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| TissGeneSummary for LIN28A |
 Gene summary |
| Basic gene information | Gene symbol | LIN28A |
| Gene name | lin-28 homolog A (C. elegans) | |
| Synonyms | CSDD1|LIN-28|LIN28|ZCCHC1|lin-28A | |
| Cytomap | UCSC genome browser: 1p36.11 | |
| Type of gene | protein-coding | |
| RefGenes | NM_024674.4, | |
| Description | RNA-binding protein LIN-28protein lin-28 homolog Azinc finger CCHC domain-containing protein 1zinc finger, CCHC domain containing 1 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 611043 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000131914 | ||
| HPRD : 17278 | ||
| Vega : OTTHUMG00000003550 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_LIN28A | |
| BioGPS: 79727 | ||
| Pathway | NCI Pathway Interaction Database: LIN28A | |
| KEGG: LIN28A | ||
| REACTOME: LIN28A | ||
| Pathway Commons: LIN28A | ||
| Context | iHOP: LIN28A | |
| ligand binding site mutation search in PubMed: LIN28A | ||
| UCL Cancer Institute: LIN28A | ||
| Assigned class in TissGDB* | B | |
| Included tissue-specific gene expression resources | HPA,TiGER,GTEx | |
| Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | OvaryTestis | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | OVTGCT | |
| Reference showing the relevant tissue of LIN28A | ||
| Description by TissGene annotations | Protective TissGene in RFS TissgsKTS CNV lost TissGeneKTS | |
| * Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO term | PubMed ID |
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| TissGeneExp for LIN28A |
| Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
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| Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
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| Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
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| Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
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| - Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
| Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
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| TissGene-miRNA for LIN28A |
| Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
| Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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| TissGeneMut for LIN28A |
| TissGeneSNV for LIN28A |
| nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
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| Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.G126E | SKCM | 3 |
| p.H39Y | KIRC | 1 |
| p.G119R | SKCM | 1 |
| p.H148Y | BLCA | 1 |
| p.K102N | LGG | 1 |
| p.K160T | HNSC | 1 |
| p.R123W | HNSC | 1 |
| p.M129I | UCEC | 1 |
| p.V4A | UCEC | 1 |
| p.C139S | COAD | 1 |
| p.M81V | LUAD | 1 |
| p.M170T | HNSC | 1 |
| p.P112L | LUAD | 1 |
| p.R192* | UCEC | 1 |
| p.K99N | COAD | 1 |
| p.L87M | LIHC | 1 |
| p.E94D | CESC | 1 |
| p.R85W | SKCM | 1 |
| p.C161W | BLCA | 1 |
| p.S173* | CESC | 1 |
| p.R50C | COAD | 1 |
| p.Q165H | HNSC | 1 |
| p.A65V | LUAD | 1 |
| p.E89K | LUAD | 1 |
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| TissGeneCNV for LIN28A |
| Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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| TissGeneFusions for LIN28A |
| Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
| Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
| TCGAfusionPortal | PRADA | HNSC | TCGA-DQ-7591-01A | EIF4G3-LIN28A | In-frame | Chr1:21267984 | Chr1:26737877 |
| TCGAfusionPortal | PRADA | LUAD | TCGA-55-8085-01A | RPS6KA1-LIN28A | In-frame | Chr1:26885428 | Chr1:26751794 |
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| TissGeneNet for LIN28A |
| Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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| TissGeneProg for LIN28A |
| Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
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| Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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| Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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| Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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| TissGeneClin for LIN28A |
| TissGeneDrug for LIN28A |
| Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
| DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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| TissGeneDisease for LIN28A |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0596263 | Carcinogenesis | 11 | BeFree |
| umls:C2239176 | Liver carcinoma | 8 | BeFree |
| umls:C0006142 | Malignant neoplasm of breast | 5 | BeFree |
| umls:C0029925 | Ovarian Carcinoma | 5 | BeFree |
| umls:C0678222 | Breast Carcinoma | 5 | BeFree |
| umls:C0027708 | Nephroblastoma | 4 | BeFree,MGD |
| umls:C0677886 | Epithelial ovarian cancer | 4 | BeFree |
| umls:C1140680 | Malignant neoplasm of ovary | 4 | BeFree |
| umls:C0017636 | Glioblastoma | 3 | BeFree |
| umls:C0027654 | Embryonal Neoplasm | 3 | BeFree |
| umls:C1261473 | Sarcoma | 3 | BeFree |
| umls:C1458155 | Mammary Neoplasms | 3 | BeFree |
| umls:C0006118 | Brain Neoplasms | 2 | BeFree |
| umls:C0007137 | Squamous cell carcinoma | 2 | BeFree |
| umls:C0009402 | Colorectal Carcinoma | 2 | BeFree |
| umls:C0017638 | Glioma | 2 | BeFree |
| umls:C0024623 | Malignant neoplasm of stomach | 2 | BeFree |
| umls:C0027627 | Neoplasm Metastasis | 2 | BeFree |
| umls:C0206663 | Neuroectodermal Tumor, Primitive | 2 | BeFree |
| umls:C0376358 | Malignant neoplasm of prostate | 2 | BeFree |
| umls:C0546837 | Malignant neoplasm of esophagus | 2 | BeFree |
| umls:C0600139 | Prostate carcinoma | 2 | BeFree |
| umls:C0686619 | Secondary malignant neoplasm of lymph node | 2 | BeFree |
| umls:C0699791 | Stomach Carcinoma | 2 | BeFree |
| umls:C1516170 | Cancer Cell Growth | 2 | BeFree |
| umls:C1527249 | Colorectal Cancer | 2 | BeFree |
| umls:C0001430 | Adenoma | 1 | BeFree |
| umls:C0002895 | Anemia, Sickle Cell | 1 | BeFree |
| umls:C0005684 | Malignant neoplasm of urinary bladder | 1 | BeFree |
| umls:C0007131 | Non-Small Cell Lung Carcinoma | 1 | BeFree |
| umls:C0007621 | Neoplastic Cell Transformation | 1 | CTD_human |
| umls:C0011847 | Diabetes | 1 | BeFree |
| umls:C0011849 | Diabetes Mellitus | 1 | BeFree |
| umls:C0011881 | Diabetic Nephropathy | 1 | BeFree |
| umls:C0018889 | Helminthiasis | 1 | BeFree |
| umls:C0023418 | leukemia | 1 | BeFree |
| umls:C0023903 | Liver neoplasms | 1 | BeFree |
| umls:C0023976 | Long QT Syndrome | 1 | BeFree |
| umls:C0025149 | Medulloblastoma | 1 | BeFree |
| umls:C0027819 | Neuroblastoma | 1 | BeFree |
| umls:C0028754 | Obesity | 1 | BeFree |
| umls:C0032987 | Ectopic Pregnancy | 1 | BeFree |
| umls:C0035335 | Retinoblastoma | 1 | BeFree |
| umls:C0041408 | Turner Syndrome | 1 | BeFree |
| umls:C0085215 | Ovarian Failure, Premature | 1 | BeFree |
| umls:C0085631 | Agitation | 1 | BeFree |
| umls:C0151546 | Oral Cavity Carcinoma | 1 | BeFree |
| umls:C0153381 | Malignant neoplasm of mouth | 1 | BeFree |
| umls:C0175754 | Agenesis of corpus callosum | 1 | BeFree |
| umls:C0178874 | Tumor Progression | 1 | BeFree |
| umls:C0205851 | Germ cell tumor | 1 | BeFree |
| umls:C0206686 | Adrenocortical carcinoma | 1 | BeFree |
| umls:C0220603 | childhood brain tumor | 1 | BeFree |
| umls:C0235974 | Pancreatic carcinoma | 1 | BeFree |
| umls:C0271650 | Impaired glucose tolerance | 1 | BeFree |
| umls:C0278488 | Carcinoma breast stage IV | 1 | BeFree |
| umls:C0278502 | recurrent gastric cancer | 1 | BeFree |
| umls:C0279680 | Transitional cell carcinoma of bladder | 1 | BeFree |
| umls:C0279980 | Extraosseous Ewings sarcoma-primitive neuroepithelial tumor | 1 | BeFree |
| umls:C0346402 | Malignant neoplasm of adrenal cortex | 1 | BeFree |
| umls:C0346647 | Malignant neoplasm of pancreas | 1 | BeFree |
| umls:C0376545 | Hematologic Neoplasms | 1 | BeFree |
| umls:C0555198 | Malignant Glioma | 1 | BeFree |
| umls:C0684337 | Ewings sarcoma-primitive neuroectodermal tumor (PNET) | 1 | BeFree |
| umls:C0699885 | Carcinoma of bladder | 1 | BeFree |
| umls:C0700095 | Central neuroblastoma | 1 | BeFree |
| umls:C0700367 | Ependymoblastoma | 1 | BeFree |
| umls:C0877373 | Advanced cancer | 1 | BeFree |
| umls:C0919267 | ovarian neoplasm | 1 | BeFree |
| umls:C0948209 | Intestinal adenocarcinoma | 1 | BeFree |
| umls:C1266184 | Atypical teratoid/rhabdoid tumor | 1 | BeFree |
| umls:C1319315 | Adenocarcinoma of large intestine | 1 | BeFree |
| umls:C1368683 | Epithelioma | 1 | BeFree |
| umls:C1512409 | Hepatocarcinogenesis | 1 | BeFree |
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