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Gene: EIF2D |
Gene summary for EIF2D |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | EIF2D | Gene ID | 1939 |
| Gene name | eukaryotic translation initiation factor 2D | |
| Gene Alias | HCA56 | |
| Cytomap | 1q32.1 | |
| Gene Type | protein-coding | GO ID | GO:0001731 | UniProtAcc | P41214 |
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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 |
| 1939 | EIF2D | HTA11_347_2000001011 | Human | Colorectum | AD | 2.18e-03 | 2.88e-01 | -0.1954 |
| 1939 | EIF2D | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.81e-06 | 3.75e-01 | -0.059 |
| 1939 | EIF2D | HTA11_7862_2000001011 | Human | Colorectum | AD | 1.21e-03 | 3.90e-01 | -0.0179 |
| 1939 | EIF2D | HTA11_866_3004761011 | Human | Colorectum | AD | 5.30e-06 | 3.75e-01 | 0.096 |
| 1939 | EIF2D | HTA11_4255_2000001011 | Human | Colorectum | SER | 4.03e-03 | 6.45e-01 | 0.0446 |
| 1939 | EIF2D | HTA11_7696_3000711011 | Human | Colorectum | AD | 4.87e-03 | 2.56e-01 | 0.0674 |
| 1939 | EIF2D | HTA11_99999970781_79442 | Human | Colorectum | MSS | 5.05e-04 | 2.45e-01 | 0.294 |
| 1939 | EIF2D | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.69e-17 | 6.03e-01 | 0.3859 |
| 1939 | EIF2D | HTA11_99999974143_84620 | Human | Colorectum | MSS | 1.75e-05 | 2.72e-01 | 0.3005 |
| 1939 | EIF2D | LZE4T | Human | Esophagus | ESCC | 6.36e-08 | 6.23e-02 | 0.0811 |
| 1939 | EIF2D | LZE7T | Human | Esophagus | ESCC | 4.80e-06 | 2.85e-01 | 0.0667 |
| 1939 | EIF2D | LZE8T | Human | Esophagus | ESCC | 2.13e-08 | 1.14e-01 | 0.067 |
| 1939 | EIF2D | LZE20T | Human | Esophagus | ESCC | 5.58e-04 | 4.51e-02 | 0.0662 |
| 1939 | EIF2D | LZE22T | Human | Esophagus | ESCC | 1.74e-03 | 1.78e-01 | 0.068 |
| 1939 | EIF2D | LZE24T | Human | Esophagus | ESCC | 4.14e-13 | 3.20e-01 | 0.0596 |
| 1939 | EIF2D | LZE21T | Human | Esophagus | ESCC | 1.18e-04 | 1.23e-01 | 0.0655 |
| 1939 | EIF2D | P1T-E | Human | Esophagus | ESCC | 4.79e-09 | 4.55e-01 | 0.0875 |
| 1939 | EIF2D | P2T-E | Human | Esophagus | ESCC | 1.58e-22 | 3.20e-01 | 0.1177 |
| 1939 | EIF2D | P4T-E | Human | Esophagus | ESCC | 8.04e-23 | 3.98e-01 | 0.1323 |
| 1939 | EIF2D | P5T-E | Human | Esophagus | ESCC | 1.88e-20 | 3.57e-01 | 0.1327 |
| 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 | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| 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 | ||
| 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 |
| GO:0002181 | Colorectum | AD | cytoplasmic translation | 109/3918 | 148/18723 | 3.40e-43 | 2.13e-39 | 109 |
| GO:0016032 | Colorectum | AD | viral process | 168/3918 | 415/18723 | 4.67e-20 | 3.66e-17 | 168 |
| GO:0022618 | Colorectum | AD | ribonucleoprotein complex assembly | 92/3918 | 220/18723 | 1.49e-12 | 2.60e-10 | 92 |
| GO:0071826 | Colorectum | AD | ribonucleoprotein complex subunit organization | 94/3918 | 227/18723 | 1.70e-12 | 2.87e-10 | 94 |
| GO:0022411 | Colorectum | AD | cellular component disassembly | 147/3918 | 443/18723 | 8.53e-10 | 6.76e-08 | 147 |
| GO:0022613 | Colorectum | AD | ribonucleoprotein complex biogenesis | 151/3918 | 463/18723 | 1.96e-09 | 1.39e-07 | 151 |
| GO:0019080 | Colorectum | AD | viral gene expression | 42/3918 | 94/18723 | 1.90e-07 | 8.02e-06 | 42 |
| GO:0002183 | Colorectum | AD | cytoplasmic translational initiation | 21/3918 | 34/18723 | 2.73e-07 | 1.09e-05 | 21 |
| GO:1903008 | Colorectum | AD | organelle disassembly | 46/3918 | 114/18723 | 1.81e-06 | 5.48e-05 | 46 |
