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Gene: H3-3B |
Gene summary for H3-3B |
Gene summary. |
Gene information | Species | Human | Gene symbol | H3-3B | Gene ID | 3021 |
Gene name | H3.3 histone B | |
Gene Alias | H3-3A | |
Cytomap | 17q25.1 | |
Gene Type | protein-coding | GO ID | GO:0001558 | UniProtAcc | B2R4P9 |
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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 |
3021 | H3-3B | HTA11_2112_2000001011 | Human | Colorectum | SER | 1.67e-23 | 1.60e+00 | -0.2196 |
3021 | H3-3B | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.17e-35 | 1.11e+00 | -0.1207 |
3021 | H3-3B | HTA11_83_2000001011 | Human | Colorectum | SER | 6.26e-41 | 1.28e+00 | -0.1526 |
3021 | H3-3B | HTA11_696_2000001011 | Human | Colorectum | AD | 3.18e-75 | 1.30e+00 | -0.1464 |
3021 | H3-3B | HTA11_866_2000001011 | Human | Colorectum | AD | 3.10e-42 | 8.68e-01 | -0.1001 |
3021 | H3-3B | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.02e-62 | 1.67e+00 | -0.059 |
3021 | H3-3B | HTA11_2992_2000001011 | Human | Colorectum | SER | 1.83e-41 | 1.79e+00 | -0.1706 |
3021 | H3-3B | HTA11_5212_2000001011 | Human | Colorectum | AD | 1.92e-43 | 1.69e+00 | -0.2061 |
3021 | H3-3B | HTA11_5216_2000001011 | Human | Colorectum | SER | 5.22e-30 | 1.38e+00 | -0.1462 |
3021 | H3-3B | HTA11_546_2000001011 | Human | Colorectum | AD | 8.81e-22 | 8.70e-01 | -0.0842 |
3021 | H3-3B | HTA11_9341_2000001011 | Human | Colorectum | SER | 2.50e-11 | 7.18e-01 | -0.00410000000000005 |
3021 | H3-3B | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.49e-44 | 1.45e+00 | -0.0179 |
3021 | H3-3B | HTA11_866_3004761011 | Human | Colorectum | AD | 2.03e-88 | 1.74e+00 | 0.096 |
3021 | H3-3B | HTA11_4255_2000001011 | Human | Colorectum | SER | 1.36e-24 | 1.24e+00 | 0.0446 |
3021 | H3-3B | HTA11_8622_2000001021 | Human | Colorectum | SER | 2.55e-29 | 1.17e+00 | 0.0528 |
3021 | H3-3B | HTA11_7663_2000001011 | Human | Colorectum | SER | 7.85e-31 | 1.58e+00 | 0.0131 |
3021 | H3-3B | HTA11_10623_2000001011 | Human | Colorectum | AD | 3.08e-36 | 1.34e+00 | -0.0177 |
3021 | H3-3B | HTA11_6801_2000001011 | Human | Colorectum | SER | 8.35e-35 | 1.83e+00 | 0.0171 |
3021 | H3-3B | HTA11_10711_2000001011 | Human | Colorectum | AD | 2.14e-36 | 9.78e-01 | 0.0338 |
3021 | H3-3B | HTA11_7696_3000711011 | Human | Colorectum | AD | 4.91e-90 | 1.51e+00 | 0.0674 |
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Transcriptomic changes along malignancy continuum. |
∗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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00160498 | Cervix | CC | cell growth | 92/2311 | 482/18723 | 1.16e-05 | 2.49e-04 | 92 |
GO:00063257 | Cervix | CC | chromatin organization | 78/2311 | 409/18723 | 5.40e-05 | 8.02e-04 | 78 |
GO:00459277 | Cervix | CC | positive regulation of growth | 53/2311 | 259/18723 | 1.33e-04 | 1.64e-03 | 53 |
GO:00015588 | Cervix | CC | regulation of cell growth | 77/2311 | 414/18723 | 1.40e-04 | 1.70e-03 | 77 |
GO:00303077 | Cervix | CC | positive regulation of cell growth | 36/2311 | 166/18723 | 4.84e-04 | 4.75e-03 | 36 |
