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Gene: HNRNPD |
Gene summary for HNRNPD |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HNRNPD | Gene ID | 3184 |
| Gene name | heterogeneous nuclear ribonucleoprotein D | |
| Gene Alias | AUF1 | |
| Cytomap | 4q21.22 | |
| Gene Type | protein-coding | GO ID | GO:0000723 | UniProtAcc | Q14103 |
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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 |
| 3184 | HNRNPD | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.14e-08 | -3.02e-01 | 0.0155 |
| 3184 | HNRNPD | HTA11_347_2000001011 | Human | Colorectum | AD | 1.61e-04 | 4.65e-01 | -0.1954 |
| 3184 | HNRNPD | HTA11_6801_2000001011 | Human | Colorectum | SER | 1.92e-03 | 7.94e-01 | 0.0171 |
| 3184 | HNRNPD | HTA11_99999970781_79442 | Human | Colorectum | MSS | 5.24e-05 | 5.56e-01 | 0.294 |
| 3184 | HNRNPD | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 5.75e-07 | 1.11e+00 | 0.3487 |
| 3184 | HNRNPD | A001-C-207 | Human | Colorectum | FAP | 9.77e-03 | -4.71e-03 | 0.1278 |
| 3184 | HNRNPD | A015-C-203 | Human | Colorectum | FAP | 1.47e-33 | -3.58e-01 | -0.1294 |
| 3184 | HNRNPD | A015-C-204 | Human | Colorectum | FAP | 2.08e-07 | -3.21e-01 | -0.0228 |
| 3184 | HNRNPD | A014-C-040 | Human | Colorectum | FAP | 1.81e-06 | -4.96e-01 | -0.1184 |
| 3184 | HNRNPD | A002-C-201 | Human | Colorectum | FAP | 6.86e-17 | -3.51e-01 | 0.0324 |
| 3184 | HNRNPD | A002-C-203 | Human | Colorectum | FAP | 1.33e-05 | -2.20e-01 | 0.2786 |
| 3184 | HNRNPD | A001-C-119 | Human | Colorectum | FAP | 5.71e-05 | -2.05e-01 | -0.1557 |
| 3184 | HNRNPD | A001-C-108 | Human | Colorectum | FAP | 6.57e-16 | -2.46e-02 | -0.0272 |
| 3184 | HNRNPD | A002-C-205 | Human | Colorectum | FAP | 2.35e-22 | -1.28e-01 | -0.1236 |
| 3184 | HNRNPD | A001-C-104 | Human | Colorectum | FAP | 2.70e-03 | 2.69e-02 | 0.0184 |
| 3184 | HNRNPD | A015-C-005 | Human | Colorectum | FAP | 3.46e-02 | -8.34e-02 | -0.0336 |
| 3184 | HNRNPD | A015-C-006 | Human | Colorectum | FAP | 1.53e-17 | -2.17e-01 | -0.0994 |
| 3184 | HNRNPD | A015-C-106 | Human | Colorectum | FAP | 1.11e-19 | -3.13e-01 | -0.0511 |
| 3184 | HNRNPD | A002-C-114 | Human | Colorectum | FAP | 3.20e-20 | -2.67e-01 | -0.1561 |
| 3184 | HNRNPD | A015-C-104 | Human | Colorectum | FAP | 7.55e-35 | -1.35e-01 | -0.1899 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
| 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 | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| 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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| 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:000640115 | Endometrium | EEC | RNA catabolic process | 65/2168 | 278/18723 | 1.90e-08 | 1.16e-06 | 65 |
| GO:000641717 | Endometrium | EEC | regulation of translation | 94/2168 | 468/18723 | 5.37e-08 | 2.88e-06 | 94 |
| GO:004851114 | Endometrium | EEC | rhythmic process | 67/2168 | 298/18723 | 5.86e-08 | 3.11e-06 | 67 |
| GO:004572716 | Endometrium | EEC | positive regulation of translation | 38/2168 | 136/18723 | 1.47e-07 | 6.89e-06 | 38 |
| GO:003425016 | Endometrium | EEC | positive regulation of cellular amide metabolic process | 42/2168 | 162/18723 | 3.24e-07 | 1.32e-05 | 42 |
| GO:200125213 | Endometrium | EEC | positive regulation of chromosome organization | 26/2168 | 82/18723 | 9.70e-07 | 3.31e-05 | 26 |
| GO:190165416 | Endometrium | EEC | response to ketone | 46/2168 | 194/18723 | 1.44e-06 | 4.64e-05 | 46 |
| GO:004873217 | Endometrium | EEC | gland development | 83/2168 | 436/18723 | 3.08e-06 | 8.48e-05 | 83 |
| GO:006101313 | Endometrium | EEC | regulation of mRNA catabolic process | 40/2168 | 166/18723 | 4.47e-06 | 1.14e-04 | 40 |
