MMP 1 circulating levels and promoter polymorphism in risk prediction of coronary artery disease in asymptomatic first degree relatives

Kondapalli, Mrudula Spurthi; Galimudi, Rajesh Kumar; Gundapaneni, Kishore Kumar; Padala, Chiranjeevi; Cingeetham, Anuradha; Gantala, Srilatha Reddy; Ali, Altaf; Shyamala, Nivas; Sahu, Sushanta Kumar; Nallari, Pratibha; Hanumanth, Surekha Rani

doi:10.1016/j.gene.2016.09.041

Cited by 10 publications

(4 citation statements)

References 21 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The 1 G/2 G polymorphism has been reported to affect an Ets binding site and increase MMP1 gene transcription 32,33 . Consistently, a close association was found between the −1607 1 G/2 G polymorphism and MMP1 serum levels 34 . The MMP1 − 1607 2 G allele, but not the 1 G allele, accounted for the increased levels of pre-mRNA and protein.…”

Section: Discussionsupporting

confidence: 63%

“…The MMP1 − 1607 2 G allele, but not the 1 G allele, accounted for the increased levels of pre-mRNA and protein. In addition, variation in MMP1 haplotypes has been reported to affect serum MMP-1 levels 34,35 . A study of the secondary structures of pre-mRNA of the MMP1 −1607 1 G/2 G gene polymorphism has shown that the pre-mRNA secondary structure of the 2 G allele is more stable than the 1 G structure based on deduction of the minimum free energy 34 .…”

Section: Discussionmentioning

confidence: 99%

“…In addition, variation in MMP1 haplotypes has been reported to affect serum MMP-1 levels 34,35 . A study of the secondary structures of pre-mRNA of the MMP1 −1607 1 G/2 G gene polymorphism has shown that the pre-mRNA secondary structure of the 2 G allele is more stable than the 1 G structure based on deduction of the minimum free energy 34 . The lower free energy and more stable pre-mRNA structure of the 2 G allele may cause the increased expression of the 2 G/2 G gene polymorphism with higher serum protein levels and therefore increased the risk of acquired AV block 34 .…”

Section: Discussionmentioning

confidence: 99%

See 2 more Smart Citations

Matrix metalloproteinase 1 1 G/2 G gene polymorphism is associated with acquired atrioventricular block via linking a higher serum protein level

Chen

Chang

Liou

2020

Sci Rep

View full text Add to dashboard Cite

in humans and animals demonstrated that modulation of MMP and RAS gene expression could lead to atrial fibrillation 19,20 , non-familial sick sinus syndrome 21 , and affect cardiac conduction after myocardial infarction 17 , apoptosis of the conductive system 22 and occurrence of ventricular arrhythmia 23. Here, we examined whether the polymorphisms of the genes encoding the MMPs and ACE could alter the disease susceptibility for acquired AVB by investigating the relationship between MMPs and ACE gene polymorphisms and disease susceptibility of acquired AVB. The results obtained indicated that MMP1 1 G/2 G gene polymorphism is associated with AVB via linking a higher serum protein level.

show abstract

Section: Discussionsupporting

confidence: 63%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Matrix metalloproteinase 1 1 G/2 G gene polymorphism is associated with acquired atrioventricular block via linking a higher serum protein level

Chen

Chang

Liou

2020

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Moreover, the GC box and CAAT box are the upstream activating elements located at −40 to −110 bps, which regulates the rate of transcription initiation [5,6]. These elements can attract different transcription factors and work together to regulate gene transcription, closely linked to human diseases, such as tumors [7], coronary artery disease [8], and diabetic nephropathy [9]. Therefore, the prediction of promoters plays a vital role for the annotation of the complete structure of a gene, thereby influencing cell growth, differentiation, and adaptation for further understanding the mechanisms of gene transcription and expression regulation [10].…”

Section: Introductionmentioning

confidence: 99%

PromGER: Promoter Prediction Based on Graph Embedding and Ensemble Learning for Eukaryotic Sequence

Wang

Tai

Zhang

et al. 2023

Genes

View full text Add to dashboard Cite

Promoters are DNA non-coding regions around the transcription start site and are responsible for regulating the gene transcription process. Due to their key role in gene function and transcriptional activity, the prediction of promoter sequences and their core elements accurately is a crucial research area in bioinformatics. At present, models based on machine learning and deep learning have been developed for promoter prediction. However, these models cannot mine the deeper biological information of promoter sequences and consider the complex relationship among promoter sequences. In this work, we propose a novel prediction model called PromGER to predict eukaryotic promoter sequences. For a promoter sequence, firstly, PromGER utilizes four types of feature-encoding methods to extract local information within promoter sequences. Secondly, according to the potential relationships among promoter sequences, the whole promoter sequences are constructed as a graph. Furthermore, three different scales of graph-embedding methods are applied for obtaining the global feature information more comprehensively in the graph. Finally, combining local features with global features of sequences, PromGER analyzes and predicts promoter sequences through a tree-based ensemble-learning framework. Compared with seven existing methods, PromGER improved the average specificity of 13%, accuracy of 10%, Matthew’s correlation coefficient of 16%, precision of 4%, F1 score of 6%, and AUC of 9%. Specifically, this study interpreted the PromGER by the t-distributed stochastic neighbor embedding (t-SNE) method and SHAPley Additive exPlanations (SHAP) value analysis, which demonstrates the interpretability of the model.

show abstract

Prokaryotic and eukaryotic promoters identification based on residual network transfer learning

Liu

Luo

et al. 2022

Bioprocess Biosyst Eng

View full text Add to dashboard Cite

MMP 1 circulating levels and promoter polymorphism in risk prediction of coronary artery disease in asymptomatic first degree relatives

Cited by 10 publications

References 21 publications

Matrix metalloproteinase 1 1 G/2 G gene polymorphism is associated with acquired atrioventricular block via linking a higher serum protein level

Matrix metalloproteinase 1 1 G/2 G gene polymorphism is associated with acquired atrioventricular block via linking a higher serum protein level

PromGER: Promoter Prediction Based on Graph Embedding and Ensemble Learning for Eukaryotic Sequence

Prokaryotic and eukaryotic promoters identification based on residual network transfer learning

Contact Info

Product

Resources

About