GO:00063381 | Cervix | CC | chromatin remodeling | 45/2311 | 255/18723 | 8.33e-03 | 4.30e-02 | 45 |
GO:001604914 | Cervix | HSIL_HPV | cell growth | 32/737 | 482/18723 | 2.87e-03 | 2.70e-02 | 32 |
GO:003030713 | Cervix | HSIL_HPV | positive regulation of cell growth | 14/737 | 166/18723 | 6.04e-03 | 4.75e-02 | 14 |
GO:0016049 | Colorectum | AD | cell growth | 143/3918 | 482/18723 | 2.83e-06 | 8.09e-05 | 143 |
GO:0001558 | Colorectum | AD | regulation of cell growth | 124/3918 | 414/18723 | 7.67e-06 | 1.86e-04 | 124 |
GO:0006325 | Colorectum | AD | chromatin organization | 119/3918 | 409/18723 | 4.85e-05 | 8.33e-04 | 119 |
GO:0030307 | Colorectum | AD | positive regulation of cell growth | 54/3918 | 166/18723 | 3.08e-04 | 3.69e-03 | 54 |
GO:0045927 | Colorectum | AD | positive regulation of growth | 77/3918 | 259/18723 | 4.82e-04 | 5.27e-03 | 77 |
GO:0006338 | Colorectum | AD | chromatin remodeling | 70/3918 | 255/18723 | 7.44e-03 | 4.53e-02 | 70 |
GO:00015581 | Colorectum | SER | regulation of cell growth | 90/2897 | 414/18723 | 4.00e-04 | 6.02e-03 | 90 |
GO:00063251 | Colorectum | SER | chromatin organization | 89/2897 | 409/18723 | 4.15e-04 | 6.17e-03 | 89 |
GO:00160491 | Colorectum | SER | cell growth | 100/2897 | 482/18723 | 1.07e-03 | 1.24e-02 | 100 |
GO:00303071 | Colorectum | SER | positive regulation of cell growth | 39/2897 | 166/18723 | 4.25e-03 | 3.45e-02 | 39 |
GO:00459271 | Colorectum | SER | positive regulation of growth | 56/2897 | 259/18723 | 5.10e-03 | 3.91e-02 | 56 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0513120 | Cervix | CC | Shigellosis | 69/1267 | 247/8465 | 7.64e-08 | 1.03e-06 | 6.10e-07 | 69 |
hsa05131110 | Cervix | CC | Shigellosis | 69/1267 | 247/8465 | 7.64e-08 | 1.03e-06 | 6.10e-07 | 69 |
hsa05322 | Cervix | HSIL_HPV | Systemic lupus erythematosus | 19/459 | 137/8465 | 1.40e-04 | 1.74e-03 | 1.40e-03 | 19 |
hsa0513125 | Cervix | HSIL_HPV | Shigellosis | 27/459 | 247/8465 | 3.78e-04 | 3.49e-03 | 2.82e-03 | 27 |
hsa053221 | Cervix | HSIL_HPV | Systemic lupus erythematosus | 19/459 | 137/8465 | 1.40e-04 | 1.74e-03 | 1.40e-03 | 19 |
hsa0513135 | Cervix | HSIL_HPV | Shigellosis | 27/459 | 247/8465 | 3.78e-04 | 3.49e-03 | 2.82e-03 | 27 |
hsa05131 | Colorectum | AD | Shigellosis | 109/2092 | 247/8465 | 1.09e-11 | 2.44e-10 | 1.55e-10 | 109 |
hsa051311 | Colorectum | AD | Shigellosis | 109/2092 | 247/8465 | 1.09e-11 | 2.44e-10 | 1.55e-10 | 109 |
hsa051312 | Colorectum | SER | Shigellosis | 87/1580 | 247/8465 | 3.07e-10 | 7.27e-09 | 5.28e-09 | 87 |
hsa051313 | Colorectum | SER | Shigellosis | 87/1580 | 247/8465 | 3.07e-10 | 7.27e-09 | 5.28e-09 | 87 |
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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 |
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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. |
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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 |
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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 |
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