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Gene: LSMD1 |
Gene summary for LSMD1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | LSMD1 | Gene ID | 84316 |
| Gene name | N-alpha-acetyltransferase 38, NatC auxiliary subunit | |
| Gene Alias | LSMD1 | |
| Cytomap | 17p13.1 | |
| Gene Type | protein-coding | GO ID | GO:0006915 | UniProtAcc | I3L3Z2 |
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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 |
| 84316 | LSMD1 | Pt13.a | Human | Liver | HCC | 5.82e-24 | 4.85e-01 | 0.021 |
| 84316 | LSMD1 | Pt13.b | Human | Liver | HCC | 6.11e-48 | 6.52e-01 | 0.0251 |
| 84316 | LSMD1 | Pt13.c | Human | Liver | HCC | 7.43e-08 | 3.97e-01 | 0.0076 |
| 84316 | LSMD1 | Pt14.a | Human | Liver | HCC | 4.83e-21 | 7.27e-01 | 0.0169 |
| 84316 | LSMD1 | Pt14.b | Human | Liver | HCC | 1.43e-33 | 7.93e-01 | 0.018 |
| 84316 | LSMD1 | Pt14.d | Human | Liver | HCC | 3.28e-23 | 4.91e-01 | 0.0143 |
| 84316 | LSMD1 | P1_S1_AK | Human | Skin | AK | 4.64e-07 | -2.17e-01 | -0.3399 |
| 84316 | LSMD1 | P2_S3_AK | Human | Skin | AK | 4.64e-07 | -2.17e-01 | -0.3287 |
| 84316 | LSMD1 | P2_S4_SCCIS | Human | Skin | SCCIS | 2.16e-07 | -2.17e-01 | -0.3043 |
| 84316 | LSMD1 | P3_S6_AK | Human | Skin | AK | 4.64e-07 | -2.17e-01 | -0.3256 |
| 84316 | LSMD1 | P4_S8_cSCC | Human | Skin | cSCC | 9.19e-03 | -2.17e-01 | -0.3095 |
| 84316 | LSMD1 | P5_S10_cSCC | Human | Skin | cSCC | 2.16e-07 | -2.17e-01 | -0.299 |
| 84316 | LSMD1 | P1_cSCC | Human | Skin | cSCC | 3.58e-63 | 1.89e+00 | 0.0292 |
| 84316 | LSMD1 | P2_cSCC | Human | Skin | cSCC | 5.25e-58 | 1.42e+00 | -0.024 |
| 84316 | LSMD1 | P4_cSCC | Human | Skin | cSCC | 1.90e-52 | 1.40e+00 | -0.00290000000000005 |
| 84316 | LSMD1 | P10_cSCC | Human | Skin | cSCC | 1.24e-52 | 1.56e+00 | 0.1017 |
| 84316 | LSMD1 | cSCC_p1 | Human | Skin | cSCC | 4.64e-07 | -2.17e-01 | -0.1916 |
| 84316 | LSMD1 | cSCC_p10 | Human | Skin | cSCC | 4.64e-07 | -2.17e-01 | -0.2095 |
| 84316 | LSMD1 | cSCC_p11 | Human | Skin | cSCC | 4.64e-07 | -2.17e-01 | -0.2102 |
| 84316 | LSMD1 | cSCC_p3 | Human | Skin | cSCC | 4.64e-07 | -2.17e-01 | -0.2085 |
| Page: 1 2 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| GC |  | CAG: Chronic atrophic gastritis |
| CAG with IM: Chronic atrophic gastritis with intestinal metaplasia | ||
| CSG: Chronic superficial gastritis | ||
| GC: Gastric cancer | ||
| SIM: Severe intestinal metaplasia | ||
| WIM: Wild intestinal metaplasia | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| 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 |
| Page: 1 |
| 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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