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| 1 | Long noncoding RNA MALAT1-derived mascRNA is involved in cardiovascular innate immunity显示文摘Dear Editor,Next-generation sequencing revealed that the majority of the human genome is transcribed but has no coding function.It is estimated that.30000 long noncoding RNAs(lncRNAs)are expressed in humans,but their functions are largely unknown(Suckau et al.,2009;Rinn and Chang,2012;Poller et al.,2013).Consideration of noncoding genomic elements in pathogenetic studies is warranted and enabled by technological advances allowing comprehensive transcriptome mapping of protein-coding genes as well as small and long ncRNAs. | Martina Gast Blanche Schroen Antje Voigt Jan Haas Uwe Kuehl Dirk Lassner Carsten Skurk Felicitas Escher Xiaomin Wang Adelheid Kratzer Katharina Michalik Anna Papageorgiou Tim Peters Madlen Loebel Sabrina Wilk Nadine Althof Kannanganattu VPrasanth Hugo Katus Benjamin Meder Shinichi Nakagawa Carmen Scheibenbogen Heinz-Peter Schultheiss Ulf Landmesser Stefanie Dimmeler Stephane Heymans Wolfgang Poller | 2016 | Journal of Molecular Cell Biology2016，8，2： | 2 |
| 2 | Multivariate miRNA signatures as biomarkers for non-ischaemic systolic heart failure显示文摘 | Britta Vogel Andreas Keller Karen S. Frese Petra Leidinger Farbod Sedaghat-Hamedani Elham Kayvanpour Wanda Kloos Christina Backe Ann Thanaraj Thomas Brefort Markus Beier Stefan Hardt Eckart Meese Hugo A. Katus Benjamin Meder | 2013 | European Heart Journal2013，，： | 2 |
| 3 | The Role of Quality Control in Targeted Next-generation Sequencing Library Preparation显示文摘Next-generation sequencing(NGS) is getting routinely used in the diagnosis of hereditary diseases, such as human cardiomyopathies. Hence, it is of utter importance to secure high quality sequencing data, enabling the identi?cation of disease-relevant mutations or the conclusion of negative test results. During the process of sample preparation, each protocol for target enrichment library preparation has its own requirements for quality control(QC); however, there is little evidence on the actual impact of these guidelines on resulting data quality. In this study, we analyzed the impact of QC during the diverse library preparation steps of Agilent Sure Select XT target enrichment and Illumina sequencing. We quanti?ed the parameters for a cohort of around 600 samples, which include starting amount of DNA, amount of sheared DNA, smallest and largest fragment size of the starting DNA; amount of DNA after the pre-PCR, and smallest and largest fragment size of the resulting DNA; as well as the amount of the ?nal library, the | Rouven Nietsch Jan Haas Alan Lai Daniel Oehler Stefan Mester Karen S. Frese Farbod Sedaghat-Hamedani Elham Kayvanpour Andreas Keller Benjamin Meder | 2016 | Genomics, Proteomics & Bioinformatics2016，14，4： | 1 |
| 4 | Whole miRNome-wide Differential Co-expression of MicroRNAs显示文摘Co-regulation of genes has been extensively analyzed, however, rather limited knowledge is available on co-regulations within the miRNome. We investigated differential co-expression of microRNAs (miRNAs) based on miRNome profiles of whole blood from 540 individuals. These include patients suffering from different cancer and non-cancer diseases, and unaffected controls. Using hierarchi-cal clustering, we found 9 significant clusters of co-expressed miRNAs containing 2-36 individual miRNAs. Through analyzing multiple sequencing alignments in the clusters, we found that co-expression of miRNAs is associated with both sequence similarity and genomic co-localization. We calculated correlations for all 371,953 pairs of miRNAs for all 540 individuals and identified 184 pairs of miRNAs with high correlation values. Out of these 184 pairs of miRNAs, 16 pairs (8.7%) were differentially co-expressed in unaffected controls, cancer patients and patients with non-cancer diseases. By computing correlated and anti-correlated miRNA pairs, we constructed a network with 184 putative co-regulations as edges and 100 miRNAs as nodes. Thereby, we detected specific clusters of miRNAs with high and low correlation values. Our approach represents the most comprehensive co-regulation analysis based on whole miRNome-wide expression profiling. Our findings further decrypt the interactions of miRNAs in normal and human pathological processes. | Cord F.Stehler Andreas Keller Petra Leidinger Christina Backes Anoop Chandran Jerg Wischhusen Benjamin Meder Eckart Meese | 2012 | Genomics, Proteomics & Bioinformatics2012，10，5： | 0 |
