-04 | 9.86e-03 | 33 |
| GO:00062821 | Colorectum | MSS | regulation of DNA repair | 38/3467 | 130/18723 | 1.93e-03 | 1.67e-02 | 38 |
| GO:0006302 | Colorectum | MSS | double-strand break repair | 64/3467 | 251/18723 | 3.58e-03 | 2.65e-02 | 64 |
| GO:0045739 | Colorectum | MSS | positive regulation of DNA repair | 23/3467 | 73/18723 | 5.22e-03 | 3.57e-02 | 23 |
| GO:00510524 | Colorectum | FAP | regulation of DNA metabolic process | 84/2622 | 359/18723 | 9.80e-07 | 4.38e-05 | 84 |
| GO:00510544 | Colorectum | FAP | positive regulation of DNA metabolic process | 53/2622 | 201/18723 | 2.55e-06 | 9.82e-05 | 53 |
| GO:20010204 | Colorectum | FAP | regulation of response to DNA damage stimulus | 51/2622 | 219/18723 | 1.40e-04 | 2.21e-03 | 51 |
| GO:00062822 | Colorectum | FAP | regulation of DNA repair | 32/2622 | 130/18723 | 8.53e-04 | 8.79e-03 | 32 |
| GO:20010222 | Colorectum | FAP | positive regulation of response to DNA damage stimulus | 27/2622 | 105/18723 | 1.04e-03 | 1.02e-02 | 27 |
| GO:00457391 | Colorectum | FAP | positive regulation of DNA repair | 19/2622 | 73/18723 | 4.71e-03 | 3.17e-02 | 19 |
| GO:00510545 | Colorectum | CRC | positive regulation of DNA metabolic process | 46/2078 | 201/18723 | 1.26e-06 | 7.21e-05 | 46 |
| GO:00510525 | Colorectum | CRC | regulation of DNA metabolic process | 70/2078 | 359/18723 | 1.75e-06 | 8.92e-05 | 70 |
| Page: 1 2 3 4 |
| 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 |