| GO:0006413 | Colorectum | AD | translational initiation | 45/3918 | 118/18723 | 1.35e-05 | 2.92e-04 | 45 |
| GO:0075522 | Colorectum | AD | IRES-dependent viral translational initiation | 8/3918 | 11/18723 | 3.26e-04 | 3.85e-03 | 8 |
| GO:0019081 | Colorectum | AD | viral translation | 10/3918 | 16/18723 | 3.64e-04 | 4.22e-03 | 10 |
| GO:0001731 | Colorectum | AD | formation of translation preinitiation complex | 7/3918 | 11/18723 | 2.59e-03 | 1.96e-02 | 7 |
| GO:00021811 | Colorectum | SER | cytoplasmic translation | 102/2897 | 148/18723 | 1.38e-48 | 8.49e-45 | 102 |
| GO:00160321 | Colorectum | SER | viral process | 118/2897 | 415/18723 | 8.36e-12 | 1.65e-09 | 118 |
| GO:00226181 | Colorectum | SER | ribonucleoprotein complex assembly | 69/2897 | 220/18723 | 2.25e-09 | 2.15e-07 | 69 |
| GO:00718261 | Colorectum | SER | ribonucleoprotein complex subunit organization | 70/2897 | 227/18723 | 3.83e-09 | 3.51e-07 | 70 |
| GO:00224111 | Colorectum | SER | cellular component disassembly | 114/2897 | 443/18723 | 1.17e-08 | 9.59e-07 | 114 |
| GO:00021831 | Colorectum | SER | cytoplasmic translational initiation | 18/2897 | 34/18723 | 4.42e-07 | 2.24e-05 | 18 |
| GO:00226131 | Colorectum | SER | ribonucleoprotein complex biogenesis | 112/2897 | 463/18723 | 5.01e-07 | 2.48e-05 | 112 |
| Page: 1 2 3 4 5 6 |
| 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 |
| EIF2D | SNV | Missense_Mutation | rs781806458 | c.68G>A | p.Arg23Gln | p.R23Q | P41214 | protein_coding | deleterious(0.04) | benign(0.284) | TCGA-C8-A26Y-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| EIF2D | SNV | Missense_Mutation | novel | c.1429C>T | p.Pro477Ser | p.P477S | P41214 | protein_coding | tolerated(0.25) | benign(0.125) | TCGA-GI-A2C9-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | SD | |
| EIF2D | insertion | Frame_Shift_Ins | novel | c.595dupA | p.Ser199LysfsTer2 | p.S199Kfs*2 | P41214 | protein_coding | TCGA-D8-A1JK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| EIF2D | SNV | Missense_Mutation | novel | c.930G>T | p.Lys310Asn | p.K310N | P41214 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| EIF2D | SNV | Missense_Mutation | rs781957066 | c.1243G>A | p.Val415Ile | p.V415I | P41214 | protein_coding | tolerated(1) | benign(0) | TCGA-AZ-6601-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| EIF2D | SNV | Missense_Mutation | novel | c.854T>C | p.Leu285Pro | p.L285P | P41214 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AZ-6601-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| EIF2D | SNV | Missense_Mutation | novel | c.1486N>A | p.Ala496Thr | p.A496T | P41214 | protein_coding | deleterious(0.01) | benign(0.41) | TCGA-CA-6717-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | oxaliplatin | CR |
| EIF2D | SNV | Missense_Mutation | c.760T>A | p.Ser254Thr | p.S254T | P41214 | protein_coding | tolerated(0.52) | benign(0.003) | TCGA-CM-4743-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | capecitabine | SD | |
| EIF2D | SNV | Missense_Mutation | novel | c.580G>A | p.Asp194Asn | p.D194N | P41214 | protein_coding | tolerated(0.19) | benign(0) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| EIF2D | SNV | Missense_Mutation | novel | c.1354N>A | p.Val452Ile | p.V452I | P41214 | protein_coding | tolerated(0.42) | benign(0.005) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
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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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