| GO:200027814 | Endometrium | EEC | regulation of DNA biosynthetic process | 29/2168 | 106/18723 | 6.68e-06 | 1.58e-04 | 29 |
| GO:003133017 | Endometrium | EEC | negative regulation of cellular catabolic process | 55/2168 | 262/18723 | 7.93e-06 | 1.80e-04 | 55 |
| GO:004348813 | Endometrium | EEC | regulation of mRNA stability | 38/2168 | 158/18723 | 8.03e-06 | 1.81e-04 | 38 |
| GO:190331313 | Endometrium | EEC | positive regulation of mRNA metabolic process | 31/2168 | 118/18723 | 8.11e-06 | 1.81e-04 | 31 |
| GO:004427013 | Endometrium | EEC | cellular nitrogen compound catabolic process | 83/2168 | 451/18723 | 1.17e-05 | 2.43e-04 | 83 |
| GO:004670013 | Endometrium | EEC | heterocycle catabolic process | 82/2168 | 445/18723 | 1.26e-05 | 2.55e-04 | 82 |
| GO:000762314 | Endometrium | EEC | circadian rhythm | 46/2168 | 210/18723 | 1.37e-05 | 2.73e-04 | 46 |
| GO:003465514 | Endometrium | EEC | nucleobase-containing compound catabolic process | 76/2168 | 407/18723 | 1.61e-05 | 3.12e-04 | 76 |
| GO:004348713 | Endometrium | EEC | regulation of RNA stability | 39/2168 | 170/18723 | 1.99e-05 | 3.60e-04 | 39 |
| GO:003235514 | Endometrium | EEC | response to estradiol | 34/2168 | 141/18723 | 2.22e-05 | 3.98e-04 | 34 |
| GO:190331217 | Endometrium | EEC | negative regulation of mRNA metabolic process | 25/2168 | 92/18723 | 3.19e-05 | 5.51e-04 | 25 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
| HNRNPD | SNV | Missense_Mutation | novel | c.103C>A | p.Gln35Lys | p.Q35K | Q14103 | protein_coding | tolerated_low_confidence(0.51) | benign(0) | TCGA-A8-A07G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | 5-fluorouracil | CR |
| HNRNPD | SNV | Missense_Mutation | c.995N>G | p.Tyr332Cys | p.Y332C | Q14103 | protein_coding | tolerated(0.05) | probably_damaging(0.926) | TCGA-BH-A0B8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | arimidex | SD | |
| HNRNPD | SNV | Missense_Mutation | novel | c.766G>T | p.Val256Leu | p.V256L | Q14103 | protein_coding | tolerated(0.06) | benign(0.05) | TCGA-BH-A0BG-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| HNRNPD | SNV | Missense_Mutation | novel | c.757N>A | p.Glu253Lys | p.E253K | Q14103 | protein_coding | deleterious(0.04) | possibly_damaging(0.842) | TCGA-D8-A1Y1-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | tamoxiphen | PD |
| HNRNPD | insertion | Frame_Shift_Ins | novel | c.793_794insT | p.Gln265LeufsTer8 | p.Q265Lfs*8 | Q14103 | protein_coding | TCGA-VS-A9UD-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | CR | ||
| HNRNPD | SNV | Missense_Mutation | c.1052G>A | p.Ser351Asn | p.S351N | Q14103 | protein_coding | tolerated(1) | possibly_damaging(0.878) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| HNRNPD | SNV | Missense_Mutation | novel | c.565N>A | p.Leu189Ile | p.L189I | Q14103 | protein_coding | deleterious(0.01) | possibly_damaging(0.759) | TCGA-AA-3950-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| HNRNPD | SNV | Missense_Mutation | c.528N>C | p.Lys176Asn | p.K176N | Q14103 | protein_coding | deleterious(0.02) | possibly_damaging(0.824) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| HNRNPD | SNV | Missense_Mutation | c.526A>C | p.Lys176Gln | p.K176Q | Q14103 | protein_coding | tolerated(0.05) | benign(0.254) | TCGA-CA-6718-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | PD | |
| HNRNPD | SNV | Missense_Mutation | c.464N>C | p.Met155Thr | p.M155T | Q14103 | protein_coding | deleterious(0.01) | benign(0.138) | TCGA-CM-5861-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
| Page: 1 2 3 4 |
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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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