| 5 | Computational Cardiology--A New Discipline of Translational Research显示文摘Over the past two decades,improved diagnosis,pharmaceutical therapies,and interventional strategies have impressively improved the armamentarium of modern cardiologists in the?ght against the most incident and lethal diseases:heart failure,ischemic heart disease,and arrhythmia.The | Benjamin Meder Hugo A. Katus Andreas Keller | 2016 | Genomics, Proteomics & Bioinformatics2016，14，4： | 0 |
| 6 | Personalized Computer Simulation of Diastolic Function in Heart Failure显示文摘The search for a parameter representing left ventricular relaxation from non-invasive and invasive diagnostic tools has been extensive, since heart failure(HF) with preserved ejection fraction(HF-p EF) is a global health problem. We explore here the feasibility using patient-speci?c cardiac computer modeling to capture diastolic parameters in patients suffering from different degrees of systolic HF. Fifty eight patients with idiopathic dilated cardiomyopathy have undergone thorough clinical evaluation, including cardiac magnetic resonance imaging(MRI), heart catheterization,echocardiography, and cardiac biomarker assessment. A previously-introduced framework forcreating multi-scale patient-speci?c cardiac models has been applied on all these patients. Novel parameters, such as global stiffness factor and maximum left ventricular active stress, representing cardiac active and passive tissue properties have been computed for all patients. Invasive pressure measurements from heart catheterization were then used to evaluate ventricular relaxation using the time constant of isovolumic relaxation Tau(s). Parameters from heart catheterization and the multi-scale model have been evaluated and compared to patient clinical presentation. The model parameter global stiffness factor, representing diastolic passive tissue properties, is correlated significantly across the patient population with s. This study shows that multi-modal cardiac models can successfully capture diastolic(dys) function, a prerequisite for future clinical trials on HF-p EF. | Ali Amr Elham Kayvanpour Farbod Sedaghat-Hamedani Tiziano Passerini Viorel Mihalef Alan Lai Dominik Neumann Bogdan Georgescu Sebastian Buss Derliz Mercies Edgar Zitron Andreas E. Posch Maximilian Wurstle Tommaso Mansi Hugo A. Katus Benjamin Meder | 2016 | Genomics, Proteomics & Bioinformatics2016，14，4： | 0 |
| 7 | SLM2 Is A Novel Cardiac Splicing Factor Involved in Heart Failure due to Dilated Cardiomyopathy显示文摘Alternative mRNA splicing is a fundamental process to increase the versatility of the genome.In humans,cardiac mRNA splicing is involved in the pathophysiology of heart failure.Mutations in the splicing factor RNA binding motif protein 20(RBM20) cause severe forms of cardiomyopathy.To identify novel cardiomyopathy-associated splicing factors,RNA-seq and tissue-enrichment analyses were performed,which identified up-regulated expression of Sam68-Like mammalian protein 2(SLM2) in the left ventricle of dilated cardiomyopathy(DCM) patients.In the human heart,SLM2 binds to important transcripts of sarcomere constituents,such as those encoding myosin light chain2(MYL2),troponin 13(TNNI3),troponin T2(TNNT2),tropomyosin 1/2(TPM1/2),and titin(TTN).Mechanistically,SLM2 mediates intron retention,prevents exon exclusion,and thereby mediates alternative splicing of the mRNA regions encoding the variable proline-,glutamate-,valine-,and lysine-rich(PEVK) domain and another part of the I-band region of titin.In summary,SLM2 is a novel cardiac splicing regulator with essential functions for maintaining cardiomyocyte integrity by binding to and processing the mRNAs of essential cardiac constituents such as titin. | Jes-Niels Boeckel Maximilian Mobius-Winkler Marion Muller Sabine Rebs Nicole Eger Laura Schoppe Rewati Tappu Karoline E.Kokot Jasmin M.Kneuer Susanne Gaul Diana M.Bordalo Alan Lai Jan Haas Mahsa Ghanbari Philipp Drewe-Boss Martin Liss Hugo A.Katus Uwe Ohler Michael Gotthardt Ulrich Laufs Katrin Streckfuss-Bomeke Benjamin Meder | 2022 | Genomics, Proteomics & Bioinformatics2022，20，1： | 0 |
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