RGD Reference Report - Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA. - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)

Clinical biomarkers of pulmonary carcinoid tumors in never smokers via profiling miRNA and target mRNA.

Authors: Deng, Bo  Molina, Julian  Aubry, Marie C  Sun, Zhifu  Wang, Liang  Eckloff, Bruce W  Vasmatzis, George  You, Ming  Wieben, Eric D  Jen, Jin  Wigle, Dennis A  Yang, Ping 
Citation: Deng B, etal., Cell Biosci. 2014 Jul 9;4:35. doi: 10.1186/2045-3701-4-35. eCollection 2014.
RGD ID: 151660336
Pubmed: PMID:25105010   (View Abstract at PubMed)
PMCID: PMC4124500   (View Article at PubMed Central)
DOI: DOI:10.1186/2045-3701-4-35   (Journal Full-text)


BACKGROUND: miRNAs play key regulatory roles in cellular pathological processes. We aimed to identify clinically meaningful biomarkers in pulmonary carcinoid tumors (PCTs), a member of neuroendocrine neoplasms, via profiling miRNAs and mRNAs.
RESULTS: From the total of 1145 miRNAs, we obtained 16 and 17 miRNAs that showed positive and negative fold changes (FCs, tumors vs. normal tissues) in the top 1% differentially expressed miRNAs, respectively. We uncovered the target genes that were predicted by at least two prediction tools and overlapped by at least one-half of the top miRNAs, which yielded 44 genes (FC<-2) and 56 genes (FC>2), respectively. Higher expressions of CREB5, PTPRB and COL4A3 predicted favorable disease free survival (Hazard ratio: 0.03, 0.19 and 0.36; P value: 0.03, 0.03 and 0.08). Additionally, 79 mutated genes have been found in nine PCTs where TP53 was the only repeated mutation.
CONCLUSION: We identified that the expressions of three genes have clinical implications in PCTs. The biological functions of these biomarkers warrant further studies.



RGD Manual Disease Annotations    Click to see Annotation Detail View

  
Object SymbolSpeciesTermQualifierEvidenceWithNotesSourceOriginal Reference(s)
COL4A3HumanLung Carcinoid Tumors severityIEP mRNA:decreased expression:lung (human)RGD 
CREB5HumanLung Carcinoid Tumors severityIEP mRNA:decreased expression:lung (human)RGD 
Col4a3RatLung Carcinoid Tumors severityISOCOL4A3 (Homo sapiens)mRNA:decreased expression:lung (human)RGD 
Col4a3MouseLung Carcinoid Tumors severityISOCOL4A3 (Homo sapiens)mRNA:decreased expression:lung (human)RGD 
Creb5RatLung Carcinoid Tumors severityISOCREB5 (Homo sapiens)mRNA:decreased expression:lung (human)RGD 
Creb5MouseLung Carcinoid Tumors severityISOCREB5 (Homo sapiens)mRNA:decreased expression:lung (human)RGD 
PTPRBHumanLung Carcinoid Tumors severityIEP mRNA:decreased expression:lung (human)RGD 
PtprbRatLung Carcinoid Tumors severityISOPTPRB (Homo sapiens)mRNA:decreased expression:lung (human)RGD 
PtprbMouseLung Carcinoid Tumors severityISOPTPRB (Homo sapiens)mRNA:decreased expression:lung (human)RGD 

Objects Annotated

Genes (Rattus norvegicus)
Col4a3  (collagen type IV alpha 3 chain)
Creb5  (cAMP responsive element binding protein 5)
Ptprb  (protein tyrosine phosphatase, receptor type, B)

Genes (Mus musculus)
Col4a3  (collagen, type IV, alpha 3)
Creb5  (cAMP responsive element binding protein 5)
Ptprb  (protein tyrosine phosphatase receptor type B)

Genes (Homo sapiens)
COL4A3  (collagen type IV alpha 3 chain)
CREB5  (cAMP responsive element binding protein 5)
PTPRB  (protein tyrosine phosphatase receptor type B)


Additional Information